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Citation for Study 21677

Citation title: "Taxonomy of the traditional medicinal plant genus Ferula (Apiaceae) is confounded by incongruence between nuclear rDNA and plastid DNA".

Study name: "Taxonomy of the traditional medicinal plant genus Ferula (Apiaceae) is confounded by incongruence between nuclear rDNA and plastid DNA".

This study is part of submission 21677 (Status: Published).

Citation

Panahi M., Banasiak L., Piwczynski M., Radoslaw P., Kanani M.R., Oskolski A., Modnicki D., Milobedzka A., & Spalik K. 2018. Taxonomy of the traditional medicinal plant genus Ferula (Apiaceae) is confounded by incongruence between nuclear rDNA and plastid DNA. Botanical Journal of the Linnaean Society, : 1-17.

Authors

• Panahi M.
• Banasiak L. (submitter) +48500176425
• Piwczynski M.
• Radoslaw P.
• Kanani M.R.
• Oskolski A.
• Modnicki D.
• Milobedzka A.
• Spalik K.

Abstract

The aim of this study was to identify major clades in the economically important and taxonomically difficult genus Ferula (Apiaceae tribe Scandiceae subtribe Ferulinae) to provide a classification framework. Phylogenetic relationships among 126 of Ferula spp. and eight species of its sister genus Leutea were evaluated based on nuclear ribosomal (nr) DNA ITS and three plastid regions: the rps16 intron, the rpoC1 intron and the rpoB-trnC intergenic spacer. One hundred and fifty-three accessions were considered including type specimens of seven species. Congruence between nrDNA and plastid DNA data was assessed using a hierarchical likelihood ratio test. Phylogenetic trees were inferred using maximum likelihood and Bayesian methods. Terminals introducing topological conflict were ascertained using two approaches: identifying (1) these with significantly different positions between nrDNA and plastid DNA trees; and (2) a set of rogue taxa in combined trees that, when removed, increased tree resolution and bootstrap support. The results demonstrate significant incongruence between nrDNA and plastid DNA data that persisted after the removal of 41 terminals identified as having significantly different position in nrDNA and plastid DNA trees or after the removal of 13 terminals identified as rogue taxa. Comparison of nrDNA and plastid DNA trees suggest intensive reticulate evolution, particularly in the Irano?Turanian floristic region. Traditional classification systems of the genus are not supported by molecular data, whereas some lineages apparent in molecular trees, particularly Chinese and Mediterranean endemics, are congruent with morphological characters and/or biogeography. We select lectotypes for several infrageneric names and propose a new classification system of the genus with four subgenera and ten sections.

Keywords

Ferulinae ? infrageneric classification ? Leutea ? molecular phylogeny ? reticulate evolution ? typification

External links

• DOI: 10.1093/botlinnean/boy055
• Other URL: http://doi.org/10.1093/botlinnean/boy055

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S21677
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref27699,
  	 author = {Mehrnoush  Panahi and Lukasz  Banasiak and Marcin  Piwczynski and Puchalka  Radoslaw and Mohammad Reza Kanani and Alexei A.  Oskolski and Daniel  Modnicki and Aleksandra  Milobedzka and Krzysztof  Spalik},
  	 title = {Taxonomy of the traditional medicinal plant genus Ferula (Apiaceae) is confounded by incongruence between nuclear rDNA and plastid DNA},
  	 year = {2018},
  	 keywords = {Ferulinae ? infrageneric classification ? Leutea ? molecular phylogeny ? reticulate evolution ? typification},
  	 doi = {10.1093/botlinnean/boy055},
  	 url = {http://doi.org/10.1093/botlinnean/boy055},
  	 pmid = {},
  	 journal = {Botanical Journal of the Linnaean Society},
  	 volume = {},
  	 number = {},
  	 pages = {1--17},
  	 abstract = {The aim of this study was to identify major clades in the economically important and taxonomically difficult genus Ferula (Apiaceae tribe Scandiceae subtribe Ferulinae) to provide a classification framework. Phylogenetic relationships among 126 of Ferula spp. and eight species of its sister genus Leutea were evaluated based on nuclear ribosomal (nr) DNA ITS and three plastid regions: the rps16 intron, the rpoC1 intron and the rpoB-trnC intergenic spacer. One hundred and fifty-three accessions were considered including type specimens of seven species. Congruence between nrDNA and plastid DNA data was assessed using a hierarchical likelihood ratio test. Phylogenetic trees were inferred using maximum likelihood and Bayesian methods. Terminals introducing topological conflict were ascertained using two approaches: identifying (1) these with significantly different positions between nrDNA and plastid DNA trees; and (2) a set of rogue taxa in combined trees that, when removed, increased tree resolution and bootstrap support. The results demonstrate significant incongruence between nrDNA and plastid DNA data that persisted after the removal of 41 terminals identified as having significantly different position in nrDNA and plastid DNA trees or after the removal of 13 terminals identified as rogue taxa. Comparison of nrDNA and plastid DNA trees suggest intensive reticulate evolution, particularly in the Irano?Turanian floristic region. Traditional classification systems of the genus are not supported by molecular data, whereas some lineages apparent in molecular trees, particularly Chinese and Mediterranean endemics, are congruent with morphological characters and/or biogeography. We select lectotypes for several infrageneric names and propose a new classification system of the genus with four subgenera and ten sections.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 27699
  AU  - Panahi,Mehrnoush 
  AU  - Banasiak,Lukasz 
  AU  - Piwczynski,Marcin 
  AU  - Radoslaw,Puchalka 
  AU  - Kanani,Mohammad Reza
  AU  - Oskolski,Alexei A. 
  AU  - Modnicki,Daniel 
  AU  - Milobedzka,Aleksandra 
  AU  - Spalik,Krzysztof 
  T1  - Taxonomy of the traditional medicinal plant genus Ferula (Apiaceae) is confounded by incongruence between nuclear rDNA and plastid DNA
  PY  - 2018
  KW  - Ferulinae ? infrageneric classification ? Leutea ? molecular phylogeny ? reticulate evolution ? typification
  UR  - http://doi.org/10.1093/botlinnean/boy055
  N2  - The aim of this study was to identify major clades in the economically important and taxonomically difficult genus Ferula (Apiaceae tribe Scandiceae subtribe Ferulinae) to provide a classification framework. Phylogenetic relationships among 126 of Ferula spp. and eight species of its sister genus Leutea were evaluated based on nuclear ribosomal (nr) DNA ITS and three plastid regions: the rps16 intron, the rpoC1 intron and the rpoB-trnC intergenic spacer. One hundred and fifty-three accessions were considered including type specimens of seven species. Congruence between nrDNA and plastid DNA data was assessed using a hierarchical likelihood ratio test. Phylogenetic trees were inferred using maximum likelihood and Bayesian methods. Terminals introducing topological conflict were ascertained using two approaches: identifying (1) these with significantly different positions between nrDNA and plastid DNA trees; and (2) a set of rogue taxa in combined trees that, when removed, increased tree resolution and bootstrap support. The results demonstrate significant incongruence between nrDNA and plastid DNA data that persisted after the removal of 41 terminals identified as having significantly different position in nrDNA and plastid DNA trees or after the removal of 13 terminals identified as rogue taxa. Comparison of nrDNA and plastid DNA trees suggest intensive reticulate evolution, particularly in the Irano?Turanian floristic region. Traditional classification systems of the genus are not supported by molecular data, whereas some lineages apparent in molecular trees, particularly Chinese and Mediterranean endemics, are congruent with morphological characters and/or biogeography. We select lectotypes for several infrageneric names and propose a new classification system of the genus with four subgenera and ten sections.
  L3  - 10.1093/botlinnean/boy055
  JF  - Botanical Journal of the Linnaean Society
  VL  - 
  IS  - 
  SP  - 1
  EP  - 17
  ER  -