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Genetic analysis of 39 Y-STR loci in a Han population from Henan province, central China

  • Yanmei Huang
  • Liwei Guo
  • Mengge Wang
  • Cui Zhang
  • Lixia Kang
  • Kejie Wang
  • Yalei Ma
  • Huiyong Jiao
  • Xi Li
  • Hongyu Sun
Population Data

Abstract

A total of 39 Y-chromosomal short tandem repeat (Y-STR) loci included in the advanced commercial six-dye multiplex system (AGCU Database Y30 kit) and a custom-designed four-dye multiplex system were investigated in 259 unrelated healthy Chinese males residing in Henan Province, central China. The haplotype diversity (HD) values were 0.99997 and 1.0000 for the six and four fluorescent-multiplex amplification systems, respectively. The discrimination capacity (DC) values were 0.9961 and 1.0000, respectively. When the 39 Y-STR loci were considered, 259 unique haplotypes were obtained in Henan Han individuals with both the haplotype diversity and discrimination capacity being 1.000. The gene diversity (GD) of 39 Y-STR loci in the studied group ranged from 0.3956 (DYS588) to 0.9990 (DYF403S1). Population comparisons between the Henan Han and 24 reference groups were performed. Both multidimensional scaling plots and phylogenetic analysis demonstrated that significant genetic differences existed between Henan Han and reference ethnic minorities of China, particularly the Tibetan, Uighur, and Mongolian populations. Moreover, the results indicated that 39 Y-STRs included in the two fluorescent-multiplex amplification systems are highly polymorphic and informative in the studied populations and can be employed as complementary tools for forensic application and human genetics research.

Keywords

Fluorescent-multiplex amplification system Haplotype Genetic polymorphism Forensic genetics Henan Han population 

Notes

Acknowledgments

We thank all sample donors for their contribution to this work and all those who helped with sample collection. In addition, we would like to thank all contributors of the YHRD database. We also would like to express our acknowledgment to Senior Research Fellow, PhD, Sharon O’Toole, Department of Histopathology, Trinity College Dublin, Ireland, for improving the English presentation.

Funding

This study was supported by Key scientific research projects of Henan Province (13A310849), Key Project of Henan Education Science during the 12th Five-Year Plan (2013-JKGHB-0035), and the National Natural Science Foundation of China (81671873, 81273347).

Compliance with ethical standards

This study was reviewed and approved by the Ethics Committee of Xinxiang Medical University.

Conflict of interest

The authors declare that they have no conflicts of interest.

Supplementary material

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Fig. S1

Multidimensional Scaling plots of our studied populations (bold and red) and 24 reference Chinese populations based on PPY23 haplotypes. (GIF 16 kb)

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High Resolution (TIF 1133 kb)
414_2018_1852_Fig2_ESM.gif (31 kb)
Fig. S2

The phylogenetic tree between the studied populations (bold and red) and 24 reference Chinese populations based on PPY23 haplotypes. (GIF 30 kb)

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High Resolution (TIF 2508 kb)
414_2018_1852_MOESM3_ESM.xlsx (48 kb)
Table S1 The haplotype distributions and corresponding haplotype frequencies of 30 Y-chromosomal STRs included in AGCU Database Y30 Kit in the Han Chinese population residing in Henan Province (N = 259). (XLSX 48 kb)
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Table S2 The haplotype distributions and corresponding haplotype frequencies of 10 Y-chromosomal STRs included in four-dye multiplex system in the Han Chinese population residing in Henan Province (N = 259). (XLSX 32 kb)
414_2018_1852_MOESM5_ESM.xlsx (63 kb)
Table S3 The haplotype distributions and corresponding haplotype frequencies of 39 Y-chromosomal STRs in the Han Chinese population residing in Henan Province (N = 259). (XLSX 63 kb)
414_2018_1852_MOESM6_ESM.xlsx (19 kb)
Table S4 Allele frequencies and GD values for 32 single-copy Y-STRs in the Chinese Han population residing in Henan Province (n = 259). (XLSX 19 kb)
414_2018_1852_MOESM7_ESM.xlsx (23 kb)
Table S5 Allelic combinations frequencies and GD values for multi-copy Y-STRs in the Chinese Han populations residing in Henan Province (n = 259). (XLSX 23 kb)
414_2018_1852_MOESM8_ESM.xlsx (15 kb)
Table S6 The pairwise genetic distances between Henan Han and 24 reference Chinese population. (XLSX 15 kb)

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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2018

Authors and Affiliations

  • Yanmei Huang
    • 1
    • 2
  • Liwei Guo
    • 1
  • Mengge Wang
    • 3
  • Cui Zhang
    • 1
  • Lixia Kang
    • 1
  • Kejie Wang
    • 1
  • Yalei Ma
    • 1
  • Huiyong Jiao
    • 1
  • Xi Li
    • 1
  • Hongyu Sun
    • 4
    • 5
  1. 1.Department of Forensic Genetics, School of Forensic MedicineXinxiang Medical UniversityXinxiang CityPeople’s Republic of China
  2. 2.Xinxiang Key Laboratory of Forensic Science EvidenceXinxiang Medical UniversityXinxiang CityPeople’s Republic of China
  3. 3.Institute of Forensic Medicine, West China School of Basic Science and Forensic MedicineSichuan UniversityChengduChina
  4. 4.Faculty of Forensic Medicine, Zhongshan School of MedicineSun Yat-Sen UniversityGuangzhouPeople’s Republic of China
  5. 5.Guangdong Province Translational Forensic Medicine Engineering Technology Research CenterSun Yat-Sen UniversityGuangzhouPeople’s Republic of China

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