A new myco-heterotrophic genus, Yunorchis, and the molecular phylogenetic relationships of the tribe Calypsoeae (Epidendroideae, Orchidaceae) inferred from plastid and nuclear DNA sequences
We identified a new holomycotrophic orchid that is related to the myco-heterotrophic Calypsoeae. Because chloroplast genes are primarily lacking or are highly divergent, key morphological characters are either reduced or lost from many myco-heterotrophs, and the phylogenetic relationships of weakly...
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| Veröffentlicht in: | PloS one 2015-04, Vol.10 (4), p.e0123382-e0123382 |
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| creator | Zhang, Guo-Qiang Li, Ming-He Su, Yong-Yu Chen, Li-Jun Lan, Si-Ren Liu, Zhong-Jian |
| description | We identified a new holomycotrophic orchid that is related to the myco-heterotrophic Calypsoeae. Because chloroplast genes are primarily lacking or are highly divergent, key morphological characters are either reduced or lost from many myco-heterotrophs, and the phylogenetic relationships of weakly supported paraphyletic Calypsoeae within Epidendroideae have been poorly understood in previous molecular systematic studies. Using chloroplast rbcL, psaB, and matK and nuclear Xdh and ITS sequences, we determined the circumscription and systematic positions of the new orchid and the tribe. The results indicate that the epidendroid taxa include most of the clades that are successively sister to the grade of clades representing previously recognized tribes. Calypsoeae comprising four well-supported clades with 12 genera (except for the previous temporarily placed Wullschlaegelia) is supported as a monophyletic and sister clade to Epidendreae (excluding Coeliinae). The new orchid is nested in Calypsoeae and is a sister to Dactylostalix and/or Calypso. This new holomycotrophic orchid presents a subumbel inflorescence that grows underground, and flower with a long pedicel reputing the ground to open and two fragments at the base of the hook, which are obviously morphologically different from those of Calypsoeae. To accommodate this species in the current generic circumscription, a new genus Yunorchis was created. |
| doi_str_mv | 10.1371/journal.pone.0123382 |
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Because chloroplast genes are primarily lacking or are highly divergent, key morphological characters are either reduced or lost from many myco-heterotrophs, and the phylogenetic relationships of weakly supported paraphyletic Calypsoeae within Epidendroideae have been poorly understood in previous molecular systematic studies. Using chloroplast rbcL, psaB, and matK and nuclear Xdh and ITS sequences, we determined the circumscription and systematic positions of the new orchid and the tribe. The results indicate that the epidendroid taxa include most of the clades that are successively sister to the grade of clades representing previously recognized tribes. Calypsoeae comprising four well-supported clades with 12 genera (except for the previous temporarily placed Wullschlaegelia) is supported as a monophyletic and sister clade to Epidendreae (excluding Coeliinae). The new orchid is nested in Calypsoeae and is a sister to Dactylostalix and/or Calypso. This new holomycotrophic orchid presents a subumbel inflorescence that grows underground, and flower with a long pedicel reputing the ground to open and two fragments at the base of the hook, which are obviously morphologically different from those of Calypsoeae. To accommodate this species in the current generic circumscription, a new genus Yunorchis was created.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0123382</identifier><identifier>PMID: 25902264</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Agriculture ; Burmanniaceae ; China ; Chloroplasts ; Deoxyribonucleic acid ; DNA ; DNA sequencing ; DNA, Chloroplast - genetics ; DNA, Ribosomal Spacer - genetics ; Ericaceae ; Evolution ; Forestry ; Gene sequencing ; Genes ; Genes, Chloroplast ; Govenia ; Heterotrophic Processes - genetics ; Heterotrophs ; Inflorescence - anatomy & histology ; Inflorescence - genetics ; Laboratories ; Molecular biology ; Morphology ; New genera ; Nucleotide sequence ; Nucleotide sequencing ; Orchidaceae ; Orchidaceae - anatomy & histology ; Orchidaceae - classification ; Orchidaceae - genetics ; Phylogenetics ; Phylogeny ; Plant sciences ; Plastids - genetics ; Studies ; Systematic biology ; Tipularia ; Wullschlaegelia</subject><ispartof>PloS one, 2015-04, Vol.10 (4), p.e0123382-e0123382</ispartof><rights>COPYRIGHT 2015 Public Library of Science</rights><rights>2015 Zhang 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>2015 Zhang et al 2015 Zhang et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-3cd27b6d269834adc93707762db174373cfc3adc4caab5cecbd2c571f867c3f53</citedby><cites>FETCH-LOGICAL-c692t-3cd27b6d269834adc93707762db174373cfc3adc4caab5cecbd2c571f867c3f53</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4406536/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4406536/$$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/25902264$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Sun, Genlou</contributor><creatorcontrib>Zhang, Guo-Qiang</creatorcontrib><creatorcontrib>Li, Ming-He</creatorcontrib><creatorcontrib>Su, Yong-Yu</creatorcontrib><creatorcontrib>Chen, Li-Jun</creatorcontrib><creatorcontrib>Lan, Si-Ren</creatorcontrib><creatorcontrib>Liu, Zhong-Jian</creatorcontrib><title>A new myco-heterotrophic genus, Yunorchis, and the molecular phylogenetic relationships of the tribe Calypsoeae (Epidendroideae, Orchidaceae) inferred from plastid and nuclear DNA sequences</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>We identified a new holomycotrophic orchid that is related to the myco-heterotrophic Calypsoeae. 