GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in Pigs
Fatty acid (FA) composition is one of the most important parameters for the assessment of meat quality in pigs. The FA composition in pork can also affect human health. Our aim was to identify quantitative trait loci (QTLs) and positional candidate genes affecting the FA profile of the <i>long...
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doaj-a95a40b3deb54e8b98dd89fd4f99d8f62021-09-26T00:12:58ZengMDPI AGGenes2073-44252021-08-01121323132310.3390/genes12091323GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in PigsJae-Bong Lee0Yong-Jun Kang1Sang-Geum Kim2Jae-Hoon Woo3Moon-Cheol Shin4Nam-Geon Park5Byoung-Chul Yang6Sang-Hyun Han7Kang-Min Han8Hyun-Tae Lim9Youn-Chul Ryu10Hee-Bok Park11In-Cheol Cho12Korea Zoonosis Research Institute, Jeonbuk National University, Iksan 54531, KoreaSubtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, KoreaSubtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, KoreaSubtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, KoreaSubtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, KoreaSubtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, KoreaSubtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, KoreaSpecies Restoration Technology Institute, Korea National Park Service, Yeongju 36015, KoreaDepartment of Pathology, Dongguk University Ilsan Hospital, Goyang 10326, KoreaDepartment of Animal Science, College of Agriculture and Life Sciences, Gyeongsang National University, Jinju 52828, KoreaDivision of Biotechnology, Jeju National University, SARI, Jeju 63243, KoreaDepartment of Animal Resources Science, Kongju National University, Yesan 32439, KoreaSubtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, KoreaFatty acid (FA) composition is one of the most important parameters for the assessment of meat quality in pigs. The FA composition in pork can also affect human health. Our aim was to identify quantitative trait loci (QTLs) and positional candidate genes affecting the FA profile of the <i>longissimus dorsi</i> muscle in a large F2 intercross between Landrace and Korean native pigs comprising 1105 F2 progeny by genome-wide association studies (GWAS) and post-GWAS high-resolution mapping analyses. We performed GWAS using the PorcineSNP60K BeadChip and a linear mixed model. Four genome-wide significant QTL regions in SSC8, SSC12, SSC14, and SSC16 were detected (<i>p</i> < 2.53 × 10<sup>−7</sup>). Several co-localizations of QTLs in SSC12 for oleic acid, linoleic acid, arachidonic acid, monounsaturated FAs, polyunsaturated FAs, and the polyunsaturated/saturated FA ratio were observed. To refine the QTL region in SSC12, a linkage and linkage disequilibrium analysis was applied and could narrow down the critical region to a 0.749 Mb region. Of the genes in this region, GAS7, MYH2, and MYH3 were identified as strong novel candidate genes based on further conditional association analyses. These findings provide a novel insight into the genetic basis of FA composition in pork and could contribute to the improvement of pork quality.https://www.mdpi.com/2073-4425/12/9/1323GWAShigh-resolution mapping<i>longissimus dorsi</i> musclefatty acid profileQTL<i>GAS7</i> |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Jae-Bong Lee Yong-Jun Kang Sang-Geum Kim Jae-Hoon Woo Moon-Cheol Shin Nam-Geon Park Byoung-Chul Yang Sang-Hyun Han Kang-Min Han Hyun-Tae Lim Youn-Chul Ryu Hee-Bok Park In-Cheol Cho |
spellingShingle |
Jae-Bong Lee Yong-Jun Kang Sang-Geum Kim Jae-Hoon Woo Moon-Cheol Shin Nam-Geon Park Byoung-Chul Yang Sang-Hyun Han Kang-Min Han Hyun-Tae Lim Youn-Chul Ryu Hee-Bok Park In-Cheol Cho GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in Pigs Genes GWAS high-resolution mapping <i>longissimus dorsi</i> muscle fatty acid profile QTL <i>GAS7</i> |
author_facet |
Jae-Bong Lee Yong-Jun Kang Sang-Geum Kim Jae-Hoon Woo Moon-Cheol Shin Nam-Geon Park Byoung-Chul Yang Sang-Hyun Han Kang-Min Han Hyun-Tae Lim Youn-Chul Ryu Hee-Bok Park In-Cheol Cho |
author_sort |
Jae-Bong Lee |
title |
GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in Pigs |
title_short |
GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in Pigs |
title_full |
GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in Pigs |
title_fullStr |
GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in Pigs |
title_full_unstemmed |
GWAS and Post-GWAS High-Resolution Mapping Analyses Identify Strong Novel Candidate Genes Influencing the Fatty Acid Composition of the <i>Longissimus dorsi</i> Muscle in Pigs |
title_sort |
gwas and post-gwas high-resolution mapping analyses identify strong novel candidate genes influencing the fatty acid composition of the <i>longissimus dorsi</i> muscle in pigs |
publisher |
MDPI AG |
series |
Genes |
issn |
2073-4425 |
publishDate |
2021-08-01 |
description |
Fatty acid (FA) composition is one of the most important parameters for the assessment of meat quality in pigs. The FA composition in pork can also affect human health. Our aim was to identify quantitative trait loci (QTLs) and positional candidate genes affecting the FA profile of the <i>longissimus dorsi</i> muscle in a large F2 intercross between Landrace and Korean native pigs comprising 1105 F2 progeny by genome-wide association studies (GWAS) and post-GWAS high-resolution mapping analyses. We performed GWAS using the PorcineSNP60K BeadChip and a linear mixed model. Four genome-wide significant QTL regions in SSC8, SSC12, SSC14, and SSC16 were detected (<i>p</i> < 2.53 × 10<sup>−7</sup>). Several co-localizations of QTLs in SSC12 for oleic acid, linoleic acid, arachidonic acid, monounsaturated FAs, polyunsaturated FAs, and the polyunsaturated/saturated FA ratio were observed. To refine the QTL region in SSC12, a linkage and linkage disequilibrium analysis was applied and could narrow down the critical region to a 0.749 Mb region. Of the genes in this region, GAS7, MYH2, and MYH3 were identified as strong novel candidate genes based on further conditional association analyses. These findings provide a novel insight into the genetic basis of FA composition in pork and could contribute to the improvement of pork quality. |
topic |
GWAS high-resolution mapping <i>longissimus dorsi</i> muscle fatty acid profile QTL <i>GAS7</i> |
url |
https://www.mdpi.com/2073-4425/12/9/1323 |
work_keys_str_mv |
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