eCite Digital Repository

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:Population, Ecological and Evolutionary Genetics
Objective Division:Expanding Knowledge
Objective Group:Expanding Knowledge
Objective Field:Expanding Knowledge in the Biological Sciences
Author:Charleston, M (Associate Professor Michael Charleston)
ID Code:114966
Year Published:2016
Web of Science® Times Cited:14
Deposited By:Mathematics and Physics
Deposited On:2017-03-03
Last Modified:2017-11-01
Downloads:0

Repository Staff Only: item control page