Genetic diversity of 17 Y-short tandem repeats in Indian population

Ghosh, Tania; Kalpana, Duraisamy; Mukerjee, Sanjukta; Mukherjee, Meeta; Sharma, Anil Kumar; Nath, Subhankar; Rathod, Varsha Rajesh; Thakar, Mukesh Kumar; Jha, Ganga Nath

doi:10.1016/j.fsigen.2010.12.007

Cited by 22 publications

(5 citation statements)

References 32 publications

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“…All samples were genotyped for the 8 Y-STR loci (DYS19, DYS385, DYS389I, DYS389II, DYS390, DYS391, DYS392, and DYS393) by the AmpFiSTR Y-filer PCR Amplification Kit (Applied Biosystems, Foster City, CA, USA). The Y-STR data of Turkish, German, and North Indian Jat Sikh and other Indian populations were obtained from previous studies (8-10) and the Y-STR haplotype reference database ( www.yhrd.org ).…”

Section: Methodsmentioning

confidence: 99%

Y-short tandem repeat haplotype and paternal lineage of the Ezhava population of Kerala, south India

Nair

Geetha²,

Jagannath³

2011

Croat Med J

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AimTo analyze the haplotype of the Ezhava population of Kerala, south India, using 8 short tandem repeat (STR) loci on the Y chromosome and trace the paternal genetic lineage of the population.MethodsWhole blood samples (n = 104) were collected from unrelated healthy men of the Ezhava population over a period of one year from October 2009. Genomic DNA was extracted by salting out method. All samples were genotyped for the 8 Y-STR loci by the AmpFiSTR Y-filer PCR Amplification Kit. The haplotype and allele frequencies were determined by direct counting and analyzed using Arlequin 3.1 software, and molecular variance was calculated with the Y-chromosome haplotype reference database online analysis tool, www.yhrd.org.ResultsAmong the 104 examined haplotypes, we found 98 unique ones. The average gene diversity was 0.669, with the highest diversity of 0.9462 observed for the biallelic Y-STR marker DYS 385. The allele frequency among DYS loci varied between 0.0096 and 0.75. Out of the 104 haplotypes, 10 were identical to the Jat Sikh population of Punjab, which is the greatest number among the Indian populations, and 4 to the Turkish population, which is the greatest number among the European populations. According to the allele frequency of Y-STR, the Ezhavas were genetically more similar to the Europeans (60%) than to the East Asians (40%).ConclusionThe vast majority of haplotypes were observed only once, reflecting the enormous genetic heterogeneity of the Ezhavas. Based on the genotype, the Ezhavas showed more resemblance to Jat Sikh population of Punjab and the Turkish populations than to the East Asians, hence indicating a paternal lineage of European origin.

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Section: Methodsmentioning

confidence: 99%

Y-short tandem repeat haplotype and paternal lineage of the Ezhava population of Kerala, south India

Nair

Geetha²,

Jagannath³

2011

Croat Med J

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“…As observed, both the forensic parameters have higher values and thus indicates greater degree of genomic diversity in the Gujarat population. (Ghosh et al, 2011;Imam et al, 2018;Mohapatra et al, 2019;Kumar et al, 2020;Kumawat et al, 2020) . Paired genetic distance (RST) and their corresponding values were estimated at the same 17 Y-STRs by comparing the haplotypes of studied population and other thirteen published populations haplotypes using Analysis of Molecular Variance (AMOVA) (Table 2).…”

Section: Haplotypes Analysismentioning

confidence: 99%

Estimating the Genetic Polymorphisms of Gujarat Population using 17 Y Chromosomal STR loci

Mishra¹,

Gondhali²,

Choudhary³

2021

OnLine Journal of Biological Sciences

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“…32,33 In the past few years, a larger number of studies have investigated Y-STR data from countries and regions in vicinity of Iran and beyond. This includes studies on Armenia/Turkey/Caucasus/Georgia, [34][35][36] Afghanistan, 37 and Arab countries, 32,[38][39][40] as well as Russia, 41 whose southern part is considered to have hosted the speakers of Proto-Indo-European (PIE), Pakistan, 42 India, 43 Greece, 44 the Levant, 45 Central Asian Uyghurs 46 and East and West Africans. 47,48 Nevertheless, Y-STR data from Iran are sparse, both with respect to the geographical and ethnical coverage.…”

Section: Introductionmentioning

confidence: 99%

Genetic Analysis of 27 Y-STR Haplotypes in 11 Iranian Ethnic Groups

Alinaghi,

Mohseni,

Fattahi

et al. 2024

Arch Iran Med

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Background: The study of Y-chromosomal variations provides valuable insights into male susceptibility in certain diseases like cardiovascular disease (CVD). In this study, we analyzed paternal lineage in different Iranian ethnic groups, not only to identify developing medical etiology, but also to pave the way for gender-specific targeted strategies and personalized medicine in medical genetic research studies. Methods: The diversity of eleven Iranian ethnic groups was studied using 27 Y-chromosomal short tandem repeat (Y-STR) haplotypes from Y-filer® Plus kit. Analysis of molecular variance (AMOVA) based on pair-wise RST along with multidimensional scaling (MDS) calculation and Network phylogenic analysis was employed to quantify the differences between 503 unrelated individuals from each ethnicity. Results: Results from AMOVA calculation confirmed that Gilaks and Azeris showed the largest genetic distance (RST=0.35434); however, Sistanis and Lurs had the smallest considerable genetic distance (RST=0.00483) compared to other ethnicities. Although Azeris had a considerable distance from other ethnicities, they were still close to Turkmens. MDS analysis of ethnic groups gave the indication of lack of similarity between different ethnicities. Besides, network phylogenic analysis demonstrated insignificant clustering between samples. Conclusion: The AMOVA analysis results explain that the close distance of Azeris and Turkmens may be the effect of male-dominant expansions across Central Asia that contributed to historical and demographics of populations in the region. Insignificant differences in network analysis could be the consequence of high mutation events that happened in the Y-STR regions over the years. Considering the ethnic group affiliations in medical research, our results provided an understanding and characterization of Iranian male population for future medical and population genetics studies.

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Genetic diversity of 17 Y-short tandem repeats in Indian population

Cited by 22 publications

References 32 publications

Y-short tandem repeat haplotype and paternal lineage of the Ezhava population of Kerala, south India

Y-short tandem repeat haplotype and paternal lineage of the Ezhava population of Kerala, south India

Estimating the Genetic Polymorphisms of Gujarat Population using 17 Y Chromosomal STR loci

Genetic Analysis of 27 Y-STR Haplotypes in 11 Iranian Ethnic Groups

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