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Differential positive selection of malaria resistance genes in three indigenous populations of Peninsular Malaysia
The indigenous populations from Peninsular Malaysia, locally known as Orang Asli , continue to adopt an agro-subsistence nomadic lifestyle, residing primarily within natural jungle habitats. Leading a hunter-gatherer lifestyle in a tropical jungle environment, the Orang Asli are routinely exposed to...
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| Published in: | Human genetics 2015-04, Vol.134 (4), p.375-392 |
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| Main Authors: | , , , , , , , , , , , , , , , , |
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| cites | cdi_FETCH-LOGICAL-c713t-d925133680c108cdf1f267640d8ed1a612a528c906b57c7da6664e9d7328074c3 |
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| creator | Liu, Xuanyao Yunus, Yushimah Lu, Dongsheng Aghakhanian, Farhang Saw, Woei-Yuh Deng, Lian Ali, Mohammad Wang, Xu Ghazali, Fadzilah Abdul Rahman, Thuhairah Shaari, Shahrul Azlin Salleh, Mohd Zaki Phipps, Maude E. Ong, Rick Twee-Hee Xu, Shuhua Teo, Yik-Ying Hoh, Boon-Peng |
| description | The indigenous populations from Peninsular Malaysia, locally known as
Orang Asli
, continue to adopt an agro-subsistence nomadic lifestyle, residing primarily within natural jungle habitats. Leading a hunter-gatherer lifestyle in a tropical jungle environment, the
Orang Asli
are routinely exposed to malaria. Here we surveyed the genetic architecture of individuals from four
Orang Asli
tribes with high-density genotyping across more than 2.5 million polymorphisms. These tribes reside in different geographical locations in Peninsular Malaysia and belong to three main ethno-linguistic groups, where there is minimal interaction between the tribes. We first dissect the genetic diversity and admixture between the tribes and with neighboring urban populations. Later, by implementing five metrics, we investigated the genome-wide signatures for positive natural selection of these
Orang Asli
, respectively. Finally, we searched for evidence of genomic adaptation to the pressure of malaria infection. We observed that different evolutionary responses might have emerged in the different Orang Asli communities to mitigate malaria infection. |
| doi_str_mv | 10.1007/s00439-014-1525-2 |
| format | article |
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Orang Asli
, continue to adopt an agro-subsistence nomadic lifestyle, residing primarily within natural jungle habitats. Leading a hunter-gatherer lifestyle in a tropical jungle environment, the
Orang Asli
are routinely exposed to malaria. Here we surveyed the genetic architecture of individuals from four
Orang Asli
tribes with high-density genotyping across more than 2.5 million polymorphisms. These tribes reside in different geographical locations in Peninsular Malaysia and belong to three main ethno-linguistic groups, where there is minimal interaction between the tribes. We first dissect the genetic diversity and admixture between the tribes and with neighboring urban populations. Later, by implementing five metrics, we investigated the genome-wide signatures for positive natural selection of these
Orang Asli
, respectively. Finally, we searched for evidence of genomic adaptation to the pressure of malaria infection. We observed that different evolutionary responses might have emerged in the different Orang Asli communities to mitigate malaria infection.</description><identifier>ISSN: 0340-6717</identifier><identifier>EISSN: 1432-1203</identifier><identifier>DOI: 10.1007/s00439-014-1525-2</identifier><identifier>PMID: 25634076</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer Berlin Heidelberg</publisher><subject>Adaptation, Biological - genetics ; Biomedical and Life Sciences ; Biomedicine ; Cadherins - genetics ; Disease Resistance - genetics ; Evolution ; fas Receptor - genetics ; Gene Function ; Genes ; Genetic aspects ; Genetic diversity ; Genome-Wide Association Study ; Genomics ; Genotyping ; Heme Oxygenase-1 - genetics ; Human Genetics ; Humans ; Lymphotoxin-alpha - genetics ; Malaria ; Malaria - genetics ; Malaysia - ethnology ; Metabolic Diseases ; Molecular Medicine ; Natural selection ; Nitric Oxide Synthase Type II - genetics ; Original Investigation ; Polymorphism, Single Nucleotide ; Population Groups - genetics ; Positive selection ; Selection, Genetic ; Transcriptome ; Tumor Necrosis Factor-alpha - genetics ; Urban populations</subject><ispartof>Human genetics, 2015-04, Vol.134 (4), p.375-392</ispartof><rights>Springer-Verlag Berlin Heidelberg 2015</rights><rights>COPYRIGHT 2015 Springer</rights><rights>Springer-Verlag Berlin Heidelberg 2015.