Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.

<h4>Background</h4>Previous studies indicate that the frequency distributions of HLA alleles and haplotypes vary from one ethnic group to another or between the members of the same ethnic group living in different geographic areas. It is necessary and meaningful to study the high-resolut...

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Autores principales:	Chun-mei Shen, Bo-feng Zhu, Ya-jun Deng, Shi-hui Ye, Jiang-wei Yan, Guang Yang, Hong-dan Wang, Hai-xia Qin, Qi-zhao Huang, Jing-Jing Zhang
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2010
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e3cde981265f40f48a238d5cf89109e6
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spelling	oai:doaj.org-article:e3cde981265f40f48a238d5cf89109e62021-11-18T07:02:30ZAllele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.1932-620310.1371/journal.pone.0013458https://doaj.org/article/e3cde981265f40f48a238d5cf89109e62010-11-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21079793/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Previous studies indicate that the frequency distributions of HLA alleles and haplotypes vary from one ethnic group to another or between the members of the same ethnic group living in different geographic areas. It is necessary and meaningful to study the high-resolution allelic and haplotypic distributions of HLA loci in different groups.<h4>Methodology/principal findings</h4>High-resolution HLA typing for the Uyghur ethnic minority group using polymerase chain reaction-sequence-based-typing method was first reported. HLA-A, -B and -DRB1 allelic distributions were determined in 104 unrelated healthy Uyghur individuals and haplotypic frequencies and linkage disequilibrium parameters for HLA loci were estimated using the maximum-likelihood method. A total of 35 HLA-A, 51 HLA-B and 33 HLA-DRB1 alleles were identified at the four-digit level in the population. High frequency alleles were HLA-A1101 (13.46%), A0201 (12.50%), A0301 (10.10%); HLA-B5101(8.17%), B3501(6.73%), B5001 (6.25%); HLA-DRB10701 (16.35%), DRB11501 (8.65%) and DRB10301 (7.69%). The two-locus haplotypes at the highest frequency were HLA-A3001-B1302 (2.88%), A2402-B5101 (2.86%); HLA-B5001-DRB10701 (4.14%) and B0702-DRB11501 (3.37%). The three-locus haplotype at the highest frequency was HLA-A3001-B1302-DRB10701(2.40%). Significantly high linkage disequilibrium was observed in six two-locus haplotypes, with their corresponding relative linkage disequilibrium parameters equal to 1. Neighbor-joining phylogenetic tree between the Uyghur group and other previously reported populations was constructed on the basis of standard genetic distances among the populations calculated using the four-digit sequence-level allelic frequencies at HLA-A, HLA-B and HLA-DRB1 loci. The phylogenetic analyses reveal that the Uyghur group belongs to the northwestern Chinese populations and is most closely related to the Xibe group, and then to Kirgiz, Hui, Mongolian and Northern Han.<h4>Conclusions/significance</h4>The present findings could be useful to elucidate the genetic background of the population and to provide valuable data for HLA matching in clinical bone marrow transplantation, HLA-linked disease-association studies, population genetics, human identification and paternity tests in forensic sciences.Chun-mei ShenBo-feng ZhuYa-jun DengShi-hui YeJiang-wei YanGuang YangHong-dan WangHai-xia QinQi-zhao HuangJing-Jing ZhangPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 5, Iss 11, p e13458 (2010)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Chun-mei Shen Bo-feng Zhu Ya-jun Deng Shi-hui Ye Jiang-wei Yan Guang Yang Hong-dan Wang Hai-xia Qin Qi-zhao Huang Jing-Jing Zhang Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.
description	<h4>Background</h4>Previous studies indicate that the frequency distributions of HLA alleles and haplotypes vary from one ethnic group to another or between the members of the same ethnic group living in different geographic areas. It is necessary and meaningful to study the high-resolution allelic and haplotypic distributions of HLA loci in different groups.<h4>Methodology/principal findings</h4>High-resolution HLA typing for the Uyghur ethnic minority group using polymerase chain reaction-sequence-based-typing method was first reported. HLA-A, -B and -DRB1 allelic distributions were determined in 104 unrelated healthy Uyghur individuals and haplotypic frequencies and linkage disequilibrium parameters for HLA loci were estimated using the maximum-likelihood method. A total of 35 HLA-A, 51 HLA-B and 33 HLA-DRB1 alleles were identified at the four-digit level in the population. High frequency alleles were HLA-A1101 (13.46%), A0201 (12.50%), A0301 (10.10%); HLA-B5101(8.17%), B3501(6.73%), B5001 (6.25%); HLA-DRB10701 (16.35%), DRB11501 (8.65%) and DRB10301 (7.69%). The two-locus haplotypes at the highest frequency were HLA-A3001-B1302 (2.88%), A2402-B5101 (2.86%); HLA-B5001-DRB10701 (4.14%) and B0702-DRB11501 (3.37%). The three-locus haplotype at the highest frequency was HLA-A3001-B1302-DRB10701(2.40%). Significantly high linkage disequilibrium was observed in six two-locus haplotypes, with their corresponding relative linkage disequilibrium parameters equal to 1. Neighbor-joining phylogenetic tree between the Uyghur group and other previously reported populations was constructed on the basis of standard genetic distances among the populations calculated using the four-digit sequence-level allelic frequencies at HLA-A, HLA-B and HLA-DRB1 loci. The phylogenetic analyses reveal that the Uyghur group belongs to the northwestern Chinese populations and is most closely related to the Xibe group, and then to Kirgiz, Hui, Mongolian and Northern Han.<h4>Conclusions/significance</h4>The present findings could be useful to elucidate the genetic background of the population and to provide valuable data for HLA matching in clinical bone marrow transplantation, HLA-linked disease-association studies, population genetics, human identification and paternity tests in forensic sciences.
format	article
author	Chun-mei Shen Bo-feng Zhu Ya-jun Deng Shi-hui Ye Jiang-wei Yan Guang Yang Hong-dan Wang Hai-xia Qin Qi-zhao Huang Jing-Jing Zhang
author_facet	Chun-mei Shen Bo-feng Zhu Ya-jun Deng Shi-hui Ye Jiang-wei Yan Guang Yang Hong-dan Wang Hai-xia Qin Qi-zhao Huang Jing-Jing Zhang
author_sort	Chun-mei Shen
title	Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.
title_short	Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.
title_full	Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.
title_fullStr	Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.
title_full_unstemmed	Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.
title_sort	allele polymorphism and haplotype diversity of hla-a, -b and -drb1 loci in sequence-based typing for chinese uyghur ethnic group.
publisher	Public Library of Science (PLoS)
publishDate	2010
url	https://doaj.org/article/e3cde981265f40f48a238d5cf89109e6
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Allele polymorphism and haplotype diversity of HLA-A, -B and -DRB1 loci in sequence-based typing for Chinese Uyghur ethnic group.

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