Reduced metagenome sequencing for strain-resolution taxonomic profiles.

ABSTRACT:

Background

Studies of shifts in microbial community composition has many applications. For studies at species or subspecies levels, the 16S amplicon sequencing lacks resolution and is often replaced by full shotgun sequencing. Due to higher costs, this restricts the number of samples sequenced. As an alternative to a full shotgun sequencing we have investigated the use of Reduced Metagenome Sequencing (RMS) to estimate the composition of a microbial community. This involves the use of double-digested restriction-associated DNA sequencing, which means only a smaller fraction of the genomes are sequenced. The read sets obtained by this approach have properties different from both amplicon and shotgun data, and analysis pipelines for both can either not be used at all or not explore t

SUBMITTER: Snipen L 

PROVIDER: S-EPMC8008692 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature