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| Status |
Public on Apr 07, 2023 |
| Title |
The little skate genome and the evolutionary emergence of wing-like fin appendages [RNA-seq, Adult] |
| Organism |
Leucoraja erinacea |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
While retaining ancestral morphological and genomic traits, skates evolved a novel body plan with remarkably enlarged wing-like fins that allowed skates to thrive in benthic environments, but their molecular underpinnings remain elusive. Here we investigate the origin of this phenotypical innovation by assembling a high-quality chromosome-scale genome sequence for the little skate Leucoraja erinacea and by generating extensive regulatory profiling datasets in developing fins (gene expression, chromatin occupancy and conformation). We show that despite their derived morphology, the skate genome retains multiple features of the ancestral jawed vertebrate genome.
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| Overall design |
RNAseq experiments in adult skate tissues
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| Contributor(s) |
Marlétaz F, de la Calle-Mustienes E, Acemel RD, Nakamura T, Paliou C, Naranjo S, Martínez-García PM, Cases I, Sleight V, Hirschberger C, Andrescavage A, Marcet-Houben M, Bogdanovic O, Yang L, Gallardo-Fuentes L, Sospedra I, Lopez-Rios J, Darbellay F, Visel A, Dekker J, Shubin N, Gillis JA, Gabaldón T, Tena JJ, Lupianez D, Rokhsar DS, Gómez-Skarmeta JL |
| Citation(s) |
37046085 |
| Submission date |
Apr 07, 2023 |
| Last update date |
Apr 17, 2023 |
| Contact name |
Juan J. Tena |
| E-mail(s) |
jjtenagu@upo.es
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| Organization name |
CABD/CSIC
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| Street address |
Univ. Pablo Olavide, Ctra. Utrera km1
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| City |
Sevilla |
| ZIP/Postal code |
41013 |
| Country |
Spain |
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| Platforms (1) |
| GPL30966 |
DNBSEQ-G400 (Leucoraja erinacea) |
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| Samples (26)
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| GSM7156318 |
RNAseq Adult Skate Cerebellum replicate 1 |
| GSM7156319 |
RNAseq Adult Skate Cerebellum replicate 2 |
| GSM7156320 |
RNAseq Adult Skate Forebrain replicate 1 |
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| This SubSeries is part of SuperSeries: |
| GSE188980 |
The little skate genome and the evolutionary emergence of wing-like fin appendages |
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| Relations |
| BioProject |
PRJNA953364 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE229180_RNAseq_counts.tab.gz |
3.0 Mb |
(ftp)(http) |
TAB |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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