Understanding the cryptic introgression and mixed ancestry of Red Junglefowl in India
Red Junglefowls (RJFs), the wild progenitor of modern day chickens (DCs), are believed to be in genetic endangerment due to introgression of domestic genes through opportunistic matings with domestic or feral chickens. Previous studies from India reported rare hybridization of RJFs in the wild. Howe...
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| Veröffentlicht in: | PloS one 2018-10, Vol.13 (10), p.e0204351-e0204351 |
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| description | Red Junglefowls (RJFs), the wild progenitor of modern day chickens (DCs), are believed to be in genetic endangerment due to introgression of domestic genes through opportunistic matings with domestic or feral chickens. Previous studies from India reported rare hybridization of RJFs in the wild. However, RJF population genetic structure, pattern of gene flow and their admixture with DC populations are poorly understood at the landscape level. We conducted this study with a large sample size, covering the predicted natural distribution range of RJFs in India. We documented strong evidence of directional gene flow from DCs to free-ranging wild RJFs, with the Northeastern RJF population exhibiting the most genetic variants in their nuclear and mitochondrial genomes, indicating it to be the ancestral population from which early radiation may have occurred. The results provide evidence that landscape features do not act as a barrier to gene flow and the distribution pattern could not be explored due to physical sharing or exchange of wild birds in the past when forests were continuous across RJF range in India. |
| doi_str_mv | 10.1371/journal.pone.0204351 |
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Previous studies from India reported rare hybridization of RJFs in the wild. However, RJF population genetic structure, pattern of gene flow and their admixture with DC populations are poorly understood at the landscape level. We conducted this study with a large sample size, covering the predicted natural distribution range of RJFs in India. We documented strong evidence of directional gene flow from DCs to free-ranging wild RJFs, with the Northeastern RJF population exhibiting the most genetic variants in their nuclear and mitochondrial genomes, indicating it to be the ancestral population from which early radiation may have occurred. The results provide evidence that landscape features do not act as a barrier to gene flow and the distribution pattern could not be explored due to physical sharing or exchange of wild birds in the past when forests were continuous across RJF range in India.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0204351</identifier><identifier>PMID: 30307994</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Admixtures ; Animal Distribution ; Animals ; Animals, Wild - genetics ; Biodiversity ; Biology and Life Sciences ; Birds ; Chickens ; Chickens - genetics ; Computer and Information Sciences ; DNA, Mitochondrial ; Evolution, Molecular ; Gene Flow ; Genetic diversity ; Genetic Loci ; Genetic structure ; Genetic variance ; Genomes ; Haplotypes ; Hybridization ; India ; Microsatellite Repeats ; Mitochondria ; Mutation ; People and Places ; Pharmacogenomic Variants ; Phylogeny ; Phylogeography ; Population genetics ; Poultry ; Radiation ; Wildlife conservation</subject><ispartof>PloS one, 2018-10, Vol.13 (10), p.e0204351-e0204351</ispartof><rights>2018 Thakur et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2018 Thakur et al 2018 Thakur et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c526t-e97bd300266985ee8d6bc646713cb3ad004ce7b47e75d577248c3987e7cc512c3</citedby><cites>FETCH-LOGICAL-c526t-e97bd300266985ee8d6bc646713cb3ad004ce7b47e75d577248c3987e7cc512c3</cites><orcidid>0000-0003-2609-7579 ; 0000-0002-3671-1328</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6188471/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6188471/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,864,885,2102,2928,23866,27924,27925,53791,53793,79600,79601</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/30307994$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Chaubey, Gyaneshwer</contributor><creatorcontrib>Thakur, Mukesh</creatorcontrib><creatorcontrib>Fernandes, Merwyn</creatorcontrib><creatorcontrib>Sathyakumar, Sambandam</creatorcontrib><creatorcontrib>Singh, Sujeet K</creatorcontrib><creatorcontrib>Vijh, Ramesh