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run_metadata

2,396 rows where experiment.library_selection = "cDNA", experiment.platform = "ILLUMINA" and tissue_curation_coarse = "Embryo Imprecise"

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devstage_curation 7

technology 3

experiment.library_source 2

experiment.library_layout 2

tissue_curation_coarse 1

  • Embryo Imprecise · 2,396 ✖

tissue_curation 1

experiment.platform 1

  • ILLUMINA · 2,396 ✖

experiment.library_strategy 1

experiment.library_selection 1

  • cDNA · 2,396 ✖

devstage_curation_coarse 1

Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
14875 14875 ERR12071836 ERX11454461 ERS16387703 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E115 1 SAMEA114399011 University of East Anglia ENA FIRST PUBLIC:2023 10 06T08:31:44Z|ENA LAST UPDATE:2023 10 06T08:31:44Z|External Id:SAMEA114399011|INSDC center name:University of East Anglia|INSDC first public:2023 10 06T08:31:44Z|INSDC last update:2023 10 06T08:31:44Z|INSDC status:public|Submitter Id:115 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:115 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:295 66715 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 10 06|ENA LAST UPDATE:2023 10 06 115-1_S69_L006_R1_001.fastq.gz 115-1_S69_L006_R2_001.fastq.gz fastq fastq 12813280704.0 50846352.0 ena RUN TAB 21 09 2023 13:32:15:295 66716 0:126 1:126 A:2451295493;C:3891843753;G:4001866488;T:2448421880;N:19853090 126 126     2451295493 3891843753 4001866488 2448421880 19853090 ERX11454461 ERS16387703 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.89907 0.8514 0.17845 0.173 0.80369 0.81085 0.83252 0.83449 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14876 14876 ERR12071855 ERX11454480 ERS16387722 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E83 5 SAMEA114399030 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:83 5|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:83 5|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:300 66753 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 83-5_S40_L008_R1_001.fastq.gz 83-5_S40_L008_R2_001.fastq.gz fastq fastq 13683493656.0 54299578.0 ena RUN TAB 21 09 2023 13:32:15:300 66754 0:126 1:126 A:2772843483;C:4073415925;G:4192640412;T:2641952920;N:2640916 126 126     2772843483 4073415925 4192640412 2641952920 2640916 ERX11454480 ERS16387722 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92452 0.92427 0.15846 0.16251 0.7777 0.77666 0.78362 0.77515 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14877 14877 ERR12071854 ERX11454479 ERS16387721 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E83 4 SAMEA114399029 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:83 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:83 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:299 66751 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 83-4_S8_L002_R1_001.fastq.gz 83-4_S8_L002_R2_001.fastq.gz fastq fastq 10045714644.0 39863947.0 ena RUN TAB 21 09 2023 13:32:15:300 66752 0:126 1:126 A:2037388456;C:2963530056;G:3069663461;T:1972981871;N:2150800 126 126     2037388456 2963530056 3069663461 1972981871 2150800 ERX11454479 ERS16387721 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.91872 0.91762 0.16049 0.16307 0.76516 0.76644 0.77023 0.77199 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14878 14878 ERR12071853 ERX11454478 ERS16387720 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E83 3 SAMEA114399028 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:83 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:83 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:299 66749 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 83-3_S12_L003_R1_001.fastq.gz 83-3_S12_L003_R2_001.fastq.gz fastq fastq 17333567748.0 68783999.0 ena RUN TAB 21 09 2023 13:32:15:299 66750 0:126 1:126 A:3399006637;C:5245167754;G:5416988818;T:3269621086;N:2783453 126 126     3399006637 5245167754 5416988818 3269621086 2783453 ERX11454478 ERS16387720 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93044 0.93099 0.14459 0.1479 0.77287 0.774 0.78248 0.78348 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14879 14879 ERR12071852 ERX11454477 ERS16387719 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E83 1 SAMEA114399027 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:83 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:83 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:299 66747 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 83-1_S4_L001_R1_001.fastq.gz 83-1_S4_L001_R2_001.fastq.gz fastq fastq 14977164132.0 59433191.0 ena RUN TAB 21 09 2023 13:32:15:299 66748 0:126 1:126 A:3115980365;C:4357431505;G:4531888641;T:2968758582;N:3105039 126 126     3115980365 4357431505 4531888641 2968758582 3105039 ERX11454477 ERS16387719 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.89622 0.89549 0.15698 0.16074 0.76558 0.76779 0.70301 0.73129 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14880 14880 ERR12071851 ERX11454476 ERS16387718 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E82 5 SAMEA114399026 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:82 5|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:82 5|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:299 66745 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 82-5_S3_L001_R1_001.fastq.gz 82-5_S3_L001_R2_001.fastq.gz fastq fastq 14575744764.0 57840257.0 ena RUN TAB 21 09 2023 13:32:15:299 66746 0:126 1:126 A:3079286238;C:4161280385;G:4315514217;T:3016549159;N:3114765 126 126     3079286238 4161280385 4315514217 3016549159 3114765 ERX11454476 ERS16387718 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.82553 0.82489 0.15941 0.16124 0.77337 0.77518 0.73773 0.75718 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14881 14881 ERR12071850 ERX11454475 ERS16387717 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E82 3 SAMEA114399025 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:82 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:82 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:298 66743 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 82-3_S11_L003_R1_001.fastq.gz 82-3_S11_L003_R2_001.fastq.gz fastq fastq 15753924144.0 62515572.0 ena RUN TAB 21 09 2023 13:32:15:299 66744 0:126 1:126 A:3294606329;C:4538635184;G:4708756438;T:3209425450;N:2500743 126 126     3294606329 4538635184 4708756438 3209425450 2500743 ERX11454475 ERS16387717 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.8642 0.86388 0.1596 0.16298 0.77051 0.77297 0.7599 0.7352 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14882 14882 ERR12071849 ERX11454474 ERS16387716 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E82 2 SAMEA114399024 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:82 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:82 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:298 66741 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 22 82-2_S7_L002_R1_001.fastq.gz 82-2_S7_L002_R2_001.fastq.gz fastq fastq 20680686684.0 82066217.0 ena RUN TAB 21 09 2023 13:32:15:298 66742 0:126 1:126 A:4358995918;C:5919331822;G:6101024757;T:4296885228;N:4448959 126 126     4358995918 5919331822 6101024757 4296885228 4448959 ERX11454474 ERS16387716 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.88722 0.88591 0.1721 0.1755 0.76207 0.76394 0.74661 0.7483 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14883 14883 ERR12071848 ERX11454473 ERS16387715 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E82 1 SAMEA114399023 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:82 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:82 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:298 66739 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 82-1_S39_L008_R1_001.fastq.gz 82-1_S39_L008_R2_001.fastq.gz fastq fastq 19062862812.0 75646281.0 ena RUN TAB 21 09 2023 13:32:15:298 66740 0:126 1:126 A:4015412618;C:5485657253;G:5643544062;T:3914646370;N:3602509 126 126     4015412618 5485657253 5643544062 3914646370 3602509 ERX11454473 ERS16387715 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.82331 0.82289 0.14959 0.15262 0.77786 0.77368 0.75014 0.71846 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14884 14884 ERR12071847 ERX11454472 ERS16387714 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E81 5 SAMEA114399022 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:81 5|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:81 5|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:298 66737 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 81-5_S6_L002_R1_001.fastq.gz 81-5_S6_L002_R2_001.fastq.gz fastq fastq 14105505960.0 55974230.0 ena RUN TAB 21 09 2023 13:32:15:298 66738 0:126 1:126 A:2867593807;C:4154280778;G:4295901883;T:2784713422;N:3016070 126 126     2867593807 4154280778 4295901883 2784713422 3016070 ERX11454472 ERS16387714 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.89055 0.89059 0.15225 0.15462 0.77031 0.7709 0.77204 0.74565 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14885 14885 ERR12071846 ERX11454471 ERS16387713 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E81 4 SAMEA114399021 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:81 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:81 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:297 66735 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 81-4_S38_L008_R1_001.fastq.gz 81-4_S38_L008_R2_001.fastq.gz fastq fastq 14056344540.0 55779145.0 ena RUN TAB 21 09 2023 13:32:15:298 66736 0:126 1:126 A:2941182079;C:4065026103;G:4178339299;T:2869101906;N:2695153 126 126     2941182079 4065026103 4178339299 2869101906 2695153 ERX11454471 ERS16387713 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.85089 0.84987 0.16263 0.16502 0.77837 0.77283 0.74931 0.72487 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14886 14886 ERR12071845 ERX11454470 ERS16387712 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E81 2 SAMEA114399020 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:81 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:81 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:297 66733 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 81-2_S10_L003_R2_001.fastq.gz 81-2_S10_L003_R1_001.fastq.gz fastq fastq 12344567004.0 48986377.0 ena RUN TAB 21 09 2023 13:32:15:297 66734 0:126 1:126 A:2564870489;C:3577715066;G:3699995887;T:2500054422;N:1931140 126 126     2564870489 3577715066 3699995887 2500054422 1931140 ERX11454470 ERS16387712 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.81332 0.81278 0.14345 0.14595 0.77962 0.78011 0.77642 0.76714 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14887 14887 ERR12071844 ERX11454469 ERS16387711 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E81 1 SAMEA114399019 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:81 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:81 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:297 66731 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 81-1_S2_L001_R1_001.fastq.gz 81-1_S2_L001_R2_001.fastq.gz fastq fastq 16863847056.0 66920028.0 ena RUN TAB 21 09 2023 13:32:15:297 66732 0:126 1:126 A:3484102096;C:4908704805;G:5083802657;T:3383595635;N:3641863 126 126     3484102096 4908704805 5083802657 3383595635 3641863 ERX11454469 ERS16387711 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.90019 0.89959 0.16463 0.16683 0.76607 0.76792 0.76365 0.73132 