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| Status |
Public on Sep 28, 2017 |
| Title |
Regulatory remodeling in the allo-tetraploid frog Xenopus laevis |
| Organisms |
Xenopus laevis; Xenopus tropicalis; Xenopus tropicalis x Xenopus laevis |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Genome duplication has played a pivotal role in the evolution of many eukaryotic lineages, including the vertebrates.The most recent vertebrate genome duplication is that in Xenopus laevis, which resulted from the hybridization of two closely related species about 17 million years ago. Here we generated epigenetic profiles and determined gene expression in X.laevis embryos to study the consequences of this duplication at the level of the genome, the epigenome and gene expression.
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| Overall design |
Genomic DNA of Xenopus tropicalis and Xenopus laevis; RNA-seq (two replicates) in stage 10.5 Xenopus laevis embryos; ChIP-seq for H3K4me3 and p300 (each two replicates) in Xenopus laevis (LELS), Xenopus tropicalis (TETS) and Xenopus tropicals x laevis (hybrid; LETS) embryos.
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| Contributor(s) |
Paranjpe SS, Georgiou G, van Kruijsbergen I, Gibeaux R, Heald R, van Heeringen SJ, Veenstra GC |
| Citation(s) |
29065907, 29320479 |
| |
| Submission date |
Dec 14, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Simon van Heeringen |
| E-mail(s) |
s.vanheeringen@science.ru.nl
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| Phone |
+31-24-3610560
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| Organization name |
Radboud University
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| Department |
Molecular Developmental Biology
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| Street address |
Geert Grooteplein 28
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| City |
Nijmegen |
| ZIP/Postal code |
6525GA |
| Country |
Netherlands |
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| Platforms (3) |
| GPL17682 |
Illumina HiSeq 2000 (Xenopus laevis) |
| GPL21874 |
Illumina HiSeq 2000 (Xenopus tropicalis) |
| GPL22797 |
Illumina HiSeq 2000 (Xenopus tropicalis x Xenopus laevis) |
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| Samples (22)
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| Relations |
| BioProject |
PRJNA357404 |
| SRA |
SRP095103 |
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