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| Status |
Public on Aug 28, 2020 |
| Title |
Liver Chromatin accessibility landscapes during onset of salmon maturation |
| Organism |
Salmo salar |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
We sequenced 12 ATAC-Seq lbraries from four biological replicates before (T1) and after the onset of maturation (T2, T3, T4) from liver. To characterise changes in chromatin state following long light initiation, we defined differentially accessible regions (DARs) where mapping counts differed significantly between T1 and other time points. This revealed a strong early remodelling in the chromatin state landscape, as most DARs were observed at T2 (n=1501) before decreasing in stepwise fashion at T3 (n=477) and T4. The majority of DARs (n=1036 or 57%) exhibit reduced accessibility at T2 compared with T1 and subsequently remained unchanged at later time points (Fig. 5a; Supplementary Figure S14). Similarly, regions that gained accessibility at T2 (n=696 or 38%) also remained unchanged at later timepoints. This left less than 10% of DARs (n=99) that displayed an oscillating pattern following the onset of the maturation. Together, this revealed the ATAC-seq signatures were predominantly stable chromatin state changes.
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| Overall design |
We sequenced ATAC-seq from four biological replicates of liver at four timepoints before (T1) and after the onset of maturation (T2, T3, T4).
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| Contributor(s) |
Mohamed A, Naval-Sanchez M, Menzies M, Evans B, Reverter A, Kijas J |
| Citation(s) |
35650521 |
| |
| Submission date |
Aug 27, 2020 |
| Last update date |
Jun 21, 2022 |
| Contact name |
Amin Roushdy Mohamed |
| E-mail(s) |
[email protected]
|
| Organization name |
CSIRO
|
| Department |
Agriculture and Food
|
| Lab |
Aquaculture Genomics
|
| Street address |
306 Carmody Rd, University of Queensland
|
| City |
Brisbane |
| State/province |
Queensland |
| ZIP/Postal code |
4067 |
| Country |
Australia |
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| Platforms (1) |
| GPL28848 |
Illumina NextSeq 500 (Salmo salar) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE157003 |
Multiomics profiling during onset of Salmon maturation |
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| Relations |
| BioProject |
PRJNA659750 |
| SRA |
SRP279075 |
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