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To accommodate this species in the current generic circumscription, a new genus Yunorchis was created.</description><subject>Agriculture</subject><subject>Burmanniaceae</subject><subject>China</subject><subject>Chloroplasts</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA sequencing</subject><subject>DNA, Chloroplast - genetics</subject><subject>DNA, Ribosomal Spacer - genetics</subject><subject>Ericaceae</subject><subject>Evolution</subject><subject>Forestry</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Genes, Chloroplast</subject><subject>Govenia</subject><subject>Heterotrophic Processes - genetics</subject><subject>Heterotrophs</subject><subject>Inflorescence - anatomy & histology</subject><subject>Inflorescence - genetics</subject><subject>Laboratories</subject><subject>Molecular biology</subject><subject>Morphology</subject><subject>New genera</subject><subject>Nucleotide sequence</subject><subject>Nucleotide sequencing</subject><subject>Orchidaceae</subject><subject>Orchidaceae - anatomy & histology</subject><subject>Orchidaceae - classification</subject><subject>Orchidaceae - genetics</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Plant sciences</subject><subject>Plastids - genetics</subject><subject>Studies</subject><subject>Systematic biology</subject><subject>Tipularia</subject><subject>Wullschlaegelia</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</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>eNqNk99rFDEQxxdRbK3-B6KBgrTQO3eT3WT3RThq1UKx4C_wKWST2duUbLImWfX-OP83c9dr6UkfZB-SzH7mO5nJTJY9L_J5QVjx-spN3gozH52FeV5gQmr8INsvGoJnFOfk4Z39XvYkhKs8r0hN6eNsD1dNjjEt97M_C2ThFxpW0s16iOBd9G7stURLsFM4Qd8n67zsddoKq1DsAQ3OgJyM8GjsV8YlEGJy8GBE1M6GXo8BuW7DRq9bQKfCrMbgQAA6Ohu1Aqu8S4uAE3S5VldCpsMx0rYD70GhzrsBjUaEqNUmsJ2kgRTy7ccFCvBjAishPM0edcIEeLZdD7Kv786-nH6YXVy-Pz9dXMwkbXCcEakwa6nCtKlJKZRsCMsZo1i1BSsJI7KTJJlLKURbSZCtwrJiRVdTJklXkYPs5bXuaFzg28oHXlBWNjUmVZmI82tCOXHFR68H4VfcCc03BueXXPhUJQOctTWDrpOAc1riCtpKpGtWslCkIXmDk9abbbSpHUBJsNELsyO6-8fqni_dT16WOa0ITQJHWwHvUqVC5IMOEowRFty0uXdVM1Ll68wO_0Hvz25LLUVKID1S6hIh16J8UaZGaiipWKLm91DpUzBomdq008m-43C845CYCL_jUkwh8PPPn_6fvfy2y766w_YgTOyDM9OmO3fB8hqU3oXgobstcpHz9ZTdVIOvp4xvpyy5vbj7QLdON2NF_gKm-yY5</recordid><startdate>20150422</startdate><enddate>20150422</enddate><creator>Zhang, Guo-Qiang</creator><creator>Li, Ming-He</creator><creator>Su, Yong-Yu</creator><creator>Chen, Li-Jun</creator><creator>Lan, Si-Ren</creator><creator>Liu, Zhong-Jian</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>IOV</scope><scope>ISR</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>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></search><sort><creationdate>20150422</creationdate><title>A new myco-heterotrophic genus, Yunorchis, and the molecular phylogenetic relationships of the tribe Calypsoeae (Epidendroideae, Orchidaceae) inferred from plastid and nuclear DNA sequences</title><author>Zhang, Guo-Qiang ; Li, Ming-He ; Su, Yong-Yu ; Chen, Li-Jun ; Lan, Si-Ren ; Liu, Zhong-Jian</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-3cd27b6d269834adc93707762db174373cfc3adc4caab5cecbd2c571f867c3f53</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Agriculture</topic><topic>Burmanniaceae</topic><topic>China</topic><topic>Chloroplasts</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA sequencing</topic><topic>DNA, Chloroplast - genetics</topic><topic>DNA, Ribosomal Spacer - genetics</topic><topic>Ericaceae</topic><topic>Evolution</topic><topic>Forestry</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Genes, Chloroplast</topic><topic>Govenia</topic><topic>Heterotrophic Processes - genetics</topic><topic>Heterotrophs</topic><topic>Inflorescence - anatomy & histology</topic><topic>Inflorescence - genetics</topic><topic>Laboratories</topic><topic>Molecular biology</topic><topic>Morphology</topic><topic>New genera</topic><topic>Nucleotide sequence</topic><topic>Nucleotide sequencing</topic><topic>Orchidaceae</topic><topic>Orchidaceae - anatomy & histology</topic><topic>Orchidaceae - classification</topic><topic>Orchidaceae - genetics</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Plant sciences</topic><topic>Plastids - genetics</topic><topic>Studies</topic><topic>Systematic biology</topic><topic>Tipularia</topic><topic>Wullschlaegelia</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Zhang, Guo-Qiang</creatorcontrib><creatorcontrib>Li, Ming-He</creatorcontrib><creatorcontrib>Su, Yong-Yu</creatorcontrib><creatorcontrib>Chen, Li-Jun</creatorcontrib><creatorcontrib>Lan, Si-Ren</creatorcontrib><creatorcontrib>Liu, Zhong-Jian</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Gale In Context: Opposing Viewpoints</collection><collection>Gale In Context: Science</collection><collection>ProQuest Central (Corporate)</collection><collection>Animal Behavior Abstracts</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Nursing & Allied Health Database</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Immunology Abstracts</collection><collection>Meteorological & Geoastrophysical Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Technology Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Materials Science & Engineering Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>Advanced Technologies & Aerospace Collection</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Technology Collection</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Materials Science Collection</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Materials Science Database</collection><collection>Nursing & Allied Health Database (Alumni Edition)</collection><collection>Meteorological & Geoastrophysical Abstracts - 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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>Zhang, Guo-Qiang</au><au>Li, Ming-He</au><au>Su, Yong-Yu</au><au>Chen, Li-Jun</au><au>Lan, Si-Ren</au><au>Liu, Zhong-Jian</au><au>Sun, Genlou</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>A new myco-heterotrophic genus, Yunorchis, and the molecular phylogenetic relationships of the tribe Calypsoeae (Epidendroideae, Orchidaceae) inferred from plastid and nuclear DNA sequences</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2015-04-22</date><risdate>2015</risdate><volume>10</volume><issue>4</issue><spage>e0123382</spage><epage>e0123382</epage><pages>e0123382-e0123382</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>We identified a new holomycotrophic orchid that is related to the myco-heterotrophic Calypsoeae. Because chloroplast genes are primarily lacking or are highly divergent, key morphological characters are either reduced or lost from many myco-heterotrophs, and the phylogenetic relationships of weakly supported paraphyletic Calypsoeae within Epidendroideae have been poorly understood in previous molecular systematic studies. Using chloroplast rbcL, psaB, and matK and nuclear Xdh and ITS sequences, we determined the circumscription and systematic positions of the new orchid and the tribe. The results indicate that the epidendroid taxa include most of the clades that are successively sister to the grade of clades representing previously recognized tribes. Calypsoeae comprising four well-supported clades with 12 genera (except for the previous temporarily placed Wullschlaegelia) is supported as a monophyletic and sister clade to Epidendreae (excluding Coeliinae). The new orchid is nested in Calypsoeae and is a sister to Dactylostalix and/or Calypso. This new holomycotrophic orchid presents a subumbel inflorescence that grows underground, and flower with a long pedicel reputing the ground to open and two fragments at the base of the hook, which are obviously morphologically different from those of Calypsoeae. To accommodate this species in the current generic circumscription, a new genus Yunorchis was created.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>25902264</pmid><doi>10.1371/journal.pone.0123382</doi><oa>free_for_read</oa></addata></record> |
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| issn | 1932-6203 1932-6203 |
| language | eng |
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| subjects | Agriculture Burmanniaceae China Chloroplasts Deoxyribonucleic acid DNA DNA sequencing DNA, Chloroplast - genetics DNA, Ribosomal Spacer - genetics Ericaceae Evolution Forestry Gene sequencing Genes Genes, Chloroplast Govenia Heterotrophic Processes - genetics Heterotrophs Inflorescence - anatomy & histology Inflorescence - genetics Laboratories Molecular biology Morphology New genera Nucleotide sequence Nucleotide sequencing Orchidaceae Orchidaceae - anatomy & histology Orchidaceae - classification Orchidaceae - genetics Phylogenetics Phylogeny Plant sciences Plastids - genetics Studies Systematic biology Tipularia Wullschlaegelia |
| title | A new myco-heterotrophic genus, Yunorchis, and the molecular phylogenetic relationships of the tribe Calypsoeae (Epidendroideae, Orchidaceae) inferred from plastid and nuclear DNA sequences |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-04T21%3A13%3A27IST&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=A%20new%20myco-heterotrophic%20genus,%20Yunorchis,%20and%20the%20molecular%20phylogenetic%20relationships%20of%20the%20tribe%20Calypsoeae%20(Epidendroideae,%20Orchidaceae)%20inferred%20from%20plastid%20and%20nuclear%20DNA%20sequences&rft.jtitle=PloS%20one&rft.au=Zhang,%20Guo-Qiang&rft.date=2015-04-22&rft.volume=10&rft.issue=4&rft.spage=e0123382&rft.epage=e0123382&rft.pages=e0123382-e0123382&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0123382&rft_dat=%3Cgale_plos_%3EA422696357%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=1674982354&rft_id=info:pmid/25902264&rft_galeid=A422696357&rft_doaj_id=oai_doaj_org_article_7b87effce206425eb5ac695c1d393092&rfr_iscdi=true |