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c713t-d925133680c108cdf1f267640d8ed1a612a528c906b57c7da6664e9d7328074c3</citedby><cites>FETCH-LOGICAL-c713t-d925133680c108cdf1f267640d8ed1a612a528c906b57c7da6664e9d7328074c3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27924,27925</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/25634076$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Liu, Xuanyao</creatorcontrib><creatorcontrib>Yunus, Yushimah</creatorcontrib><creatorcontrib>Lu, Dongsheng</creatorcontrib><creatorcontrib>Aghakhanian, Farhang</creatorcontrib><creatorcontrib>Saw, Woei-Yuh</creatorcontrib><creatorcontrib>Deng, Lian</creatorcontrib><creatorcontrib>Ali, Mohammad</creatorcontrib><creatorcontrib>Wang, Xu</creatorcontrib><creatorcontrib>Ghazali, Fadzilah</creatorcontrib><creatorcontrib>Abdul Rahman, Thuhairah</creatorcontrib><creatorcontrib>Shaari, Shahrul Azlin</creatorcontrib><creatorcontrib>Salleh, Mohd Zaki</creatorcontrib><creatorcontrib>Phipps, Maude E.</creatorcontrib><creatorcontrib>Ong, Rick Twee-Hee</creatorcontrib><creatorcontrib>Xu, Shuhua</creatorcontrib><creatorcontrib>Teo, Yik-Ying</creatorcontrib><creatorcontrib>Hoh, Boon-Peng</creatorcontrib><title>Differential positive selection of malaria resistance genes in three indigenous populations of Peninsular Malaysia</title><title>Human genetics</title><addtitle>Hum Genet</addtitle><addtitle>Hum Genet</addtitle><description>The indigenous populations from Peninsular Malaysia, locally known as
Orang Asli
, continue to adopt an agro-subsistence nomadic lifestyle, residing primarily within natural jungle habitats. Leading a hunter-gatherer lifestyle in a tropical jungle environment, the
Orang Asli
are routinely exposed to malaria. Here we surveyed the genetic architecture of individuals from four
Orang Asli
tribes with high-density genotyping across more than 2.5 million polymorphisms. These tribes reside in different geographical locations in Peninsular Malaysia and belong to three main ethno-linguistic groups, where there is minimal interaction between the tribes. We first dissect the genetic diversity and admixture between the tribes and with neighboring urban populations. Later, by implementing five metrics, we investigated the genome-wide signatures for positive natural selection of these
Orang Asli
, respectively. Finally, we searched for evidence of genomic adaptation to the pressure of malaria infection. We observed that different evolutionary responses might have emerged in the different Orang Asli communities to mitigate malaria infection.</description><subject>Adaptation, Biological - genetics</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Cadherins - genetics</subject><subject>Disease Resistance - genetics</subject><subject>Evolution</subject><subject>fas Receptor - genetics</subject><subject>Gene Function</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Genetic diversity</subject><subject>Genome-Wide Association Study</subject><subject>Genomics</subject><subject>Genotyping</subject><subject>Heme Oxygenase-1 - genetics</subject><subject>Human Genetics</subject><subject>Humans</subject><subject>Lymphotoxin-alpha - genetics</subject><subject>Malaria</subject><subject>Malaria - genetics</subject><subject>Malaysia - ethnology</subject><subject>Metabolic Diseases</subject><subject>Molecular Medicine</subject><subject>Natural selection</subject><subject>Nitric Oxide Synthase Type II - genetics</subject><subject>Original Investigation</subject><subject>Polymorphism, Single Nucleotide</subject><subject>Population Groups - genetics</subject><subject>Positive selection</subject><subject>Selection, Genetic</subject><subject>Transcriptome</subject><subject>Tumor Necrosis Factor-alpha - genetics</subject><subject>Urban populations</subject><issn>0340-6717</issn><issn>1432-1203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><recordid>eNqNkktv1TAQhSMEopfCD2CDIrGBRcr4fbOsWh6VikA81pbrTC6uEuficRD99zi6peUiQMgLW-PvnJmRTlU9ZnDEAMwLApCibYDJhimuGn6nWjEpeMM4iLvVCoSERhtmDqoHRJcATLVc3a8OuNLly-hVlU5D32PCmIMb6u1EIYdvWBMO6HOYYj319egGl4KrE1Kg7KLHeoMRqQ6xzl8SYnl0oZSmmYrFdh7cIqVF-x5jiFQqqX5bbK4ouIfVvd4NhI-u78Pq86uXn07eNOfvXp-dHJ833jCRm66MyoTQa_AM1r7rWc-10RK6NXbMacad4mvfgr5QxpvOaa0ltp0RfA1GenFYPdv5btP0dUbKdgzkcRhcxDKpZdoI0YJg7X-gmksBCkRBn_6GXk5zimURy3WrtDTKyH9RpW0rBdNC31IbN6ANsZ9ycn5pbY8lV0ar0rVQR3-gyulwDH6K2IdS3xM83xMUJuP3vHEzkT37-GGfZTvWp4koYW-3KYwuXVkGdgmZ3YXMlpDZJWSWF82T6-XmixG7G8XPVBWA7wAqX3GD6Zft_-r6AxTb2KY</recordid><startdate>20150401</startdate><enddate>20150401</enddate><creator>Liu, Xuanyao</creator><creator>Yunus, Yushimah</creator><creator>Lu, Dongsheng</creator><creator>Aghakhanian, Farhang</creator><creator>Saw, Woei-Yuh</creator><creator>Deng, Lian</creator><creator>Ali, Mohammad</creator><creator>Wang, Xu</creator><creator>Ghazali, Fadzilah</creator><creator>Abdul Rahman, Thuhairah</creator><creator>Shaari, Shahrul Azlin</creator><creator>Salleh, Mohd Zaki</creator><creator>Phipps, Maude E.