Cluster oligonucleotide signatures for rapid identification by sequencing.

ABSTRACT:

Background

Oligonucleotide signatures (signatures) have been widely used for studying microbial diversity and function in wet-lab settings, but using them for accurate in silico identification of organisms from high-throughput sequencing (HTS) data is only a proof of concept. Existing signature design programs for sequence signatures (signatures matching exactly one sequence) or clade signatures (signatures matching every sequence in a phylogenetic clade) are not able to identify all possible polymorphic sites for sequences with high similarity and perform poorly when handling large genome sequencing datasets.

Results

We introduce cluster signatures: subsequences that match perfectly and exclusively any group of sequences in a data set. Cluster signatures provide complete re

SUBMITTER: Zahariev M 

PROVIDER: S-EPMC6284311 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature