gutMDisorder v3.0: an updated database for dysbiosis of the gut and oral microbiota in phenotypes and interventions.
TL;DR
The scope was expanded from gut microbiota to both gut and oral microbiota in humans and mice, and the database was updated to version 3.0 to meet the growing need for integrative resources across body sites.
Abstract
Microbiota plays an essential role in host health, and dysbiosis of microbial communities has been widely associated with diverse phenotypes and intervention responses. With the rapid development of microbiome research, microbiome studies are no longer restricted to gut-derived samples, and the oral microbiota has emerged as another important microbial habitat closely connected with both local and systemic conditions. To meet the growing need for integrative resources across body sites, we updated gutMDisorder to version 3.0. In this version, the scope was expanded from gut microbiota to both gut and oral microbiota in humans and mice. We extensively reviewed previous publications and newly published studies, resulting in 13 402 manually curated literature-based associations under diverse comparison conditions. In addition, raw sequencing datasets from gut and oral samples were collected and reprocessed using standardized workflows, yielding 22 241 raw data-based associations, and corresponding host metadata were manually curated. To facilitate data exploration, gutMDisorder v3.0 provides sample-source-aware browsing, improved filtering options, interactive visualizations for raw data-based associations, and downloadable resources. The backend processing and frontend rendering logic were also optimized to improve page responsiveness and user experience. The database is freely available at https://bio-computing.hrbmu.edu.cn/gutMDisorder/.