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SRX5002130: GSM3467113: PGC_7hpf_RNA-seq_rep1; Danio rerio; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 49.9M spots, 10.1G bases, 3Gb downloads

Submitted by: NCBI (GEO)
Study: Retention of paternal epigenetic memory in the developing teleost germline [RNA-Seq]
show Abstracthide Abstract
Two waves of DNA methylation reprogramming occur during mammalian embryogenesis; during preimplantation development and during primordial germ cell (PGC) formation. However, it is currently unclear how evolutionarily conserved these processes are. Here we characterize the DNA methylomes of zebrafish PGCs at four developmental stages and unravel retention of paternal epigenetic memory, in stark contrast with the findings in mammals. Gene expression profiling of zebrafish PGCs at same developmental stages revealed that the embryonic germline is defined by a small number of markers that display strong developmental stage-specificity and that are uncoupled from DNA methylation-mediated regulation. Overall design: Using low-input RNA-seq we have profiled transcriptomes of zebrafish primordial germ cells (PGCs) and age-matched somatic cells at 4 (blastula), 7 (gastrula), 24 (pharyngula prim-5) and 36 (pharyngula prim-25) hours post-fertilization
Sample: PGC_7hpf_RNA-seq_rep1
SAMN10415351 • SRS4036793 • All experiments • All runs
Organism: Danio rerio
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Selection: cDNA
Layout: PAIRED
Construction protocol: PGCs were FACS-sorted from the kop-EGFP-F-nos3'UTR transgenic zebrafish line Library prep was performed using Clontech SMARTer pico mammalian v2 kit and sequenced on NovaSeq 6000 (2x100bp)
Experiment attributes:
GEO Accession: GSM3467113
Runs: 1 run, 49.9M spots, 10.1G bases, 3Gb
Run# of Spots# of BasesSizePublished


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