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Nuclear and plastid DNA phylogeny of tribe Cardueae (Compositae) with Hyb-Seq data: A new subtribal classification and a temporal diversification framework.
Herrando-Moraira, Sonia; Calleja, Juan Antonio; Galbany-Casals, Mercè; Garcia-Jacas, Núria; Liu, Jian-Quan; López-Alvarado, Javier; López-Pujol, Jordi; Mandel, Jennifer R; Massó, Sergi; Montes-Moreno, Noemí; Roquet, Cristina; Sáez, Llorenç; Sennikov, Alexander; Susanna, Alfonso; Vilatersana, Roser.
Afiliação
  • Herrando-Moraira S; Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., ES-08038 Barcelona, Spain. Electronic address: sonia.herrando@gmail.com.
  • Calleja JA; Systematics and Evolution of Vascular Plants (UAB) - Associated Unit to CSIC, Departament de Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, ES-08193 Bellaterra, Spain.
  • Galbany-Casals M; Systematics and Evolution of Vascular Plants (UAB) - Associated Unit to CSIC, Departament de Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, ES-08193 Bellaterra, Spain.
  • Garcia-Jacas N; Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., ES-08038 Barcelona, Spain.
  • Liu JQ; Key Laboratory for Bio-Resources and Eco-Environment, College of Life Sciences, Sichuan University, Chengdu, China.
  • López-Alvarado J; Systematics and Evolution of Vascular Plants (UAB) - Associated Unit to CSIC, Departament de Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, ES-08193 Bellaterra, Spain.
  • López-Pujol J; Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., ES-08038 Barcelona, Spain.
  • Mandel JR; Department of Biological Sciences, University of Memphis, Memphis, TN 38152, USA.
  • Massó S; Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., ES-08038 Barcelona, Spain; Systematics and Evolution of Vascular Plants (UAB) - Associated Unit to CSIC, Departament de Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, ES-
  • Montes-Moreno N; Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., ES-08038 Barcelona, Spain.
  • Roquet C; Systematics and Evolution of Vascular Plants (UAB) - Associated Unit to CSIC, Departament de Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, ES-08193 Bellaterra, Spain; Univ. Grenoble Alpes, Univ. Savoie Mont Blanc, CNRS, LECA (Laboratoire d'
  • Sáez L; Systematics and Evolution of Vascular Plants (UAB) - Associated Unit to CSIC, Departament de Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, ES-08193 Bellaterra, Spain.
  • Sennikov A; Botanical Museum, Finnish Museum of Natural History, PO Box 7, FI-00014 University of Helsinki, Finland; Herbarium, Komarov Botanical Institute of Russian Academy of Sciences, Prof. Popov str. 2, 197376 St. Petersburg, Russia.
  • Susanna A; Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., ES-08038 Barcelona, Spain.
  • Vilatersana R; Botanic Institute of Barcelona (IBB, CSIC-ICUB), Pg. del Migdia, s.n., ES-08038 Barcelona, Spain.
Mol Phylogenet Evol ; 137: 313-332, 2019 08.
Article em En | MEDLINE | ID: mdl-31059792
Classification of tribe Cardueae in natural subtribes has always been a challenge due to the lack of support of some critical branches in previous phylogenies based on traditional Sanger markers. With the aim to propose a new subtribal delimitation, we applied a Hyb-Seq approach to a set of 76 Cardueae species representing all subtribes and informal groups defined in the tribe, targeting 1061 nuclear conserved orthology loci (COS) designed for Compositae and obtaining chloroplast coding regions as by-product of off-target reads. For the extraction of the target nuclear data, we used two strategies, PHYLUCE and HybPiper, and 776 and 1055 COS loci were recovered with each of them, respectively. Additionally, 87 chloroplast genes were assembled and annotated. With three datasets, phylogenetic relationships were reconstructed using both concatenation and coalescent approaches. Phylogenetic analyses of the nuclear datasets fully resolved virtually all nodes with very high support. Nuclear and plastid tree topologies are mostly congruent with a very limited number of incongruent nodes. Based on the well-solved phylogenies obtained, we propose a new taxonomic scheme of 12 monophyletic and morphologically consistent subtribes: Carlininae, Cardopatiinae, Echinopsinae, Dipterocominae (new), Xerantheminae (new), Berardiinae (new), Staehelininae (new), Onopordinae (new), Carduinae (redelimited), Arctiinae (new), Saussureinae (new), and Centaureinae. In addition, we further updated the temporal framework for origin and diversification of these subtribes. Our results highlight the power of Hyb-Seq over Sanger sequencing of a few DNA markers in solving phylogenetic relationships of traditionally difficult groups.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Filogenia / Variação Genética / Núcleo Celular / Análise de Sequência de DNA / Plastídeos / DNA de Plantas / Asteraceae Idioma: En Ano de publicação: 2019 Tipo de documento: Article

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Filogenia / Variação Genética / Núcleo Celular / Análise de Sequência de DNA / Plastídeos / DNA de Plantas / Asteraceae Idioma: En Ano de publicação: 2019 Tipo de documento: Article