RT Journal Article
SR Electronic
T1 A high-resolution mRNA expression time course of embryonic development in zebrafish
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 107631
DO 10.1101/107631
A1 Richard J. White
A1 John E. Collins
A1 Ian M. Sealy
A1 Neha Wali
A1 Christopher M. Dooley
A1 Zsofia Digby
A1 Derek L. Stemple
A1 Daniel N. Murphy
A1 Thibaut Hourlier
A1 Anja Füllgrabe
A1 Matthew P. Davis
A1 Anton J. Enright
A1 Elisabeth M. Busch-Nentwich
YR 2017
UL http://biorxiv.org/content/early/2017/02/20/107631.abstract
AB We have produced an mRNA expression time course of zebrafish development across 18 time points from 1-cell to 5 days post-fertilisation sampling individual and pools of embryos. Using poly(A) pulldown stranded RNA-seq and a 3′ end transcript counting method we characterise the temporal expression profiles of 23,642 genes. We identify temporal and functional transcript co-variance that associates 5,024 unnamed genes with distinct developmental time points. Specifically, a class of over 100 previously uncharacterised zinc finger domain containing genes, located on the long arm of chromosome 4, is expressed in a sharp peak during zygotic genome activation. The data reveal complex and widespread differential use of exons and previously unidentified 3′ ends across development, new primary microRNA transcripts and temporal divergence of gene paralogues generated in the teleost genome duplication. To make this dataset a useful baseline reference, the data are accessible to browse and download at Expression Atlas and Ensembl.