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Citation for Study 13715

Citation title: "Unravelling the high variability in the nrITS-5.8S sequences of Tulasnellaceae -- a long lasting problem of the most important orchid mycorrhizal fungi.".

Study name: "Unravelling the high variability in the nrITS-5.8S sequences of Tulasnellaceae -- a long lasting problem of the most important orchid mycorrhizal fungi.".

This study is part of submission 13715 (Status: Published).

Citation

Suarez J., Herrera P.I., Martos F., Selosse M., Cruz D.J., & Kottke I. 2012. Unravelling the high variability in the nrITS-5.8S sequences of Tulasnellaceae -- a long lasting problem of the most important orchid mycorrhizal fungi. Fungal Diversity, .

Authors

• Suarez J.
• Herrera P.I. (submitter) 0059372570275
• Martos F.
• Selosse M.
• Cruz D.J.
• Kottke I.

Abstract

Recent studies have shown Tulasnella as the most frequent mycobionts of autotrophic orchids. Molecular phylogeny of the published data revealed, however, inconsistencies in species concepts and taxonomy of Tulasnella challenging understanding of specificity, ecology and biogeography of the symbiotic taxa. The nuclear ribosomal RNA genes, in particular the highly variable internal transcribed spacer region including 5.8S (nrITS-5.8S), are the most widely used genes for phylogenetic studies in fungi. However, the variability in the nrITS-5.8S region is exceptionally high among Tulasnella sequences provoking difficulties in the interpretation of the phylogenetic signal derived from this gene. The aim of the present study was to clarify the high variability in the nrITS-5.8S sequences of Tulasnella in order to improve understanding of the phylogeny and definition of operational taxonomic units. We analyzed the complete nrITS-5.8S and partial 28S ribosomal RNA genes from an extensive data set of Tulasnella including new sequences from tropical orchids. We found eight subsets as meaningful assemblages characterized by distinct sequence polymorphisms of the nrITS-5.8S region. Size differences in ITS1 and ITS2 among subsets were significant. However, the phylogenetic signal from both ITS regions was not constant across the subsets. We recommend the use of 5.8S-ITS2 region to improve interpretation of the high variability in the nrITS-5.8S sequences of Tulasnella.

Keywords

Tulasnella, molecular phylogeny, ribosomal DNA, ITS variability, OTU definition, ITS alignment

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S13715
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref21598,
  	 author = {Juan Pablo  Suarez and Paulo Ignacio Herrera and Florent  Martos and Marc-Andr?  Selosse and Dar?o Javier Cruz and Ingrid  Kottke},
  	 title = {Unravelling the high variability in the nrITS-5.8S sequences of Tulasnellaceae -- a long lasting problem of the most important orchid mycorrhizal fungi.},
  	 year = {2012},
  	 keywords = {Tulasnella, molecular phylogeny, ribosomal DNA, ITS variability, OTU definition, ITS alignment},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {Fungal Diversity},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {Recent studies have shown Tulasnella as the most frequent mycobionts of autotrophic orchids. Molecular phylogeny of the published data revealed, however, inconsistencies in species concepts and taxonomy of Tulasnella challenging understanding of specificity, ecology and biogeography of the symbiotic taxa. The nuclear ribosomal RNA genes, in particular the highly variable internal transcribed spacer region including 5.8S (nrITS-5.8S), are the most widely used genes for phylogenetic studies in fungi. However, the variability in the nrITS-5.8S region is exceptionally high among Tulasnella sequences provoking difficulties in the interpretation of the phylogenetic signal derived from this gene. The aim of the present study was to clarify the high variability in the nrITS-5.8S sequences of Tulasnella in order to improve understanding of the phylogeny and definition of operational taxonomic units. We analyzed the complete nrITS-5.8S and partial 28S ribosomal RNA genes from an extensive data set of Tulasnella including new sequences from tropical orchids. We found eight subsets as meaningful assemblages characterized by distinct sequence polymorphisms of the nrITS-5.8S region. Size differences in ITS1 and ITS2 among subsets were significant. However, the phylogenetic signal from both ITS regions was not constant across the subsets. We recommend the use of 5.8S-ITS2 region to improve interpretation of the high variability in the nrITS-5.8S sequences of Tulasnella.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 21598
  AU  - Suarez,Juan Pablo 
  AU  - Herrera,Paulo Ignacio
  AU  - Martos,Florent 
  AU  - Selosse,Marc-Andr? 
  AU  - Cruz,Dar?o Javier
  AU  - Kottke,Ingrid 
  T1  - Unravelling the high variability in the nrITS-5.8S sequences of Tulasnellaceae -- a long lasting problem of the most important orchid mycorrhizal fungi.
  PY  - 2012
  KW  - Tulasnella
  KW  - molecular phylogeny
  KW  - ribosomal DNA
  KW  - ITS variability
  KW  - OTU definition
  KW  - ITS alignment
  UR  - http://dx.doi.org/
  N2  - Recent studies have shown Tulasnella as the most frequent mycobionts of autotrophic orchids. Molecular phylogeny of the published data revealed, however, inconsistencies in species concepts and taxonomy of Tulasnella challenging understanding of specificity, ecology and biogeography of the symbiotic taxa. The nuclear ribosomal RNA genes, in particular the highly variable internal transcribed spacer region including 5.8S (nrITS-5.8S), are the most widely used genes for phylogenetic studies in fungi. However, the variability in the nrITS-5.8S region is exceptionally high among Tulasnella sequences provoking difficulties in the interpretation of the phylogenetic signal derived from this gene. The aim of the present study was to clarify the high variability in the nrITS-5.8S sequences of Tulasnella in order to improve understanding of the phylogeny and definition of operational taxonomic units. We analyzed the complete nrITS-5.8S and partial 28S ribosomal RNA genes from an extensive data set of Tulasnella including new sequences from tropical orchids. We found eight subsets as meaningful assemblages characterized by distinct sequence polymorphisms of the nrITS-5.8S region. Size differences in ITS1 and ITS2 among subsets were significant. However, the phylogenetic signal from both ITS regions was not constant across the subsets. We recommend the use of 5.8S-ITS2 region to improve interpretation of the high variability in the nrITS-5.8S sequences of Tulasnella.
  L3  - 
  JF  - Fungal Diversity
  VL  - 
  IS  - 
  ER  -