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Towards a unified paradigm for sequence‐based identification of fungi
TLDR
All fungal species represented by at least two ITS sequences in the international nucleotide sequence databases are now given a unique, stable name of the accession number type, and the term ‘species hypothesis’ (SH) is introduced for the taxa discovered in clustering on different similarity thresholds. Expand
A higher-level phylogenetic classification of the Fungi.
A comprehensive phylogenetic classification of the kingdom Fungi is proposed, with reference to recent molecular phylogenetic analyses, and with input from diverse members of the fungal taxonomicExpand
Reconstructing the early evolution of Fungi using a six-gene phylogeny
TLDR
It is indicated that there may have been at least four independent losses of the flagellum in the kingdom Fungi, and the enigmatic microsporidia seem to be derived from an endoparasitic chytrid ancestor similar to Rozella allomycis, on the earliest diverging branch of the fungal phylogenetic tree. Expand
Major clades of Agaricales: a multilocus phylogenetic overview
TLDR
An overview of the phylogeny of the Agaricales is presented based on a multilocus analysis of a six-gene region supermatrix, which recovered six major clades, which are recognized informally and labeled theAgaricoid, Tricholomatoid, Marasmioid, Pluteoid, Hygrophoroid and Plicaturopsidoid clades. Expand
Improving phylogenetic inference of mushrooms with RPB1 and RPB2 nucleotide sequences (Inocybe; Agaricales).
  • P. B. Matheny
  • Biology, Medicine
  • Molecular phylogenetics and evolution
  • 1 April 2005
TLDR
This study represents the first effort to combine variable regions of RPB1 and RPB2 with nLSU-rDNA for low-level phylogenetic studies in mushroom-forming fungi and suggests the evolution of at least five major lineages in Inocybe. Expand
The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits.
TLDR
A 6-gene, 420-species maximum-likelihood phylogeny of Ascomycota, the largest phylum of Fungi, and a phylogenetic informativeness analysis of all 6 genes and a series of ancestral character state reconstructions support a terrestrial, saprobic ecology as ancestral are presented. Expand
Amylocorticiales ord. nov. and Jaapiales ord. nov.: Early diverging clades of Agaricomycetidae dominated by corticioid forms
TLDR
The Jaapiales is supported as the sister group of the remainder of the Agaricomycetidae, suggesting that the greatest radiation of pileate-stipitate mushrooms resulted from the elaboration of resupinate ancestors. Expand
Out of the Palaeotropics? Historical biogeography and diversification of the cosmopolitan ectomycorrhizal mushroom family Inocybaceae
TLDR
The Inocybaceae initially diversified no later than the Cretaceous in Palaeotropical settings, in association with angiosperms, and accelerated during the Palaeogene in north and south temperate regions, whereas several relictual lineages persisted in the tropics. Expand
Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi).
TLDR
Strong boostrap support and significant posterior probabilities for the first time for the following monophyletic groups are produced, particularly for deep internodes of Basidiomycota, which have been difficult to resolve with confidence using nrDNA data alone. Expand
Lower level relationships in the mushroom genus Cortinarius (Basidiomycota, Agaricales): a comparison of RPB1, RPB2, and ITS phylogenies.
TLDR
It is speculated that sequence information from RNA polymerase II genes have the potential for resolving phylogenetic problems at several levels of the diverse and taxonomically very challenging genus Cortinarius. Expand
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