Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae)
Autor(a) principal: | |
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Data de Publicação: | 2019 |
Outros Autores: | , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1007/s40415-019-00524-3 http://hdl.handle.net/11449/187611 |
Resumo: | Anathallis (Pleurothallidinae) is a Neotropical orchid genus with over 150 species. Although previous phylogenetic studies suggest the polyphyletism of the genus, there is little information about the group in the literature due to the lack of Anathallis-focused molecular studies and the absence of genomic research in Pleurothallidinae. Here, we sequenced and characterized the complete chloroplast genome (plastome) of Anathallis obovata (Lindl.) Pridgeon & M.W. Chase, the type species of the genus. In addition, we compared its structure and gene content with two Pleurothallidinae species: Masdevallia coccinea Linden ex Lindl. and Masdevallia picturata Rchb. f., and one Laeliinae: Cattleya coccinea Lindl. The plastome of A. obovata is 155,515 bp in length, with a typical quadripartite structure presenting the following measures: LSC with 83,694 bp, IRs with 26,949 bp each and SSC with 17,923 bp. The genes accD, ndhA, ndhB, ndhF have premature stop codons that may be related to a pseudogenization process and probably produce non-functional proteins. The whole-genome alignment of the four plastomes showed no structural variations when comparing Pleurothallidinae and Laeliinae species, but we detect deletion of the ndhF, ndhA, ndhI genes and a reduction in length of ndhH and ndhG in Cattleya crispata. In addition, we observed some differences in the IR borders: the IR/SSC boundary is just within the coding sequence of ycf1 in Pleurothallidinae, creating a short ycf1 fragment in IR, but in Cattleya crispata the SSC contains almost the whole ycf1 gene. These divergences observed between the plastomes of Pleurothallidinae and Laeliinae are possibly intrinsic to the evaluated subtribes. |
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Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae)accDEpidendroideaeNADHNGSycf1Anathallis (Pleurothallidinae) is a Neotropical orchid genus with over 150 species. Although previous phylogenetic studies suggest the polyphyletism of the genus, there is little information about the group in the literature due to the lack of Anathallis-focused molecular studies and the absence of genomic research in Pleurothallidinae. Here, we sequenced and characterized the complete chloroplast genome (plastome) of Anathallis obovata (Lindl.) Pridgeon & M.W. Chase, the type species of the genus. In addition, we compared its structure and gene content with two Pleurothallidinae species: Masdevallia coccinea Linden ex Lindl. and Masdevallia picturata Rchb. f., and one Laeliinae: Cattleya coccinea Lindl. The plastome of A. obovata is 155,515 bp in length, with a typical quadripartite structure presenting the following measures: LSC with 83,694 bp, IRs with 26,949 bp each and SSC with 17,923 bp. The genes accD, ndhA, ndhB, ndhF have premature stop codons that may be related to a pseudogenization process and probably produce non-functional proteins. The whole-genome alignment of the four plastomes showed no structural variations when comparing Pleurothallidinae and Laeliinae species, but we detect deletion of the ndhF, ndhA, ndhI genes and a reduction in length of ndhH and ndhG in Cattleya crispata. In addition, we observed some differences in the IR borders: the IR/SSC boundary is just within the coding sequence of ycf1 in Pleurothallidinae, creating a short ycf1 fragment in IR, but in Cattleya crispata the SSC contains almost the whole ycf1 gene. These divergences observed between the plastomes of Pleurothallidinae and Laeliinae are possibly intrinsic to the evaluated subtribes.Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Programa de Pós-Graduação em Botânica Departamento de Botânica Universidade Federal do Paraná - UFPR, Postal Box 19031Programa de Pós-Graduação em Ciências Biológicas (Biologia Vegetal) Instituto de Biociências Universidade Estadual Paulista “Júlio de Mesquita Filho” – UNESPNúcleo de Fixação de Nitrogênio Departamento de Bioquímica Universidade Federal do Paraná – UFPR, Postal Box 19031Marie Selby Botanical Gardens, 811 South Palm AvenueOrchid Herbarium of Oakes Ames Harvard University Herbaria, 22 Divinity AvenuePrograma de Pós-Graduação em Ciências Biológicas (Biologia Vegetal) Instituto de Biociências Universidade Estadual Paulista “Júlio de Mesquita Filho” – UNESPUniversidade Federal do Paraná (UFPR)Universidade Estadual Paulista (Unesp)Marie Selby Botanical GardensHarvard University HerbariaSilvério Righetto Mauad, Anna Victoriado Nascimento Vieira, LeilaBolson, Mônica [UNESP]de Baura, Valter AntônioBalsanelli, EduardoMaltempi de Souza, EmanuelToscano de Brito, A. L.V.de Camargo Smidt, Eric2019-10-06T15:41:48Z2019-10-06T15:41:48Z2019-06-30info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article345-352http://dx.doi.org/10.1007/s40415-019-00524-3Revista Brasileira de Botanica, v. 42, n. 2, p. 345-352, 2019.1806-99590100-8404http://hdl.handle.net/11449/18761110.1007/s40415-019-00524-32-s2.0-85065037763Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengRevista Brasileira de Botanicainfo:eu-repo/semantics/openAccess2021-10-23T16:30:35Zoai:repositorio.unesp.br:11449/187611Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462021-10-23T16:30:35Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) |
title |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) |
spellingShingle |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) Silvério Righetto Mauad, Anna Victoria accD Epidendroideae NADH NGS ycf1 |
title_short |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) |
title_full |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) |
title_fullStr |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) |
title_full_unstemmed |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) |
title_sort |
Complete chloroplast genome of Anathallis obovata (Orchidaceae: Pleurothallidinae) |
author |
Silvério Righetto Mauad, Anna Victoria |
author_facet |
Silvério Righetto Mauad, Anna Victoria do Nascimento Vieira, Leila Bolson, Mônica [UNESP] de Baura, Valter Antônio Balsanelli, Eduardo Maltempi de Souza, Emanuel Toscano de Brito, A. L.V. de Camargo Smidt, Eric |
author_role |
author |
author2 |
do Nascimento Vieira, Leila Bolson, Mônica [UNESP] de Baura, Valter Antônio Balsanelli, Eduardo Maltempi de Souza, Emanuel Toscano de Brito, A. L.V. de Camargo Smidt, Eric |
author2_role |
author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Federal do Paraná (UFPR) Universidade Estadual Paulista (Unesp) Marie Selby Botanical Gardens Harvard University Herbaria |
dc.contributor.author.fl_str_mv |
Silvério Righetto Mauad, Anna Victoria do Nascimento Vieira, Leila Bolson, Mônica [UNESP] de Baura, Valter Antônio Balsanelli, Eduardo Maltempi de Souza, Emanuel Toscano de Brito, A. L.V. de Camargo Smidt, Eric |
dc.subject.por.fl_str_mv |
accD Epidendroideae NADH NGS ycf1 |
topic |
accD Epidendroideae NADH NGS ycf1 |
description |
Anathallis (Pleurothallidinae) is a Neotropical orchid genus with over 150 species. Although previous phylogenetic studies suggest the polyphyletism of the genus, there is little information about the group in the literature due to the lack of Anathallis-focused molecular studies and the absence of genomic research in Pleurothallidinae. Here, we sequenced and characterized the complete chloroplast genome (plastome) of Anathallis obovata (Lindl.) Pridgeon & M.W. Chase, the type species of the genus. In addition, we compared its structure and gene content with two Pleurothallidinae species: Masdevallia coccinea Linden ex Lindl. and Masdevallia picturata Rchb. f., and one Laeliinae: Cattleya coccinea Lindl. The plastome of A. obovata is 155,515 bp in length, with a typical quadripartite structure presenting the following measures: LSC with 83,694 bp, IRs with 26,949 bp each and SSC with 17,923 bp. The genes accD, ndhA, ndhB, ndhF have premature stop codons that may be related to a pseudogenization process and probably produce non-functional proteins. The whole-genome alignment of the four plastomes showed no structural variations when comparing Pleurothallidinae and Laeliinae species, but we detect deletion of the ndhF, ndhA, ndhI genes and a reduction in length of ndhH and ndhG in Cattleya crispata. In addition, we observed some differences in the IR borders: the IR/SSC boundary is just within the coding sequence of ycf1 in Pleurothallidinae, creating a short ycf1 fragment in IR, but in Cattleya crispata the SSC contains almost the whole ycf1 gene. These divergences observed between the plastomes of Pleurothallidinae and Laeliinae are possibly intrinsic to the evaluated subtribes. |
publishDate |
2019 |
dc.date.none.fl_str_mv |
2019-10-06T15:41:48Z 2019-10-06T15:41:48Z 2019-06-30 |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.1007/s40415-019-00524-3 Revista Brasileira de Botanica, v. 42, n. 2, p. 345-352, 2019. 1806-9959 0100-8404 http://hdl.handle.net/11449/187611 10.1007/s40415-019-00524-3 2-s2.0-85065037763 |
url |
http://dx.doi.org/10.1007/s40415-019-00524-3 http://hdl.handle.net/11449/187611 |
identifier_str_mv |
Revista Brasileira de Botanica, v. 42, n. 2, p. 345-352, 2019. 1806-9959 0100-8404 10.1007/s40415-019-00524-3 2-s2.0-85065037763 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Revista Brasileira de Botanica |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
345-352 |
dc.source.none.fl_str_mv |
Scopus reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
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1799965420788121600 |