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Multilocus phylogenetic study of the Scheffersomyces yeast clade and characterization of the N-terminal region of xylose reductase gene.

Urbina H, Blackwell M - PLoS ONE (2012)

Bottom Line: The new X-F species are distinctive based on their position in the multilocus phylogenetic analysis and biochemical and morphological characters.The molecular characterization of xylose reductase (XR) indicates that the regions surrounding the conserved domain contain mutations that may enhance the performance of the enzyme in X-F yeasts.The phylogenetic reconstruction using XYL1 or RPB1 was identical to the multilocus analysis, and these loci have potential for rapid identification of cryptic species in this clade.

View Article: PubMed Central - PubMed

Affiliation: Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana, United States of America.

ABSTRACT
Many of the known xylose-fermenting (X-F) yeasts are placed in the Scheffersomyces clade, a group of ascomycete yeasts that have been isolated from plant tissues and in association with lignicolous insects. We formally recognize fourteen species in this clade based on a maximum likelihood (ML) phylogenetic analysis using a multilocus dataset. This clade is divided into three subclades, each of which exhibits the biochemical ability to ferment cellobiose or xylose. New combinations are made for seven species of Candida in the clade, and three X-F taxa associated with rotted hardwood are described: Scheffersomyces illinoinensis (type strain NRRL Y-48827(T) = CBS 12624), Scheffersomyces quercinus (type strain NRRL Y-48825(T) = CBS 12625), and Scheffersomyces virginianus (type strain NRRL Y-48822(T) = CBS 12626). The new X-F species are distinctive based on their position in the multilocus phylogenetic analysis and biochemical and morphological characters. The molecular characterization of xylose reductase (XR) indicates that the regions surrounding the conserved domain contain mutations that may enhance the performance of the enzyme in X-F yeasts. The phylogenetic reconstruction using XYL1 or RPB1 was identical to the multilocus analysis, and these loci have potential for rapid identification of cryptic species in this clade.

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Characterization of S. quercinus, S. illinoinensis, and S. virginianus using RAPID-PCR CDU fingerprinting primers.
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pone-0039128-g003: Characterization of S. quercinus, S. illinoinensis, and S. virginianus using RAPID-PCR CDU fingerprinting primers.

Mentions: Species delimitation of S. quercinus, S. virginianus, and S. illinoinensis, was based on phylogenetic placement, nucleotide differences in the rRNA markers (SSU, ITS and LSU), RPB1 and XYL1, and biochemical assay differences compared with their closest relatives (Table 1, 2 and 3, Fig. 2). In addition, we obtained different banding patterns using CDU RAPID-PCR fingerprinting primers (Fig. 3). These fingerprinting primers have been used previously to discriminate among cryptic yeast species [66], [67], [76].


Multilocus phylogenetic study of the Scheffersomyces yeast clade and characterization of the N-terminal region of xylose reductase gene.

Urbina H, Blackwell M - PLoS ONE (2012)

Characterization of S. quercinus, S. illinoinensis, and S. virginianus using RAPID-PCR CDU fingerprinting primers.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3375246&req=5

pone-0039128-g003: Characterization of S. quercinus, S. illinoinensis, and S. virginianus using RAPID-PCR CDU fingerprinting primers.
Mentions: Species delimitation of S. quercinus, S. virginianus, and S. illinoinensis, was based on phylogenetic placement, nucleotide differences in the rRNA markers (SSU, ITS and LSU), RPB1 and XYL1, and biochemical assay differences compared with their closest relatives (Table 1, 2 and 3, Fig. 2). In addition, we obtained different banding patterns using CDU RAPID-PCR fingerprinting primers (Fig. 3). These fingerprinting primers have been used previously to discriminate among cryptic yeast species [66], [67], [76].

Bottom Line: The new X-F species are distinctive based on their position in the multilocus phylogenetic analysis and biochemical and morphological characters.The molecular characterization of xylose reductase (XR) indicates that the regions surrounding the conserved domain contain mutations that may enhance the performance of the enzyme in X-F yeasts.The phylogenetic reconstruction using XYL1 or RPB1 was identical to the multilocus analysis, and these loci have potential for rapid identification of cryptic species in this clade.

View Article: PubMed Central - PubMed

Affiliation: Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana, United States of America.

ABSTRACT
Many of the known xylose-fermenting (X-F) yeasts are placed in the Scheffersomyces clade, a group of ascomycete yeasts that have been isolated from plant tissues and in association with lignicolous insects. We formally recognize fourteen species in this clade based on a maximum likelihood (ML) phylogenetic analysis using a multilocus dataset. This clade is divided into three subclades, each of which exhibits the biochemical ability to ferment cellobiose or xylose. New combinations are made for seven species of Candida in the clade, and three X-F taxa associated with rotted hardwood are described: Scheffersomyces illinoinensis (type strain NRRL Y-48827(T) = CBS 12624), Scheffersomyces quercinus (type strain NRRL Y-48825(T) = CBS 12625), and Scheffersomyces virginianus (type strain NRRL Y-48822(T) = CBS 12626). The new X-F species are distinctive based on their position in the multilocus phylogenetic analysis and biochemical and morphological characters. The molecular characterization of xylose reductase (XR) indicates that the regions surrounding the conserved domain contain mutations that may enhance the performance of the enzyme in X-F yeasts. The phylogenetic reconstruction using XYL1 or RPB1 was identical to the multilocus analysis, and these loci have potential for rapid identification of cryptic species in this clade.

Show MeSH
Related in: MedlinePlus