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14888 14888 ERR12071843 ERX11454468 ERS16387710 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E80 4 SAMEA114399018 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:80 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:80 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:297 66729 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 80-4_S9_L003_R1_001.fastq.gz 80-4_S9_L003_R2_001.fastq.gz fastq fastq 22230539604.0 88216427.0 ena RUN TAB 21 09 2023 13:32:15:297 66730 0:126 1:126 A:4399600032;C:6651638899;G:6855034908;T:4320719496;N:3546269 126 126     4399600032 6651638899 6855034908 4320719496 3546269 ERX11454468 ERS16387710 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.84585 0.84448 0.14327 0.14586 0.79078 0.79251 0.79803 0.79459 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14889 14889 ERR12071842 ERX11454467 ERS16387709 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E80 3 SAMEA114399017 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:80 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:80 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:296 66727 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 80-3_S1_L001_R2_001.fastq.gz 80-3_S1_L001_R1_001.fastq.gz fastq fastq 17944230024.0 71207262.0 ena RUN TAB 21 09 2023 13:32:15:296 66728 0:126 1:126 A:3713490828;C:5207225554;G:5378396527;T:3641393155;N:3723960 126 126     3713490828 5207225554 5378396527 3641393155 3723960 ERX11454467 ERS16387709 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.84454 0.84386 0.14922 0.15129 0.77264 0.77339 0.75797 0.76206 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14890 14890 ERR12071841 ERX11454466 ERS16387708 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E80 2 SAMEA114399016 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:80 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:80 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:296 66725 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 80-2_S5_L002_R1_001.fastq.gz 80-2_S5_L002_R2_001.fastq.gz fastq fastq 16641238320.0 66036660.0 ena RUN TAB 21 09 2023 13:32:15:296 66726 0:126 1:126 A:3508280857;C:4757668643;G:4898009962;T:3473768461;N:3510397 126 126     3508280857 4757668643 4898009962 3473768461 3510397 ERX11454466 ERS16387708 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.86106 0.86111 0.16002 0.16307 0.7653 0.76542 0.72623 0.70444 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14891 14891 ERR12071840 ERX11454465 ERS16387707 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E80 1 SAMEA114399015 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:80 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:80 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:296 66723 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 80-1_S37_L008_R1_001.fastq.gz 80-1_S37_L008_R2_001.fastq.gz fastq fastq 15269215248.0 60592124.0 ena RUN TAB 21 09 2023 13:32:15:296 66724 0:126 1:126 A:3161128702;C:4439474080;G:4571245477;T:3094451760;N:2915229 126 126     3161128702 4439474080 4571245477 3094451760 2915229 ERX11454465 ERS16387707 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.84008 0.83924 0.16203 0.16482 0.78486 0.78301 0.76847 0.76451 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14892 14892 ERR12071839 ERX11454464 ERS16387706 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E115 5 SAMEA114399014 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:115 5|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:115 5|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:296 66721 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 115-5_S28_L005_R2_001.fastq.gz 115-5_S28_L005_R1_001.fastq.gz fastq fastq 13704997824.0 54384912.0 ena RUN TAB 21 09 2023 13:32:15:296 66722 0:126 1:126 A:2791048995;C:4040751875;G:4161655954;T:2708992373;N:2548627 126 126     2791048995 4040751875 4161655954 2708992373 2548627 ERX11454464 ERS16387706 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92152 0.922 0.16432 0.16746 0.77977 0.77723 0.7658 0.74319 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14893 14893 ERR12071838 ERX11454463 ERS16387705 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E115 4 SAMEA114399013 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:115 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:115 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:295 66719 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 115-4_S73_L007_R1_001.fastq.gz 115-4_S73_L007_R2_001.fastq.gz fastq fastq 13555374840.0 53791170.0 ena RUN TAB 21 09 2023 13:32:15:295 66720 0:126 1:126 A:2613879041;C:4131073531;G:4251239682;T:2536011431;N:23171155 126 126     2613879041 4131073531 4251239682 2536011431 23171155 ERX11454463 ERS16387705 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93971 0.93992 0.15435 0.15669 0.78766 0.79076 0.76218 0.78676 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14894 14894 ERR12071837 ERX11454462 ERS16387704 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E115 2 SAMEA114399012 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:115 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:115 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:295 66717 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 115-2_S77_L008_R1_001.fastq.gz 115-2_S77_L008_R2_001.fastq.gz fastq fastq 19309168872.0 76623686.0 ena RUN TAB 21 09 2023 13:32:15:295 66718 0:126 1:126 A:3659403129;C:5914313547;G:6102556630;T:3596021103;N:36874463 126 126     3659403129 5914313547 6102556630 3596021103 36874463 ERX11454462 ERS16387704 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.90206 0.90085 0.164 0.16686 0.81477 0.81856 0.84674 0.83786 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14895 14895 ERR12071835 ERX11454460 ERS16387702 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E114 5 SAMEA114399010 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:114 5|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:114 5|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:294 66713 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 114-5_S68_L006_R1_001.fastq.gz 114-5_S68_L006_R2_001.fastq.gz fastq fastq 14161249872.0 56195436.0 ena RUN TAB 21 09 2023 13:32:15:295 66714 0:126 1:126 A:2927386834;C:4098238005;G:4213138034;T:2900333935;N:22153064 126 126     2927386834 4098238005 4213138034 2900333935 22153064 ERX11454460 ERS16387702 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92035 0.91983 0.16785 0.17009 0.75864 0.76292 0.73081 0.75429 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14896 14896 ERR12071834 ERX11454459 ERS16387701 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E114 4 SAMEA114399009 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:114 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:114 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:294 66711 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 114-4_S76_L008_R1_001.fastq.gz 114-4_S76_L008_R2_001.fastq.gz fastq fastq 12939456600.0 51347050.0 ena RUN TAB 21 09 2023 13:32:15:294 66712 0:126 1:126 A:2686900916;C:3725092053;G:3826228928;T:2676529407;N:24705296 126 126     2686900916 3725092053 3826228928 2676529407 24705296 ERX11454459 ERS16387701 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.9171 0.91541 0.19718 0.20005 0.76759 0.77285 0.75547 0.75357 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14897 14897 ERR12071833 ERX11454458 ERS16387700 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E114 3 SAMEA114399008 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:114 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:114 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:294 66709 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 114-3_S72_L007_R1_001.fastq.gz 114-3_S72_L007_R2_001.fastq.gz fastq fastq 15510255012.0 61548631.0 ena RUN TAB 21 09 2023 13:32:15:294 66710 0:126 1:126 A:3024458012;C:4641826332;G:4764527525;T:3052903565;N:26539578 126 126     3024458012 4641826332 4764527525 3052903565 26539578 ERX11454458 ERS16387700 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.85112 0.84868 0.17054 0.17432 0.79547 0.79851 0.73756 0.8091 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14898 14898 ERR12071832 ERX11454457 ERS16387699 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E114 1 SAMEA114399007 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:114 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:114 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:294 66707 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 114-1_S27_L005_R1_001.fastq.gz 114-1_S27_L005_R2_001.fastq.gz fastq fastq 15544755576.0 61685538.0 ena RUN TAB 21 09 2023 13:32:15:294 66708 0:126 1:126 A:3077913021;C:4638218386;G:4760672592;T:3065112184;N:2839393 126 126     3077913021 4638218386 4760672592 3065112184 2839393 ERX11454457 ERS16387699 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.90822 0.90777 0.1775 0.18112 0.79263 0.78808 0.82214 0.79489 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14899 14899 ERR12071831 ERX11454456 ERS16387698 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E113 9 SAMEA114399006 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:113 9|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:113 9|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:293 66705 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 113-9_S67_L006_R1_001.fastq.gz 113-9_S67_L006_R2_001.fastq.gz fastq fastq 15414133644.0 61167197.0 ena RUN TAB 21 09 2023 13:32:15:293 66706 0:126 1:126 A:3185120611;C:4467167719;G:4606569127;T:3131094561;N:24181626 126 126     3185120611 4467167719 4606569127 3131094561 24181626 ERX11454456 ERS16387698 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.94176 0.94197 0.17489 0.17743 0.76063 0.76295 0.75218 0.75546 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14900 14900 ERR12071830 ERX11454455 ERS16387697 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E113 13 SAMEA114399005 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:113 13|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:113 13|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:293 66703 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 113-13_S71_L007_R1_001.fastq.gz 113-13_S71_L007_R2_001.fastq.gz fastq fastq 18125498160.0 71926580.0 ena RUN TAB 21 09 2023 13:32:15:293 66704 0:126 1:126 A:3681246224;C:5316613237;G:5486708206;T:3609735923;N:31194570 126 126     3681246224 5316613237 5486708206 3609735923 31194570 ERX11454455 ERS16387697 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93952 0.93814 0.1717 0.17395 0.76627 0.76976 0.76533 0.72702 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14901 14901 ERR12071829 ERX11454454 ERS16387696 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E113 11 SAMEA114399004 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:113 11|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:113 11|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:293 66701 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 113-11_S26_L005_R1_001.fastq.gz 113-11_S26_L005_R2_001.fastq.gz fastq fastq 17918758872.0 71106186.0 ena RUN TAB 21 09 2023 13:32:15:293 66702 0:126 1:126 A:3460235614;C:5469489967;G:5622549540;T:3363214846;N:3268905 126 126     3460235614 5469489967 5622549540 3363214846 3268905 ERX11454454 ERS16387696 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.94836 0.94773 0.16512 0.16708 0.79843 0.79251 0.79716 0.79211 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14902 14902 ERR12071828 ERX11454453 ERS16387695 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E113 10 SAMEA114399003 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:113 10|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:113 10|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:293 66699 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 113-10_S75_L008_R1_001.fastq.gz 113-10_S75_L008_R2_001.fastq.gz fastq fastq 22137738588.0 87848169.0 ena RUN TAB 21 09 2023 13:32:15:293 66700 0:126 1:126 A:4240961737;C:6714114283;G:6924397580;T:4216314997;N:41949991 126 126     4240961737 6714114283 6924397580 4216314997 41949991 ERX11454453 ERS16387695 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.94101 0.93949 0.15969 0.16256 0.782 0.78429 0.78877 0.78359 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14903 14903 ERR12071827 ERX11454452 ERS16387694 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E112 8 SAMEA114399002 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:112 8|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:112 8|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:292 66697 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 112-8_S74_L008_R1_001.fastq.gz 112-8_S74_L008_R2_001.fastq.gz fastq fastq 15579825912.0 61824706.0 ena RUN TAB 21 09 2023 13:32:15:292 66698 0:126 1:126 A:3262384535;C:4470619467;G:4585527202;T:3231451715;N:29842993 126 126     3262384535 4470619467 4585527202 3231451715 29842993 ERX11454452 ERS16387694 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92603 0.92484 0.18249 0.18589 0.75917 0.76335 0.73196 0.72728 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14904 14904 ERR12071826 ERX11454451 ERS16387693 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E112 7 SAMEA114399001 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:112 7|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:112 7|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:292 66695 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 112-7_S66_L006_R1_001.fastq.gz 112-7_S66_L006_R2_001.fastq.gz fastq fastq 20203529976.0 80172738.0 ena RUN TAB 21 09 2023 13:32:15:292 66696 0:126 1:126 A:4115948087;C:5902381830;G:6064166888;T:4089530757;N:31502414 126 126     4115948087 5902381830 6064166888 4089530757 31502414 ERX11454451 ERS16387693 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92896 0.92845 0.17083 0.17434 0.76146 0.76337 0.6945 0.74323 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14905 14905 ERR12071825 ERX11454450 ERS16387692 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E112 5 SAMEA114399000 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:112 5|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:112 5|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:292 66693 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 112-5_S70_L007_R1_001.fastq.gz 112-5_S70_L007_R2_001.fastq.gz fastq fastq 14979433392.0 59442196.0 ena RUN TAB 21 09 2023 13:32:15:292 66694 0:126 1:126 A:2989976300;C:4427492967;G:4545641644;T:2990769657;N:25552824 126 126     2989976300 4427492967 4545641644 2990769657 25552824 ERX11454450 ERS16387692 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.9139 0.91293 0.18796 0.1912 0.78443 0.78597 0.79005 0.77582 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14906 14906 ERR12071824 ERX11454449 ERS16387691 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E112 4 SAMEA114398999 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:112 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:112 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:292 66691 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 112-4_S25_L005_R1_001.fastq.gz 112-4_S25_L005_R2_001.fastq.gz fastq fastq 14850028368.0 58928684.0 ena RUN TAB 21 09 2023 13:32:15:292 66692 0:126 1:126 A:3108605429;C:4289376091;G:4392727411;T:3056545411;N:2774026 126 126     3108605429 4289376091 4392727411 3056545411 2774026 ERX11454449 ERS16387691 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92451 0.92555 0.17853 0.18265 0.76501 0.76106 0.73074 0.72504 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14907 14907 ERR12071823 ERX11454448 ERS16387690 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E111 4 SAMEA114398998 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:111 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:111 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:291 66689 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 111-4_S8_L002_R1_001.fastq.gz 111-4_S8_L002_R2_001.fastq.gz fastq fastq 17826911676.0 70741713.0 ena RUN TAB 21 09 2023 13:32:15:291 66690 0:126 1:126 A:3435687537;C:5460019012;G:5625529849;T:3303228205;N:2447073 126 126     3435687537 5460019012 5625529849 3303228205 2447073 ERX11454448 ERS16387690 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.95917 0.95936 0.18841 0.18992 0.81367 0.81523 0.79429 0.81623 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14908 14908 ERR12071822 ERX11454447 ERS16387689 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E111 3 SAMEA114398997 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:111 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:111 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:291 66687 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 111-3_S16_L004_R1_001.fastq.gz 111-3_S16_L004_R2_001.fastq.gz fastq fastq 16893915192.0 67039346.0 ena RUN TAB 21 09 2023 13:32:15:291 66688 0:126 1:126 A:3264486030;C:5167828698;G:5330646003;T:3128597235;N:2357226 126 126     3264486030 5167828698 5330646003 3128597235 2357226 ERX11454447 ERS16387689 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.96382 0.96339 0.19876 0.20112 0.81893 0.82102 0.81987 0.79966 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14909 14909 ERR12071821 ERX11454446 ERS16387688 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E111 2 SAMEA114398996 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:111 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:111 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:291 66685 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 111-2_S12_L003_R1_001.fastq.gz 111-2_S12_L003_R2_001.fastq.gz fastq fastq 19135485684.0 75934467.0 ena RUN TAB 21 09 2023 13:32:15:291 66686 0:126 1:126 A:3609533802;C:5946063742;G:6161038930;T:3416257009;N:2592201 126 126     3609533802 5946063742 6161038930 3416257009 2592201 ERX11454446 ERS16387688 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.96183 0.96186 0.17579 0.17791 0.81972 0.82047 0.77379 0.82377 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14910 14910 ERR12071820 ERX11454445 ERS16387687 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E111 1 SAMEA114398995 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:111 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:111 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:291 66683 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 111-1_S4_L001_R1_001.fastq.gz 111-1_S4_L001_R2_001.fastq.gz fastq fastq 21082514796.0 83660773.0 ena RUN TAB 21 09 2023 13:32:15:291 66684 0:126 1:126 A:4043020782;C:6480787651;G:6689150606;T:3865255761;N:4299996 126 126     4043020782 6480787651 6689150606 3865255761 4299996 ERX11454445 ERS16387687 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.96289 0.963 0.18676 0.18828 0.81791 0.81988 0.78774 0.81813 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14911 14911 ERR12071819 ERX11454444 ERS16387686 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E110 4 SAMEA114398994 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:110 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:110 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:290 66681 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 110-4_S3_L001_R2_001.fastq.gz 110-4_S3_L001_R1_001.fastq.gz fastq fastq 14687310204.0 58282977.0 ena RUN TAB 21 09 2023 13:32:15:290 66682 0:126 1:126 A:2926150199;C:4367282172;G:4510560380;T:2880182221;N:3135232 126 126     2926150199 4367282172 4510560380 2880182221 3135232 ERX11454444 ERS16387686 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93442 0.934 0.1706 0.17527 0.77611 0.7782 0.79075 0.77981 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14912 14912 ERR12071818 ERX11454443 ERS16387685 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E110 3 SAMEA114398993 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:110 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:110 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:290 66679 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 110-3_S11_L003_R2_001.fastq.gz 110-3_S11_L003_R1_001.fastq.gz fastq fastq 13850712792.0 54963146.0 ena RUN TAB 21 09 2023 13:32:15:290 66680 0:126 1:126 A:2754372507;C:4139837776;G:4290528181;T:2664097645;N:1876683 126 126     2754372507 4139837776 4290528181 2664097645 1876683 ERX11454443 ERS16387685 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.94187 0.94169 0.16695 0.17006 0.77824 0.78044 0.7861 0.7945 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14913 14913 ERR12071817 ERX11454442 ERS16387684 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E110 2 SAMEA114398992 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:110 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:110 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:290 66677 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 110-2_S15_L004_R2_001.fastq.gz 110-2_S15_L004_R1_001.fastq.gz fastq fastq 15866607708.0 62962729.0 ena RUN TAB 21 09 2023 13:32:15:290 66678 0:126 1:126 A:3214891728;C:4688310800;G:4841314699;T:3119879854;N:2210627 126 126     3214891728 4688310800 4841314699 3119879854 2210627 ERX11454442 ERS16387684 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93647 0.93604 0.16699 0.17 0.76641 0.76909 0.76728 0.77117 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14914 14914 ERR12071816 ERX11454441 ERS16387683 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E110 1 SAMEA114398991 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:110 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:110 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:290 66675 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 110-1_S7_L002_R2_001.fastq.gz 110-1_S7_L002_R1_001.fastq.gz fastq fastq 15365002212.0 60972231.0 ena RUN TAB 21 09 2023 13:32:15:290 66676 0:126 1:126 A:3114598527;C:4531528684;G:4684815069;T:3031977480;N:2082452 126 126     3114598527 4531528684 4684815069 3031977480 2082452 ERX11454441 ERS16387683 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93661 0.936 0.17032 0.17368 0.7699 0.77157 0.74201 0.77289 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14915 14915 ERR12071815 ERX11454440 ERS16387682 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E109 4 SAMEA114398990 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:109 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:109 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:289 66673 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 109-4_S14_L004_R1_001.fastq.gz 109-4_S14_L004_R2_001.fastq.gz fastq fastq 17693786880.0 70213440.0 ena RUN TAB 21 09 2023 13:32:15:289 66674                       ERX11454440 ERS16387682 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93895 0.93626 0.13454 0.13567 0.80679 0.80906 0.83187 0.85713 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14916 14916 ERR12071814 ERX11454439 ERS16387681 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E109 3 SAMEA114398989 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:109 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:109 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:289 66671 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 109-3_S6_L002_R1_001.fastq.gz 109-3_S6_L002_R2_001.fastq.gz fastq fastq 15326268300.0 60818525.0 ena RUN TAB 21 09 2023 13:32:15:289 66672 0:126 1:126 A:2963028716;C:4693248657;G:4853138006;T:2814772075;N:2080846 126 126     2963028716 4693248657 4853138006 2814772075 2080846 ERX11454439 ERS16387681 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.95492 0.95516 0.18592 0.18766 0.816 0.81722 0.82037 0.77416 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14917 14917 ERR12071813 ERX11454438 ERS16387680 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E109 2 SAMEA114398988 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:109 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:109 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:289 66669 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 109-2_S9_L003_R1_001.fastq.gz 109-2_S9_L003_R2_001.fastq.gz fastq fastq 13463300088.0 53425794.0 ena RUN TAB 21 09 2023 13:32:15:289 66670 0:126 1:126 A:2565791374;C:4152722401;G:4318203775;T:2424775489;N:1807049 126 126     2565791374 4152722401 4318203775 2424775489 1807049 ERX11454438 ERS16387680 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.96145 0.9621 0.19448 0.19497 0.83382 0.83451 0.84292 0.79683 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14918 14918 ERR12071812 ERX11454437 ERS16387679 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E109 1 SAMEA114398987 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:109 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:109 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:288 66667 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 109-1_S1_L001_R2_001.fastq.gz 109-1_S1_L001_R1_001.fastq.gz fastq fastq 16254330624.0 64501312.0 ena RUN TAB 21 09 2023 13:32:15:289 66668 0:126 1:126 A:3146898181;C:4962037311;G:5139473645;T:3002518241;N:3403246 126 126     3146898181 4962037311 5139473645 3002518241 3403246 ERX11454437 ERS16387679 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.95901 0.9593 0.19067 0.19204 0.8174 0.81864 0.7987 0.8132 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14919 14919 ERR12071811 ERX11454436 ERS16387678 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E108 4 SAMEA114398986 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:108 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:108 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:288 66665 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 108-4_S10_L003_R1_001.fastq.gz 108-4_S10_L003_R2_001.fastq.gz fastq fastq 16401717108.0 65086179.0 ena RUN TAB 21 09 2023 13:32:15:288 66666 0:126 1:126 A:3306091376;C:4834896468;G:4995683070;T:3262829888;N:2216306 126 126     3306091376 4834896468 4995683070 3262829888 2216306 ERX11454436 ERS16387678 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92612 0.92543 0.16352 0.16724 0.76607 0.76812 0.76693 0.75698 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14920 14920 ERR12071810 ERX11454435 ERS16387677 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E108 3 SAMEA114398985 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:108 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:108 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:288 66663 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 108-3_S2_L001_R2_001.fastq.gz 108-3_S2_L001_R1_001.fastq.gz fastq fastq 14063114268.0 55806009.0 ena RUN TAB 21 09 2023 13:32:15:288 66664 0:126 1:126 A:2855140106;C:4126986255;G:4254731693;T:2823386830;N:2869384 126 126     2855140106 4126986255 4254731693 2823386830 2869384 ERX11454435 ERS16387677 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.89956 0.89846 0.17394 0.17665 0.77695 0.77751 0.78333 0.77908 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14921 14921 ERR12071809 ERX11454434 ERS16387676 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E108 2 SAMEA114398984 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:108 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:108 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:288 66661 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 108-2_S13_L004_R1_001.fastq.gz 108-2_S13_L004_R2_001.fastq.gz fastq fastq 17951370444.0 71235597.0 ena RUN TAB 21 09 2023 13:32:15:288 66662 0:126 1:126 A:3419406758;C:5496702371;G:5719743964;T:3312990750;N:2526601 126 126     3419406758 5496702371 5719743964 3312990750 2526601 ERX11454434 ERS16387676 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.91308 0.91164 0.14161 0.14408 0.78725 0.78851 0.77166 0.81536 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14922 14922 ERR12071808 ERX11454433 ERS16387675 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E108 1 SAMEA114398983 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:108 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:108 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:287 66659 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 108-1_S5_L002_R1_001.fastq.gz 108-1_S5_L002_R2_001.fastq.gz fastq fastq 17592295140.0 69810695.0 ena RUN TAB 21 09 2023 13:32:15:288 66660 0:126 1:126 A:3473054128;C:5265562453;G:5455395791;T:3395881406;N:2401362 126 126     3473054128 5265562453 5455395791 3395881406 2401362 ERX11454433 ERS16387675 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92632 0.92464 0.16285 0.16525 0.7781 0.77985 0.79539 0.79841 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14923 14923 ERR12071807 ERX11454432 ERS16387674 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E107 4 SAMEA114398982 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:107 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:107 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:287 66657 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 107-4_S20_L005_R1_001.fastq.gz 107-4_S20_L005_R2_001.fastq.gz fastq fastq 12626647992.0 50105746.0 ena RUN TAB 21 09 2023 13:32:15:287 66658 0:126 1:126 A:2503116695;C:3776878144;G:3904732537;T:2438634661;N:3285955 126 126     2503116695 3776878144 3904732537 2438634661 3285955 ERX11454432 ERS16387674 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93409 0.93399 0.16467 0.16803 0.77567 0.77749 0.77962 0.76236 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14924 14924 ERR12071806 ERX11454431 ERS16387673 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E107 3 SAMEA114398981 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:107 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:107 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:287 66655 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 107-3_S28_L007_R1_001.fastq.gz 107-3_S28_L007_R2_001.fastq.gz fastq fastq 19765610928.0 78434964.0 ena RUN TAB 21 09 2023 13:32:15:287 66656 0:126 1:126 A:3807913538;C:6041902918;G:6270499946;T:3639644996;N:5649530 126 126     3807913538 6041902918 6270499946 3639644996 5649530 ERX11454431 ERS16387673 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93479 0.93431 0.15154 0.15299 0.78462 0.78533 0.78429 0.79385 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14925 14925 ERR12071805 ERX11454430 ERS16387672 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E107 2 SAMEA114398980 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:107 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:107 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:287 66653 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 107-2_S32_L008_R1_001.fastq.gz 107-2_S32_L008_R2_001.fastq.gz fastq fastq 20245786344.0 80340422.0 ena RUN TAB 21 09 2023 13:32:15:287 66654 0:126 1:126 A:3580212812;C:6483019868;G:6732117106;T:3443314781;N:7121777 126 126     3580212812 6483019868 6732117106 3443314781 7121777 ERX11454430 ERS16387672 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93526 0.93431 0.14042 0.14264 0.82887 0.83041 0.85552 0.85524 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14926 14926 ERR12071804 ERX11454429 ERS16387671 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E107 1 SAMEA114398979 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:107 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:107 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:286 66651 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 107-1_S24_L006_R2_001.fastq.gz 107-1_S24_L006_R1_001.fastq.gz fastq fastq 15192276120.0 60286810.0 ena RUN TAB 21 09 2023 13:32:15:286 66652 0:126 1:126 A:2840014487;C:4709824279;G:4867364305;T:2771588673;N:3484376 126 126     2840014487 4709824279 4867364305 2771588673 3484376 ERX11454429 ERS16387671 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92039 0.91914 0.17007 0.17237 0.80939 0.80986 0.84885 0.847 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14927 14927 ERR12071803 ERX11454428 ERS16387670 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E106 4 SAMEA114398978 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:106 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:106 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:286 66649 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 106-4_S23_L006_R2_001.fastq.gz 106-4_S23_L006_R1_001.fastq.gz fastq fastq 16985562300.0 67403025.0 ena RUN TAB 21 09 2023 13:32:15:286 66650 0:126 1:126 A:3322275260;C:5133904780;G:5334495158;T:3190965461;N:3921641 126 126     3322275260 5133904780 5334495158 3190965461 3921641 ERX11454428 ERS16387670 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93707 0.93661 0.15576 0.15861 0.77826 0.78025 0.77722 0.77979 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14928 14928 ERR12071802 ERX11454427 ERS16387669 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E106 3 SAMEA114398977 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:106 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:106 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:286 66647 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 106-3_S31_L008_R2_001.fastq.gz 106-3_S31_L008_R1_001.fastq.gz fastq fastq 19459285524.0 77219387.0 ena RUN TAB 21 09 2023 13:32:15:286 66648 0:126 1:126 A:3823996295;C:5872737349;G:6122836793;T:3632881865;N:6833222 126 126     3823996295 5872737349 6122836793 3632881865 6833222 ERX11454427 ERS16387669 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.90902 0.90816 0.1544 0.15713 0.78926 0.79176 0.76867 0.78913 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14929 14929 ERR12071801 ERX11454426 ERS16387668 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E106 2 SAMEA114398976 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:106 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:106 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:285 66645 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 106-2_S27_L007_R1_001.fastq.gz 106-2_S27_L007_R2_001.fastq.gz fastq fastq 15694418124.0 62279437.0 ena RUN TAB 21 09 2023 13:32:15:286 66646 0:126 1:126 A:3002717019;C:4829058190;G:5037608362;T:2820533482;N:4501071 126 126     3002717019 4829058190 5037608362 2820533482 4501071 ERX11454426 ERS16387668 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93511 0.93528 0.14004 0.14226 0.7891 0.79068 0.77063 0.77891 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14930 14930 ERR12071800 ERX11454425 ERS16387667 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E106 1 SAMEA114398975 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:106 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:106 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:285 66643 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 106-1_S19_L005_R1_001.fastq.gz 106-1_S19_L005_R2_001.fastq.gz fastq fastq 18647636868.0 73998559.0 ena RUN TAB 21 09 2023 13:32:15:285 66644 0:126 1:126 A:3692341453;C:5587227660;G:5803402834;T:3559657331;N:5007590 126 126     3692341453 5587227660 5803402834 3559657331 5007590 ERX11454425 ERS16387667 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92714 0.92688 0.16214 0.16642 0.77433 0.775 0.76217 0.75322 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14931 14931 ERR12071799 ERX11454424 ERS16387666 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E105 4 SAMEA114398974 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:105 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:105 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:285 66641 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 105-4_S26_L007_R2_001.fastq.gz 105-4_S26_L007_R1_001.fastq.gz fastq fastq 15124522392.0 60017946.0 ena RUN TAB 21 09 2023 13:32:15:285 66642 0:126 1:126 A:2852895871;C:4689063320;G:4867825391;T:2710443233;N:4294577 126 126     2852895871 4689063320 4867825391 2710443233 4294577 ERX11454424 ERS16387666 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.95529 0.95479 0.13148 0.13281 0.7793 0.78125 0.78337 0.78508 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14932 14932 ERR12071798 ERX11454423 ERS16387665 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E105 3 SAMEA114398973 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:105 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:105 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:285 66639 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 105-3_S18_L005_R1_001.fastq.gz 105-3_S18_L005_R2_001.fastq.gz fastq fastq 17644367664.0 70017332.0 ena RUN TAB 21 09 2023 13:32:15:285 66640 0:126 1:126 A:3347478814;C:5457952160;G:5642901286;T:3191260656;N:4774748 126 126     3347478814 5457952160 5642901286 3191260656 4774748 ERX11454423 ERS16387665 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.94866 0.94893 0.14303 0.14517 0.78658 0.78697 0.80916 0.81131 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14933 14933 ERR12071797 ERX11454422 ERS16387664 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E105 2 SAMEA114398972 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:105 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:105 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:284 66637 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 105-2_S30_L008_R1_001.fastq.gz 105-2_S30_L008_R2_001.fastq.gz fastq fastq 15981084252.0 63417001.0 ena RUN TAB 21 09 2023 13:32:15:285 66638 0:126 1:126 A:3059876138;C:4898463877;G:5076925794;T:2940239108;N:5579335 126 126     3059876138 4898463877 5076925794 2940239108 5579335 ERX11454422 ERS16387664 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.95109 0.95022 0.14624 0.14776 0.78066 0.78283 0.76738 0.79238 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14934 14934 ERR12071796 ERX11454421 ERS16387663 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E105 1 SAMEA114398971 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:105 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:105 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:284 66635 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 105-1_S22_L006_R1_001.fastq.gz 105-1_S22_L006_R2_001.fastq.gz fastq fastq 16378597368.0 64994434.0 ena RUN TAB 21 09 2023 13:32:15:284 66636 0:126 1:126 A:3157768088;C:4992606167;G:5190605482;T:3033853059;N:3764572 126 126     3157768088 4992606167 5190605482 3033853059 3764572 ERX11454421 ERS16387663 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.9472 0.94619 0.15768 0.15997 0.78646 0.78845 0.75864 0.79159 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14935 14935 ERR12071795 ERX11454420 ERS16387662 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E104 4 SAMEA114398970 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:104 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:104 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:284 66633 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 104-4_S29_L008_R2_001.fastq.gz 104-4_S29_L008_R1_001.fastq.gz fastq fastq 17713234476.0 70290613.0 ena RUN TAB 21 09 2023 13:32:15:284 66634 0:126 1:126 A:3387663411;C:5419734351;G:5646953646;T:3252634316;N:6248752 126 126     3387663411 5419734351 5646953646 3252634316 6248752 ERX11454420 ERS16387662 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.91957 0.91797 0.14938 0.15201 0.79149 0.79358 0.7508 0.80456 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14936 14936 ERR12071794 ERX11454419 ERS16387661 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E104 3 SAMEA114398969 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:104 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:104 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:284 66631 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 104-3_S21_L006_R1_001.fastq.gz 104-3_S21_L006_R2_001.fastq.gz fastq fastq 20412904428.0 81003589.0 ena RUN TAB 21 09 2023 13:32:15:284 66632 0:126 1:126 A:3999139733;C:6180998229;G:6441889554;T:3786215014;N:4661898 126 126     3999139733 6180998229 6441889554 3786215014 4661898 ERX11454419 ERS16387661 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93627 0.93494 0.14845 0.14979 0.77796 0.77891 0.76434 0.77202 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14937 14937 ERR12071793 ERX11454418 ERS16387660 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E104 2 SAMEA114398968 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:104 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:104 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:283 66629 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 104-2_S25_L007_R1_001.fastq.gz 104-2_S25_L007_R2_001.fastq.gz fastq fastq 15067973340.0 59793545.0 ena RUN TAB 21 09 2023 13:32:15:284 66630 0:126 1:126 A:2963040605;C:4540311477;G:4736958045;T:2823360579;N:4302634 126 126     2963040605 4540311477 4736958045 2823360579 4302634 ERX11454418 ERS16387660 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92968 0.92854 0.16053 0.16248 0.78224 0.78228 0.7365 0.76845 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14938 14938 ERR12071792 ERX11454417 ERS16387659 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E104 1 SAMEA114398967 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:104 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:104 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:283 66627 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 104-1_S17_L005_R1_001.fastq.gz 104-1_S17_L005_R2_001.fastq.gz fastq fastq 19257494508.0 76418629.0 ena RUN TAB 21 09 2023 13:32:15:283 66628 0:126 1:126 A:3731156408;C:5859411051;G:6100994986;T:3560909583;N:5022480 126 126     3731156408 5859411051 6100994986 3560909583 5022480 ERX11454417 ERS16387659 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92633 0.92586 0.14768 0.14948 0.78277 0.7833 0.7452 0.76737 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14939 14939 ERR12071791 ERX11454416 ERS16387658 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E103 4 SAMEA114398966 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:103 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:103 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:283 66625 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 103-4_S32_L006_R1_001.fastq.gz 103-4_S32_L006_R2_001.fastq.gz fastq fastq 13085486820.0 51926535.0 ena RUN TAB 21 09 2023 13:32:15:283 66626 0:126 1:126 A:2567103783;C:3969617611;G:4069486176;T:2476759371;N:2519879 126 126     2567103783 3969617611 4069486176 2476759371 2519879 ERX11454416 ERS16387658 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.93075 0.93242 0.14151 0.14331 0.774 0.76822 0.75401 0.76454 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14940 14940 ERR12071790 ERX11454415 ERS16387657 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E103 3 SAMEA114398965 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:103 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:103 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:283 66623 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 103-3_S65_L007_R2_001.fastq.gz 103-3_S65_L007_R1_001.fastq.gz fastq fastq 11192352696.0 44414098.0 ena RUN TAB 21 09 2023 13:32:15:283 66624 0:126 1:126 A:2123359510;C:3455439467;G:3570545494;T:2039990322;N:3017903 126 126     2123359510 3455439467 3570545494 2039990322 3017903 ERX11454415 ERS16387657 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.89542 0.89591 0.1351 0.13661 0.78948 0.79003 0.77414 0.80393 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14941 14941 ERR12071789 ERX11454414 ERS16387656 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E103 2 SAMEA114398964 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:103 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:103 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:282 66621 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 103-2_S36_L007_R1_001.fastq.gz 103-2_S36_L007_R2_001.fastq.gz fastq fastq 10568377512.0 41938006.0 ena RUN TAB 21 09 2023 13:32:15:283 66622 0:126 1:126 A:2109516452;C:3179785410;G:3272667938;T:2004453838;N:1953874 126 126     2109516452 3179785410 3272667938 2004453838 1953874 ERX11454414 ERS16387656 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92729 0.92817 0.15094 0.1528 0.7685 0.76516 0.74143 0.74277 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14942 14942 ERR12071788 ERX11454413 ERS16387655 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E103 1 SAMEA114398963 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:103 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:103 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:282 66619 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 103-1_S69_L008_R1_001.fastq.gz 103-1_S69_L008_R2_001.fastq.gz fastq fastq 9417798180.0 37372215.0 ena RUN TAB 21 09 2023 13:32:15:282 66620 0:126 1:126 A:1807793384;C:2891759578;G:2983948236;T:1730405095;N:3891887 126 126     1807793384 2891759578 2983948236 1730405095 3891887 ERX11454413 ERS16387655 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.8784 0.87802 0.13342 0.13445 0.789 0.78946 0.79547 0.79885 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14943 14943 ERR12071787 ERX11454412 ERS16387654 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E102 4 SAMEA114398962 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:102 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:102 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:282 66617 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 102-4_S35_L007_R2_001.fastq.gz 102-4_S35_L007_R1_001.fastq.gz fastq fastq 15605254728.0 61925614.0 ena RUN TAB 21 09 2023 13:32:15:282 66618 0:126 1:126 A:3158918177;C:4616749707;G:4726409583;T:3100328707;N:2848554 126 126     3158918177 4616749707 4726409583 3100328707 2848554 ERX11454412 ERS16387654 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.91674 0.91732 0.1668 0.16991 0.77569 0.77082 0.76006 0.76056 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14944 