</creator><creator>Ong, Rick Twee-Hee</creator><creator>Xu, Shuhua</creator><creator>Teo, Yik-Ying</creator><creator>Hoh, Boon-Peng</creator><general>Springer Berlin Heidelberg</general><general>Springer</general><general>Springer Nature B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>ISR</scope><scope>3V.</scope><scope>7QP</scope><scope>7TK</scope><scope>7TM</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>RC3</scope><scope>7X8</scope><scope>7T2</scope><scope>7U2</scope><scope>C1K</scope><scope>F1W</scope><scope>H95</scope><scope>H97</scope><scope>L.G</scope><scope>M7N</scope></search><sort><creationdate>20150401</creationdate><title>Differential positive selection of malaria resistance genes in three indigenous populations of Peninsular Malaysia</title><author>Liu, Xuanyao ; Yunus, Yushimah ; Lu, Dongsheng ; Aghakhanian, Farhang ; Saw, Woei-Yuh ; Deng, Lian ; Ali, Mohammad ; Wang, Xu ; Ghazali, Fadzilah ; Abdul Rahman, Thuhairah ; Shaari, Shahrul Azlin ; Salleh, Mohd Zaki ; Phipps, Maude E. ; Ong, Rick Twee-Hee ; Xu, Shuhua ; Teo, Yik-Ying ; Hoh, Boon-Peng</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c713t-d925133680c108cdf1f267640d8ed1a612a528c906b57c7da6664e9d7328074c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Adaptation, Biological - genetics</topic><topic>Biomedical and Life Sciences</topic><topic>Biomedicine</topic><topic>Cadherins - genetics</topic><topic>Disease Resistance - genetics</topic><topic>Evolution</topic><topic>fas Receptor - genetics</topic><topic>Gene Function</topic><topic>Genes</topic><topic>Genetic aspects</topic><topic>Genetic diversity</topic><topic>Genome-Wide Association Study</topic><topic>Genomics</topic><topic>Genotyping</topic><topic>Heme Oxygenase-1 - genetics</topic><topic>Human Genetics</topic><topic>Humans</topic><topic>Lymphotoxin-alpha - genetics</topic><topic>Malaria</topic><topic>Malaria - genetics</topic><topic>Malaysia - ethnology</topic><topic>Metabolic Diseases</topic><topic>Molecular Medicine</topic><topic>Natural selection</topic><topic>Nitric Oxide Synthase Type II - genetics</topic><topic>Original Investigation</topic><topic>Polymorphism, Single Nucleotide</topic><topic>Population Groups - genetics</topic><topic>Positive selection</topic><topic>Selection, Genetic</topic><topic>Transcriptome</topic><topic>Tumor Necrosis Factor-alpha - 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Orang Asli
, continue to adopt an agro-subsistence nomadic lifestyle, residing primarily within natural jungle habitats. Leading a hunter-gatherer lifestyle in a tropical jungle environment, the
Orang Asli
are routinely exposed to malaria. Here we surveyed the genetic architecture of individuals from four
Orang Asli
tribes with high-density genotyping across more than 2.5 million polymorphisms. These tribes reside in different geographical locations in Peninsular Malaysia and belong to three main ethno-linguistic groups, where there is minimal interaction between the tribes. We first dissect the genetic diversity and admixture between the tribes and with neighboring urban populations. Later, by implementing five metrics, we investigated the genome-wide signatures for positive natural selection of these
Orang Asli
, respectively. Finally, we searched for evidence of genomic adaptation to the pressure of malaria infection. We observed that different evolutionary responses might have emerged in the different Orang Asli communities to mitigate malaria infection.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer Berlin Heidelberg</pub><pmid>25634076</pmid><doi>10.1007/s00439-014-1525-2</doi><tpages>18</tpages><oa>free_for_read</oa></addata></record> |
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| identifier | ISSN: 0340-6717 |
| ispartof | Human genetics, 2015-04, Vol.134 (4), p.375-392 |
| issn | 0340-6717 1432-1203 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_1673390319 |
| source | Springer Link |
| subjects | Adaptation, Biological - genetics Biomedical and Life Sciences Biomedicine Cadherins - genetics Disease Resistance - genetics Evolution fas Receptor - genetics Gene Function Genes Genetic aspects Genetic diversity Genome-Wide Association Study Genomics Genotyping Heme Oxygenase-1 - genetics Human Genetics Humans Lymphotoxin-alpha - genetics Malaria Malaria - genetics Malaysia - ethnology Metabolic Diseases Molecular Medicine Natural selection Nitric Oxide Synthase Type II - genetics Original Investigation Polymorphism, Single Nucleotide Population Groups - genetics Positive selection Selection, Genetic Transcriptome Tumor Necrosis Factor-alpha - genetics Urban populations |
| title | Differential positive selection of malaria resistance genes in three indigenous populations of Peninsular Malaysia |
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