Admixture Patterns and Genetic Differentiation in Negrito Groups from West Malaysia Estimated from Genome-wide SNP Data

Southeast Asia houses various culturally and linguistically diverse ethnic groups. In Malaysia, where the Malay, Chinese, and Indian ethnic groups form the majority, there exist minority groups such as the “negritos” who are believed to be descendants of the earliest settlers of Southeast Asia. Here...

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Published inHuman biology Vol. 85; no. 1/3; pp. 173 - 188
Main Authors Jinam, Timothy A., Phipps, Maude E., Saitou, Naruya
Format Journal Article
LanguageEnglish
Published United States Wayne State University Press 01.02.2013
Subjects
ADMIXTURE
Asian Continental Ancestry Group - ethnology
Asian Continental Ancestry Group - genetics
Evolution, Molecular
Genes
Genetic aspects
Genetic Drift
Genetic Structures
Genetic Variation
Genetics, Population
Genome-Wide Association Study
Genotype
Haplotypes
Humans
INDIGENOUS
Malaysia - ethnology
Mitochondrial DNA
Multiculturalism & pluralism
Natural history
NEGRITO
Negritos
Polymorphism
Polymorphism, Single Nucleotide
Population genetics
Single nucleotide polymorphisms
Software
STRUCTURE
Malaysia
Singapore
India
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Summary:Southeast Asia houses various culturally and linguistically diverse ethnic groups. In Malaysia, where the Malay, Chinese, and Indian ethnic groups form the majority, there exist minority groups such as the “negritos” who are believed to be descendants of the earliest settlers of Southeast Asia. Here we report patterns of genetic substructure and admixture in two Malaysian negrito populations (Jehai and Kensiu), using ∼50,000 genome-wide single-nucleotide polymorphism (SNP) data. We found traces of recent admixture in both the negrito populations, particularly in the Jehai, with the Malay through principal component analysis and STRUCTURE analysis software, which suggested that the admixture was as recent as one generation ago. We also identified significantly differentiated nonsynonymous SNPs and haplotype blocks related to intracellular transport, metabolic processes, and detection of stimulus. These results highlight the different levels of admixture experienced by the two Malaysian negritos. Delineating admixture and differentiated genomic regions should be of importance in designing and interpretation of molecular anthropology and disease association studies.
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ISSN:0018-7143
1534-6617
DOI:10.3378/027.085.0308