Phylogenetic relationship within the Erythrobasidium clade: Molecular phylogenies, secondary structure, and intron positions inferred from partial sequences of ribosomal RNA and elongation factor-1α genes

Abstract

Extensive investigations of molecular systematics in the basidiomycetous yeasts using the sequences of 26S rDNA (Fell et al., 2000) and internal transcribed spacers (ITSs) (Scorzetti et al., 2002) established that these molecular data are useful tools for the delineation of species. However, the phylogenetic relationships among some taxa derived from the analysis of 26S rDNA sequences were not always identical to those based on the ITS regions. In addition, many branches of the 26S rDNA-based tree were not confirmed statistically, and this was also true for the ITSbased tree. The Erythrobasidium clade (Fell et al., 2000) was an evolutionary lineage of the urediniomycetous yeasts that included Erythrobasidium hasegawianum as a representative species and the delimitation of this clade in the urediniomycetous yeasts was phenotypically supported by the lack of fuPhylogenetic relationship within the Erythrobasidium clade: Molecular phylogenies, secondary structure, and intron positions inferred from partial sequences of ribosomal RNA and elongation factor-1a a genes Phylogenetic relationships within the Erythrobasidium clade as a lineage of the urediniomycetous yeasts were examined using partial regions of 18S rDNA, 5.8S rDNA, 26S rDNA, internal transcribed spacers (ITSs), and elongation factor (EF)-1a a. Combined data analysis of all segments successfully yielded a reliable phylogeny and confirmed the cohesion of species characterized by Q-10(H 2 ) as a major ubiquinone. Differences in secondary structure predicted for a variable region in 26S rDNA corresponded to major divergences in the phylogenetic tree based on the primary sequence. The common presence of a shortened helix in this region was considered to be evidence of monophyly for species with Q-10(H 2 ), Sakaguchia dacryoides, Rhodotorula lactosa, and Rhodotorula lamellibrachiae, although it was not as strongly supported by the combined data tree. The information on intron positions in the EF-1a a gene had potential usefulness in the phylogenetic inference between closely related species.

Phylogeny of yeasts and related filamentous fungi within Pucciniomycotina determined from multigene sequence analyses

“…This clade was consistently resolved and strongly supported in all the trees constructed in this ( Table 3 , Fig. 6 ) and previous studies ( Nagahama et al., 2006 , Boekhout et al., 2011 ). The genus Sakaguchia was treated as ‘ incertae sedis ’ in Aime et al., 2006 , Bauer et al., 2006 and Boekhout et al.…”

“…5 , Fig. 6 ), being in agreement with Nagahama et al., 2006 , Boekhout et al., 2011 and Yurkov et al. (2015) .…”

“…6 ). The marina and aurantiaca clades were also recognised in Scorzetti et al., 2002 , Nagahama et al., 2006 and Boekhout et al. (2011) .…”

Rhodotorula bloemfonteinensis sp. nov., Rhodotorula eucalyptica sp. nov., Rhodotorula orientis sp. nov. and Rhodotorula pini sp. nov., yeasts isolated from monoterpene-rich environments

“…Rhodotorula mucilaginosa CBS 316 T was included to root the tree. In clade A, the subgroups defined by Nagahama et al (2006) as well as our newly described seventh subgroup (Magnisporus) are indicated. Bootstrap percentages (from 1000 replicates) ≥50 % are shown.…”

“…Nagahama et al (2006) defined six robust subgroups within the Erythrobasidium clade (Erythrobasidiales). However, they did not include S. magnisporus in their study.…”