Multiple origins and the population genetic structure of Rubus takesimensis (Rosaceae) on Ulleung Island: Implications for the genetic consequences of anagenetic speciation
To determine the origin and genetic consequences of anagenesis in Rubus takesimensis on Ulleung Island, Korea, we compared the genetic diversity and population structure of R. takesimensis with those of its continental progenitor R. crataegifolius. We broadly sampled a total of 315 accessions in 35...
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| description | To determine the origin and genetic consequences of anagenesis in Rubus takesimensis on Ulleung Island, Korea, we compared the genetic diversity and population structure of R. takesimensis with those of its continental progenitor R. crataegifolius. We broadly sampled a total of 315 accessions in 35 populations and sequenced five noncoding regions of chloroplast DNA. Rubus takesimensis emerged as nonmonophyletic and several geographically diverse continental populations were likely responsible for the origin of R. takesimensis; the majority of R. takesimensis accessions were sisters to the clade containing accessions of R. crataegifolius, primarily from the Korean peninsula, while rare accessions from three populations shared common ancestors with the ones from the southern part of the Korean peninsula, Jeju Island, and Japan. A few accessions from the Chusan population originated independently from the Korean peninsula. Of 129 haplotypes, 81 and 48 were found exclusively in R. crataegifolius and R. takesimensis, respectively. We found unusually high genetic diversity in two regions on Ulleung Island and no geographic population structure. For R. crataegifolius, two major haplotype groups were found; one for the northern mainland Korean peninsula, and the other for the southern Korean peninsula and the Japanese archipelago. Compared with populations of R. crataegifolius sampled from Japan, much higher haplotype diversity was found in populations from the Korean peninsula. The patterns of genetic consequences in R. takesimensis need to be verified for other endemic species based on chloroplast DNA and independent nuclear markers to synthesize emerging patterns of anagenetic speciation on Ulleung Island. |
| doi_str_mv | 10.1371/journal.pone.0222707 |
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We broadly sampled a total of 315 accessions in 35 populations and sequenced five noncoding regions of chloroplast DNA. Rubus takesimensis emerged as nonmonophyletic and several geographically diverse continental populations were likely responsible for the origin of R. takesimensis; the majority of R. takesimensis accessions were sisters to the clade containing accessions of R. crataegifolius, primarily from the Korean peninsula, while rare accessions from three populations shared common ancestors with the ones from the southern part of the Korean peninsula, Jeju Island, and Japan. A few accessions from the Chusan population originated independently from the Korean peninsula. Of 129 haplotypes, 81 and 48 were found exclusively in R. crataegifolius and R. takesimensis, respectively. We found unusually high genetic diversity in two regions on Ulleung Island and no geographic population structure. For R. crataegifolius, two major haplotype groups were found; one for the northern mainland Korean peninsula, and the other for the southern Korean peninsula and the Japanese archipelago. Compared with populations of R. crataegifolius sampled from Japan, much higher haplotype diversity was found in populations from the Korean peninsula. The patterns of genetic consequences in R. takesimensis need to be verified for other endemic species based on chloroplast DNA and independent nuclear markers to synthesize emerging patterns of anagenetic speciation on Ulleung Island.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0222707</identifier><identifier>PMID: 31536553</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Animal behavior ; Archipelagoes ; Biodiversity ; Biology and Life Sciences ; Chloroplast DNA ; Chloroplasts ; Deoxyribonucleic acid ; DNA ; DNA, Chloroplast - analysis ; DNA, Chloroplast - genetics ; DNA, Plant - analysis ; DNA, Plant - genetics ; Earth Sciences ; Ecology and Environmental Sciences ; Endemic species ; Flowers & plants ; Genetic aspects ; Genetic diversity ; Genetic Speciation ; Genetic structure ; Genetic Variation ; Genetics, Population ; Geography ; Haplotypes ; Islands ; Japan ; Nucleotide sequence ; People and Places ; Phylogenetics ; Phylogeny ; Phylogeography ; Population ; Population genetics ; Population structure ; Populations ; Republic of Korea ; Rosaceae ; Rubus ; Rubus - classification ; Rubus - genetics ; Rubus - growth & development ; Seeds ; Sequence Analysis, DNA ; Speciation ; Species Specificity ; Studies</subject><ispartof>PloS one, 2019-09, Vol.14 (9), p.e0222707-e0222707</ispartof><rights>COPYRIGHT 2019 Public Library of Science</rights><rights>2019 Yang 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>2019 Yang et al 2019 Yang