A proteomics approach to discovering natural products and their biosynthetic pathways.
Many natural products with antibiotic, anticancer and antifungal properties are synthesized by nonribosomal peptide synthetases (NRPSs) and polyketide synthases (PKSs). Although genome sequencing has revealed the diversity of these enzymes, identifying new products and their biosynthetic pathways remains challenging. By taking advantage of the size of these enzymes (often >2,000 amino acids) and unique marker ions derived from their common phosphopantetheinyl cofactor, we adapted mass spectrometry-based proteomics to selectively detect NRPS and PKS gene clusters in microbial proteomes without requiring genome sequence information. We detected known NRPS systems in members of the genera Bacillus and Streptomyces, and screened 22 environmental isolates to uncover production of unknown natural products from the hybrid NRPS-PKS zwittermicin A biosynthetic gene cluster. We also discovered an NRPS cluster that generates a seven-residue lipopeptide. This 'protein-first' strategy complements bioassay- and sequence-based approaches by finding expressed gene clusters that produce new natural products.
Bumpus
Stefanie B
SB
Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA.
Evans
Bradley S
BS
Thomas
Paul M
PM
Ntai
Ioanna
I
Kelleher
Neil L
NL
D001407:Bacillus / Q000235:genetics / Q000378:metabolism; D001688:Biological Products / Q000032:analysis / Q000096:biosynthesis* / Q000378:metabolism; D016000:Cluster Analysis; D053263:Gene Regulatory Networks; D055666:Lipopeptides / Q000378:metabolism; D013058:Mass Spectrometry / Q000379:methods; D053858:Metabolic Networks and Pathways; D010204:Pantetheine / Q000031:analogs & derivatives / Q000378:metabolism; D046908:Peptide Biosynthesis, Nucleic Acid-Independent; D010446:Peptide Fragments / Q000378:metabolism; D010453:Peptide Synthases / Q000378:metabolism; D048630:Polyketide Synthases / Q000378:metabolism; D040901:Proteomics / Q000379:methods*; D013302:Streptomyces / Q000235:genetics / Q000378:metabolism
D001688:Biological Products; D055666:Lipopeptides; D010446:Peptide Fragments; D010204:Pantetheine; D048630:Polyketide Synthases; D010453:Peptide Synthases; C003129:4'-phosphopantetheine