Hoffmannoscypha, a novel genus of brightly coloured, cupulate Pyronemataceae closely related to Tricharina and Geopora

Abstract

CitationHoffmannoscypha, a novel genus of brightly coloured, cupulate Pyronemataceae closely related to Tricharina and Geopora 2012, 12 (4) AbstractThe rare apothecial, cupulate fungus Geopora pellita (Pyronemataceae) is characterized by a uniquely bright yellow-orange excipulum. We here re-examine its affiliations by use of morphological, molecular phylogenetic and ultrastructural analyses. G. pellita appears as phylogenetically rather isolated, being the sister group of a clade comprising Phaeangium, Picoa, the majority of the Tricharina species, and the remaining Geopora species. Based on its phylogenetic position and its unique combination of morphological characters, we assign G. pellita to Hoffmannoscypha, gen. nov., as H. pellita, comb. nov. As in a previous study, analyses of both large subunit (LSU) and internal transcribed spacer (ITS) ribosomal DNA suggest that the remaining genus Geopora is paraphyletic, with the hypogeous, ptychothecial type species more closely related to Picoa and Phaeangium than to the greyish-brownish cupulate and apothecial Geopora spp., indicating that the latter should be reassigned to the genus Sepultaria. The current study also shows that ITS confirm LSU data regarding the polyphyly of Tricharina.

Contrasted Genetic Diversity, Relevance of Climate and Host Plants, and Comments on the Taxonomic Problems of the Genus Picoa (Pyronemataceae, Pezizales)

“…Results from the present analyses again provide strong evidence on the close relationships between Picoa and Geopora species, particularly Geopora cooperi; and clearly supported the nesting of Picoa within the Pyronemataceae. Several studies supported the deep nesting of Picoa within the Geopora lineage [ 4 , 5 , 7 , 8 , 18 , 37 , 38 ] as a sister taxon of G . cooperi [ 4 , 18 , 37 , 38 ].…”

“…Several studies supported the deep nesting of Picoa within the Geopora lineage [ 4 , 5 , 7 , 8 , 18 , 37 , 38 ] as a sister taxon of G . cooperi [ 4 , 18 , 37 , 38 ]. Perry et al [ 39 ] pointed out a difficulty in delineating Pyronemataceae family due to the absence of clear combinations of characters, either macro- or microscopically.…”

Toward a Novel Multilocus Phylogenetic Taxonomy for the Dermatophytes

“…Five gene regions were amplified: ITS and LSU loci of the rDNA operon [ 29 ] and two protein coding genes. The universal fungal locus ITS1-5.8-ITS2 of the rDNA was amplified with ITS5 [ 30 ] and ITS4 [ 31 ] according to standard protocols [ 32 ]. The D1-D2 region of LSU was amplified using primers LR0R and LR5 [ 33 ] according to conditions as for ITS except for a longer extension time (90 s).…”

“…All PCRs were done in 12.5 μL final PCR volume (CBS-KNAW barcoding lab protocol), using 2.5 μL of the DNA extract, 1.25 μL PCR buffer (Takara, Japan, incl. 2.5 mM MgCl 2 ), 1 μL dNTPs (1 mM stock; Takara, Japan), 0.6 μL dimethylsulfoxide (DMSO; Sigma, The Netherlands), forward-reverse primer 0.25 μL each (10 mM stock), 0.06 μL (5 U) Takara HS Taq polymerase, 7.19 μL MilliQ water [ 32 , 36 ]. PCR products were visualized on 1 % agarose gel.…”

One fungus, which genes? Development and assessment of universal primers for potential secondary fungal DNA barcodes

“…PCR reactions for amplification of the ITS barcode employed primers ITS5/ITS1/ITS1F and ITS4 were performed under standard or semi-nested conditions in 12.5 μL reactions (the CBS-KNAW barcoding lab protocol) containing 2.5 μL purified DNA, 1.25 μL PCR buffer (Takara, Japan, incl. 2.5 mM MgCl 2 ), 1 μL dNTPs (1 mM stock; Takara, Japan), 0.6 μL v/v DMSO (Sigma, Netherlands), forward-reverse primer 0.25 μL each (10 mM stock), 0.06 μL (5 U) Takara HS Taq polymerase, 7.19 μL MilliQ water ( White et al 1990 , Stielow et al 2012 , Yurkov et al 2012 ). PCR conditions for amplifying partial LSU rDNA using primers LR0R and LR5 differed only by their annealing temperature (55 °C instead of 60 °C) and increased cycle extension time (90 s per cycle).…”