use of parsimony network analysis for the formal delineation of phylogenetic species of yeasts: Candida apicola, Candida azyma, and Candida parazyma sp. nov., cosmopolitan yeasts associated with floricolous insects

• Published in: Antonie van Leeuwenhoek 2010-02, Vol.97 (2), p.155-170
• Main Authors: Lachance, Marc-André, Dobson, Jessica, Wijayanayaka, Dilini N, Smith, Allison M. E
• Format: Article
• Language: English
• Subjects: Animals; Biological and medical sciences; Biomedical and Life Sciences; Candida; Candida - classification; Candida - genetics; Candida - isolation & purification; Cluster Analysis; Comparative studies; Deoxyribonucleic acid; Dispersal; DNA; DNA, Fungal - chemistry; DNA, Fungal - genetics; DNA, Ribosomal - chemistry; DNA, Ribosomal - genetics; DNA, Ribosomal Spacer - chemistry; DNA, Ribosomal Spacer - genetics; Endemic species; Flowers; Fundamental and applied biological sciences. Psychology; Haplotypes; Hibiscus; Insecta - microbiology; Life Sciences; Medical Microbiology; Microbiology; Miscellaneous; Molecular Sequence Data; Mycology; Nectar; New species; Original Paper; Phylogeny; Plant Sciences; Polymorphism, Genetic; rRNA; Sequence Analysis, DNA; Soil Science & Conservation; Taxonomy; Wickerhamiella; Yeast; Yeasts
• ISSN: 0003-6072; 1572-9699
• DOI: 10.1007/s10482-009-9399-3

Parsimony network analysis of rDNA sequences was used to delimit phylogenetic species of yeasts in an objective, formal manner. Many strains assigned to Candida apicola (Starmerella clade), when compared to the type, fell outside the inclusion limits proposed by Kurtzman and Robnett (1998) based on a pair-wise comparison of the large subunit rRNA gene D1/D2 domains. However, when these sequences were analyzed jointly with ITS rDNA sequences by parsimony network analysis, 28 of the 30 strains formed a cohesive set. Two strains, MUCL 45721 and CBS 4353, were excluded from the species, but there was no evident justification to subdivide the rest. A similar analysis of 81 isolates originally assigned to Candida azyma (Wickerhamiella clade) yielded dramatically different results, giving rise to six independent networks corresponding to Candida azyma sensu stricto (18 strains), Candida azymoides (2 strains), a pair of isolates from Australian hibiscus flowers, a single isolate from the same substrate, a single isolate from Malaysian bertam palm nectar, and 57 isolates that are assigned to the new species Candida parazyma (type = UWOPS 91-652.1T = CBS 11563T = NRRL Y-48669T). The strains retained in C. azyma sensu stricto differed from one another by up to four substitutions in their D1/D2 sequences, but their polymorphism at the level of the ITS was considerable and suggested a history of divergence resulting from dispersal. Strains of C. parazyma fell into seven variant haplotypes based on sequences of the rDNA ITS and D1/D2 regions. The most abundant haplotype occurred across the global range of the species. Others were either endemic to Belize, Costa Rica, Rarotonga, or Tennessee, suggestive of vicariance, or occurred across remote localities, offering partial support to the notion of rapid dispersal.