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A new chicken 55K SNP genotyping array.

Ranran Liu1, Siyuan Xing1,2, Jie Wang1

  • 1Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, No. 2 Yuanmingyuan West Road, Beijing, 100193, People's Republic of China.

BMC Genomics
|May 24, 2019
PubMed
Summary
This summary is machine-generated.

A new 55K SNP genotyping array was developed for chicken genetic analysis. This tool aids in genomic selection breeding and investigating chicken breed diversity, leveraging China

Keywords:
ChickenCommercial lineGenotyping arraySNP

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Area of Science:

  • Animal Genetics and Genomics
  • Avian Breeding and Genetics

Background:

  • China possesses the world's richest local chicken genetic resources.
  • There is an urgent need for a moderate-density SNP array for chicken genetic analysis and breeding.

Purpose of the Study:

  • To develop a novel, moderate-density SNP array for genetic analysis and breeding of meat-type chickens.
  • To leverage China's extensive local chicken resources for improved breeding strategies.

Main Methods:

  • Sequencing of eight representative local chicken breeds and commercial lines to identify major SNPs.
  • Filtering and selection of 52.18K SNPs based on trait association, genomic distribution, and existing databases.
  • Validation of the array's performance on additional breeds and commercial lines.

Main Results:

  • A 55K genotyping array was successfully developed, incorporating novel SNPs.
  • The array identified 40K-47K polymorphic SNPs in tested breeds, enabling clear differentiation.
  • Developed array includes 21.41K new SNPs compared to existing high-density arrays.

Conclusions:

  • The 55K genotyping array is a valuable tool for chicken genetic research and breeding.
  • The array facilitates genomic selection, Genome-Wide Association Studies (GWAS), and diversity analysis.
  • Genotyping data from the 55K array can be imputed to high-density SNP data.