Phylogenetic relationship within the Erythrobasidium clade: molecular phylogenies, secondary structure, and intron positions inferred from partial sequences of ribosomal RNA and elongation factor-1alpha genes.
J Gen Appl Microbiol, 2006/2;52(1):37-45.
Nagahama T[1], Hamamoto M, Nakase T, Shimamura S, Horikoshi K
Affiliations
PMID: 16598157
Impact factor: 1.356
Abstract
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)-1alpha. Combined data analysis of all segments successfully yielded a reliable phylogeny and confirmed the cohesion of species characterized by Q-10(H2) 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(H2), 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-1alpha gene had potential usefulness in the phylogenetic inference between closely related species.
MeSH terms
Basidiomycota; DNA, Fungal; DNA, Ribosomal; DNA, Ribosomal Spacer; Genes, rRNA; Introns; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation; Peptide Elongation Factor 1; Phylogeny; RNA, Ribosomal; RNA, Ribosomal, 18S; RNA, Ribosomal, 5.8S; Sequence Analysis, DNA; Sequence Homology
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