ArticleJournal of clinical microbiology2005
Internal transcribed spacer rRNA gene-based phylogenetic reconstruction using algorithms with local and global sequence alignment for black yeasts and their relatives.
Article in Journal of clinical microbiology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
10 citing papers in PubMed, 27 citations in OpenAlex.
- Article
- Article
- A Model for Trans-Kingdom Pathogenicity inFrontiers in microbiology · 2018Article
- Chromoblastomycosis.Clinical microbiology reviews · 2017Review
- In vitro activities of nine antifungal drugs and their combinations against Phialophora verrucosa.Antimicrobial agents and chemotherapy · 2014Article
- Phylogenetic relationships matter: antifungal susceptibility among clinically relevant yeasts.Antimicrobial agents and chemotherapy · 2014Article
- Barcode identifiers as a practical tool for reliable species assignment of medically important black yeast species.Journal of clinical microbiology · 2012Article
- Simple PCR-based DNA microarray system to identify human pathogenic fungi in skin.Journal of clinical microbiology · 2010Article
- Drought meets acid: three new genera in a dothidealean clade of extremotolerant fungi.Studies in mycology · 2008Article
- Oral phaeohyphomycosis.Journal of clinical pathology · 2007Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Sequences of rRNA gene internal transcribed spacer (ITS) of a standard set of black yeast-like fungal pathogens were compared using two methods: local and global alignments. The latter is based on DNA-walk divergence analysis. This method has become recently available as an algorithm (DNAWD program) which converts sequences into three-dimensional walks. The walks are compared with, or fit to, each other generating global alignments. The DNA-walk geometry defines a proper metric used to create a distance matrix appropriated for phylogenetic reconstruction. In this work, the analyses were carried out for species currently classified in Capronia, Cladophialophora, Exophiala, Fonsecaea, Phialophora, and Ramichloridium. Main groups were verified by small-subunit rRNA gene data. DNAWD applied to ITS2 alone enabled species recognition as well as phylogenetic reconstruction reflecting clades discriminated in small-subunit rRNA gene phylogeny, which was not possible with any other algorithm using local alignment for the same data set. It is concluded that DNAWD provides rapid insight into broader relationships between groups using genes that otherwise would be hardly usable for this purpose.
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