sBGC-hm: an atlas of secondary metabolite biosynthetic gene clusters from the human gut microbiome

Huixi Zou; Tianli Sun; Bangqun Jin; Shengqin Wang

doi:10.1093/bioinformatics/btad131

sBGC-hm: an atlas of secondary metabolite biosynthetic gene clusters from the human gut microbiome

Bioinformatics. 2023 Mar 1;39(3):btad131. doi: 10.1093/bioinformatics/btad131.

Authors

Huixi Zou^{1

2

3}, Tianli Sun^{1

2

3}, Bangqun Jin^{1

2

3}, Shengqin Wang^{1

2

3}

Affiliations

¹ National and Local Joint Engineering Research Center of Ecological Treatment Technology for Urban Water Pollution, Wenzhou University, Wenzhou 325035, China.
² Zhejiang Provincial Key Laboratory for Subtropical Water Environment and Marine Biological Resources Protection, Wenzhou University, Wenzhou 325035, China.
³ College of Life and Environmental Science, Wenzhou University, Wenzhou 325035, China.

Abstract

Summary: Microbial secondary metabolites exhibit potential medicinal value. A large number of secondary metabolite biosynthetic gene clusters (BGCs) in the human gut microbiome, which exhibit essential biological activity in microbe-microbe and microbe-host interactions, have not been adequately characterized, making it difficult to prioritize these BGCs for experimental characterization. Here, we present the sBGC-hm, an atlas of secondary metabolite BGCs allows researchers to explore the potential therapeutic benefits of these natural products. One of its key features is the ability to assist in optimizing the BGC structure by utilizing the gene co-occurrence matrix obtained from Human Microbiome Project data. Results are viewable online and can be downloaded as spreadsheets.

Availability and implementation: The database is openly available at https://www.wzubio.com/sbgc. The website is powered by Apache 2 server with PHP and MariaDB.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Biosynthetic Pathways / genetics
Gastrointestinal Microbiome* / genetics
Humans
Microbiota*
Multigene Family