{"database": "metadata", "table": "run_metadata", "rows": [[35915, "SRR33227837", "SRX28474905", "SRS24794871", "SRP580008", "PRJNA1253320", "Prpf4 Sequentially Regulates the Expansion and Maturation of Erythrocyte through Distinct Mechanisms", "PRJNA1253320", "Other", "The proliferation of early erythrocyte and the subsequent erythrocyte maturation are critical events during erythropoiesis  how these two independent but interconnected processes are efficiently orchestrated during erythropoiesis was largely unknown. Prpf4 expression is enriched from Pre Colony Forming Unit Erythroid PreCFU E to Nucleated Erythrocytes  especially in the CFU E cells  implying Prpf4 plays a critical role in erythropoiesis. Here  we demonstrate that prpf4 sequentially regulates erythrocyte proliferation and maturation during zebrafish definitive hematopoiesis. The data show that prpf4 mutation results in severe defects in erythropoiesis  characterized by a substantial reduction in erythroid cell numbers and impaired erythrocyte maturation. Further analysis indicates that prpf4 mutation leads to cell cycle arrest of erythrocytes at the S and G2/M phases  as well as a significant increase in erythrocyte apoptosis. Mechanistically  prpf4 mutation leads to DNA damage and the subsequent activation of DNA damage response  triggering the ATM/CHK2 p53 signaling pathway. This process inhibits the proliferation of early erythrocyte and induces erythrocyte apoptosis. On the other hand  the data reveal that prpf4 mutation causes significant defect in skipped exon during pre mRNA splicing  accompanying severe splicing defect in slc25a39 pre mRNA. This results in a significant downregulation of slc25a39 mRNA  ultimately impairing erythrocyte maturation in late erythropoiesis. In conclusion  we identify that prpf4 sequentially regulates early erythrocyte proliferation and the sequential erythrocyte maturation  the dual function of prpf4 partially explaining how early erythrocyte proliferation and late erythrocyte maturation are efficiently coordinated during erythropoiesis.", null, null, null, "RNA seq of prpf4 mutant zebrafish at 48 hpf", "Prpf4 mut rep2", null, "strain:AB|isolate:embryo pool 2|breed:prpf4 mutant|ecotype:laboratory strain|age:48 hpf|dev stage:embryo|collection date:2023 11|geo loc name:China: Sichuan Chengdu|sex:not applicable|tissue:erythrocytes|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of prpf4 mutant zebrafish at 48 hpf", "lib Prpf4 mut rep2", "lib Prpf4 mut rep2", "Same as above", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq X Plus", null, "SRP580008", null, null, "Prpf4_mut_rep2_R1_001.fastq.gz Prpf4_mut_rep2_R2_001.fastq.gz", "fastq fastq", 8530757700.0, 28435859.0, "Prpf4 mut rep2 R1 001.fastq.gz", "0:150 1:150", "A:2173003940;C:2024702047;G:2071325671;T:2261092825;N:633217", 150, 150, null, null, 2173003940, 2024702047, 2071325671, 2261092825, 633217, "SRX28474905", "SRS24794871", "SRA2115340", "Chengdu medical college|School of Basic Medical Sciences", "Chengdu medical college", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "China", "2025-04-20", "Hatching", "Embryo", "Embryo Imprecise", "All anatomical structures"]], "columns": ["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"], "primary_keys": ["rowid"], "primary_key_values": ["35915"], "units": {}, "query_ms": 9.088455990422517}