A panel of 130 autosomal single-nucleotide polymorphisms for ancestry assignment in five Asian populations and in Caucasians

Ancestry informative single-nucleotide polymorphism (AISNP) panels for differentiating between East and Southeast Asian populations are scarce. This study aimed to identify AISNPs for ancestry assignment of five East and Southeast Asian populations, and Caucasians. We analyzed 145 autosomal SNPs of...

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Published in:Forensic science, medicine, and pathology medicine, and pathology, 2017-06, Vol.13 (2), p.177-187
Main Authors: Hwa, Hsiao-Lin, Lin, Chih-Peng, Huang, Tsun-Ying, Kuo, Po-Hsiu, Hsieh, Wei-Hsin, Lin, Chun-Yen, Yin, Hsiang-I, Tseng, Li-Hui, Lee, James Chun-I
Format: Article
Language:English
Subjects:
Analysis
Asia
Asian Continental Ancestry Group - genetics
Criminology and Criminal Justice
Ethnic Groups - genetics
European Continental Ancestry Group - genetics
Female
Forensic Medicine
Genetic aspects
Genotype
Humans
Male
Medicine
Medicine & Public Health
Original Article
Pathology
Polymorphism, Single Nucleotide
Retrospective Studies
Single nucleotide polymorphisms
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Summary:Ancestry informative single-nucleotide polymorphism (AISNP) panels for differentiating between East and Southeast Asian populations are scarce. This study aimed to identify AISNPs for ancestry assignment of five East and Southeast Asian populations, and Caucasians. We analyzed 145 autosomal SNPs of the 627 DNA samples from individuals of six populations (234 Taiwanese Han, 91 Filipinos, 79 Indonesians, 60 Thais, 71 Vietnamese, and 92 Caucasians) using arrays. The multiple logistic regression model and a multi-tier approach were used for ancestry classification. We observed that 130 AISNPs were effective for classifying the ethnic origins with fair accuracy. Among the 130 AISNPs, 122 were useful for stratification between these five Asian populations and 64 were effective for differentiating between Caucasians and these Asian populations. For differentiation between Caucasians and Asians, an accuracy rate of 100% was achieved in these 627 subjects with 50 optimal AISNPs among the 64 effective SNPs. For classification of the five Asian populations, the accuracy rates of ancestry inference using 20 to 57 SNPs for each of the two Asian populations ranged from 74.1% to 100%. Another 14 degraded DNA samples with incomplete profiling were analyzed, and the ancestry of 12 (85.7%) of those subjects was accurately assigned. We developed a 130-AISNP panel for ethnic origin differentiation between the five East and Southeast Asian populations and Caucasians. This AISNP set may be helpful for individual ancestral assignment of these populations in forensic casework.
ISSN:1547-769X
1556-2891
DOI:10.1007/s12024-017-9863-8