et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c593t-777c1fb5b9fc98623b958932765f67cff89c8f2c0ccfb1aaf40bb2bec02dad863</citedby><cites>FETCH-LOGICAL-c593t-777c1fb5b9fc98623b958932765f67cff89c8f2c0ccfb1aaf40bb2bec02dad863</cites><orcidid>0000-0003-0559-6782</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/PMC6752786/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6752786/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,864,885,2100,2926,23864,27922,27923,53789,53791,79370,79371</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31536553$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Chiang, Tzen-Yuh</contributor><creatorcontrib>Yang, JiYoung</creatorcontrib><creatorcontrib>Pak, Jae-Hong</creatorcontrib><creatorcontrib>Maki, Masayuki</creatorcontrib><creatorcontrib>Kim, Seung-Chul</creatorcontrib><title>Multiple origins and the population genetic structure of Rubus takesimensis (Rosaceae) on Ulleung Island: Implications for the genetic consequences of anagenetic speciation</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>To determine the origin and genetic consequences of anagenesis in Rubus takesimensis on Ulleung Island, Korea, we compared the genetic diversity and population structure of R. takesimensis with those of its continental progenitor R. crataegifolius. We broadly sampled a total of 315 accessions in 35 populations and sequenced five noncoding regions of chloroplast DNA. Rubus takesimensis emerged as nonmonophyletic and several geographically diverse continental populations were likely responsible for the origin of R. takesimensis; the majority of R. takesimensis accessions were sisters to the clade containing accessions of R. crataegifolius, primarily from the Korean peninsula, while rare accessions from three populations shared common ancestors with the ones from the southern part of the Korean peninsula, Jeju Island, and Japan. A few accessions from the Chusan population originated independently from the Korean peninsula. Of 129 haplotypes, 81 and 48 were found exclusively in R. crataegifolius and R. takesimensis, respectively. We found unusually high genetic diversity in two regions on Ulleung Island and no geographic population structure. For R. crataegifolius, two major haplotype groups were found; one for the northern mainland Korean peninsula, and the other for the southern Korean peninsula and the Japanese archipelago. Compared with populations of R. crataegifolius sampled from Japan, much higher haplotype diversity was found in populations from the Korean peninsula. The patterns of genetic consequences in R. takesimensis need to be verified for other endemic species based on chloroplast DNA and independent nuclear markers to synthesize emerging patterns of anagenetic speciation on Ulleung Island.</description><subject>Animal behavior</subject><subject>Archipelagoes</subject><subject>Biodiversity</subject><subject>Biology and Life Sciences</subject><subject>Chloroplast DNA</subject><subject>Chloroplasts</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA, Chloroplast - analysis</subject><subject>DNA, Chloroplast - genetics</subject><subject>DNA, Plant - analysis</subject><subject>DNA, Plant - genetics</subject><subject>Earth Sciences</subject><subject>Ecology and Environmental Sciences</subject><subject>Endemic species</subject><subject>Flowers & plants</subject><subject>Genetic aspects</subject><subject>Genetic diversity</subject><subject>Genetic Speciation</subject><subject>Genetic structure</subject><subject>Genetic Variation</subject><subject>Genetics, Population</subject><subject>Geography</subject><subject>Haplotypes</subject><subject>Islands</subject><subject>Japan</subject><subject>Nucleotide sequence</subject><subject>People and Places</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Phylogeography</subject><subject>Population</subject><subject>Population genetics</subject><subject>Population structure</subject><subject>Populations</subject><subject>Republic of Korea</subject><subject>Rosaceae</subject><subject>Rubus</subject><subject>Rubus - classification</subject><subject>Rubus - genetics</subject><subject>Rubus - growth & development</subject><subject>Seeds</subject><subject>Sequence Analysis, DNA</subject><subject>Speciation</subject><subject>Species Specificity</subject><subject>Studies</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>DOA</sourceid><recordid>eNptUs1u1DAQjhCIlsIbILDEpRx2cZzYTjggVRU_KxUhVfRsOc44dfHaqZ0g8U48JE42u-qiKgdH4-9n5vNk2escr_OC5x_u_BictOveO1hjQgjH_El2mtcFWTGCi6cP_k-yFzHeYUyLirHn2UmR04JRWpxmf7-PdjC9BeSD6YyLSLoWDbeAet-PVg7GO9SBg8EoFIcwqmEMCazR9diMEQ3yF0SzBRdNROfXPkoFEt6jxLqxFkbXoU20SfMj2mx7a9SsGJH2YXbZS6tUhPsRnII4qUsnD649KDPTXmbPtLQRXi3nWXbz5fPPy2-rqx9fN5cXVytF62JYcc5Vrhva1FrVFSNFU9MqRcEZ1YwrrataVZoorJRucil1iZuGNKAwaWVbseIse7vT7a2PYgk6CkLqMmd1VVcJsdkhWi_vRB_MVoY_wksj5oIPnZAhNW9BVKVqNWdVo1VZAm0k1AQzDHSyh5IkrU-L29hsoVXghiDtkejxjTO3ovO_BeOU8Lnd80Ug-BRhHMTWRAU2xQ5-nPumJU-ek9e7_6CPT7egOpkGME775KsmUXHBMC5JyUqaUOtHUOlrYWvSe4I2qX5EKHcEFXyMAfRhxhyLaaf3zYhpp8Wy04n25mE-B9J-iYt_I2z5SQ</recordid><startdate>20190919</startdate><enddate>20190919</enddate><creator>Yang, JiYoung</creator><creator>Pak, Jae-Hong</creator><creator>Maki, Masayuki</creator><creator>Kim, Seung-Chul</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</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>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope><orcidid>https://orcid.org/0000-0003-0559-6782</orcidid></search><sort><creationdate>20190919</creationdate><title>Multiple