CONSTAX: a tool for improved taxonomic resolution of environmental fungal ITS sequences.

ABSTRACT:

Background

One of the most crucial steps in high-throughput sequence-based microbiome studies is the taxonomic assignment of sequences belonging to operational taxonomic units (OTUs). Without taxonomic classification, functional and biological information of microbial communities cannot be inferred or interpreted. The internal transcribed spacer (ITS) region of the ribosomal DNA is the conventional marker region for fungal community studies. While bioinformatics pipelines that cluster reads into OTUs have received much attention in the literature, less attention has been given to the taxonomic classification of these sequences, upon which biological inference is dependent.

Results

Here we compare how three common fungal OTU taxonomic assignment tools (RDP Classifier, UTAX, a

SUBMITTER: Gdanetz K 

PROVIDER: S-EPMC5719527 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature