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Lookup NU author(s): Emeritus Professor Harry Gilbert
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Motivation: A bacterial polysaccharide utilization locus (PUL) is a set of physically linked genes that orchestrate the breakdown of a specific glycan. PULs are prevalent in the Bacteroidetes phylum and are key to the digestion of complex carbohydrates, notably by the human gut microbiota. A given Bacteroidetes genome can encode dozens of different PULs whose boundaries and precise gene content are difficult to predict.Results: Here, we present a fully automated approach for PUL prediction using genomic context and domain annotation alone. By combining the detection of a pair of marker genes with operon prediction using intergenic distances, and queries to the carbohydrate-active enzymes database (www.cazy.org), our predictor achieved above 86% accuracy in two Bacteroides species with extensive experimental PUL characterization.
Author(s): Terrapon N, Lombard V, Gilbert HJ, Henrissat B
Publication type: Article
Publication status: Published
Print publication date: 01/03/2015
Online publication date: 28/10/2014
Acceptance date: 23/10/2014
ISSN (print): 1367-4803
ISSN (electronic): 1460-2059
Publisher: Oxford University Press
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