文献类型： 外文期刊

作者： Bordbar, Farhad ¹ ; Jensen, Just ² ; Wadood, Armughan Ahmed ¹ ; Yao, Zipei ¹ ;

作者机构： 1.South China Agr Univ, State Key Lab Livestock & Poultry Breeding, Lingnan Guangdong Lab Agr, Guangdong Prov Key Lab Agroanim Genom & Mol Breedi, Guangzhou 510642, Peoples R China

2.Aarhus Univ, Ctr Quantitat Genet & Genom, DK-8000 Aarhus, Denmark

关键词： linkage disequilibrium; genome SNPs data; cattle; Nellore; Sahiwal

期刊名称：ANIMALS （ 影响因子：2.7； 五年影响因子：3.2 ）

ISSN： 2076-2615

年卷期： 2024 年 14 卷 22 期

页码：

收录情况： SCI

摘要： Linkage disequilibrium (LD) maps are fundamental tools for exploring the genetic basis of traits of interest in any species. Quantifying LD patterns in cattle breeds has been made possible due to the availability of huge quantities of SNPs through modern sequencing technology. The present research aims to determine and compare linkage disequilibrium levels at different distances on the genome of Sistani domestic cattle and subspecies of Bos taurus and Bos indicus based on genome SNP data. A total of 60 Bos indicus Sahiwal (dairy) and Nellore (beef), Bos taurus Hereford (beef) and Holstein (dairy), and Sistani cattle were sampled and genotyped using Illumina Bovine HD 770 k chip. To ensure the caliber of the sequencing, 10 samples (genetically sequenced cattle) were randomly chosen among all breeds represented. LD was evaluated at distances of 1-50 Kb, 50-100 Kb, 100-500 Kb, and 0.5-1 Mb, and average r(2) values for all autosomes were calculated within distance classes. For all breeds, the average r(2) was over 0.2 at distances less than 100 Kb, while for Sistani, Nellore, and Sahiwal, the average r(2) was above 0.2 between 100 and 500 Kb. Furthermore, for all breeds, the average r(2) exceeding 0.3 was noted at distances smaller than 50 Kb, while this amount for Holstein and Hereford was observed at distances between 50 and 100 Kb. In various breeds, greater changes in LD levels were observed (at <10 Kb distance). In this study, the Sistani breed showed LD decay patterns similar to indicine cattle (Nellore and Sahiwal), which may be due to the geographic proximity of the Sistan and Baluchestan province to Pakistan, the origin of indicine breeds (they may have had genetic or kinship relationships over a long historical period), or due to ascertainment bias in the SNP chips used.