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| Status |
Public on Nov 22, 2021 |
| Title |
Signaling pathways, genes and gene networks associated with fat deposition in the tail of different breeds of sheep |
| Organism |
Ovis aries |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
An essential tissue involved in the development and regulation of lipid metabolism in animals is adipose tissue. The “fat-tail” can supply energy for sheep during migration and winter when a low amount of dry matter intake is available. Tail fat content affects meat quality and varies significantly among the different breeds of sheep. Ghezel (fat-tailed) and Zel (thin-tailed) are two important local Iranian sheep breeds that show different patterns of fat storage. The current study presents the transcriptome characterization of tail fat using RNA-sequencing in order to get a better comprehension of the molecular mechanism of lipid storage in the two sheep breeds. The results of sequencing were analyzed with bioinformatics methods, including differentially expressed genes (DEGs) identification, functional enrichment analysis, structural classification of proteins, protein–protein interaction (PPI), network analysis and module analysis. The results revealed a total of332 DEGs between the Zel and Ghezel breed, with78 up-regulated and 254 down-regulated DEGs in the Zel breed. Identification of differential genes showed that some DEGs, such as IL-6, LIPG, SAA1, SOCS3 and HIF-1α, with the largest fold change had close association with lipid deposition. Also, important lipid storage genes such as FASN and SCPEP1 had high levels of expression. Furthermore, functional enrichment analysis revealed some pathways associated with fat deposition, such as “Fatty acid metabolism”, “Fatty acid biosynthesis” and“HIF-1 signaling pathway”. In addition, structural classification of proteins showed major DEGs in transcription factor classes such as JUNB, NR4A3, FOSL1, MAFF, NR4A1, CREB3L1 and ATF3 were up-regulated in the Zel breed. IL-6, JUNB, and related DEGs were up-regulated in the PPI network.HMGCS1, SUCLA2 and STT3B and related DEGs were down-regulated in the PPI network and had high topology scores as hub genes. This implies the DEGs of these modules are important candidate genes for tail fat metabolism and, therefore, can be further studied.
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| Overall design |
Fat tail mRNA profiles of 7-month old fat and thin tail sheep breeds were generated by deep sequencing, in duplicate using Illumina Hiseq 2000
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| Contributor(s) |
Farhadi S, Shodja J, Ebrahimie E, Hasanpour K, Mohammadi A |
| Citation(s) |
34084904 |
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| Submission date |
Jan 02, 2020 |
| Last update date |
Nov 23, 2021 |
| Contact name |
Sana Farhadi |
| E-mail(s) |
[email protected]
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| Organization name |
Tabriz University
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| Street address |
Golgasht street
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| City |
Tabriz |
| ZIP/Postal code |
5166/15731 |
| Country |
Iran |
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| Platforms (1) |
| GPL15670 |
Illumina HiSeq 2000 (Ovis aries) |
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| Samples (7)
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| Relations |
| BioProject |
PRJNA598581 |
| SRA |
SRP239332 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE142841_RAW.tar |
6.4 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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