Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China
Endothelial PAS domain protein 1 (EPAS1), also called hypoxia-inducible factor-2, is a key regulatory factor of hypoxic responses and plays an essential role in high-altitude adaptation in mammalian species. In this study, polymorphisms of EPAS1 were detected in 217 individuals from 2 Tibetan pig po...
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doaj-a79b36c95c6f4f0e88f1f518254e990f2021-06-07T06:49:23ZengElsevierJournal of Integrative Agriculture2095-31192014-09-0113919901998Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in ChinaKun-zhe DONG0Ye KANG1Na YAO2Guo-tao SHU3Qing-qing ZUO4Qian-jun ZHAO5Yue-hui MA6Key Laboratory of Farm Animal Genetic Resources and Utilization, Ministry of Agriculture/Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. ChinaCollege of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, P.R. China; DONG Kun-zhe, Mobile: 13811208140Key Laboratory of Farm Animal Genetic Resources and Utilization, Ministry of Agriculture/Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. ChinaKey Laboratory of Farm Animal Genetic Resources and Utilization, Ministry of Agriculture/Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. ChinaCollege of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, P.R. ChinaKey Laboratory of Farm Animal Genetic Resources and Utilization, Ministry of Agriculture/Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. ChinaKey Laboratory of Farm Animal Genetic Resources and Utilization, Ministry of Agriculture/Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. China; Correspondence MA Yue-hui, Tel/Fax: +86-10-62813463Endothelial PAS domain protein 1 (EPAS1), also called hypoxia-inducible factor-2, is a key regulatory factor of hypoxic responses and plays an essential role in high-altitude adaptation in mammalian species. In this study, polymorphisms of EPAS1 were detected in 217 individuals from 2 Tibetan pig populations and 3 low-altitude pig breeds by DNA pooling, PCR-SSCP, PCR-RFLP and DNA sequencing methods. A total of 14 synonymous polymorphisms were identified in the coding region. The analysis suggested that SNP1 (G963A), SNP7 (C1632T), SNP10 (G1929A) and SNP11 (G1947A) showed potential association with high-altitude environment because of their particular variation patterns in Tibetan pigs. Linkage disequilibrium (LD) of these SNPs was analyzed. One common LD block including 5 SNPs clustering in exon 12 was identified in all studied pig populations. Haplotype H1 (AGGTC) in LD block was dominant in Tibetan pigs (76.6 and 74.2% in Linzhi (LZ) and Chayu (CY) pigs, respectively) and segregated at higher frequency than that in low-altitude pig breeds (52.3, 58.7 and 56.2% in Wuzhishan (WZS), Min (M) and Laiwu (LW) pigs, respectively), indicating that H1 may relate to adaptation to high altitude in Tibetan pigs. These findings raise hope that EPAS1 gene can be a candidate gene that involved in adaptation of high altitude in Tibetan pigs.http://www.sciencedirect.com/science/article/pii/S2095311913605778pigEPAS1 geneSNPhaplotypenature selection |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Kun-zhe DONG Ye KANG Na YAO Guo-tao SHU Qing-qing ZUO Qian-jun ZHAO Yue-hui MA |
spellingShingle |
Kun-zhe DONG Ye KANG Na YAO Guo-tao SHU Qing-qing ZUO Qian-jun ZHAO Yue-hui MA Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China Journal of Integrative Agriculture pig EPAS1 gene SNP haplotype nature selection |
author_facet |
Kun-zhe DONG Ye KANG Na YAO Guo-tao SHU Qing-qing ZUO Qian-jun ZHAO Yue-hui MA |
author_sort |
Kun-zhe DONG |
title |
Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China |
title_short |
Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China |
title_full |
Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China |
title_fullStr |
Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China |
title_full_unstemmed |
Genetic Variation of EPAS1 Gene in Tibetan Pigs and Three Low-Altitude Pig Breeds in China |
title_sort |
genetic variation of epas1 gene in tibetan pigs and three low-altitude pig breeds in china |
publisher |
Elsevier |
series |
Journal of Integrative Agriculture |
issn |
2095-3119 |
publishDate |
2014-09-01 |
description |
Endothelial PAS domain protein 1 (EPAS1), also called hypoxia-inducible factor-2, is a key regulatory factor of hypoxic responses and plays an essential role in high-altitude adaptation in mammalian species. In this study, polymorphisms of EPAS1 were detected in 217 individuals from 2 Tibetan pig populations and 3 low-altitude pig breeds by DNA pooling, PCR-SSCP, PCR-RFLP and DNA sequencing methods. A total of 14 synonymous polymorphisms were identified in the coding region. The analysis suggested that SNP1 (G963A), SNP7 (C1632T), SNP10 (G1929A) and SNP11 (G1947A) showed potential association with high-altitude environment because of their particular variation patterns in Tibetan pigs. Linkage disequilibrium (LD) of these SNPs was analyzed. One common LD block including 5 SNPs clustering in exon 12 was identified in all studied pig populations. Haplotype H1 (AGGTC) in LD block was dominant in Tibetan pigs (76.6 and 74.2% in Linzhi (LZ) and Chayu (CY) pigs, respectively) and segregated at higher frequency than that in low-altitude pig breeds (52.3, 58.7 and 56.2% in Wuzhishan (WZS), Min (M) and Laiwu (LW) pigs, respectively), indicating that H1 may relate to adaptation to high altitude in Tibetan pigs. These findings raise hope that EPAS1 gene can be a candidate gene that involved in adaptation of high altitude in Tibetan pigs. |
topic |
pig EPAS1 gene SNP haplotype nature selection |
url |
http://www.sciencedirect.com/science/article/pii/S2095311913605778 |
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