{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where devstage_curation = \"Multi-stage\" and tissue_curation = \"Gonad\"", "rows": [[68556, "SRR18028171", "SRX14182301", "SRS12005942", "SRP359829", "PRJNA807002", "samll RNA seq of zebrafish gonads of wildtype and pld6 /  at 22 dpf", "PRJNA807002", "Other", "In this study  we generated zebrafish pld6 knockouts and found that the pld6 null mutants developed as infertile males  with testes containing no germ cells. Pld6 is considered to be a candidate ribonuclease participating in primary piRNA biogenesis which is essential for the survival of germ cells. We deep sequenced 20 33 nt total small RNAs obtained from 22 dpf wildtype and pld6 /  gonad with three repetition. In pld6 /  gonad  small RNAs mapped to the known piRNA clusters were almost absent. Moreover  piRNA clusters in pld6 /  gonad lost the enrichment for uridine at the first position or for adenine at the 10th position. our results unequivocally demonstrate a conserved role for MitoPLD in the piRNA biogenesis pathway.", null, null, null, null, "6WT 3", null, "strain:AB|isolate:replicate3|ecotype:wt|age:post fertilization day 22|dev stage:juvenile|sex:missing|tissue:Gonad|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wt 3 S11 L001 R1", "011", "011", "Zebrafish larvae were anesthetized in 0.2 mg/mL MS 222 and disected to isolate gonads under a microscope. Three wildtype or mutant gonads were mixed into one repeat  and three repeats  were performed for samll RNA sequencing.", null, null, "ncRNA-Seq", "TRANSCRIPTOMIC", "other", "PAIRED", "ILLUMINA", "HiSeq X Ten", null, "SRP359829", null, null, "wt-3_S11_L001_R1_001.fastq.gz wt-3_S11_L001_R2_001.fastq.gz", "fastq fastq", 3576981600.0, 11923272.0, "wt 3 S11 L001 R1 001.fastq.gz", "0:150 1:150", "A:689001630;C:496844981;G:1779990511;T:610974133;N:170345", 150, 150, null, null, 689001630, 496844981, 1779990511, 610974133, 170345, "SRX14182301", "SRS12005942", "SRA1372890", "Huazhong agricultural university|School of Life Science and Technology", "Huazhong agricultural university", 2, 0.8179, 0.81697, 0.60905, 0.60864, 0.82692, 0.82915, 0.52425, 0.52623, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "small_rna", "unknown", "bulk", "unknown", "unknown", null, "China", "2022-02-14", "Multi-stage", "Multi-stage", "Gonad", "Reproductive System"], [68557, "SRR18028172", "SRX14182300", "SRS12005941", "SRP359829", "PRJNA807002", "samll RNA seq of zebrafish gonads of wildtype and pld6 /  at 22 dpf", "PRJNA807002", "Other", "In this study  we generated zebrafish pld6 knockouts and found that the pld6 null mutants developed as infertile males  with testes containing no germ cells. Pld6 is considered to be a candidate ribonuclease participating in primary piRNA biogenesis which is essential for the survival of germ cells. We deep sequenced 20 33 nt total small RNAs obtained from 22 dpf wildtype and pld6 /  gonad with three repetition. In pld6 /  gonad  small RNAs mapped to the known piRNA clusters were almost absent. Moreover  piRNA clusters in pld6 /  gonad lost the enrichment for uridine at the first position or for adenine at the 10th position. our results unequivocally demonstrate a conserved role for MitoPLD in the piRNA biogenesis pathway.", null, null, null, null, "5WT 2", null, "strain:AB|isolate:replicate2|ecotype:wt|age:post fertilization day 22|dev stage:juvenile|sex:missing|tissue:Gonad|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wt 2 S10 L001 R1", "009", "009", "Zebrafish larvae were anesthetized in 0.2 mg/mL MS 222 and disected to isolate gonads under a microscope. Three wildtype or mutant gonads were mixed into one repeat  and three repeats  were performed for samll RNA sequencing.", null, null, "ncRNA-Seq", "TRANSCRIPTOMIC", "other", "PAIRED", "ILLUMINA", "HiSeq X Ten", null, "SRP359829", null, null, "wt-2_S10_L001_R1_001.fastq.gz wt-2_S10_L001_R2_001.fastq.gz", "fastq fastq", 4200013800.0, 14000046.0, "wt 2 S10 L001 R1 001.fastq.gz", "0:150 1:150", "A:781057232;C:617020885;G:2110010128;T:691723797;N:201758", 150, 150, null, null, 781057232, 617020885, 2110010128, 691723797, 201758, "SRX14182300", "SRS12005941", "SRA1372890", "Huazhong agricultural university|School of Life Science and Technology", "Huazhong agricultural university", 2, 0.8213, 0.82216, 0.59414, 0.59507, 0.81089, 0.81306, 0.53839, 0.52755, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "small_rna", "unknown", "bulk", "unknown", "unknown", null, "China", "2022-02-14", "Multi-stage", "Multi-stage", "Gonad", "Reproductive System"], [68558, "SRR18028173", "SRX14182299", "SRS12005940", "SRP359829", "PRJNA807002", "samll RNA seq of zebrafish gonads of wildtype and pld6 /  at 22 dpf", "PRJNA807002", "Other", "In this study  we generated zebrafish pld6 knockouts and found that the pld6 null mutants developed as infertile males  with testes containing no germ cells. Pld6 is considered to be a candidate ribonuclease participating in primary piRNA biogenesis which is essential for the survival of germ cells. We deep sequenced 20 33 nt total small RNAs obtained from 22 dpf wildtype and pld6 /  gonad with three repetition. In pld6 /  gonad  small RNAs mapped to the known piRNA clusters were almost absent. Moreover  piRNA clusters in pld6 /  gonad lost the enrichment for uridine at the first position or for adenine at the 10th position. our results unequivocally demonstrate a conserved role for MitoPLD in the piRNA biogenesis pathway.", null, null, null, null, "4WT 1", null, "strain:AB|isolate:replicate1|ecotype:wt|age:post fertilization day 22|dev stage:juvenile|sex:missing|tissue:Gonad|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wt 1 S9 L001 R1", "007", "007", "Zebrafish larvae were anesthetized in 0.2 mg/mL MS 222 and disected to isolate gonads under a microscope. Three wildtype or mutant gonads were mixed into one repeat  and three repeats  were performed for samll RNA sequencing.", null, null, "ncRNA-Seq", "TRANSCRIPTOMIC", "other", "PAIRED", "ILLUMINA", "HiSeq X Ten", null, "SRP359829", null, null, "wt-1_S9_L001_R1_001.fastq.gz wt-1_S9_L001_R2_001.fastq.gz", "fastq fastq", 4820063700.0, 16066879.0, "wt 1 S9 L001 R1 001.fastq.gz", "0:150 1:150", "A:996304548;C:657334691;G:2379519106;T:786675131;N:230224", 150, 150, null, null, 996304548, 657334691, 2379519106, 786675131, 230224, "SRX14182299", "SRS12005940", "SRA1372890", "Huazhong agricultural university|School of Life Science and Technology", "Huazhong agricultural university", 2, 0.80219, 0.80319, 0.60906, 0.60878, 0.83238, 0.83303, 0.52559, 0.51852, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "small_rna", "unknown", "bulk", "unknown", "unknown", null, "China", "2022-02-14", "Multi-stage", "Multi-stage", "Gonad", "Reproductive System"], [68559, "SRR18028174", "SRX14182298", "SRS12005939", "SRP359829", "PRJNA807002", "samll RNA seq of zebrafish gonads of wildtype and pld6 /  at 22 dpf", "PRJNA807002", "Other", "In this study  we generated zebrafish pld6 knockouts and found that the pld6 null mutants developed as infertile males  with testes containing no germ cells. Pld6 is considered to be a candidate ribonuclease participating in primary piRNA biogenesis which is essential for the survival of germ cells. We deep sequenced 20 33 nt total small RNAs obtained from 22 dpf wildtype and pld6 /  gonad with three repetition. In pld6 /  gonad  small RNAs mapped to the known piRNA clusters were almost absent. Moreover  piRNA clusters in pld6 /  gonad lost the enrichment for uridine at the first position or for adenine at the 10th position. our results unequivocally demonstrate a conserved role for MitoPLD in the piRNA biogenesis pathway.", null, null, null, null, "3PLD6 3", null, "strain:AB|isolate:replicate3|ecotype:pld6 / |age:post fertilization day 22|dev stage:juvenile|sex:missing|tissue:Gonad|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "pld6 3 S3 L003 R1", "005", "005", "Zebrafish larvae were anesthetized in 0.2 mg/mL MS 222 and disected to isolate gonads under a microscope. Three wildtype or mutant gonads were mixed into one repeat  and three repeats  were performed for samll RNA sequencing.", null, null, "ncRNA-Seq", "TRANSCRIPTOMIC", "other", "PAIRED", "ILLUMINA", "HiSeq X Ten", null, "SRP359829", null, null, "pld6-3_S3_L003_R1_001.fastq.gz pld6-3_S3_L003_R2_001.fastq.gz", "fastq fastq", 816686700.0, 2722289.0, "pld6 3 S3 L003 R1 001.fastq.gz", "0:150 1:150", "A:145681738;C:137123477;G:401610833;T:132256312;N:14340", 150, 150, null, null, 145681738, 137123477, 401610833, 132256312, 14340, "SRX14182298", "SRS12005939", "SRA1372890", "Huazhong agricultural university|School of Life Science and Technology", "Huazhong agricultural university", 2, 0.78314, 0.73942, 0.07641, 0.09097, 0.91603, 0.91545, 0.6312, 0.64467, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "small_rna", "unknown", "bulk", "unknown", "unknown", null, "China", "2022-02-14", "Multi-stage", "Multi-stage", "Gonad", "Reproductive System"], [68560, "SRR18028175", "SRX14182297", "SRS12005938", "SRP359829", "PRJNA807002", "samll RNA seq of zebrafish gonads of wildtype and pld6 /  at 22 dpf", "PRJNA807002", "Other", "In this study  we generated zebrafish pld6 knockouts and found that the pld6 null mutants developed as infertile males  with testes containing no germ cells. Pld6 is considered to be a candidate ribonuclease participating in primary piRNA biogenesis which is essential for the survival of germ cells. We deep sequenced 20 33 nt total small RNAs obtained from 22 dpf wildtype and pld6 /  gonad with three repetition. In pld6 /  gonad  small RNAs mapped to the known piRNA clusters were almost absent. Moreover  piRNA clusters in pld6 /  gonad lost the enrichment for uridine at the first position or for adenine at the 10th position. our results unequivocally demonstrate a conserved role for MitoPLD in the piRNA biogenesis pathway.", null, null, null, null, "2PLD6 2", null, "strain:AB|isolate:replicate2|ecotype:pld6 / |age:post fertilization day 22|dev stage:juvenile|sex:missing|tissue:Gonad|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "pld6 2 S2 L003 R1", "003", "003", "Zebrafish larvae were anesthetized in 0.2 mg/mL MS 222 and disected to isolate gonads under a microscope. Three wildtype or mutant gonads were mixed into one repeat  and three repeats  were performed for samll RNA sequencing.", null, null, "ncRNA-Seq", "TRANSCRIPTOMIC", "other", "PAIRED", "ILLUMINA", "HiSeq X Ten", null, "SRP359829", null, null, "pld6-2_S2_L003_R1_001.fastq.gz pld6-2_S2_L003_R2_001.fastq.gz", "fastq fastq", 6546276900.0, 21820923.0, "pld6 2 S2 L003 R1 001.fastq.gz", "0:150 1:150", "A:1161502458;C:1095580994;G:3226725392;T:1062358099;N:109957", 150, 150, null, null, 1161502458, 1095580994, 3226725392, 1062358099, 109957, "SRX14182297", "SRS12005938", "SRA1372890", "Huazhong agricultural university|School of Life Science and Technology", "Huazhong agricultural university", 2, 0.6471, 0.593, 0.07935, 0.09168, 0.92058, 0.92005, 0.53626, 0.65284, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "small_rna", "unknown", "bulk", "unknown", "unknown", null, "China", "2022-02-14", "Multi-stage", "Multi-stage", "Gonad", "Reproductive System"], [68561, "SRR18028176", "SRX14182296", "SRS12005937", "SRP359829", "PRJNA807002", "samll RNA seq of zebrafish gonads of wildtype and pld6 /  at 22 dpf", "PRJNA807002", "Other", "In this study  we generated zebrafish pld6 knockouts and found that the pld6 null mutants developed as infertile males  with testes containing no germ cells. Pld6 is considered to be a candidate ribonuclease participating in primary piRNA biogenesis which is essential for the survival of germ cells. We deep sequenced 20 33 nt total small RNAs obtained from 22 dpf wildtype and pld6 /  gonad with three repetition. In pld6 /  gonad  small RNAs mapped to the known piRNA clusters were almost absent. Moreover  piRNA clusters in pld6 /  gonad lost the enrichment for uridine at the first position or for adenine at the 10th position. our results unequivocally demonstrate a conserved role for MitoPLD in the piRNA biogenesis pathway.", null, null, null, null, "1PLD6 1", null, "strain:AB|isolate:replicate1|ecotype:pld6 / |age:post fertilization day 22|dev stage:juvenile|sex:missing|tissue:Gonad|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "pld6 1 S1 L003 R1", "001", "001", "Zebrafish larvae were anesthetized in 0.2 mg/mL MS 222 and disected to isolate gonads under a microscope. 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primordial germ cells PGCs to further discern functional lncRNA that might play role in PGCs development.", null, null, null, null, "GC4", null, "strain:kop:EGFP 3 primeUTR nanos primordial germ cell transgenic line|isolate:Based on green fluorescence  single PGC was distinctively identified and picked out using a capillary tube|age:5hpf|dev stage:30% 50% epiboly|sex:not applicable|tissue:primordial germ cell|cell type:primordial germ cell|replicate:replicate2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "2pgc", "2 2pgc", "2 2pgc", "primordial germ cell from 5 hpf zebrafish embryos", null, null, "RNA-Seq", "TRANSCRIPTOMIC SINGLE CELL", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP362100", null, null, "GC4_R1.fq.gz GC4_R2.fq.gz", "fastq fastq", 14471348700.0, 48237829.0, "GC4 R1.fq.gz", "0:150 1:150", "A:4127039158;C:3211803959;G:3224340004;T:3907215356;N:950223", 150, 150, null, null, 4127039158, 3211803959, 3224340004, 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