|
| Status |
Public on Oct 24, 2022 |
| Title |
Genome-wide screening of gene regulation of little skate motor neuron |
| Organism |
Leucoraja erinacea |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
The little skate, a cartilaginous fish evolutionarily distal from tetrapods, displays walking-like behavior and has conserved genetic programs and neuronal substrates for land-walking. Studies on little skate have been limited due to lack of high-quality genome assembly. Here, we generated an improved genome assembly of little skate reflecting precise gene annotation and structures and performed integrated analysis of gene expression and chromatin accessibility to investigate molecular mechanisms of fin motor neuron development. Through interspecies comparison of RNA expression, common and species-specific genes expressed in fin/limb/wing level motor neurons were identified. Moreover, by performing chromatin accessibility analysis with a pure fin motor neuron population the potential regulators controlling the gene expression in fin motor neurons were identified. Interspecies comparison of genomic data, gene expression, and chromatin accessibility assay suggest that the little skate has highly conserved gene regulatory mechanisms controlling tetrapod locomotion, which was not previously expected.
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| Overall design |
Examination of chromatin accessibility of little skate motor neuron compared with tail region spinal cord.
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| |
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| Contributor(s) |
Yoo D, Lee C, Lee Y, Park J, Heguy A, Dasen JS, Kim H, Baek M |
| Citation(s) |
36288084 |
| Submission date |
Jul 19, 2021 |
| Last update date |
Nov 02, 2022 |
| Contact name |
DongAhn Yoo |
| E-mail(s) |
dongahn.yoo@gmail.com
|
| Organization name |
Seoul National University
|
| Street address |
1 Gwanak-ro, Gwanak-gu
|
| City |
Seoul |
| ZIP/Postal code |
08826 |
| Country |
South Korea |
| |
|
| Platforms (1) |
| GPL22922 |
Illumina HiSeq 4000 (Leucoraja erinacea) |
|
| Samples (7)
|
| GSM5460934 |
Pectoral and pelvic fin motor neurons - ATAC-seq rep-1 |
| GSM5460935 |
Pectoral and pelvic fin motor neurons - ATAC-seq rep-2 |
| GSM5460936 |
Pectoral and pelvic fin motor neurons - ATAC-seq rep-3 |
| GSM5460937 |
Pectoral and pelvic fin motor neurons - ATAC-seq rep-4 |
| GSM5460938 |
Tail region spinal cord - ATAC-seq rep-1 |
| GSM5460939 |
Tail region spinal cord - ATAC-seq rep-2 |
| GSM5460940 |
Tail region spinal cord - ATAC-seq rep-3 |
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| This SubSeries is part of SuperSeries: |
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| Relations |
| BioProject |
PRJNA747898 |
| SRA |
SRP328886 |
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