Iranian Journal of animal Science

Iranian Journal of animal Science

Estimation of effective population size in Sarabi cattle based on single nucleotide polymorphism markers

Document Type : Research Paper

Authors
Karim Karimi 1
Ali Esmaili zadeh koshkueih 2
Masoud Asadi Fozi 2
1 Ph. D. Student, Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, and Member of Young Researchers, Shahid Bahonar University of Kerman, Iran
2 Associate Professor, Faculty of Agriculture, Shahid Bahonar University of Kerman, Iran
10.22059/ijas.2015.56427
Abstract
The objective of this study was to estimate the effective number of breeders in Sarabi cattle population using heterozygote-excess method based on single nucleotide polymorphism markers. Data consisted of 20 Sarabi cows. SNP genotyping was performed using Illumina High-density Bovine BeadChip designed to genotype 777,962 SNPs. Average observed heterozygosity, expected heterozygosity, minor allele frequencies and percentage of deviation from Hardy-Weinberg test were estimated. Effective number of breeders was estimated per each chromosome using NEESTIMATOR (v2) software based on heterozygote-excess method. Average chromosome-wise effective number of breeders was equal to 28 and corresponding average confidence interval was between 17.3 and 40.2. Results of this study indicated that Sarabi breed is on serious risk of extinction. Design of appropriate programs is necessary to conserve remaining purebred cattles.
Keywords
effective population size
genetic conservation
minor allele frequency
observed heterozygosity
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Iranian Journal of animal Science
Volume 46, Issue 3 - Serial Number 3
Autumn 2015
Pages 335-343

  • Receive Date 17 December 2014
  • Revise Date 15 July 2015
  • Accept Date 26 September 2015