A genome wide pattern of population structure and admixture in peninsular Malaysia MalaysReport as inadecuate




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The HUGO Journal

, 8:5

First Online: 30 October 2014Received: 04 May 2014Accepted: 19 May 2014DOI: 10.1186-s11568-014-0005-z

Cite this article as: Hatin, W.I., Nur-Shafawati, A.R., Etemad, A. et al. HUGO J 2014 8: 5. doi:10.1186-s11568-014-0005-z

Abstract

BackgroundThe Malays consist of various sub-ethnic groups which are believed to have different ancestral origins based on their migrations centuries ago. The sub-ethnic groups can be divided based on the region they inhabit; the northern Melayu Kedah and Melayu Kelantan, western Melayu Minang and southern parts Melayu Bugis and Melayu Jawa of Peninsular Malaysia. We analyzed 54,794 autosomal single nucleotide polymorphisms SNPs which were shared by 472 unrelated individuals from 17 populations to determine the genetic structure and distributions of the ancestral genetic components in five Malay sub-ethnic groups namely Melayu Bugis, Melayu Jawa, Melayu Minang, Melayu Kedah, and Melayu Kelantan. We also have included in the analysis 12 other study populations from Thailand, Indonesia, China, India, Africa and Orang Asli sub-groups in Malay Peninsula, obtained from the Pan Asian SNP Initiative PASNPI Consortium and International HapMap project database.

ResultsWe found evidence of genetic influx from Indians to Malays, more in Melayu Kedah and Melayu Kelantan which are genetically different from the other Malay sub-ethnic groups, but similar to Thai Pattani. More than 98% of these northern Malays haplotypes could be found in either Indians or Chinese populations, indicating a highly admixture pattern among populations. Nevertheless, the ancestry lines of Malays, Indonesians and Thais were traced back to have shared a common ancestor with the Proto-Malays and Chinese.

ConclusionsThese results support genetic admixtures in the Peninsular Malaysia Malay populations and provided valuable information on the enigmatic demographical history as well as shed some insights into the origins of the Malays in the Malay Peninsula.

KeywordsMalays Single nucleotide polymorphisms Genetic structure Admixture Haplotypes AbbreviationsMDSMulti-dimensional scale

PASNPIPan Asian SNP Initiative

MITMalays, Indonesians and Thais

IBDIsolation-by-distance

BCEBefore common Era

YBPYear before present

HLAHuman Leukocyte Antigen

USMUniversiti Sains Malaysia

PPUMPusat Perubatan Universiti Malaya

CNHGCChinese National Human Genome Centre

SNPsSingle nucleotide polymorphisms

CLUMPPCluster matching and permutation program

SSCSymmetric similarity coefficients

BMDBetween marker distance

MCMCMarkov Chain Monte Carlo

UKMUniversiti Kebangsaan Malaysia

UMBIMedical Molecular Biology Institute

2DTwo dimensions

3DThree dimensions

HSHaplotype sharing

MYMalays

NMYNorthern Malays

PMYPeninsula Malays

CNChinese

INIndians

PMProto-Malays

YRIAfrican yoruba

NGSemang

HSAsHaplotype sharing analyses

NRSNon-Replace Sampling

NGNegrito

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Author: Wan Isa Hatin - Ab Rajab Nur-Shafawati - Ali Etemad - Wenfei Jin - Pengfei Qin - Shuhua Xu - Li Jin - Soon-Guan Tan - Po

Source: https://link.springer.com/







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