International Journal of Legal Medicine

, Volume 132, Issue 4, pp 1079–1082 | Cite as

Forensic features and phylogenetic analyses of Sichuan Han population via 23 autosomal STR loci included in the Huaxia Platinum System

  • Guanglin He
  • Mengge Wang
  • Jing Liu
  • Yiping Hou
  • Zheng Wang
Population Data

Abstract

Short tandem repeats (STRs) are DNA regions with a variable number of repeated units (2–6 bp) and attractive to genetic application like forensic, population genetics, and anthropological studies. The Huaxia Platinum System allows the multiplex amplification of 23 autosomal STR loci and two gender determination loci. In the present study, genetic polymorphisms of these 23 autosomal STR loci were first obtained from 309 Sichuan Han individuals, southwest China. No evidence of deviation from the Hardy-Weinberg equilibrium (HWE) was identified. The combined match probability (CMP), combined power of discrimination (CPD), and combined power of exclusion (CPE) are 1.087 × 10−27, 0.999999999999999999999999999, and 0.9999999996 in the Sichuan Han Chinese population, respectively. The inter-population differentiation, PCA, MDS, and phylogenetic analysis revealed that Sichuan Han had a closer genetic relationship with neighboring Han Chinese populations. Our findings indicated that the 23 autosomal STR loci are polymorphic and informative in studied southwestern Chinese Han population and can be utilized as a powerful tool for forensic applications. In addition, population comparisons demonstrated that the genetic similarities widely existed among Han Chinese populations distributed in different administrative divisions, and genetic differences had existed between minorities (most prominently for Uyghur and Kazakh) and Han groups.

Keywords

Short tandem repeat Genetic polymorphism Forensic genetics Huaxia Platinum System 

Notes

Acknowledgements

We would like to thank the volunteers who contributed samples for this study.

Funding information

This study was supported by grants from the National Key R&D Program of China (2016YFC0800703) and National Natural Science Foundation of China (81501635, 81330073).

Compliance with ethical standards

The humane and ethical research principles recommended by Sichuan University were followed in this study. All participants signed the written informed consents before sample collection. Our study design was approved by the medical ethics committee of Sichuan University.

Conflict of interest

The authors declare that they have no conflict of interest.

Supplementary material

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Figure S1

The geographic position of the investigated population and reference populations. (JPEG 611 kb).

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High resolution image (TIFF 6561 kb).
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Figure S2

Principal component analysis based on 19 overlapped STR loci of our studied population and 26 reference populations. (JPEG 153 kb).

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High resolution image (TIFF 1507 kb).
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Figure S3

Multidimensional Scaling plots showed the genetic relationships between the investigated population (bold font and red) and 26 reference populations. All Han Chinese populations distributed in different regions just marked their region name in the MDS. (JPEG 129 kb)

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Figure S4

The phylogenetic relationship among the studied population and 26 reference populations, which was constructed by the unweighted pair-group method with arithmetic averages (UPGMA) based on 19 overlapped STR loci in the Mega7.0 software. (JPEG 305 kb).

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Table S1 (XLSX 74 kb).
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References

  1. 1.
    Ellegren H (2004) Microsatellites: simple sequences with complex evolution. Nat Rev Genet 5:435–445.  https://doi.org/10.1038/nrg1348 CrossRefPubMedGoogle Scholar
  2. 2.
    Kayser M, de Knijff P (2011) Improving human forensics through advances in genetics, genomics and molecular biology. Nat Rev Genet 12:179–192.  https://doi.org/10.1038/nrg2952 CrossRefPubMedGoogle Scholar
  3. 3.
    Jobling MA, Gill P (2004) Encoded evidence: DNA in forensic analysis. Nat Rev Genet 5:739–751.  https://doi.org/10.1038/nrg1455 CrossRefPubMedGoogle Scholar
  4. 4.
    Gill P, Fereday L, Morling N, Schneider PM (2006) The evolution of DNA databases—recommendations for new European STR loci. Forensic Sci Int 156:242–244.  https://doi.org/10.1016/j.forsciint.2005.05.036 CrossRefPubMedGoogle Scholar
  5. 5.
    Hares DR (2012) Expanding the CODIS core loci in the United States. Forensic Sci Int Genet 6:e52–e54.  https://doi.org/10.1016/j.fsigen.2011.04.012 CrossRefPubMedGoogle Scholar
  6. 6.
    He G-L, Chen P-Y, Gao B et al (2017) Phylogenetic analysis among 27 Chinese populations and genetic polymorphisms of 20 autosomal STR loci in a Chinese Uyghur ethnic minority group. Aust J Forensic Sci:1–10.  https://doi.org/10.1080/00450618.2016.1275793
  7. 7.
    Zhu BF, Zhang YD, Shen CM et al (2015) Developmental validation of the AGCU 21+1 STR kit: a novel multiplex assay for forensic application. Electrophoresis 36:271–276.  https://doi.org/10.1002/elps.201400333 CrossRefPubMedGoogle Scholar
  8. 8.
    Zou X, Li Y, Li P et al (2017) Genetic polymorphisms for 19 autosomal STR loci of Chongqing Han ethnicity and phylogenetic structure exploration among 28 Chinese populations. Int J Legal Med.  https://doi.org/10.1007/s00414-017-1577-7
  9. 9.
    Wang Z, Zhou D, Jia Z et al (2016) Developmental validation of the Huaxia Platinum System and application in 3 main ethnic groups of China. Sci Rep 6:31075.  https://doi.org/10.1038/srep31075 CrossRefPubMedPubMedCentralGoogle Scholar
  10. 10.
    Yang L, Zhang X, Zhao L et al (2017) Population data of 23 autosomal STR loci in the Chinese Han population from Guangdong Province in southern China. Int J Legal Med.  https://doi.org/10.1007/s00414-017-1588-4
  11. 11.
    Poetsch M, Bajanowski T, Pfeiffer H (2012) The publication of population genetic data in the International Journal of Legal Medicine: guidelines. Int J Legal Med 126:489–490.  https://doi.org/10.1007/s00414-012-0700-z CrossRefGoogle Scholar
  12. 12.
    Excoffier L, Lischer HE (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour 10:564–567.  https://doi.org/10.1111/j.1755-0998.2010.02847.x CrossRefPubMedGoogle Scholar
  13. 13.
    Kumar S, Stecher G, Tamura K (2016) MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870–1874.  https://doi.org/10.1093/molbev/msw054 CrossRefPubMedGoogle Scholar

Copyright information

© Springer-Verlag GmbH Germany 2017

Authors and Affiliations

  1. 1.Institute of Forensic Medicine, West China School of Basic Science and Forensic MedicineSichuan UniversityChengduChina

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