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| Status |
Public on Mar 15, 2017 |
| Title |
Spemann organizer transcriptome induction by early β-Catenin, Wnt, Nodal and Siamois signals in Xenopus laevis |
| Organism |
Xenopus laevis |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
During Xenopus gastrulation, dorsal stabilization of β-Catenin at the earliest stage and subsequent target genes expression are critical for dorsal-ventral axis determination. However, many β-Catenin targets that mediate this process are still unkown. Here through RNA-seq analysis of β-Catenin knockdown embryos and self-regulating dorsal and ventral half embryos at early gastrula, we define an early β-Catenin gene signature that is downregulated by β-Catenin MO and enriched in dorsal gastrula tissues. This gene signature includes classic Spemann organizer genes, as well as other novel genes. Further analyses revealed that the early β-Catenin gene signature is positively correlated with LiCl treated, Wnt8 and Siamois mRNA-induced genes, consistent with their early role in dorsal-ventral axis formation. Our results also show that St 10.5 is the appropriate stage to uncover β-Catenin target genes that regulate dorsal-ventral patterning than St 9. Meanwhile, the multi-growth factor antagonist Cerberus inhibits part of the early β-Catenin gene signature and also controls the expression of a unique set of genes. Our findings provide new insight into the pivotal role of β-catenin in dorsal-ventral axis determination and can serve a fruitful resource for this field.
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| Overall design |
A genome-wide study of the effects of depleting the early dorsal b-Catenin signal which is responsible for the induction of the body axis.
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| Contributor(s) |
Ding Y, Ploper D, Sosa EA, Colozza G, Moriyama Y, Benitez MD, Zhang K, Merkurjev D, De Robertis EM |
| Citation(s) |
28348214 |
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| Submission date |
Jan 05, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Edward M De Robertis |
| E-mail(s) |
[email protected]
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| Organization name |
HHMI/UCLA
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| Department |
Biological chemistry
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| Lab |
De Robertis lab
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| Street address |
615 Charles E. Young Drive South
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| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
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| Platforms (1) |
| GPL17682 |
Illumina HiSeq 2000 (Xenopus laevis) |
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| Samples (46)
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| Relations |
| BioProject |
PRJNA360282 |
| SRA |
SRP096124 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE93195_Supplemental_Table_S1.xlsx |
16.3 Mb |
(ftp)(http) |
XLSX |
| GSE93195_Supplemental_Table_S2.xlsx |
81.7 Kb |
(ftp)(http) |
XLSX |
| GSE93195_Supplemental_Table_S3.xlsx |
9.6 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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