MetaGeneHunt for protein domain annotation in short-read metagenomes.

ABSTRACT: The annotation of short-reads metagenomes is an essential process to understand the functional potential of sequenced microbial communities. Annotation techniques based solely on the identification of local matches tend to confound local sequence similarity and overall protein homology and thus don't mirror the complex multidomain architecture and the shuffling of functional domains in many protein families. Here, we present MetaGeneHunt to identify specific protein domains and to normalize the hit-counts based on the domain length. We used MetaGeneHunt to investigate the potential for carbohydrate processing in the mouse gastrointestinal tract. We sampled, sequenced, and analyzed the microbial communities associated with the bolus in the stomach, intestine, cecum, and colon of five captiv

SUBMITTER: Berlemont R 

PROVIDER: S-EPMC7205989 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature