Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPs
Y-chromosome short tandem repeat (Y-STR) and Y-chromosome single nucleotide polymorphism (Y-SNP) are genetic markers on the male Y chromosome for individual identification, forensic applications, and paternal genetic history analysis. In this study we successfully genotyped 38 Y-STR loci and 24 Y-SN...
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MDPI AG
2022-07-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/13/8/1363 |
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| author | Xiao Zhang Zhen Tang Bin Wang Xindao Zhou Limin Zhou Gongying Zhang Junzhe Tian Yiqi Zhao Zhiqing Yao Lu Tian Suhua Zhang Hao Xia Li Jin Chengtao Li Shilin Li |
| author_facet | Xiao Zhang Zhen Tang Bin Wang Xindao Zhou Limin Zhou Gongying Zhang Junzhe Tian Yiqi Zhao Zhiqing Yao Lu Tian Suhua Zhang Hao Xia Li Jin Chengtao Li Shilin Li |
| author_sort | Xiao Zhang |
| collection | DOAJ |
| description | Y-chromosome short tandem repeat (Y-STR) and Y-chromosome single nucleotide polymorphism (Y-SNP) are genetic markers on the male Y chromosome for individual identification, forensic applications, and paternal genetic history analysis. In this study we successfully genotyped 38 Y-STR loci and 24 Y-SNP loci of Pudong Han (<i>n</i> = 689) and Chongming Han (<i>n</i> = 530) in Shanghai. The haplotype diversity of the Y filer platinum genotyping system was the highest in the Han population in the Pudong area of Shanghai (0.99996) and Chongming Island (0.99997). The proportion of unique haplotypes was 97.10% (Pudong) and 98.49% (Chongming), respectively. The multidimensional scaling analysis and phylogenetic analysis were performed according to the genetic distance Rst, which was calculated based on the Y-STR gene frequency data. Moreover, we made a comparison on the frequency distribution analysis and principal component analysis of haplogroups in both populations. As a result, Shanghai Pudong Han, Chongming Island Han, and Jiangsu Han were determined to have a strong genetic affinity. The haplogroup distribution characteristics of the Pudong Han and Chongming Han populations were similar to those of the southern Han population. The results of haplotype network analysis showed that Jiangsu Wujiang Han and Jiangsu Changshu Han had more paternal genetic contributions to the formation of Shanghai Pudong Han and Chongming Island Han. Through the joint analysis of SNPs and STRs, this study deeply analyzed the paternal genetic structure of the Pudong Han and Chongming Han populations. The addition of Y-SNP haplogroups to forensic applications can provide information for pedigree investigation. |
| first_indexed | 2024-03-09T04:24:26Z |
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| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-09T04:24:26Z |
| publishDate | 2022-07-01 |
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| series | Genes |
| spelling | doaj.art-fa8c690d6f84490a937516462100416f2023-12-03T13:42:43ZengMDPI AGGenes2073-44252022-07-01138136310.3390/genes13081363Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPsXiao Zhang0Zhen Tang1Bin Wang2Xindao Zhou3Limin Zhou4Gongying Zhang5Junzhe Tian6Yiqi Zhao7Zhiqing Yao8Lu Tian9Suhua Zhang10Hao Xia11Li Jin12Chengtao Li13Shilin Li14Department of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, ChinaDepartment of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, ChinaCriminal Investigation Department of Shanghai, Pudong New Area, Shanghai 200120, ChinaCriminal Investigation Department of Shanghai, Chongming Island, Shanghai 202150, ChinaCriminal Investigation Department of Shanghai, Chongming Island, Shanghai 202150, ChinaCriminal Investigation Department of Shanghai, Pudong New Area, Shanghai 200120, ChinaDepartment of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, ChinaDepartment of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, ChinaCriminal Investigation Department of Shanghai, Pudong New Area, Shanghai 200120, ChinaCriminal Investigation Department of Shanghai, Pudong New Area, Shanghai 200120, ChinaAcademy of Forensic Science, Ministry of Justice, Shanghai 200063, ChinaSchool of Mathematical Sciences, Tongji University, Shanghai 200092, ChinaDepartment of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, ChinaAcademy of Forensic Science, Ministry of Justice, Shanghai 200063, ChinaDepartment of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, ChinaY-chromosome short tandem repeat (Y-STR) and Y-chromosome single nucleotide polymorphism (Y-SNP) are genetic markers on the male Y chromosome for individual identification, forensic applications, and paternal genetic history analysis. In this study we successfully genotyped 38 Y-STR loci and 24 Y-SNP loci of Pudong Han (<i>n</i> = 689) and Chongming Han (<i>n</i> = 530) in Shanghai. The haplotype diversity of the Y filer platinum genotyping system was the highest in the Han population in the Pudong area of Shanghai (0.99996) and Chongming Island (0.99997). The proportion of unique haplotypes was 97.10% (Pudong) and 98.49% (Chongming), respectively. The multidimensional scaling analysis and phylogenetic analysis were performed according to the genetic distance Rst, which was calculated based on the Y-STR gene frequency data. Moreover, we made a comparison on the frequency distribution analysis and principal component analysis of haplogroups in both populations. As a result, Shanghai Pudong Han, Chongming Island Han, and Jiangsu Han were determined to have a strong genetic affinity. The haplogroup distribution characteristics of the Pudong Han and Chongming Han populations were similar to those of the southern Han population. The results of haplotype network analysis showed that Jiangsu Wujiang Han and Jiangsu Changshu Han had more paternal genetic contributions to the formation of Shanghai Pudong Han and Chongming Island Han. Through the joint analysis of SNPs and STRs, this study deeply analyzed the paternal genetic structure of the Pudong Han and Chongming Han populations. The addition of Y-SNP haplogroups to forensic applications can provide information for pedigree investigation.https://www.mdpi.com/2073-4425/13/8/1363Y-STRY-SNPChongming islandpopulation differentiation |
| spellingShingle | Xiao Zhang Zhen Tang Bin Wang Xindao Zhou Limin Zhou Gongying Zhang Junzhe Tian Yiqi Zhao Zhiqing Yao Lu Tian Suhua Zhang Hao Xia Li Jin Chengtao Li Shilin Li Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPs Genes Y-STR Y-SNP Chongming island population differentiation |
| title | Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPs |
| title_full | Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPs |
| title_fullStr | Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPs |
| title_full_unstemmed | Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPs |
| title_short | Forensic Analysis and Genetic Structure Construction of Chinese Chongming Island Han Based on Y Chromosome STRs and SNPs |
| title_sort | forensic analysis and genetic structure construction of chinese chongming island han based on y chromosome strs and snps |
| topic | Y-STR Y-SNP Chongming island population differentiation |
| url | https://www.mdpi.com/2073-4425/13/8/1363 |
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