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| Status |
Public on Aug 28, 2020 |
| Title |
Multitissue transcriptomic profiling during onset of salmon maturation |
| Organism |
Salmo salar |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We sequenced mRNA from four biological replicates of each tissue before (T1) and after the onset of maturation (T2, T3, T4). A total of 3.2 billion paired-end reads were mapped against the Atlantic salmon reference genome with 72% mapping efficiency to create an average depth of 50 million reads per library. The number of differentially expressed genes (DEGs) increased with elapsed time following the onset of the long light photoperiod for the two BPG axis tissues (pituitary and ovary). Of these, the ovary underwent the most dramatic remodelling over time with 403, 1,709 and then 3,497 DEGs observed at timepoints T2, T3 and T4 respectively. This increasing trajectory of differential ngene expression, coupled with the elevated GSI following the light stimuli, strongly suggests the experimental approach successfully initiated the onset of maturation. Next, we identified clusters of DEGs in each of the analysed tissues, which describe their physiological roles. The identity of the DEGs, in response to the onset of maturation, revealed the key players involved in the earliest triggers into maturation. Among these, upregulation of genes encoding specififc pituitary hormones such as gonadotropins along with genes encoding transcription factors (such as GATA2) are significant in controlling onset of maturation. In addition, genes encoding pituitary hormone receptors and follicular development were upregulated in ovary.
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| Overall design |
We sequenced mRNA from four biological replicates of four tissues (brain, pituitary gland, ovary and 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 |
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| Submission date |
Aug 27, 2020 |
| Last update date |
Jun 21, 2022 |
| Contact name |
Amin Roushdy Mohamed |
| E-mail(s) |
[email protected]
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| Organization name |
CSIRO
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| Department |
Agriculture and Food
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| Lab |
Aquaculture Genomics
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| Street address |
306 Carmody Rd, University of Queensland
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| City |
Brisbane |
| State/province |
Queensland |
| ZIP/Postal code |
4067 |
| Country |
Australia |
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| Platforms (1) |
| GPL24981 |
Illumina NovaSeq 6000 (Salmo salar) |
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| Samples (64)
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| This SubSeries is part of SuperSeries: |
| GSE157003 |
Multiomics profiling during onset of Salmon maturation |
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| Relations |
| BioProject |
PRJNA659756 |
| SRA |
SRP279079 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE157001_48_samples_NormCounts.matrix.txt.gz |
18.0 Mb |
(ftp)(http) |
TXT |
| GSE157001_48_samples_RawCounts.matrix.txt.gz |
4.1 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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