Transcriptomics,Genomics

Dataset Information

151

Polysome-seq in zebrafish early embryonic development


ABSTRACT: We followed the polysomal association of maternal and early zygotic transcriptome over the first few hours of embryonic development, prior to and after MBT. We isolated polysome-associated (bound) and non-polysome-associated (unbound) mRNAs using sucrose gradient centrifugation followed by size fractionation. Using next generation sequencing (RNA-seq), we profiled the transcriptome in polysome-bound and unbound fractions. Our analysis revealed distinct dynamics of polysome association of cytoplasmically polyadenylated maternal mRNAs. Overall design: rRNA-depleted RNA was extracted from pooled embryos of desired stages (Egg, 1-cell, 16-cells, 128-cells, 3.5hpf and 5.3hpf) and subjected to polysome profiling to separate between polysome-free and polysome-associated fragments. Unfractionated, rRNA-depleted samples at corresponding stages were used as background control. One RNA-seq library was generated for each sample.

INSTRUMENT(S): Illumina HiSeq 2500 (Danio rerio)

SUBMITTER: Cecilia Lanny Winata  

PROVIDER: GSE88776 | GEO | 2017-10-14

SECONDARY ACCESSION(S): PRJNA348537

REPOSITORIES: GEO

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Publications

Cytoplasmic polyadenylation-mediated translational control of maternal mRNAs directs maternal-to-zygotic transition.

Winata Cecilia Lanny CL   Łapiński Maciej M   Pryszcz Leszek L   Vaz Candida C   Bin Ismail Muhammad Hisyam MH   Nama Srikanth S   Hajan Hajira Shreen HS   Lee Serene Gek Ping SGP   Korzh Vladimir V   Sampath Prabha P   Tanavde Vivek V   Mathavan Sinnakaruppan S  

Development (Cambridge, England) 20180108 1


In the earliest stages of animal development following fertilization, maternally deposited mRNAs direct biological processes to the point of zygotic genome activation (ZGA). These maternal mRNAs undergo cytoplasmic polyadenylation (CPA), suggesting translational control of their activation. To elucidate the biological role of CPA during embryogenesis, we performed genome-wide polysome profiling at several stages of zebrafish development. Our analysis revealed a correlation between CPA and polyso  ...[more]

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