origins and the population genetic structure of Rubus takesimensis (Rosaceae) on Ulleung Island: Implications for the genetic consequences of anagenetic speciation</title><author>Yang, JiYoung ; Pak, Jae-Hong ; Maki, Masayuki ; Kim, Seung-Chul</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c593t-777c1fb5b9fc98623b958932765f67cff89c8f2c0ccfb1aaf40bb2bec02dad863</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Animal behavior</topic><topic>Archipelagoes</topic><topic>Biodiversity</topic><topic>Biology and Life Sciences</topic><topic>Chloroplast DNA</topic><topic>Chloroplasts</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA, Chloroplast - 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Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yang, JiYoung</au><au>Pak, Jae-Hong</au><au>Maki, Masayuki</au><au>Kim, Seung-Chul</au><au>Chiang, Tzen-Yuh</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Multiple origins and the population genetic structure of Rubus takesimensis (Rosaceae) on Ulleung Island: Implications for the genetic consequences of anagenetic speciation</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2019-09-19</date><risdate>2019</risdate><volume>14</volume><issue>9</issue><spage>e0222707</spage><epage>e0222707</epage><pages>e0222707-e0222707</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>To determine the origin and genetic consequences of anagenesis in Rubus takesimensis on Ulleung Island, Korea, we compared the genetic diversity and population structure of R. takesimensis with those of its continental progenitor R. crataegifolius. We broadly sampled a total of 315 accessions in 35 populations and sequenced five noncoding regions of chloroplast DNA. Rubus takesimensis emerged as nonmonophyletic and several geographically diverse continental populations were likely responsible for the origin of R. takesimensis; the majority of R. takesimensis accessions were sisters to the clade containing accessions of R. crataegifolius, primarily from the Korean peninsula, while rare accessions from three populations shared common ancestors with the ones from the southern part of the Korean peninsula, Jeju Island, and Japan. A few accessions from the Chusan population originated independently from the Korean peninsula. Of 129 haplotypes, 81 and 48 were found exclusively in R. crataegifolius and R. takesimensis, respectively. We found unusually high genetic diversity in two regions on Ulleung Island and no geographic population structure. For R. crataegifolius, two major haplotype groups were found; one for the northern mainland Korean peninsula, and the other for the southern Korean peninsula and the Japanese archipelago. Compared with populations of R. crataegifolius sampled from Japan, much higher haplotype diversity was found in populations from the Korean peninsula. The patterns of genetic consequences in R. takesimensis need to be verified for other endemic species based on chloroplast DNA and independent nuclear markers to synthesize emerging patterns of anagenetic speciation on Ulleung Island.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>31536553</pmid><doi>10.1371/journal.pone.0222707</doi><orcidid>https://orcid.org/0000-0003-0559-6782</orcidid><oa>free_for_read</oa></addata></record> |
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| source | MEDLINE; DOAJ Directory of Open Access Journals; Public Library of Science (PLoS); EZB-FREE-00999 freely available EZB journals; PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Animal behavior Archipelagoes Biodiversity Biology and Life Sciences Chloroplast DNA Chloroplasts Deoxyribonucleic acid DNA DNA, Chloroplast - analysis DNA, Chloroplast - genetics DNA, Plant - analysis DNA, Plant - genetics Earth Sciences Ecology and Environmental Sciences Endemic species Flowers & plants Genetic aspects Genetic diversity Genetic Speciation Genetic structure Genetic Variation Genetics, Population Geography Haplotypes Islands Japan Nucleotide sequence People and Places Phylogenetics Phylogeny Phylogeography Population Population genetics Population structure Populations Republic of Korea Rosaceae Rubus Rubus - classification Rubus - genetics Rubus - growth & development Seeds Sequence Analysis, DNA Speciation Species Specificity Studies |
| title | Multiple origins and the population genetic structure of Rubus takesimensis (Rosaceae) on Ulleung Island: Implications for the genetic consequences of anagenetic speciation |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-13T15%3A48%3A35IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Multiple%20origins%20and%20the%20population%20genetic%20structure%20of%20Rubus%20takesimensis%20(Rosaceae)%20on%20Ulleung%20Island:%20Implications%20for%20the%20genetic%20consequences%20of%20anagenetic%20speciation&rft.jtitle=PloS%20one&rft.au=Yang,%20JiYoung&rft.date=2019-09-19&rft.volume=14&rft.issue=9&rft.spage=e0222707&rft.epage=e0222707&rft.pages=e0222707-e0222707&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0222707&rft_dat=%3Cgale_plos_%3EA600424645%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=2294169898&rft_id=info:pmid/31536553&rft_galeid=A600424645&rft_doaj_id=oai_doaj_org_article_84cdf768bfc44e5bae92060e50ccfe42&rfr_iscdi=true |