Abstract

Quantifying human, plant and livestock inbreeding has been an important goal of evolutionary biologists and agricultural scientists for nearly a century. Comprehensive identification of the breed characteristics is a critical factor for the effective management of farm animal genetic resources. The objective of this study was to estimate inbreeding coefficients derived from runs of homozygosity islands from 243 Iranian Azerbaijani buffalos using dense SNP markers (Axiom® Buffalo Genotyping 90K). After quality control, 62,141 SNP markers remained for computation of inbreeding coefficients. The amount of estimated inbreeding coefficient using four methods including genomic relationship matrix (F_GRM), excess of homozygosity (F_HOM), correlation of uniting gametes (F_UNI) and F_IS was similar (0.026) and it was estimated 0.0163 using Run of homozygosity procedure. Low levels of F_ROH in Azerbaijan buffalo population can be due to the traditional rural breeding system, random mating, high recombination rate and small population of ancestors.

中文翻译：

---

基于纯合延伸的评估伊朗阿塞拜疆水牛种群的遗传多样性

摘要

量化人类，植物和牲畜的近交近一个世纪以来一直是进化生物学家和农业科学家的重要目标。全面鉴定品种特征是有效管理农场动物遗传资源的关键因素。这项研究的目的是使用稠密的SNP标记（Axiom®Buffalo Genotyping 90K）估算来自243个伊朗阿塞拜疆水牛的纯合岛的近交系数。经过质量控制后，剩下62,141个SNP标记用于计算近交系数。使用四种方法估算的近交系数量，包括基因组关系矩阵（F _GRM），纯合子过量（F _HOM）），联合配子（F _UNI）和F _IS的相关性相似（0.026），使用纯合运行程序估计为0.0163。阿塞拜疆水牛种群中F _ROH水平低可能是由于传统的农村育种系统，随机交配，高重组率和祖先种群少。