Expression quantitative trait loci in sheep liver and muscle contribute to variations in meat traits.
Journal
Genetics, selection, evolution : GSE
ISSN: 1297-9686
Titre abrégé: Genet Sel Evol
Pays: France
ID NLM: 9114088
Informations de publication
Date de publication:
18 Jan 2021
18 Jan 2021
Historique:
received:
20
01
2020
accepted:
08
01
2021
entrez:
19
1
2021
pubmed:
20
1
2021
medline:
22
6
2021
Statut:
epublish
Résumé
Variants that regulate transcription, such as expression quantitative trait loci (eQTL), have shown enrichment in genome-wide association studies (GWAS) for mammalian complex traits. However, no study has reported eQTL in sheep, although it is an important agricultural species for which many GWAS of complex meat traits have been conducted. Using RNA sequence data produced from liver and muscle from 149 sheep and imputed whole-genome single nucleotide polymorphisms (SNPs), our aim was to dissect the genetic architecture of the transcriptome by associating sheep genotypes with three major molecular phenotypes including gene expression (geQTL), exon expression (eeQTL) and RNA splicing (sQTL). We also examined these three types of eQTL for their enrichment in GWAS of multi-meat traits and fatty acid profiles. Whereas a relatively small number of molecular phenotypes were significantly heritable (h We detected a large number of significant eQTL and found that the overlap of variants between eQTL types and tissues was prevalent. Many eQTL were also QTL for meat traits. Our study fills a gap in the knowledge on the regulatory variants and their role in complex traits for the sheep model.
Sections du résumé
BACKGROUND
BACKGROUND
Variants that regulate transcription, such as expression quantitative trait loci (eQTL), have shown enrichment in genome-wide association studies (GWAS) for mammalian complex traits. However, no study has reported eQTL in sheep, although it is an important agricultural species for which many GWAS of complex meat traits have been conducted. Using RNA sequence data produced from liver and muscle from 149 sheep and imputed whole-genome single nucleotide polymorphisms (SNPs), our aim was to dissect the genetic architecture of the transcriptome by associating sheep genotypes with three major molecular phenotypes including gene expression (geQTL), exon expression (eeQTL) and RNA splicing (sQTL). We also examined these three types of eQTL for their enrichment in GWAS of multi-meat traits and fatty acid profiles.
RESULTS
RESULTS
Whereas a relatively small number of molecular phenotypes were significantly heritable (h
CONCLUSIONS
CONCLUSIONS
We detected a large number of significant eQTL and found that the overlap of variants between eQTL types and tissues was prevalent. Many eQTL were also QTL for meat traits. Our study fills a gap in the knowledge on the regulatory variants and their role in complex traits for the sheep model.
Identifiants
pubmed: 33461502
doi: 10.1186/s12711-021-00602-9
pii: 10.1186/s12711-021-00602-9
pmc: PMC7812657
doi:
Substances chimiques
Fatty Acids
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
8Subventions
Organisme : National Natural Science Foundation of China
ID : 31872319
Organisme : Agriculture Victoria
ID : Growing Food
Organisme : Agriculture Victoria
ID : Fibre Project
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