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| Status |
Public on Sep 22, 2013 |
| Title |
Nanog, SoxB1 and Pou5f1/Oct4 regulate widespread zygotic gene activation during the maternal-to-zygotic transition |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
Upon fertilization, maternal factors direct development in a transcriptionally silent embryo. At the maternal-to-zygotic transition (MZT), a universal step in animal development, unknown maternal factors trigger zygotic genome activation (ZGA). In zebrafish, ZGA is required for gastrulation and clearance of maternal mRNAs, which is achieved in part by the conserved microRNA miR-430. However, the precise factors that activate the zygotic program remain largely unknown. Here we show that Nanog, Pou5f1 and SoxB1 are required for genome activation in zebrafish. We identified several hundred genes directly activated by maternal factors, thus constituting the first wave of zygotic transcription in zebrafish. Ribosome profiling in the pre-MZT embryo revealed that nanog, sox19b and pou5f1 are the most highly translated transcription factor mRNAs. Combined loss of function for Nanog, SoxB1 and Pou5f1 resulted in developmental arrest prior to gastrulation, and a failure to activate >75% of zygotic genes. Furthermore, we found that Nanog binds the miR-430 locus and together with Pou5f1 and SoxB1 initiate miR-430 expression and activity. Our results demonstrate that maternal Nanog, Pou5f1 and SoxB1 are required to initiate the zygotic developmental program and in turn trigger the clearance of the maternal program by activating miR-430 expression.
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| Overall design |
Wild type and loss-of-function total mRNA sequencing of embryonic transcriptomes pre- and post-MZT; ribosome profiling pre-MZT
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| Contributor(s) |
Lee MT, Bonneau AR, Giraldez AJ |
| Citation(s) |
24056933 |
| Submission date |
May 31, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Antonio J. Giraldez |
| E-mail(s) |
antonio.giraldez@yale.edu
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| Phone |
203 785 5423
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| Organization name |
Yale University
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| Department |
Genetics
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| Lab |
Giraldez Lab
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| Street address |
333 Cedar Street
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| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06510 |
| Country |
USA |
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| Platforms (1) |
| GPL14875 |
Illumina HiSeq 2000 (Danio rerio) |
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| Samples (35)
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| GSM1152436 |
WT input mRNA for Ribosome Profiling |
| GSM1152437 |
WT ribosome protected fragments for Ribosome Profiling |
| GSM1152438 |
Nanog + SoxB1 MO input mRNA for Ribosome Profiling |
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| Relations |
| BioProject |
PRJNA206070 |
| SRA |
SRP023492 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE47558.txt.gz |
217 b |
(ftp)(http) |
TXT |
| GSE47558_mRNA_exon_rpkm.txt.gz |
1.9 Mb |
(ftp)(http) |
TXT |
| GSE47558_ribosome_profiling_rpkm.txt.gz |
126.2 Kb |
(ftp)(http) |
TXT |
| GSE47558_total_RNA_intron_rpkm.txt.gz |
918.1 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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