[Runs of Homozygosity Decipher Genetic Diversity in Cattle Breed Dwelling in the Colder Regions of the World].

IF 1.7 4区生物学 Q4 CELL BIOLOGY

Cytogenetic and Genome Research Pub Date : 2024-10-05 DOI:10.1159/000541723

Karan Mahar, Rangasai Chandra Goli, Kiyevi G Chishi, Indrajit Ganguly, S P Dixit, Sanjeev Singh, Sonu Choudhary, Pallavi Rathi, Chandana Sree Chinnareddyvari, Vikas Diwakar, Muralidhar Metta, Immanual Gilwax Prabhu, Amit Kumar, Soumajit Sarkar, Nidhi Sukhija, Kanaka Krishnamurthy Kareningappa

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Abstract

Background: Our study focuses on Yakutian cattle, a Siberian native breed, examining its inbreeding and diversity through genome-wide analysis of runs of homozygosity (ROHs). Yakutian cattle are adapted to Siberia's harsh sub-arctic conditions, enduring temperatures below -70°C. However, the population genetics studies on this breed are scanty, to document the genetic uniqueness in these cattle.

Results: We analyzed 40 Yakutian cattle with strict quality control for ROH detection yielding 683 homozygous segments, averaging 17 per individual with an average length of 9 Mb. ROH regions were found to be involved in important pathways pertaining to cold adaptation. Autozygosity ranged from 1% to 12% of the genome, with a relatively low average inbreeding coefficient (FROH) of 0.057, as compared to other breeds. Also, the different diversity indicators, namely, principal component analysis, heterozygosity, and effective population size analysis, revealed the prevalence of genetic diversity within the breed.

Conclusion: Our findings on ROH are the first of its kind in Yakutian cattle that support their adaptability to colder environments, as evidenced by low inbreeding and high genetic diversity.

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同种异构体的运行破解了世界寒冷地区牛种的遗传多样性。

研究背景我们的研究以西伯利亚本地品种雅库特牛为重点，通过全基因组同源性分析（ROH）研究其近亲繁殖和多样性。雅库特牛适应西伯利亚严酷的亚北极条件，能忍受零下 70°C 的低温。然而，有关该牛种的群体遗传学研究却很少，因此无法记录该牛种的遗传独特性。结果我们对 40 头雅库特牛进行了严格的 ROH 检测质量控制分析，共检测出 683 个同源基因片段，平均每个个体 17 个，平均长度为 9 Mb。研究发现，ROH区段涉及与寒冷适应有关的重要途径。与其他品种相比，基因组中的高杂合度从1%到12%不等，平均近交系数（FROH）为0.057309，相对较低。此外，不同的多样性指标，即主成分分析、杂合度和有效种群规模分析表明，该品种内部普遍存在遗传多样性。结论我们的 ROH 研究结果是首次在雅库特牛中发现的，近亲繁殖率低和遗传多样性高证明了雅库特牛对寒冷环境的适应性。

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来源期刊

Cytogenetic and Genome Research 生物-细胞生物学

CiteScore

3.10

自引率

5.90%

发文量

审稿时长

1 months

期刊介绍： During the last decades, ''Cytogenetic and Genome Research'' has been the leading forum for original reports and reviews in human and animal cytogenetics, including molecular, clinical and comparative cytogenetics. In recent years, most of its papers have centered on genome research, including gene cloning and sequencing, gene mapping, gene regulation and expression, cancer genetics, comparative genetics, gene linkage and related areas. The journal also publishes key papers on chromosome aberrations in somatic, meiotic and malignant cells. Its scope has expanded to include studies on invertebrate and plant cytogenetics and genomics. Also featured are the vast majority of the reports of the International Workshops on Human Chromosome Mapping, the reports of international human and animal chromosome nomenclature committees, and proceedings of the American and European cytogenetic conferences and other events. In addition to regular issues, the journal has been publishing since 2002 a series of topical issues on a broad variety of themes from cytogenetic and genome research.