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The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods.

Publication ,  Journal Article
Moncalvo, J-M; Nilsson, RH; Koster, B; Dunham, SM; Bernauer, T; Matheny, PB; Porter, TM; Margaritescu, S; Weiss, M; Garnica, S; Danell, E ...
Published in: Mycologia
November 2006

We reassessed the circumscription of the cantharelloid clade and identified monophyletic groups by using nLSU, nSSU, mtSSU and RPB2 sequence data. Results agreed with earlier studies that placed the genera Cantharellus, Craterellus, Hydnum, Clavulina, Membranomyces, Multiclavula, Sistotrema, Botryobasidium and the family Ceratobasidiaceae in that clade. Phylogenetic analyses support monophyly of all genera except Sistotrema, which was highly polyphyletic. Strongly supported monophyletic groups were: (i) Cantharellus-Craterellus, Hydnum, and the Sistotrema confluens group; (ii) Clavulina-Membranomyces and the S. brinkmannii-oblongisporum group, with Multiclavula being possibly sister of that clade; (iii) the Sistotrema eximum-octosporum group; (iv) Sistotrema adnatum and S. coronilla. Positions of Sistotrema raduloides and S. athelioides were unresolved, as were basal relationships. Botryobasidium was well supported as the sister taxon of all the above taxa, while Ceratobasidiaceae was the most basal lineage. The relationship between Tulasnella and members of the cantharelloid clade will require further scrutiny, although there is cumulative evidence that they are probably sister groups. The rates of molecular evolution of both the large and small nuclear ribosomal RNA genes (nuc-rDNA) are much higher in Cantharellus, Craterellus and Tulasnella than in the other cantharelloid taxa, and analyses of nuc-rDNA sequences strongly placed Tulasnella close to Cantharellus-Craterellus. In contrast analyses with RPB2 and mtSSU sequences placed Tulasnella at the base of the cantharelloid clade. Our attempt to reconstruct a "supertree" from tree topologies resulting from separate analyses that avoided phylogenetic reconstruction problems associated with missing data and/or unalignable sequences proved unsuccessful.

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Published In

Mycologia

DOI

EISSN

1557-2536

ISSN

0027-5514

Publication Date

November 2006

Volume

98

Issue

6

Start / End Page

937 / 948

Related Subject Headings

  • Sequence Analysis, DNA
  • RNA, Ribosomal, 28S
  • RNA, Ribosomal, 18S
  • RNA Polymerase II
  • Phylogeny
  • Mycology & Parasitology
  • Molecular Sequence Data
  • Evolution, Molecular
  • DNA, Ribosomal
  • DNA, Mitochondrial
 

Citation

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Moncalvo, J.-M., Nilsson, R. H., Koster, B., Dunham, S. M., Bernauer, T., Matheny, P. B., … Vilgalys, R. (2006). The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods. Mycologia, 98(6), 937–948. https://doi.org/10.3852/mycologia.98.6.937
Moncalvo, Jean-Marc, R Henrik Nilsson, Brenda Koster, Susie M. Dunham, Torsten Bernauer, P Brandon Matheny, Teresita M. Porter, et al. “The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods.Mycologia 98, no. 6 (November 2006): 937–48. https://doi.org/10.3852/mycologia.98.6.937.
Moncalvo J-M, Nilsson RH, Koster B, Dunham SM, Bernauer T, Matheny PB, et al. The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods. Mycologia. 2006 Nov;98(6):937–48.
Moncalvo, Jean-Marc, et al. “The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods.Mycologia, vol. 98, no. 6, Nov. 2006, pp. 937–48. Epmc, doi:10.3852/mycologia.98.6.937.
Moncalvo J-M, Nilsson RH, Koster B, Dunham SM, Bernauer T, Matheny PB, Porter TM, Margaritescu S, Weiss M, Garnica S, Danell E, Langer G, Langer E, Larsson E, Larsson K-H, Vilgalys R. The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods. Mycologia. 2006 Nov;98(6):937–948.

Published In

Mycologia

DOI

EISSN

1557-2536

ISSN

0027-5514

Publication Date

November 2006

Volume

98

Issue

6

Start / End Page

937 / 948

Related Subject Headings

  • Sequence Analysis, DNA
  • RNA, Ribosomal, 28S
  • RNA, Ribosomal, 18S
  • RNA Polymerase II
  • Phylogeny
  • Mycology & Parasitology
  • Molecular Sequence Data
  • Evolution, Molecular
  • DNA, Ribosomal
  • DNA, Mitochondrial