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Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels

BACKGROUND: The insertion/deletion polymorphism (InDel), an ideal forensic genetic marker with a low spontaneous mutation rate and small amplification product fragments, is widely distributed in the genome, combining the advantages of STR and SNP genetic markers. The X-chromosome has high applicatio...

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Autores principales: Feng, Yuhang, Wang, Ting, Yang, Yunteng, You, Jiangtao, He, Kun, Zhang, Hongling, Wang, Qiyan, Yang, Meiqing, Huang, Jiang, Ren, Zheng, Jin, Xiaoye
Formato: Online Artículo Texto
Lenguaje:English
Publicado: PeerJ Inc. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10007965/
https://www.ncbi.nlm.nih.gov/pubmed/36915656
http://dx.doi.org/10.7717/peerj.14964
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author Feng, Yuhang
Wang, Ting
Yang, Yunteng
You, Jiangtao
He, Kun
Zhang, Hongling
Wang, Qiyan
Yang, Meiqing
Huang, Jiang
Ren, Zheng
Jin, Xiaoye
author_facet Feng, Yuhang
Wang, Ting
Yang, Yunteng
You, Jiangtao
He, Kun
Zhang, Hongling
Wang, Qiyan
Yang, Meiqing
Huang, Jiang
Ren, Zheng
Jin, Xiaoye
author_sort Feng, Yuhang
collection PubMed
description BACKGROUND: The insertion/deletion polymorphism (InDel), an ideal forensic genetic marker with a low spontaneous mutation rate and small amplification product fragments, is widely distributed in the genome, combining the advantages of STR and SNP genetic markers. The X-chromosome has high application value in complex paternity testing, and it is an excellent system for evaluating population admixture and studying evolutionary anthropology. However, further research is needed on the population genetics of X-chromosome InDels (X-InDels). METHODS: In this article, a system composed of 38 X-InDel loci was utilized to analyse and evaluate the forensic parameters of the Guizhou Han population in order to explore its forensic application efficiency. RESULTS: The results showed that expected heterozygosities spanned from 0.0189 to 0.5715, and the cumulative power of discrimination of the 32 X-InDels and three linkage blocks was 0.9999999954 and 0.999999999999741 for males and females, respectively. The combined mean exclusion chance of these loci for trios and duos is 0.999999 and 0.999747, respectively. Multiple methods like principal component analysis, Fst genetic distance, and phylogenetic reconstruction were employed for dissecting the genetic structure of the Guizhou Han population by comparing it with previously reported populations. As expected, the studied Han population displayed relatively close genetic affinities with the East Asian populations. At the same time, there were obvious genetic differentiations between the Guizhou Han population and other continental populations that were discerned, especially for the African populations. CONCLUSIONS: This study further verified the applicability of 38 X-InDels for human personal identification and kinship analyses of Han Chinese, and also showed the application potential of X-InDels in population genetics.
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spelling pubmed-100079652023-03-12 Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels Feng, Yuhang Wang, Ting Yang, Yunteng You, Jiangtao He, Kun Zhang, Hongling Wang, Qiyan Yang, Meiqing Huang, Jiang Ren, Zheng Jin, Xiaoye PeerJ Hematology BACKGROUND: The insertion/deletion polymorphism (InDel), an ideal forensic genetic marker with a low spontaneous mutation rate and small amplification product fragments, is widely distributed in the genome, combining the advantages of STR and SNP genetic markers. The X-chromosome has high application value in complex paternity testing, and it is an excellent system for evaluating population admixture and studying evolutionary anthropology. However, further research is needed on the population genetics of X-chromosome InDels (X-InDels). METHODS: In this article, a system composed of 38 X-InDel loci was utilized to analyse and evaluate the forensic parameters of the Guizhou Han population in order to explore its forensic application efficiency. RESULTS: The results showed that expected heterozygosities spanned from 0.0189 to 0.5715, and the cumulative power of discrimination of the 32 X-InDels and three linkage blocks was 0.9999999954 and 0.999999999999741 for males and females, respectively. The combined mean exclusion chance of these loci for trios and duos is 0.999999 and 0.999747, respectively. Multiple methods like principal component analysis, Fst genetic distance, and phylogenetic reconstruction were employed for dissecting the genetic structure of the Guizhou Han population by comparing it with previously reported populations. As expected, the studied Han population displayed relatively close genetic affinities with the East Asian populations. At the same time, there were obvious genetic differentiations between the Guizhou Han population and other continental populations that were discerned, especially for the African populations. CONCLUSIONS: This study further verified the applicability of 38 X-InDels for human personal identification and kinship analyses of Han Chinese, and also showed the application potential of X-InDels in population genetics. PeerJ Inc. 2023-03-08 /pmc/articles/PMC10007965/ /pubmed/36915656 http://dx.doi.org/10.7717/peerj.14964 Text en © 2023 Feng et al. https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.
spellingShingle Hematology
Feng, Yuhang
Wang, Ting
Yang, Yunteng
You, Jiangtao
He, Kun
Zhang, Hongling
Wang, Qiyan
Yang, Meiqing
Huang, Jiang
Ren, Zheng
Jin, Xiaoye
Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels
title Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels
title_full Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels
title_fullStr Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels
title_full_unstemmed Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels
title_short Genetic features and phylogenetic relationship analyses of Guizhou Han population residing in Southwest China via 38 X-InDels
title_sort genetic features and phylogenetic relationship analyses of guizhou han population residing in southwest china via 38 x-indels
topic Hematology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10007965/
https://www.ncbi.nlm.nih.gov/pubmed/36915656
http://dx.doi.org/10.7717/peerj.14964
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