Pangenome analysis of Enterobacteria reveals richness of secondary metabolite gene clusters and their associated gene sets.
Synth Syst Biotechnol
; 7(3): 900-910, 2022 Sep.
Article
em En
| MEDLINE
| ID: mdl-35647330
ABSTRACT
In silico genome mining provides easy access to secondary metabolite biosynthetic gene clusters (BGCs) encoding the biosynthesis of many bioactive compounds, which are the basis for many important drugs used in human medicine. However, the association between BGCs and other functions encoded in the genomes of producers have remained elusive. Here, we present a systems biology workflow that integrates genome mining with a detailed pangenome analysis for detecting genes associated with a particular BGC. We analyzed 3,889 enterobacterial genomes and found 13,266 BGCs, represented by 252 distinct BGC families and 347 additional singletons. A pangenome analysis revealed 88 genes putatively associated with a specific BGC coding for the colon cancer-related colibactin that code for diverse metabolic and regulatory functions. The presented workflow opens up the possibility to discover novel secondary metabolites, better understand their physiological roles, and provides a guide to identify and analyze BGC associated gene sets.
BGC, Biosynthetic gene cluster; Colibactin; Enterobacteria; GCF, Gene cluster family; NRPS, Non-ribosomal peptide synthetase; PKS, Polyketide synthase; Pangenome analysis; RiPP, Ribosomally synthesized and post-translationally modified peptide; Secondary metabolites; Secretion systems; T4SS, Type IV Secretion System; T6SS, TypeVI Secretion System; Workflow
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1
Coleções:
01-internacional
Base de dados:
MEDLINE
Tipo de estudo:
Risk_factors_studies
Idioma:
En
Ano de publicação:
2022
Tipo de documento:
Article