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Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences
Citation
Deshpande, V and Wang, Q and Greenfield, P and Charleston, M and Porras-Alfaro, A and Kuske, CR and Cole, JR and Midgley, DJ and Tran-Dinh, N, Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences, Mycologia, 108, (1) pp. 1-5. ISSN 0027-5514 (2016) [Refereed Article]
Copyright Statement
Copyright 2016 by The Mycological Society of America, Lawrence
DOI: doi:10.3852/14-293
Abstract
Fungi are key organisms in many ecological processes and communities. Rapid and low cost surveys of the fungal members of a community can be undertaken by isolating and sequencing a taxonomically informative genomic region, such as the ITS (internal transcribed spacer), from DNA extracted from a metagenomic sample, and then classifying these sequences to determine which organisms are present. This paper announces the availability of the Warcup ITS training set and shows how it can be used with the Ribosomal Database Project (RDP) Bayesian Classifier to rapidly and accurately identify fungi using ITS sequences. The classifications can be down to species level and use conventional literature-based mycological nomenclature and taxonomic assignments.
Item Details
| Item Type: | Refereed Article |
|---|---|
| Keywords: | ecogenome, fungal classification, fungi, identification, ITS |
| Research Division: | Biological Sciences |
| Research Group: | Genetics |
| Research Field: | Genetics not elsewhere classified |
| Objective Division: | Expanding Knowledge |
| Objective Group: | Expanding knowledge |
| Objective Field: | Expanding knowledge in the biological sciences |
| UTAS Author: | Charleston, M (Professor Michael Charleston) |
| ID Code: | 114966 |
| Year Published: | 2016 |
| Web of Science® Times Cited: | 111 |
| Deposited By: | Mathematics and Physics |
| Deposited On: | 2017-03-03 |
| Last Modified: | 2022-08-24 |
| Downloads: | 0 |
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