14944 ERR12071786 ERX11454411 ERS16387653 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E102 3 SAMEA114398961 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:102 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:102 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:282 66615 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 102-3_S68_L008_R1_001.fastq.gz 102-3_S68_L008_R2_001.fastq.gz fastq fastq 20642076252.0 81913001.0 ena RUN TAB 21 09 2023 13:32:15:282 66616 0:126 1:126 A:3670199430;C:6557337612;G:6776033266;T:3629933781;N:8572163 126 126     3670199430 6557337612 6776033266 3629933781 8572163 ERX11454411 ERS16387653 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.89984 0.89794 0.14393 0.14603 0.82079 0.82233 0.83939 0.8347 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14945 14945 ERR12071785 ERX11454410 ERS16387652 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E102 2 SAMEA114398960 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:102 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:102 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:281 66613 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 22 102-2_S31_L006_R1_001.fastq.gz 102-2_S31_L006_R2_001.fastq.gz fastq fastq 23877621936.0 94752468.0 ena RUN TAB 21 09 2023 13:32:15:282 66614 0:126 1:126 A:3953279642;C:7876070920;G:8128759951;T:3914909602;N:4601821 126 126     3953279642 7876070920 8128759951 3914909602 4601821 ERX11454410 ERS16387652 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92602 0.85538 0.13016 0.12286 0.84508 0.84936 0.81613 0.88529 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14946 14946 ERR12071784 ERX11454409 ERS16387651 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   Low stress E102 1 SAMEA114398959 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:102 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:102 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:281 66611 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 102-1_S64_L007_R1_001.fastq.gz 102-1_S64_L007_R2_001.fastq.gz fastq fastq 20588587236.0 81700743.0 ena RUN TAB 21 09 2023 13:32:15:281 66612 0:126 1:126 A:3005365881;C:7167599347;G:7450281822;T:2959758690;N:5581496 126 126     3005365881 7167599347 7450281822 2959758690 5581496 ERX11454409 ERS16387651 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.90225 0.89979 0.08909 0.09003 0.87071 0.87148 0.90162 0.83246 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14947 14947 ERR12071783 ERX11454408 ERS16387650 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E101 4 SAMEA114398958 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:101 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:101 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:281 66609 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 101-4_S30_L006_R1_001.fastq.gz 101-4_S30_L006_R2_001.fastq.gz fastq fastq 12524862168.0 49701834.0 ena RUN TAB 21 09 2023 13:32:15:281 66610 0:126 1:126 A:2576891018;C:3688938717;G:3819872503;T:2436717421;N:2442509 126 126     2576891018 3688938717 3819872503 2436717421 2442509 ERX11454408 ERS16387650 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92878 0.92997 0.15322 0.15505 0.76315 0.76063 0.69783 0.67569 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14948 14948 ERR12071782 ERX11454407 ERS16387649 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E101 3 SAMEA114398957 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:101 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:101 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:281 66607 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 101-3_S34_L007_R1_001.fastq.gz 101-3_S34_L007_R2_001.fastq.gz fastq fastq 11973395700.0 47513475.0 ena RUN TAB 21 09 2023 13:32:15:281 66608 0:126 1:126 A:2371769443;C:3605917515;G:3700919970;T:2292577579;N:2211193 126 126     2371769443 3605917515 3700919970 2292577579 2211193 ERX11454407 ERS16387649 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.92217 0.92315 0.14568 0.1469 0.7724 0.76917 0.7521 0.75171 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14949 14949 ERR12071781 ERX11454406 ERS16387648 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E101 2 SAMEA114398956 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:101 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:101 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:280 66605 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 101-2_S63_L007_R2_001.fastq.gz 101-2_S63_L007_R1_001.fastq.gz fastq fastq 10806069456.0 42881228.0 ena RUN TAB 21 09 2023 13:32:15:280 66606 0:126 1:126 A:2073944191;C:3321784426;G:3405352767;T:2002070301;N:2917771 126 126     2073944191 3321784426 3405352767 2002070301 2917771 ERX11454406 ERS16387648 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.9236 0.92427 0.14372 0.14539 0.78084 0.78141 0.74294 0.78886 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14950 14950 ERR12071780 ERX11454405 ERS16387647 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E101 1 SAMEA114398955 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:101 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:101 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:280 66603 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 101-1_S67_L008_R1_001.fastq.gz 101-1_S67_L008_R2_001.fastq.gz fastq fastq 17155416348.0 68077049.0 ena RUN TAB 21 09 2023 13:32:15:280 66604 0:126 1:126 A:3066178934;C:5490109793;G:5728819123;T:2863162486;N:7146012 126 126     3066178934 5490109793 5728819123 2863162486 7146012 ERX11454405 ERS16387647 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.94204 0.94154 0.12549 0.1266 0.80653 0.80726 0.83737 0.8394 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14951 14951 ERR12071779 ERX11454404 ERS16387646 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E100 4 SAMEA114398954 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:100 4|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:100 4|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:280 66601 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 100-4_S33_L007_R1_001.fastq.gz 100-4_S33_L007_R2_001.fastq.gz fastq fastq 20883396240.0 82870620.0 ena RUN TAB 21 09 2023 13:32:15:280 66602 0:126 1:126 A:4151890640;C:6231825391;G:6398810174;T:4097014520;N:3855515 126 126     4151890640 6231825391 6398810174 4097014520 3855515 ERX11454404 ERS16387646 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.91603 0.9155 0.17576 0.1788 0.7781 0.7753 0.76044 0.78007 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14952 14952 ERR12071778 ERX11454403 ERS16387645 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E100 3 SAMEA114398953 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:100 3|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:100 3|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:280 66599 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 100-3_S29_L006_R1_001.fastq.gz 100-3_S29_L006_R2_001.fastq.gz fastq fastq 17203126752.0 68266376.0 ena RUN TAB 21 09 2023 13:32:15:280 66600 0:126 1:126 A:3380289058;C:5172410817;G:5314572798;T:3332505592;N:3348487 126 126     3380289058 5172410817 5314572798 3332505592 3348487 ERX11454403 ERS16387645 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.90457 0.90462 0.18582 0.18981 0.79947 0.79435 0.81648 0.81903 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14953 14953 ERR12071777 ERX11454402 ERS16387644 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E100 2 SAMEA114398952 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:100 2|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:100 2|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:279 66597 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 100-2_S66_L008_R2_001.fastq.gz 100-2_S66_L008_R1_001.fastq.gz fastq fastq 12181472100.0 48339175.0 ena RUN TAB 21 09 2023 13:32:15:279 66598 0:126 1:126 A:2169455038;C:3847243791;G:3951410714;T:2208297402;N:5065155 126 126     2169455038 3847243791 3951410714 2208297402 5065155 ERX11454402 ERS16387644 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.87873 0.8759 0.15894 0.16003 0.82446 0.82475 0.8538 0.82928 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
14954 14954 ERR12071776 ERX11454401 ERS16387643 ERP151293 PRJEB66218 Social stress in Zebrafish sperm b81525de-0f4f-4e41-8e34-f411e5590e7b Other Environmental changes may affect paternal condition and following generations but the underlying transmission mechanisms of such information is unknown. Male male competition induces a physiological stress response and affects male hormone levels ejaculate traits and hatch rates in their offspring. Here we investigated the potential role of small RNAs in sperm in the transmission of male condition to the next generation. We exposed male zebrafish Danio rerio to high and low male male competition environments for two weeks and collected sperm samples at the end. We also performed IVFs using a split clutch design to distinguish between paternal and maternal effects and collected embryos at 24 hours to test for differentially expressed genes at this key developmental stage. We sequenced mi and piRNAs and the full transcriptome in the resulting offspring and ran a differential expression analyses. We identified differentially expressed sperm mi and piRNAs with the strongest effects observed in sperm of males switching from a high to a low competition environment. We identified 612 differentially expressed genes in the embryos. The changes in gene expression in the embryos support the idea of faster development and hatching and can be linked to some of the differentially expressed small RNAs in sperm. ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21   High stress E100 1 SAMEA114398951 University of East Anglia INSDC center name:University of East Anglia|Submitter Id:100 1|collection date:2014|common name:zebrafish|geographic location country and/or sea:Sweden|sample name:100 1|scientific name:Danio rerio                 Illumina HiSeq X paired end sequencing ena EXPERIMENT TAB 21 09 2023 13:32:15:279 66595 125bp 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq X   ERP151293 Illumina HiSeq X paired end sequencing ENA FIRST PUBLIC:2023 09 21|ENA LAST UPDATE:2023 09 21 100-1_S62_L007_R1_001.fastq.gz 100-1_S62_L007_R2_001.fastq.gz fastq fastq 12598877592.0 49995546.0 ena RUN TAB 21 09 2023 13:32:15:279 66596 0:126 1:126 A:2443108338;C:3813175879;G:3922667630;T:2416483718;N:3442027 126 126     2443108338 3813175879 3922667630 2416483718 3442027 ERX11454401 ERS16387643 ERA27252154 university of east anglia|European Nucleotide Archive university of east anglia 2 0.9126 0.91287 0.18702 0.1895 0.79431 0.79373 0.78056 0.81778 126 126 B B biological fallback assumption illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United Kingdom 2023-09-21 Undetermined Embryo Undetermined Embryo Imprecise
22297 22297 ERR959156 ERX1036203 ERS790174 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482770 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:44Z|ENA LAST UPDATE:2018 03 09T01:59:34Z|External Id:SAMEA3482770|INSDC center name:SC|INSDC first public:2015 07 13T15:15:44Z|INSDC last update:2018 03 09T01:59:34Z|INSDC status:public|Submitter Id:shield cell 83 sc 1963356|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GCTCCTTG is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 83 sc 1963356|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#83 10362876 Illumina sequencing of library 10362876 constructed from sample accession ERS790174 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GCTCCTTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#83.cram cram 81251300.0 625010.0 SC RUN 13080 2#83 0:55 1:75 A:22686562;C:15358120;G:14210136;T:28968512;N:27970 55 75     22686562 15358120 14210136 28968512 27970 ERX1036203 ERS790174 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.39171 0.99447 0.39135 0.77891 0.99987 0.99596 0.1923 0.04331 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22298 22298 ERR959155 ERX1036202 ERS790173 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482769 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:41Z|ENA LAST UPDATE:2018 03 09T01:59:34Z|External Id:SAMEA3482769|INSDC center name:SC|INSDC first public:2015 07 13T15:15:41Z|INSDC last update:2018 03 09T01:59:34Z|INSDC status:public|Submitter Id:shield cell 82 sc 1963355|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GAGCCAAT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 82 sc 1963355|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#82 10362875 Illumina sequencing of library 10362875 constructed from sample accession ERS790173 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GAGCCAAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#82.cram cram 32607250.0 250825.0 SC RUN 13080 2#82 0:55 1:75 A:7500490;C:7924976;G:5795737;T:11374701;N:11346 55 75     7500490 7924976 5795737 11374701 11346 ERX1036202 ERS790173 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.50926 0.7335 0.50562 0.73278 0.99993 0.99801 0.96644 0.43902 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22299 22299 ERR959154 ERX1036201 ERS790172 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482768 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:44Z|ENA LAST UPDATE:2018 03 09T02:28:39Z|External Id:SAMEA3482768|INSDC center name:SC|INSDC first public:2015 07 13T15:15:44Z|INSDC last update:2018 03 09T02:28:39Z|INSDC status:public|Submitter Id:shield cell 81 sc 1963354|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GGAATGAT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 81 sc 1963354|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#81 10362874 Illumina sequencing of library 10362874 constructed from sample accession ERS790172 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GGAATGAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#81.cram cram 51847510.0 398827.0 SC RUN 13080 2#81 0:55 1:75 A:13642764;C:8498883;G:8892127;T:20794619;N:19117 55 75     13642764 8498883 8892127 20794619 19117 ERX1036201 ERS790172 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.43316 0.80682 0.43245 0.55718 0.99987 0.9974 0.6375 0.49253 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22300 22300 ERR959153 ERX1036200 ERS790171 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482767 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:43Z|ENA LAST UPDATE:2018 03 09T01:59:34Z|External Id:SAMEA3482767|INSDC center name:SC|INSDC first public:2015 07 13T15:15:43Z|INSDC last update:2018 03 09T01:59:34Z|INSDC status:public|Submitter Id:shield cell 80 sc 1963353|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GTCGCTAT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 80 sc 1963353|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#80 10362873 Illumina sequencing of library 10362873 constructed from sample accession ERS790171 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GTCGCTAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#80.cram cram 442673920.0 3405184.0 SC RUN 13080 2#80 0:55 1:75 A:107160617;C:76661084;G:81632399;T:177053991;N:165829 55 75     107160617 76661084 81632399 177053991 165829 ERX1036200 ERS790171 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.35142 0.83662 0.3481 0.23165 0.99967 0.99602 0.69653 0.5302 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22301 22301 ERR959152 ERX1036199 ERS790170 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482766 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:42Z|ENA LAST UPDATE:2018 03 09T02:42:57Z|External Id:SAMEA3482766|INSDC center name:SC|INSDC first public:2015 07 13T15:15:42Z|INSDC last update:2018 03 09T02:42:57Z|INSDC status:public|Submitter Id:shield cell 79 sc 1963352|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GTTAGCCT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 79 sc 1963352|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#79 10362872 Illumina sequencing of library 10362872 constructed from sample accession ERS790170 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GTTAGCCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#79.cram cram 293606170.0 2258509.0 SC RUN 13080 2#79 0:55 1:75 A:65939139;C:58873446;G:58131977;T:110550725;N:110883 55 75     65939139 58873446 58131977 110550725 110883 ERX1036199 ERS790170 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.2836 0.40872 0.28092 0.11688 0.99967 0.99679 0.66666 0.48475 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22302 22302 ERR959151 ERX1036198 ERS790169 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482765 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:44Z|ENA LAST UPDATE:2018 03 09T02:28:39Z|External Id:SAMEA3482765|INSDC center name:SC|INSDC first public:2015 07 13T15:15:44Z|INSDC last update:2018 03 09T02:28:39Z|INSDC status:public|Submitter Id:shield cell 78 sc 1963351|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GCATGGCT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 78 sc 1963351|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#78 10362871 Illumina sequencing of library 10362871 constructed from sample accession ERS790169 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GCATGGCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#78.cram cram 140251020.0 1078854.0 SC RUN 13080 2#78 0:55 1:75 A:31075420;C:25777335;G:25496619;T:57853020;N:48626 55 75     31075420 25777335 25496619 57853020 48626 ERX1036198 ERS790169 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.44526 0.91664 0.40548 0.29201 0.99973 0.99502 0.976 0.11356 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22303 22303 ERR959150 ERX1036197 ERS790168 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482764 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:41Z|ENA LAST UPDATE:2018 03 09T01:59:34Z|External Id:SAMEA3482764|INSDC center name:SC|INSDC first public:2015 07 13T15:15:41Z|INSDC last update:2018 03 09T01:59:34Z|INSDC status:public|Submitter Id:shield cell 77 sc 1963350|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GAGGTGCT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 77 sc 1963350|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#77 10362870 Illumina sequencing of library 10362870 constructed from sample accession ERS790168 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GAGGTGCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#77.cram cram 73287890.0 563753.0 SC RUN 13080 2#77 0:55 1:75 A:18107993;C:11894556;G:12406456;T:30852895;N:25990 55 75     18107993 11894556 12406456 30852895 25990 ERX1036197 ERS790168 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.15875 0.89451 0.15799 0.038 0.99979 0.99444 0.44303 0.11534 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22304 22304 ERR959149 ERX1036196 ERS790167 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482763 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:40Z|ENA LAST UPDATE:2018 03 09T01:59:34Z|External Id:SAMEA3482763|INSDC center name:SC|INSDC first public:2015 07 13T15:15:40Z|INSDC last update:2018 03 09T01:59:34Z|INSDC status:public|Submitter Id:shield cell 76 sc 1963349|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GTACATCT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 76 sc 1963349|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#76 10362869 Illumina sequencing of library 10362869 constructed from sample accession ERS790167 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GTACATCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#76.cram cram 277079400.0 2131380.0 SC RUN 13080 2#76 0:55 1:75 A:65500394;C:58060011;G:52775015;T:100636311;N:107669 55 75     65500394 58060011 52775015 100636311 107669 ERX1036196 ERS790167 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.32152 0.613 0.31443 0.3473 0.99981 0.99782 0.86936 0.71869 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22305 22305 ERR959148 ERX1036195 ERS790166 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482762 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:44Z|ENA LAST UPDATE:2018 03 09T02:28:39Z|External Id:SAMEA3482762|INSDC center name:SC|INSDC first public:2015 07 13T15:15:44Z|INSDC last update:2018 03 09T02:28:39Z|INSDC status:public|Submitter Id:shield cell 75 sc 1963348|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GAATCTGT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 75 sc 1963348|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#75 10362868 Illumina sequencing of library 10362868 constructed from sample accession ERS790166 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GAATCTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#75.cram cram 928786950.0 7144515.0 SC RUN 13080 2#75 0:55 1:75 A:226622517;C:150322025;G:157654677;T:393861929;N:325802 55 75     226622517 150322025 157654677 393861929 325802 ERX1036195 ERS790166 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.29201 0.87845 0.27969 0.14381 0.99943 0.99397 0.49369 0.41778 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22306 22306 ERR959147 ERX1036194 ERS790165 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482761 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:42Z|ENA LAST UPDATE:2018 03 09T01:59:34Z|External Id:SAMEA3482761|INSDC center name:SC|INSDC first public:2015 07 13T15:15:42Z|INSDC last update:2018 03 09T01:59:34Z|INSDC status:public|Submitter Id:shield cell 74 sc 1963347|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GGTCGTGT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 74 sc 1963347|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#74 10362867 Illumina sequencing of library 10362867 constructed from sample accession ERS790165 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GGTCGTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#74.cram cram 34256040.0 263508.0 SC RUN 13080 2#74 0:55 1:75 A:7812964;C:4765758;G:5526797;T:16139059;N:11462 55 75     7812964 4765758 5526797 16139059 11462 ERX1036194 ERS790165 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.34629 0.99846 0.34563 0.00261 0.99983 0.99604 0.25 0.37345 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22307 22307 ERR959146 ERX1036193 ERS790164 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482760 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:43Z|ENA LAST UPDATE:2018 03 09T02:42:57Z|External Id:SAMEA3482760|INSDC center name:SC|INSDC first public:2015 07 13T15:15:43Z|INSDC last update:2018 03 09T02:42:57Z|INSDC status:public|Submitter Id:shield cell 73 sc 1963346|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GCAACATT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 73 sc 1963346|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#73 10362866 Illumina sequencing of library 10362866 constructed from sample accession ERS790164 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GCAACATT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#73.cram cram 85617610.0 658597.0 SC RUN 13080 2#73 0:55 1:75 