Kumar</creatorcontrib><creatorcontrib>Han, Jianlin</creatorcontrib><creatorcontrib>Wu, Dong-Dong</creatorcontrib><creatorcontrib>Zhang, Ya-Ping</creatorcontrib><title>Understanding the cryptic introgression and mixed ancestry of Red Junglefowl in India</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Red Junglefowls (RJFs), the wild progenitor of modern day chickens (DCs), are believed to be in genetic endangerment due to introgression of domestic genes through opportunistic matings with domestic or feral chickens. Previous studies from India reported rare hybridization of RJFs in the wild. However, RJF population genetic structure, pattern of gene flow and their admixture with DC populations are poorly understood at the landscape level. We conducted this study with a large sample size, covering the predicted natural distribution range of RJFs in India. We documented strong evidence of directional gene flow from DCs to free-ranging wild RJFs, with the Northeastern RJF population exhibiting the most genetic variants in their nuclear and mitochondrial genomes, indicating it to be the ancestral population from which early radiation may have occurred. The results provide evidence that landscape features do not act as a barrier to gene flow and the distribution pattern could not be explored due to physical sharing or exchange of wild birds in the past when forests were continuous across RJF range in India.</description><subject>Admixtures</subject><subject>Animal Distribution</subject><subject>Animals</subject><subject>Animals, Wild - genetics</subject><subject>Biodiversity</subject><subject>Biology and Life Sciences</subject><subject>Birds</subject><subject>Chickens</subject><subject>Chickens - genetics</subject><subject>Computer and Information Sciences</subject><subject>DNA, Mitochondrial</subject><subject>Evolution, Molecular</subject><subject>Gene Flow</subject><subject>Genetic diversity</subject><subject>Genetic Loci</subject><subject>Genetic structure</subject><subject>Genetic variance</subject><subject>Genomes</subject><subject>Haplotypes</subject><subject>Hybridization</subject><subject>India</subject><subject>Microsatellite 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Junglefowl in India</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2018-10-11</date><risdate>2018</risdate><volume>13</volume><issue>10</issue><spage>e0204351</spage><epage>e0204351</epage><pages>e0204351-e0204351</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Red Junglefowls (RJFs), the wild progenitor of modern day chickens (DCs), are believed to be in genetic endangerment due to introgression of domestic genes through opportunistic matings with domestic or feral chickens. Previous studies from India reported rare hybridization of RJFs in the wild. However, RJF population genetic structure, pattern of gene flow and their admixture with DC populations are poorly understood at the landscape level. We conducted this study with a large sample size, covering the predicted natural distribution range of RJFs in India. We documented strong evidence of directional gene flow from DCs to free-ranging wild RJFs, with the Northeastern RJF population exhibiting the most genetic variants in their nuclear and mitochondrial genomes, indicating it to be the ancestral population from which early radiation may have occurred. The results provide evidence that landscape features do not act as a barrier to gene flow and the distribution pattern could not be explored due to physical sharing or exchange of wild birds in the past when forests were continuous across RJF range in India.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>30307994</pmid><doi>10.1371/journal.pone.0204351</doi><orcidid>https://orcid.org/0000-0003-2609-7579</orcidid><orcidid>https://orcid.org/0000-0002-3671-1328</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Admixtures Animal Distribution Animals Animals, Wild - genetics Biodiversity Biology and Life Sciences Birds Chickens Chickens - genetics Computer and Information Sciences DNA, Mitochondrial Evolution, Molecular Gene Flow Genetic diversity Genetic Loci Genetic structure Genetic variance Genomes Haplotypes Hybridization India Microsatellite Repeats Mitochondria Mutation People and Places Pharmacogenomic Variants Phylogeny Phylogeography Population genetics Poultry Radiation Wildlife conservation |
| title | Understanding the cryptic introgression and mixed ancestry of Red Junglefowl in India |
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