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Validation of 58 autosomal individual identification SNPs in three Chinese populations

AIM: To genotype and evaluate a panel of single-nucleotide polymorphisms for individual identification (IISNPs) in three Chinese populations: Chinese Han, Uyghur, and Tibetan. METHODS: Two previously identified panels of IISNPs, 86 unlinked IISNPs and SNPforID 52-plex markers, were pooled and analyz...

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Autores principales: Wei, Yi-Liang, Qin, Cui-Jiao, Liu, Hai-Bo, Jia, Jing, Hu, Lan, Li, Cai-Xia
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Croatian Medical Schools 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3944413/
https://www.ncbi.nlm.nih.gov/pubmed/24577821
http://dx.doi.org/10.3325/cmj.2014.55.10
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author Wei, Yi-Liang
Qin, Cui-Jiao
Liu, Hai-Bo
Jia, Jing
Hu, Lan
Li, Cai-Xia
author_facet Wei, Yi-Liang
Qin, Cui-Jiao
Liu, Hai-Bo
Jia, Jing
Hu, Lan
Li, Cai-Xia
author_sort Wei, Yi-Liang
collection PubMed
description AIM: To genotype and evaluate a panel of single-nucleotide polymorphisms for individual identification (IISNPs) in three Chinese populations: Chinese Han, Uyghur, and Tibetan. METHODS: Two previously identified panels of IISNPs, 86 unlinked IISNPs and SNPforID 52-plex markers, were pooled and analyzed. Four SNPs were included in both panels. In total, 132 SNPs were typed on Sequenom MassARRAY(®) platform in 330 individuals from Han Chinese, Uyghur, and Tibetan populations. Population genetic indices and forensic parameters were determined for all studied markers. RESULTS: No significant deviation from Hardy-Weinberg equilibrium was observed for any of the SNPs in 3 populations. Expected heterozygosity (H(e)) ranged from 0.144 to 0.500 in Han Chinese, from 0.197 to 0.500 in Uyghur, and from 0.018 to 0.500 in Tibetan population. Wright's F(st) values ranged from 0.0001 to 0.1613. Pairwise linkage disequilibrium (LD) calculations for all 132 SNPs showed no significant LD across the populations (r(2)<0.147). A subset of 58 unlinked IISNPs (r(2)<0.094) with H(e)>0.450 and F(st) values from 0.0002 to 0.0536 gave match probabilities of 10(−25) and a cumulative probability of exclusion of 0.999992. CONCLUSION: The 58 unlinked IISNPs with high heterozygosity have low allele frequency variation among 3 Chinese populations, which makes them excellent candidates for the development of multiplex assays for individual identification and paternity testing.
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spelling pubmed-39444132014-03-10 Validation of 58 autosomal individual identification SNPs in three Chinese populations Wei, Yi-Liang Qin, Cui-Jiao Liu, Hai-Bo Jia, Jing Hu, Lan Li, Cai-Xia Croat Med J Forensic Science AIM: To genotype and evaluate a panel of single-nucleotide polymorphisms for individual identification (IISNPs) in three Chinese populations: Chinese Han, Uyghur, and Tibetan. METHODS: Two previously identified panels of IISNPs, 86 unlinked IISNPs and SNPforID 52-plex markers, were pooled and analyzed. Four SNPs were included in both panels. In total, 132 SNPs were typed on Sequenom MassARRAY(®) platform in 330 individuals from Han Chinese, Uyghur, and Tibetan populations. Population genetic indices and forensic parameters were determined for all studied markers. RESULTS: No significant deviation from Hardy-Weinberg equilibrium was observed for any of the SNPs in 3 populations. Expected heterozygosity (H(e)) ranged from 0.144 to 0.500 in Han Chinese, from 0.197 to 0.500 in Uyghur, and from 0.018 to 0.500 in Tibetan population. Wright's F(st) values ranged from 0.0001 to 0.1613. Pairwise linkage disequilibrium (LD) calculations for all 132 SNPs showed no significant LD across the populations (r(2)<0.147). A subset of 58 unlinked IISNPs (r(2)<0.094) with H(e)>0.450 and F(st) values from 0.0002 to 0.0536 gave match probabilities of 10(−25) and a cumulative probability of exclusion of 0.999992. CONCLUSION: The 58 unlinked IISNPs with high heterozygosity have low allele frequency variation among 3 Chinese populations, which makes them excellent candidates for the development of multiplex assays for individual identification and paternity testing. Croatian Medical Schools 2014-02 /pmc/articles/PMC3944413/ /pubmed/24577821 http://dx.doi.org/10.3325/cmj.2014.55.10 Text en Copyright © 2014 by the Croatian Medical Journal. All rights reserved. http://creativecommons.org/licenses/by/2.5/ This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Forensic Science
Wei, Yi-Liang
Qin, Cui-Jiao
Liu, Hai-Bo
Jia, Jing
Hu, Lan
Li, Cai-Xia
Validation of 58 autosomal individual identification SNPs in three Chinese populations
title Validation of 58 autosomal individual identification SNPs in three Chinese populations
title_full Validation of 58 autosomal individual identification SNPs in three Chinese populations
title_fullStr Validation of 58 autosomal individual identification SNPs in three Chinese populations
title_full_unstemmed Validation of 58 autosomal individual identification SNPs in three Chinese populations
title_short Validation of 58 autosomal individual identification SNPs in three Chinese populations
title_sort validation of 58 autosomal individual identification snps in three chinese populations
topic Forensic Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3944413/
https://www.ncbi.nlm.nih.gov/pubmed/24577821
http://dx.doi.org/10.3325/cmj.2014.55.10
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