Animal Bioscience

  • 제37권8호
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  • Pages.1355-1366
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  • 2024
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  • 2765-0189(pISSN)
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  • 2765-0235(eISSN)
아세아태평양축산학회 (Asian Australasian Association of Animal Production Societies)
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Characterisation of runs of homozygosity and inbreeding coefficients in the red-brown Korean native chickens

  • John Kariuki Macharia (Division of Animal and Dairy Science, Chungnam National University) ;
  • Jaewon Kim (Division of Animal and Dairy Science, Chungnam National University) ;
  • Minjun Kim (Division of Animal and Dairy Science, Chungnam National University) ;
  • Eunjin Cho (Department of Bio-AI Convergence, Chungnam National University) ;
  • Jean Pierre Munyaneza (Division of Animal and Dairy Science, Chungnam National University) ;
  • Jun Heon Lee (Division of Animal and Dairy Science, Chungnam National University)
  • 투고 : 2023.12.10
  • 심사 : 2024.02.27
  • 발행 : 2024.08.01
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초록

Objective: The analysis of runs of homozygosity (ROH) has been applied to assess the level of inbreeding and identify selection signatures in various livestock species. The objectives of this study were to characterize the ROH pattern, estimate the rate of inbreeding, and identify signatures of selection in the red-brown Korean native chickens. Methods: The Illumina 60K single nucleotide polymorphism chip data of 651 chickens was used in the analysis. Runs of homozygosity were analysed using the PLINK v1.9 software. Inbreeding coefficients were estimated using the GCTA software and their correlations were examined. Genomic regions with high levels of ROH were explored to identify selection signatures. Results: A total of 32,176 ROH segments were detected in this study. The majority of the ROH segments were shorter than 4 Mb. The average ROH inbreeding coefficients (FROH) varied with the length of ROH segments. The means of inbreeding coefficients calculated from different methods were also variable. The correlations between different inbreeding coefficients were positive and highly variable (r = 0.18-1). Five ROH islands harbouring important quantitative trait loci were identified. Conclusion: This study assessed the level of inbreeding and patterns of homozygosity in Red-brown native Korean chickens. The results of this study suggest that the level of recent inbreeding is low which indicates substantial progress in the conservation of red-brown Korean native chickens. Additionally, Candidate genomic regions associated with important production traits were detected in homozygous regions.

키워드

과제정보

This study was made possible courtesy of the support from the Rural Development Administration (project No: RS-2021-RD010125(PJ016205)) and Chungnam National University, Republic of Korea.

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