Amplicon-based metagenomic analysis of mixed fungal samples using proton release amplicon sequencing.

ABSTRACT: Next generation sequencing technology has revolutionised microbiology by allowing concurrent analysis of whole microbial communities. Here we developed and verified similar methods for the analysis of fungal communities using a proton release sequencing platform with the ability to sequence reads of up to 400 bp in length at significant depth. This read length permits the sequencing of amplicons from commonly used fungal identification regions and thereby taxonomic classification. Using the 400 bp sequencing capability, we have sequenced amplicons from the ITS1, ITS2 and LSU fungal regions to a depth of approximately 700,000 raw reads per sample. Representative operational taxonomic units (OTUs) were chosen by the USEARCH algorithm, and identified taxonomically through nucleotide blast (BL

SUBMITTER: Tonge DP 

PROVIDER: S-EPMC3984086 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature