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Screening for candidate genes related with histological microstructure, meat quality and carcass characteristic in pig based on RNA-seq data
- Source :
- Asian-Australasian Journal of Animal Sciences, Vol 31, Iss 10, Pp 1565-1574 (2018), Asian-Australasian Journal of Animal Sciences
- Publication Year :
- 2018
- Publisher :
- Asian-Australasian Association of Animal Production Societies, 2018.
-
Abstract
- Objective The aim of the present study was to identify genetic variants based on RNA-seq data, obtained via transcriptome sequencing of muscle tissue of pigs differing in muscle histological structure, and to verify the variants’ effect on histological microstructure and production traits in a larger pig population. Methods RNA-seq data was used to identify the panel of single nucleotide polymorphisms (SNPs) significantly related with percentage and diameter of each fiber type (I, IIA, IIB). Detected polymorphisms were mapped to quantitative trait loci (QTLs) regions. Next, the association study was performed on 944 animals representing five breeds (Landrace, Large White, Pietrain, Duroc, and native Puławska breed) in order to evaluate the relationship of selected SNPs and histological characteristics, meat quality and carcasses traits. Results Mapping of detected genetic variants to QTL regions showed that chromosome 14 was the most overrepresented with the identification of four QTLs related to percentage of fiber types I and IIA. The association study performed on a 293 longissimus muscle samples confirmed a significant positive effect of transforming acidic coiled-coil-containing protein 2 (TACC2) polymorphisms on fiber diameter, while SNP within forkhead box O1 (FOXO1) locus was associated with decrease of diameter of fiber types IIA and IIB. Moreover, subsequent general linear model analysis showed significant relationship of FOXO1, delta 4-desaturase, sphingolipid 1 (DEGS1), and troponin T2 (TNNT2) genes with loin ‘eye’ area, FOXO1 with loin weight, as well as FOXO1 and TACC2 with lean meat percentage. Furthermore, the intramuscular fat content was positively associated (p
- Subjects :
- 0301 basic medicine
Candidate gene
Population
lcsh:Animal biochemistry
Locus (genetics)
Single-nucleotide polymorphism
Quantitative trait locus
Biology
Article
03 medical and health sciences
Polymorphism
education
lcsh:QP501-801
Fibers Types
lcsh:SF1-1100
Genetics
education.field_of_study
food and beverages
Phenotypic trait
QTLs
Animal Breeding and Genetics
Candidate Genes
030104 developmental biology
Genetic marker
Animal Science and Zoology
Histological Traits
Intramuscular fat
lcsh:Animal culture
Food Science
Subjects
Details
- Language :
- English
- ISSN :
- 19765517 and 10112367
- Volume :
- 31
- Issue :
- 10
- Database :
- OpenAIRE
- Journal :
- Asian-Australasian Journal of Animal Sciences
- Accession number :
- edsair.doi.dedup.....e4419db679ebbef37786dd67ea7e4c92