A:20793000;C:17608067;G:18169033;T:29015717;N:31793 55 75     20793000 17608067 18169033 29015717 31793 ERX1036193 ERS790164 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.40764 0.3146 0.40698 0.31422 0.99993 0.99886 0.25 0.48387 55 75 B B biological fallback assumption illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22308 22308 ERR959145 ERX1036192 ERS790163 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482759 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:41Z|ENA LAST UPDATE:2018 03 09T02:28:39Z|External Id:SAMEA3482759|INSDC center name:SC|INSDC first public:2015 07 13T15:15:41Z|INSDC last update:2018 03 09T02:28:39Z|INSDC status:public|Submitter Id:shield cell 72 sc 1963345|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GACGGATT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 72 sc 1963345|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#72 10362865 Illumina sequencing of library 10362865 constructed from sample accession ERS790163 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GACGGATT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#72.cram cram 59492290.0 457633.0 SC RUN 13080 2#72 0:55 1:75 A:14758341;C:11714823;G:12785261;T:20211008;N:22857 55 75     14758341 11714823 12785261 20211008 22857 ERX1036192 ERS790163 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.47426 0.60775 0.47413 0.51001 0.99993 0.99945 0.0 0.99939 55 75 B B biological fallback assumption illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22309 22309 ERR959144 ERX1036191 ERS790162 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482758 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:40Z|ENA LAST UPDATE:2018 03 09T01:59:34Z|External Id:SAMEA3482758|INSDC center name:SC|INSDC first public:2015 07 13T15:15:40Z|INSDC last update:2018 03 09T01:59:34Z|INSDC status:public|Submitter Id:shield cell 71 sc 1963344|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence GTGTCCTT is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 71 sc 1963344|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#71 10362864 Illumina sequencing of library 10362864 constructed from sample accession ERS790162 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence GTGTCCTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#71.cram cram 119173730.0 916721.0 SC RUN 13080 2#71 0:55 1:75 A:29451975;C:26610085;G:22832152;T:40234545;N:44973 55 75     29451975 26610085 22832152 40234545 44973 ERX1036191 ERS790162 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.32348 0.71219 0.31887 0.57568 0.99987 0.99896 0.01204 0.00125 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22310 22310 ERR959130 ERX1036177 ERS790148 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482744 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:40Z|ENA LAST UPDATE:2018 03 09T02:27:21Z|External Id:SAMEA3482744|INSDC center name:SC|INSDC first public:2015 07 13T15:15:40Z|INSDC last update:2018 03 09T02:27:21Z|INSDC status:public|Submitter Id:shield cell 57 sc 1963330|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence TCTACGAC is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 57 sc 1963330|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#57 10362850 Illumina sequencing of library 10362850 constructed from sample accession ERS790148 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence TCTACGAC. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#57.cram cram 49591880.0 381476.0 SC RUN 13080 2#57 0:55 1:75 A:11297647;C:10202861;G:11417451;T:16654862;N:19059 55 75     11297647 10202861 11417451 16654862 19059 ERX1036177 ERS790148 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.06563 0.10159 0.06562 0.10145 1.0 0.99961   0.47619 55 75 B B mate1-mate2 similar by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22311 22311 ERR959129 ERX1036176 ERS790147 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482743 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:43Z|ENA LAST UPDATE:2018 03 09T02:15:41Z|External Id:SAMEA3482743|INSDC center name:SC|INSDC first public:2015 07 13T15:15:43Z|INSDC last update:2018 03 09T02:15:41Z|INSDC status:public|Submitter Id:shield cell 56 sc 1963329|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence TTGCGTAC is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 56 sc 1963329|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#56 10362849 Illumina sequencing of library 10362849 constructed from sample accession ERS790147 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence TTGCGTAC. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#56.cram cram 31516550.0 242435.0 SC RUN 13080 2#56 0:55 1:75 A:10186445;C:5121042;G:4601077;T:11596185;N:11801 55 75     10186445 5121042 4601077 11596185 11801 ERX1036176 ERS790147 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.41562 0.66811 0.41426 0.56647 0.99987 0.99088 0.54166 0.50229 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22312 22312 ERR959128 ERX1036175 ERS790146 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482742 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:45Z|ENA LAST UPDATE:2018 03 09T02:42:56Z|External Id:SAMEA3482742|INSDC center name:SC|INSDC first public:2015 07 13T15:15:45Z|INSDC last update:2018 03 09T02:42:56Z|INSDC status:public|Submitter Id:shield cell 55 sc 1963328|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence TTCGCACC is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 55 sc 1963328|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#55 10362848 Illumina sequencing of library 10362848 constructed from sample accession ERS790146 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence TTCGCACC. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#55.cram cram 141272690.0 1086713.0 SC RUN 13080 2#55 0:55 1:75 A:32956117;C:30353092;G:26734703;T:51178716;N:50062 55 75     32956117 30353092 26734703 51178716 50062 ERX1036175 ERS790146 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.33506 0.73603 0.33283 0.51025 0.99985 0.99707 0.55494 0.11528 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22313 22313 ERR959127 ERX1036174 ERS790145 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482741 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:39Z|ENA LAST UPDATE:2018 03 09T02:27:20Z|External Id:SAMEA3482741|INSDC center name:SC|INSDC first public:2015 07 13T15:15:39Z|INSDC last update:2018 03 09T02:27:20Z|INSDC status:public|Submitter Id:shield cell 54 sc 1963327|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence TGTTCTCC is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 54 sc 1963327|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#54 10362847 Illumina sequencing of library 10362847 constructed from sample accession ERS790145 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence TGTTCTCC. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#54.cram cram 51875200.0 399040.0 SC RUN 13080 2#54 0:55 1:75 A:13277711;C:10311958;G:9435214;T:18831879;N:18438 55 75     13277711 10311958 9435214 18831879 18438 ERX1036174 ERS790145 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.61678 0.89504 0.6167 0.8949 0.99991 0.99959 0.5 0.4 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22314 22314 ERR959126 ERX1036173 ERS790144 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482740 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:44Z|ENA LAST UPDATE:2018 03 09T02:15:41Z|External Id:SAMEA3482740|INSDC center name:SC|INSDC first public:2015 07 13T15:15:44Z|INSDC last update:2018 03 09T02:15:41Z|INSDC status:public|Submitter Id:shield cell 53 sc 1963326|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence TACCGAGC is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 53 sc 1963326|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#53 10362846 Illumina sequencing of library 10362846 constructed from sample accession ERS790144 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence TACCGAGC. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#53.cram cram 98518680.0 757836.0 SC RUN 13080 2#53 0:55 1:75 A:24097345;C:19470948;G:20115699;T:34797377;N:37311 55 75     24097345 19470948 20115699 34797377 37311 ERX1036173 ERS790144 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.09178 0.12901 0.09122 0.09297 0.99993 0.99945 0.88235 0.99799 55 75 B B mate1-mate2 similar by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22315 22315 ERR959125 ERX1036172 ERS790143 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482739 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:41Z|ENA LAST UPDATE:2018 03 09T02:15:41Z|External Id:SAMEA3482739|INSDC center name:SC|INSDC first public:2015 07 13T15:15:41Z|INSDC last update:2018 03 09T02:15:41Z|INSDC status:public|Submitter Id:shield cell 52 sc 1963325|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence TCGTTAGC is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 52 sc 1963325|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#52 10362845 Illumina sequencing of library 10362845 constructed from sample accession ERS790143 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence TCGTTAGC. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#52.cram cram 170675050.0 1312885.0 SC RUN 13080 2#52 0:55 1:75 A:37755087;C:38276634;G:37744045;T:56834431;N:64853 55 75     37755087 38276634 37744045 56834431 64853 ERX1036172 ERS790143 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.37299 0.27233 0.37254 0.22951 0.99993 0.99701 0.16666 0.01443 55 75 B B mate2-mate1 similar by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise
22316 22316 ERR959124 ERX1036171 ERS790142 ERP011007 PRJEB9859 Transcriptome profiling of single zebrafish cells Transcriptome_profiling_of_single_zebrafish_cells-sc-2991 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study the transcriptome of single cells.         SAMEA3482738 SC ArrayExpress DevelopmentalStage:6 hpf|ArrayExpress Genotype:T/LF|ArrayExpress Phenotype:WT|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2015 07 13T15:15:44Z|ENA LAST UPDATE:2018 03 09T02:27:20Z|External Id:SAMEA3482738|INSDC center name:SC|INSDC first public:2015 07 13T15:15:44Z|INSDC last update:2018 03 09T02:27:20Z|INSDC status:public|Submitter Id:shield cell 51 sc 1963324|common name:zebrafish|sample description:3 prime end enriched mRNA from single shield cells. A 8 base indexing sequence TTACTCGC is bases 13 to 20 of read 1 followed by GC and polyT.|sample name:shield cell 51 sc 1963324|scientific name:Danio rerio|strain:T/LF                 Illumina HiSeq 2500 paired end sequencing SC EXP 13080 2#51 10362844 Illumina sequencing of library 10362844 constructed from sample accession ERS790142 for study accession ERP011007. This is part of an Illumina multiplexed sequencing run 13080 2. This submission includes reads tagged with the sequence TTACTCGC. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP011007 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2015 07 16|ENA LAST UPDATE:2018 11 16 13080_2#51.cram cram 210207400.0 1616980.0 SC RUN 13080 2#51 0:55 1:75 A:53335077;C:44246750;G:41245337;T:71302463;N:77773 55 75     53335077 44246750 41245337 71302463 77773 ERX1036171 ERS790142 ERA457908 The Wellcome Trust Sanger Institute|European Nucleotide Archive Wellcome Sanger Institute 2 0.38978 0.49421 0.38958 0.39883 0.99993 0.99827 0.2 0.1154 55 75 B B biological fallback assumption illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-07-13 Gastrula Embryo Undetermined Embryo Imprecise

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;