Identification of Taihang-chicken-specific genetic markers using genome-wide SNPs and machine learning: BREED-SPECIFIC SNPS OF TAIHANG CHICKEN.

Journal: Poultry science
PMID: 39603186

Abstract

Taihang is an indigenous breed in Hebei Province and has a long history of evolution. To uncover the genetic basis and protect the genetic resources, it is important to develop accurate markers to identify Taihang at the molecular level. In this study, a total of 137 individuals from Taihang and other 4 breeds were selected to construct a genome-wide SNP map. The population genetic structure analysis revealed clear differentiation among the five breeds. A total of 47 SNPs were identified for differentiating Taihang from other breeds based on the fixation index (FST), linkage disequilibrium (LD) pruning, and machine learning, further validated using principal component analysis (PCA) and genetic relationship matrix (GRM). The 47 SNPs were annotated to genes associated with production, growth and development, immunity, adaptation, and appearance. Overall, the combination of 47 SNPs enables precise identification of Taihang, which significantly contributes to the preservation of native genetic resources.

Authors

  • Fu Wei
    Department of Intensive Care Unit, First Affiliated Hospital, Chongqing Medical University, Chongqing 400016, China.
  • Zhang Ran
    Hebei Agricultural University, Baoding, Hebei province 071001, China.
  • Ding Hong
    Institute of Animal Science and Veterinary Medicine, Baoding, Hebei province 071000, China.
  • Wang Wenjun
    Hebei Agricultural University, Baoding, Hebei province 071001, China.
  • Liu Huage
    Institute of Animal Science and Veterinary Medicine, Baoding, Hebei province 071000, China.
  • Zang Sumin
    Hebei Agricultural University, Baoding, Hebei province 071001, China.
  • Zhou Rongyan
    Hebei Agricultural University, Baoding, Hebei province 071001, China. Electronic address: rongyanzhou@126.com.

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