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Genetic variability and population structure based on pedigree information for Muzaffarnagari sheep in India
Small Ruminant Research ( IF 1.8 ) Pub Date : 2020-10-01 , DOI: 10.1016/j.smallrumres.2020.106182
Ajoy Mandal , Hasan Baneh , B.V. Subramanyam , D.R. Notter

Abstract The objective of this study was to use pedigree analysis to evaluate the population structure and retention of genetic diversity in a flock of Muzaffarnagari sheep in India. Pedigrees of 5955 animals born between 1974 and 2003 was used to estimate the generation interval, pedigree completeness, and rate and level of inbreeding. Effective population size and parameters characterizing probabilities of gene origin were computed for lambs born between 2001 and 2003. The average numbers of equivalent complete generations were 3.41 and 5.00 for the whole and reference populations, respectively. The mean generation interval was 3.42 years. Average inbreeding coefficients for animals in the whole and reference populations were 1.79 and 1.23 %, respectively, and the rate of inbreeding was 0.68 % per generation. The average additive relationships for all animals and those in the reference population were 3.93 and 6.43 %, respectively. The realized effective population size, estimated from either the increase in coancestry between pairs of individuals or by regression of the average inbreeding coefficient on number of equivalent complete generations was approximately 76. Probabilities of gene origin were estimated by calculating effective numbers of founders (fe), ancestors (fa), founder genomes (fg), and non-founder genomes (fng) (33, 30, 15.4, and 28.9, respectively). The 10 most influential ancestors accounted for 50 % of the genetic variability, with a maximum individual contribution 6.53 %. The fe/fa ratio in the reference population was 1.10, indicating that occasional bottlenecks had occurred. Approximately 3.2 % of the initial heterozygosity had disappeared from the population. The results revealed that although there was some evidences of bottlenecks and genetic drift, considerable genetic variability remained in the population.

中文翻译:

基于谱系信息的印度Muzaffarnagari羊遗传变异和种群结构

摘要 本研究的目的是使用谱系分析来评估印度 Muzaffarnagari 羊群的种群结构和遗传多样性的保留情况。使用 1974 年至 2003 年间出生的 5955 只动物的谱系来估计世代间隔、谱系完整性以及近交率和水平。计算了 2001 年至 2003 年间出生的羔羊的有效种群大小和表征基因起源概率的参数。整个种群和参考种群的等效完整世代平均数分别为 3.41 和 5.00。平均世代间隔为3.42年。整个种群和参考种群中动物的平均近交系数分别为 1.79 % 和 1.23 %,近交率为每代 0.68 %。所有动物和参考群体中的平均累加关系分别为 3.93 % 和 6.43 %。已实现的有效种群大小,根据成对个体之间的共同祖先的增加或通过等效完整世代数的平均近亲繁殖系数的回归估计约为 76。通过计算创始人的有效数量 (fe) 估计基因起源的概率、祖先 (fa)、创始人基因组 (fg) 和非创始人基因组 (fng)(分别为 33、30、15.4 和 28.9)。10 个最有影响的祖先占遗传变异的 50%,最大个体贡献为 6.53%。参考人群中的 fe/fa 比率为 1.10,表明偶尔会出现瓶颈。大约 3。2% 的初始杂合性已从种群中消失。结果表明,尽管存在一些瓶颈和遗传漂移的证据,但种群中仍存在相当大的遗传变异性。
更新日期:2020-10-01
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