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Identifying candidate positive selection genes in Korean imported pig breeds

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An Erratum to this article was published on 04 April 2017

Abstract

Domestication and artificial selection have modified the genome landscape of the pig. The identification of selection signatures in the genome can help to elucidate the selection mechanisms and uncover the causal genes related to the phenotypic variations between domestic pig breeds. We scanned the genomes of Korean imported pig breeds against native breeds using Z-transformed Fst (ZFST) and Heterozygosity (ZHp) statistics to search for the signatures of positive selection. We identified 411 (ZFST = 175; ZHp = 256) putatively selected genes in commercial breeds. The gene regions identified were harboring those related to immunity, coat color, reproduction function and other traits. Several genes (e.g., PLSCR4, AGTR1 and CORIN) were related to reproduction traits such as fertility, ovulation rate, and uterine function. This study revealed genes which improve our understanding of the biological mechanisms of higher litter sizes, the phenotype of interest, in higher litter pig breeds.

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Acknowledgements

This work was carried out with the support of “Cooperative Research Program for Agriculture Science & Technology Development (Project No. PJ01111501)” Rural Development Administration, Republic of Korea.

Author contributions

Conceived and designed the study: WS, MT, HK; Analyzed the data: WS; Wrote the paper: WS, MT; helped writing the paper: JY, TK, DJ; coordinated the project: HK.

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Authors and Affiliations

  1. Department of Agricultural Biotechnology, Animal Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, 151-921, Republic of Korea

    Wonseok Lee, Mengistie Taye, Taehyung Kwon & Heebal Kim

  2. Bahir Dar University, College of Agriculture and Environmental Sciences, P O Box 79, Bahir Dar, Ethiopia

    Mengistie Taye

  3. Department of Natural Science, Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul, 151-921, Republic of Korea

    Joon Yoon & Heebal Kim

  4. Interdisciplinary Program in Agricultural Genomics, Seoul National University, Seoul, 151-921, Republic of Korea

    Dongsung Jang

  5. Epigenomics Division, Frontier Agriscience and Technology Center, Faculty of Agriculture, Shinshu University, Kami-Ina, Nagano, Japan

    Shunsuke Suzuki

  6. Department of Interdisciplinary Genome Sciences and Cell Metabolism, Institute for Biomedical Sciences, Interdisciplinary Cluster for Cutting Edge Research, Shinshu University, Kami-Ina, Nagano, Japan

    Shunsuke Suzuki

  7. Institute for Biomedical Sciences, Shinshu University, Kami-Ina, Nagano, Japan

    Heebal Kim

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  1. Wonseok Lee
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  2. Mengistie Taye
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  3. Taehyung Kwon
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  4. Joon Yoon
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  7. Heebal Kim
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Correspondence to Heebal Kim.

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Conflict of interest

Wonseok Lee declares that he/she does not have conflict of interest on the contents of manuscript. Mengistie Taye that he/she does not have conflict of interest on the contents of manuscript. Taehyung Kwon that he/she does not have conflict of interest on the contents of manuscript. Joon Yoon that he/she does not have conflict of interest on the contents of manuscript. Dongsung Jang that he/she does not have conflict of interest on the contents of manuscript. Shunsuke Suzuki that he/she does not have conflict of interest on the contents of manuscript. Heebal Kim that he/she does not have conflict of interest on the contents of manuscript.

Ethical approval

The experiment and all its procedures were approved by the regional Ethical Committees (JNU Animal Bioethics Committee Approval Number: 2013–0009, National Institute of Animal Science’s Institutional Animal Care and Use Committee: 2009–077).

Additional information

An erratum to this article is available at http://dx.doi.org/10.1007/s13258-017-0534-7.

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Lee, W., Taye, M., Kwon, T. et al. Identifying candidate positive selection genes in Korean imported pig breeds. Genes Genom 39, 557–565 (2017). https://doi.org/10.1007/s13258-017-0529-4

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