Assembling metagenomes, one community at a time.

ABSTRACT:

Background

Metagenomics allows unprecedented access to uncultured environmental microorganisms. The analysis of metagenomic sequences facilitates gene prediction and annotation, and enables the assembly of draft genomes, including uncultured members of a community. However, while several platforms have been developed for this critical step, there is currently no clear framework for the assembly of metagenomic sequence data.

Results

To assist with selection of an appropriate metagenome assembler we evaluated the capabilities of nine prominent assembly tools on nine publicly-available environmental metagenomes, as well as three simulated datasets. Overall, we found that SPAdes provided the largest contigs and highest N50 values across 6 of the 9 environmental datasets, followe

SUBMITTER: van der Walt AJ 

PROVIDER: S-EPMC5502489 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature