The complete plastome sequence of the endangered orchid Oberonia japonica (Orchidaceae)
In this study, we report the complete chloroplast sequence of Oberonia japonica (Maxim.) Makino (Orchidaceae) (NCBI acc. no. KX871235), which is an endangered plant species currently protected by the National Law of Korea. The gene order and content of the O. japonica plastome are similar to those o...
Gespeichert in:
| Veröffentlicht in: | Mitochondrial DNA. Part B. Resources 2017-10, Vol.2 (2), p.711-713 |
|---|---|
| Hauptverfasser: | , , , , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 713 |
|---|---|
| container_issue | 2 |
| container_start_page | 711 |
| container_title | Mitochondrial DNA. Part B. Resources |
| container_volume | 2 |
| creator | Kim, Young-Kee Kwak, Myoung Hai Chung, Myong Gi Kim, Hoe-Won Jo, Sangjin Sohn, Jung-Yeon Cheon, Se-Hwan Kim, Ki-Joong |
| description | In this study, we report the complete chloroplast sequence of Oberonia japonica (Maxim.) Makino (Orchidaceae) (NCBI acc. no. KX871235), which is an endangered plant species currently protected by the National Law of Korea. The gene order and content of the O. japonica plastome are similar to those of a typical orchid plastome. The 11 ndh genes are pseudogenized or lost completely from the plastome of O. japonica. The plastome contains 102 genes, of which 68 are protein-coding genes, 30 and four are transfer RNA (tRNA) and ribosomal RNA (rRNA) genes, respectively. Sixteen genes contain one intron and two genes (clpP and ycf3) have two introns. The complete plastome is 142,996 bp long and consists of one large and small single copy each of 81,669 and 10,969 bp, respectively, separated by two inverted repeats of 25,179 bp. The AT content of the O. japonica plastome is 62.6%. Sixty-five simple sequence repeat (SSR) loci, consisting of 56 mono-SSR, seven di-SSR, and two tri-SSR are scattered along the O. japonica plastome. Some of these plastome SSR loci may be useful for developing genetic markers for the O. japonica populations. Phylogenetic analysis has shown that O. japonica is a member of the Malaxideae. The genus Oberonia forms a monophyletic clade with Dendrobium. |
| doi_str_mv | 10.1080/23802359.2017.1390409 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_doaj_</sourceid><recordid>TN_cdi_proquest_miscellaneous_2479728272</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><doaj_id>oai_doaj_org_article_e2506ef82436477fb67c63272860f17b</doaj_id><sourcerecordid>2479728272</sourcerecordid><originalsourceid>FETCH-LOGICAL-c534t-9c4f38df9e32ff511de88e2d214bf4fe7d615000be5d37f0fb8508013e49b77e3</originalsourceid><addsrcrecordid>eNp9UU1rGzEQFaWlCWl-QouO6cGOPlfaS2kJ_QgEfEnpUWilkS2zu9pK65T8-8qxE5JLTjPMe_PeMA-hj5QsKdHkknFNGJftkhGqlpS3RJD2DTrdzxd74O2z_gSdl7IlhNCGK9Wq9-iEc6F4K-Up-nO7AezSMPUwA556W-Y0AC7wdwejA5wCnisDRm_HNWTwOGW3iR6vOshpjBZv7VSrs_hi9YBYBxY-f0Dvgu0LnB_rGfr94_vt1a_Fzern9dW3m4WTXMyL1onAtQ8tcBaCpNSD1sA8o6ILIoDyDZX19A6k5yqQ0GlZH0A5iLZTCvgZuj7o-mS3ZspxsPneJBvNwyDltbF5jq4HA0ySBoJmgjdCqdA1yjWcKaYbEqjqqtaXg9a06wbwDsY52_6F6EtkjBuzTndGaUIE41Xg4iiQU_1fmc0Qi4O-tyOkXTFM1PczXS0rVR6oLqdSMoQnG0rMPmPzmLHZZ2yOGde9T89vfNp6TLQSvh4IcQwpD_Zfyr03s73vUw7Zji4Ww1_3-A84GrXN</addsrcrecordid><sourcetype>Open Website</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2479728272</pqid></control><display><type>article</type><title>The complete plastome sequence of the endangered orchid Oberonia japonica (Orchidaceae)</title><source>Taylor & Francis Open Access</source><source>DOAJ Directory of Open Access Journals</source><source>EZB-FREE-00999 freely available EZB journals</source><source>PubMed Central</source><creator>Kim, Young-Kee ; Kwak, Myoung Hai ; Chung, Myong Gi ; Kim, Hoe-Won ; Jo, Sangjin ; Sohn, Jung-Yeon ; Cheon, Se-Hwan ; Kim, Ki-Joong</creator><creatorcontrib>Kim, Young-Kee ; Kwak, Myoung Hai ; Chung, Myong Gi ; Kim, Hoe-Won ; Jo, Sangjin ; Sohn, Jung-Yeon ; Cheon, Se-Hwan ; Kim, Ki-Joong</creatorcontrib><description>In this study, we report the complete chloroplast sequence of Oberonia japonica (Maxim.) Makino (Orchidaceae) (NCBI acc. no. KX871235), which is an endangered plant species currently protected by the National Law of Korea. The gene order and content of the O. japonica plastome are similar to those of a typical orchid plastome. The 11 ndh genes are pseudogenized or lost completely from the plastome of O. japonica. The plastome contains 102 genes, of which 68 are protein-coding genes, 30 and four are transfer RNA (tRNA) and ribosomal RNA (rRNA) genes, respectively. Sixteen genes contain one intron and two genes (clpP and ycf3) have two introns. The complete plastome is 142,996 bp long and consists of one large and small single copy each of 81,669 and 10,969 bp, respectively, separated by two inverted repeats of 25,179 bp. The AT content of the O. japonica plastome is 62.6%. Sixty-five simple sequence repeat (SSR) loci, consisting of 56 mono-SSR, seven di-SSR, and two tri-SSR are scattered along the O. japonica plastome. Some of these plastome SSR loci may be useful for developing genetic markers for the O. japonica populations. Phylogenetic analysis has shown that O. japonica is a member of the Malaxideae. The genus Oberonia forms a monophyletic clade with Dendrobium.</description><identifier>ISSN: 2380-2359</identifier><identifier>EISSN: 2380-2359</identifier><identifier>DOI: 10.1080/23802359.2017.1390409</identifier><identifier>PMID: 33473955</identifier><language>eng</language><publisher>England: Taylor & Francis</publisher><subject>endangered species ; Mitogenome Announcement ; ndh gene family loss ; Oberonia japonica ; Orchidaceae ; Platome</subject><ispartof>Mitochondrial DNA. Part B. Resources, 2017-10, Vol.2 (2), p.711-713</ispartof><rights>2017 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group. 2017</rights><rights>2017 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.</rights><rights>2017 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group. 2017 The Author(s).</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c534t-9c4f38df9e32ff511de88e2d214bf4fe7d615000be5d37f0fb8508013e49b77e3</citedby><cites>FETCH-LOGICAL-c534t-9c4f38df9e32ff511de88e2d214bf4fe7d615000be5d37f0fb8508013e49b77e3</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/PMC7800423/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC7800423/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,27479,27901,27902,53766,53768,59116,59117</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/33473955$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kim, Young-Kee</creatorcontrib><creatorcontrib>Kwak, Myoung Hai</creatorcontrib><creatorcontrib>Chung, Myong Gi</creatorcontrib><creatorcontrib>Kim, Hoe-Won</creatorcontrib><creatorcontrib>Jo, Sangjin</creatorcontrib><creatorcontrib>Sohn, Jung-Yeon</creatorcontrib><creatorcontrib>Cheon, Se-Hwan</creatorcontrib><creatorcontrib>Kim, Ki-Joong</creatorcontrib><title>The complete plastome sequence of the endangered orchid Oberonia japonica (Orchidaceae)</title><title>Mitochondrial DNA. Part B. Resources</title><addtitle>Mitochondrial DNA B Resour</addtitle><description>In this study, we report the complete chloroplast sequence of Oberonia japonica (Maxim.) Makino (Orchidaceae) (NCBI acc. no. KX871235), which is an endangered plant species currently protected by the National Law of Korea. The gene order and content of the O. japonica plastome are similar to those of a typical orchid plastome. The 11 ndh genes are pseudogenized or lost completely from the plastome of O. japonica. The plastome contains 102 genes, of which 68 are protein-coding genes, 30 and four are transfer RNA (tRNA) and ribosomal RNA (rRNA) genes, respectively. Sixteen genes contain one intron and two genes (clpP and ycf3) have two introns. The complete plastome is 142,996 bp long and consists of one large and small single copy each of 81,669 and 10,969 bp, respectively, separated by two inverted repeats of 25,179 bp. The AT content of the O. japonica plastome is 62.6%. Sixty-five simple sequence repeat (SSR) loci, consisting of 56 mono-SSR, seven di-SSR, and two tri-SSR are scattered along the O. japonica plastome. Some of these plastome SSR loci may be useful for developing genetic markers for the O. japonica populations. Phylogenetic analysis has shown that O. japonica is a member of the Malaxideae. The genus Oberonia forms a monophyletic clade with Dendrobium.</description><subject>endangered species</subject><subject>Mitogenome Announcement</subject><subject>ndh gene family loss</subject><subject>Oberonia japonica</subject><subject>Orchidaceae</subject><subject>Platome</subject><issn>2380-2359</issn><issn>2380-2359</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>0YH</sourceid><sourceid>DOA</sourceid><recordid>eNp9UU1rGzEQFaWlCWl-QouO6cGOPlfaS2kJ_QgEfEnpUWilkS2zu9pK65T8-8qxE5JLTjPMe_PeMA-hj5QsKdHkknFNGJftkhGqlpS3RJD2DTrdzxd74O2z_gSdl7IlhNCGK9Wq9-iEc6F4K-Up-nO7AezSMPUwA556W-Y0AC7wdwejA5wCnisDRm_HNWTwOGW3iR6vOshpjBZv7VSrs_hi9YBYBxY-f0Dvgu0LnB_rGfr94_vt1a_Fzern9dW3m4WTXMyL1onAtQ8tcBaCpNSD1sA8o6ILIoDyDZX19A6k5yqQ0GlZH0A5iLZTCvgZuj7o-mS3ZspxsPneJBvNwyDltbF5jq4HA0ySBoJmgjdCqdA1yjWcKaYbEqjqqtaXg9a06wbwDsY52_6F6EtkjBuzTndGaUIE41Xg4iiQU_1fmc0Qi4O-tyOkXTFM1PczXS0rVR6oLqdSMoQnG0rMPmPzmLHZZ2yOGde9T89vfNp6TLQSvh4IcQwpD_Zfyr03s73vUw7Zji4Ww1_3-A84GrXN</recordid><startdate>20171017</startdate><enddate>20171017</enddate><creator>Kim, Young-Kee</creator><creator>Kwak, Myoung Hai</creator><creator>Chung, Myong Gi</creator><creator>Kim, Hoe-Won</creator><creator>Jo, Sangjin</creator><creator>Sohn, Jung-Yeon</creator><creator>Cheon, Se-Hwan</creator><creator>Kim, Ki-Joong</creator><general>Taylor & Francis</general><general>Taylor & Francis Group</general><scope>0YH</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20171017</creationdate><title>The complete plastome sequence of the endangered orchid Oberonia japonica (Orchidaceae)</title><author>Kim, Young-Kee ; Kwak, Myoung Hai ; Chung, Myong Gi ; Kim, Hoe-Won ; Jo, Sangjin ; Sohn, Jung-Yeon ; Cheon, Se-Hwan ; Kim, Ki-Joong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c534t-9c4f38df9e32ff511de88e2d214bf4fe7d615000be5d37f0fb8508013e49b77e3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2017</creationdate><topic>endangered species</topic><topic>Mitogenome Announcement</topic><topic>ndh gene family loss</topic><topic>Oberonia japonica</topic><topic>Orchidaceae</topic><topic>Platome</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kim, Young-Kee</creatorcontrib><creatorcontrib>Kwak, Myoung Hai</creatorcontrib><creatorcontrib>Chung, Myong Gi</creatorcontrib><creatorcontrib>Kim, Hoe-Won</creatorcontrib><creatorcontrib>Jo, Sangjin</creatorcontrib><creatorcontrib>Sohn, Jung-Yeon</creatorcontrib><creatorcontrib>Cheon, Se-Hwan</creatorcontrib><creatorcontrib>Kim, Ki-Joong</creatorcontrib><collection>Taylor & Francis Open Access</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>Mitochondrial DNA. Part B. Resources</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kim, Young-Kee</au><au>Kwak, Myoung Hai</au><au>Chung, Myong Gi</au><au>Kim, Hoe-Won</au><au>Jo, Sangjin</au><au>Sohn, Jung-Yeon</au><au>Cheon, Se-Hwan</au><au>Kim, Ki-Joong</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The complete plastome sequence of the endangered orchid Oberonia japonica (Orchidaceae)</atitle><jtitle>Mitochondrial DNA. Part B. Resources</jtitle><addtitle>Mitochondrial DNA B Resour</addtitle><date>2017-10-17</date><risdate>2017</risdate><volume>2</volume><issue>2</issue><spage>711</spage><epage>713</epage><pages>711-713</pages><issn>2380-2359</issn><eissn>2380-2359</eissn><abstract>In this study, we report the complete chloroplast sequence of Oberonia japonica (Maxim.) Makino (Orchidaceae) (NCBI acc. no. KX871235), which is an endangered plant species currently protected by the National Law of Korea. The gene order and content of the O. japonica plastome are similar to those of a typical orchid plastome. The 11 ndh genes are pseudogenized or lost completely from the plastome of O. japonica. The plastome contains 102 genes, of which 68 are protein-coding genes, 30 and four are transfer RNA (tRNA) and ribosomal RNA (rRNA) genes, respectively. Sixteen genes contain one intron and two genes (clpP and ycf3) have two introns. The complete plastome is 142,996 bp long and consists of one large and small single copy each of 81,669 and 10,969 bp, respectively, separated by two inverted repeats of 25,179 bp. The AT content of the O. japonica plastome is 62.6%. Sixty-five simple sequence repeat (SSR) loci, consisting of 56 mono-SSR, seven di-SSR, and two tri-SSR are scattered along the O. japonica plastome. Some of these plastome SSR loci may be useful for developing genetic markers for the O. japonica populations. Phylogenetic analysis has shown that O. japonica is a member of the Malaxideae. The genus Oberonia forms a monophyletic clade with Dendrobium.</abstract><cop>England</cop><pub>Taylor & Francis</pub><pmid>33473955</pmid><doi>10.1080/23802359.2017.1390409</doi><tpages>3</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 2380-2359 |
| ispartof | Mitochondrial DNA. Part B. Resources, 2017-10, Vol.2 (2), p.711-713 |
| issn | 2380-2359 2380-2359 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_2479728272 |
| source | Taylor & Francis Open Access; DOAJ Directory of Open Access Journals; EZB-FREE-00999 freely available EZB journals; PubMed Central |
| subjects | endangered species Mitogenome Announcement ndh gene family loss Oberonia japonica Orchidaceae Platome |
| title | The complete plastome sequence of the endangered orchid Oberonia japonica (Orchidaceae) |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-29T13%3A34%3A27IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_doaj_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=The%20complete%20plastome%20sequence%20of%20the%20endangered%20orchid%20Oberonia%20japonica%20(Orchidaceae)&rft.jtitle=Mitochondrial%20DNA.%20Part%20B.%20Resources&rft.au=Kim,%20Young-Kee&rft.date=2017-10-17&rft.volume=2&rft.issue=2&rft.spage=711&rft.epage=713&rft.pages=711-713&rft.issn=2380-2359&rft.eissn=2380-2359&rft_id=info:doi/10.1080/23802359.2017.1390409&rft_dat=%3Cproquest_doaj_%3E2479728272%3C/proquest_doaj_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=2479728272&rft_id=info:pmid/33473955&rft_doaj_id=oai_doaj_org_article_e2506ef82436477fb67c63272860f17b&rfr_iscdi=true |