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The genomic ancestry of Jat Sikh population from Northwest India inferred from 15 autosomal STR markers using capillary electrophoresis
Annals of Human Biology ( IF 1.7 ) Pub Date : 2020-06-16
Sonia Kakkar, Pankaj Shrivastava, Shatrughan Prasad Mandal, Kiran Preet, Ramkishan Kumawat, Gyaneshwer Chaubey

Background: Autosomal STR typing using capillary electrophoresis is a reliable method for establishing parentage and for deciphering genomic ancestry.

Aim: This study was planned to show the genetic diversity of the Jat Sikh population, which is a widespread community of the Punjab region, and to assess its genetic relationship with existing Indian populations.

Subjects and methods: Blood samples of unrelated healthy individuals of the Jat Sikhs (n = 123) were used in this study. Fifteen autosomal STR markers along with the sex determination genetic marker Amelogenin were amplified using AmpFlSTR®Identifiler® Plus kit, and genetic analyser 3100 was used for genotyping.

Results: A total of 246 alleles were observed with allele frequencies ranging from 0.004 to 0.447. The heterozygosity ranged from 0.659 to 0.886, and all studied loci were in Hardy–Weinberg Equilibrium (HWE). Fibrinogen A alpha (Aα) chain (FGA) was found to be the most polymorphic and also the most discriminating locus in the studied population. Neighbor-joining (NJ) tree, principal component analysis (PCA) plot, and Nei’s Distance matrix revealed genetic affinity with the previously reported Jatt Sikh (Punjab) population and showed the outlier nature of this population compared with other Indian populations.

Conclusion: The data generated by this study enhance the database of Indian populations to be used in civil and forensic cases and also in other population-based genetic studies.



中文翻译:

使用毛细管电泳从15个常染色体STR标记推断印度西北亚特锡克族的基因组祖先

背景:使用毛细管电泳进行常染色体STR分型是建立亲缘关系和破译基因组祖先的可靠方法。

目的:本研究旨在显示旁遮普地区广泛分布的贾特锡克人口的遗传多样性,并评估其与现有印度人口的遗传关系。

受试者和方法:本研究使用了Jat Sikhs(n = 123)无关健康个体的血液样本。十五与性别决定基因标记Amelogenin基因沿常染色体STR标记使用AmpF扩增STR ® Identifiler ® Plus试剂盒,和遗传分析仪3100被用于基因分型。

结果:共观察到246个等位基因,等位基因频率在0.004至0.447之间。杂合度介于0.659至0.886之间,所有研究的基因座均位于Hardy-Weinberg平衡(HWE)中。在研究的人群中,发现纤维蛋白原Aα(Aα)链(FGA)是最多态的,也是最有区别的基因座。邻居连接树(NJ),主成分分析(PCA)图和Nei's Distance矩阵显示了与先前报道的Jatt Sikh(Punjab)种群的遗传亲和力,并显示了该种群与其他印度种群相比的异常性质。

结论:本研究产生的数据增强了印度人口数据库,可用于民事和法医案件以及其他基于人口的遗传研究。

更新日期:2020-06-16
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