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Citation for Study 11398

Citation title: "Cortinarius species diversity in British Columbia and molecular phylogenetic comparison with European specimen sequences.".

Study name: "Cortinarius species diversity in British Columbia and molecular phylogenetic comparison with European specimen sequences.".

This study is part of submission 11388 (Status: Published).

Citation

Harrower E., Ammirati J.F., Cappuccino A.A., Ceska O., Kranabetter J.M., Kroeger P., Lim S., Taylor T., & Berbee M. 2011. Cortinarius species diversity in British Columbia and molecular phylogenetic comparison with European specimen sequences. Botany, 89(11): 799-810.

Authors

• Harrower E. (submitter) (865) 974-2320
• Ammirati J.F.
• Cappuccino A.A.
• Ceska O.
• Kranabetter J.M.
• Kroeger P.
• Lim S.
• Taylor T.
• Berbee M.

Abstract

Throughout the world, the diversity of fungi remains poorly characterized and Cortinarius is a classical example of a difficult, species-rich, and under-researched mushroom genus. Here, we sequenced and analyzed ribosomal internal transcribed spacer (ITS) sequence barcodes from herbarium specimens to improve understanding of Cortinarius species diversity in British Columbia, Canada. Starting with 962 specimen sequences, 617 from BC herbaria, we present a maximum likelihood tree showing 177 putative Cortinarius species in British Columbia. As a working definition, we considered a ?species? to be a monophyletic clade that included a reliably-identified reference sequence, with a maximum of 3% ITS sequence variation. If no reference sequence was available, ?species? were groups sharing 97% or more sequence identity. By these criteria, 109 putative BC species matched European species and 10 BC species matched species exclusively found in North America. Of the 56 BC species that did not match any reference sequences, some may be new to science, while others likely represent described species without available sequences. By depositing sequences from BC specimens into GenBank and BOLD, and by providing our alignment to TreeBASE, we have supplied the resources necessary to improve accuracy in identifications of Cortinarius in future systematic and ecological studies.

Keywords

Cortinarius, nuclear ribosomal internal transcribed spacer, biodiversity, DNA barcoding

External links

• DOI: 10.1139/b11-065
• Other URL: http://www.nrcresearchpress.com/doi/abs/10.1139/b11-065

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S11398
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref19866,
  	 author = {Emma  Harrower and Joseph F.  Ammirati and Adam A. Cappuccino and Oluna  Ceska and John M. Kranabetter and Paul  Kroeger and SeaRa  Lim and Terry  Taylor and Mary L.   Berbee},
  	 title = {Cortinarius species diversity in British Columbia and molecular phylogenetic comparison with European specimen sequences.},
  	 year = {2011},
  	 keywords = {Cortinarius, nuclear ribosomal internal transcribed spacer, biodiversity, DNA barcoding},
  	 doi = {10.1139/b11-065},
  	 url = {http://www.nrcresearchpress.com/doi/abs/10.1139/b11-065},
  	 pmid = {},
  	 journal = {Botany},
  	 volume = {89},
  	 number = {11},
  	 pages = {799--810},
  	 abstract = {Throughout the world, the diversity of fungi remains poorly characterized and Cortinarius is a classical example of a difficult, species-rich, and under-researched mushroom genus. Here, we sequenced and analyzed ribosomal internal transcribed spacer (ITS) sequence barcodes from herbarium specimens to improve understanding of Cortinarius species diversity in British Columbia, Canada. Starting with 962 specimen sequences, 617 from BC herbaria, we present a maximum likelihood tree showing 177 putative Cortinarius species in British Columbia. As a working definition, we considered a ?species? to be a monophyletic clade that included a reliably-identified reference sequence, with a maximum of 3% ITS sequence variation. If no reference sequence was available, ?species? were groups sharing 97% or more sequence identity. By these criteria, 109 putative BC species matched European species and 10 BC species matched species exclusively found in North America. Of the 56 BC species that did not match any reference sequences, some may be new to science, while others likely represent described species without available sequences.  By depositing sequences from BC specimens into GenBank and BOLD, and by providing our alignment to TreeBASE, we have supplied the resources necessary to improve accuracy in identifications of Cortinarius in future systematic and ecological studies.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 19866
  AU  - Harrower,Emma 
  AU  - Ammirati,Joseph F. 
  AU  - Cappuccino,Adam A.
  AU  - Ceska,Oluna 
  AU  - Kranabetter,John M.
  AU  - Kroeger,Paul 
  AU  - Lim,SeaRa 
  AU  - Taylor,Terry 
  AU  - Berbee,Mary L.  
  T1  - Cortinarius species diversity in British Columbia and molecular phylogenetic comparison with European specimen sequences.
  PY  - 2011
  KW  - Cortinarius
  KW  - nuclear ribosomal internal transcribed spacer
  KW  - biodiversity
  KW  - DNA barcoding
  UR  - http://www.nrcresearchpress.com/doi/abs/10.1139/b11-065
  N2  - Throughout the world, the diversity of fungi remains poorly characterized and Cortinarius is a classical example of a difficult, species-rich, and under-researched mushroom genus. Here, we sequenced and analyzed ribosomal internal transcribed spacer (ITS) sequence barcodes from herbarium specimens to improve understanding of Cortinarius species diversity in British Columbia, Canada. Starting with 962 specimen sequences, 617 from BC herbaria, we present a maximum likelihood tree showing 177 putative Cortinarius species in British Columbia. As a working definition, we considered a ?species? to be a monophyletic clade that included a reliably-identified reference sequence, with a maximum of 3% ITS sequence variation. If no reference sequence was available, ?species? were groups sharing 97% or more sequence identity. By these criteria, 109 putative BC species matched European species and 10 BC species matched species exclusively found in North America. Of the 56 BC species that did not match any reference sequences, some may be new to science, while others likely represent described species without available sequences.  By depositing sequences from BC specimens into GenBank and BOLD, and by providing our alignment to TreeBASE, we have supplied the resources necessary to improve accuracy in identifications of Cortinarius in future systematic and ecological studies.
  L3  - 10.1139/b11-065
  JF  - Botany
  VL  - 89
  IS  - 11
  SP  - 799
  EP  - 810
  ER  -