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PMID: 17563368 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica.

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 104 ·No. 25 ·2007-06-19 ·Pages 10376-81

Udwary DW, Zeigler L, Asolkar RN, Singan V, Lapidus A, Fenical W, Jensen PR, Moore BS

Abstract

Recent fermentation studies have identified actinomycetes of the marine-dwelling genus Salinispora as prolific natural product producers. To further evaluate their biosynthetic potential, we sequenced the 5,183,331-bp S. tropica CNB-440 circular genome and analyzed all identifiable secondary natural product gene clusters. Our analysis shows that S. tropica dedicates a large percentage of its genome ( approximately 9.9%) to natural product assembly, which is greater than previous Streptomyces genome sequences as well as other natural product-producing actinomycetes. The S. tropica genome features polyketide synthase systems of every known formally classified family, nonribosomal peptide synthetases, and several hybrid clusters. Although a few clusters appear to encode molecules previously identified in Streptomyces species, the majority of the 17 biosynthetic loci are novel. Specific chemical information about putative and observed natural product molecules is presented and discussed. In addition, our bioinformatic analysis not only was critical for the structure elucidation of the polyene macrolactam salinilactam A, but its structural analysis aided the genome assembly of the highly repetitive slm loci. This study firmly establishes the genus Salinispora as a rich source of drug-like molecules and importantly reveals the powerful interplay between genomic analysis and traditional natural product isolation studies.

MeSH Terms
Anti-Bacterial Agents/chemistry Base Sequence Chromosome Mapping Chromosomes, Bacterial Computational Biology DNA, Bacterial DNA, Circular Genes, Bacterial Genome, Bacterial Lactams/chemistry Micromonosporaceae/classification,genetics,metabolism Molecular Sequence Data Molecular Structure Multigene Family Peptide Synthases/genetics Phylogeny Polyenes/chemistry Polyketide Synthases/genetics Seawater/microbiology Sequence Analysis, DNA Siderophores
Chemicals
Anti-Bacterial Agents DNA, Bacterial DNA, Circular Lactams Polyenes Siderophores Polyketide Synthases Peptide Synthases
Authors & Affiliations
8 authors, click to expand affiliations / ORCID
Udwary Daniel W
Scripps Institution of Oceanography, University of California at San Diego, La Jolla, CA 92093-0204, USA.
Zeigler Lisa
Asolkar Ratnakar N
Singan Vasanth
Lapidus Alla
Fenical William
Jensen Paul R
Moore Bradley S
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
DOI
10.1073/pnas.0700962104
Published
2007-06-19
Epub
2007-00-11
Pages
10376-81
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC1965521
Subset
IM
Grants
NCI NIH HHS · R01 CA127622 · United States
NCI NIH HHS · R37 CA044848 · United States
NCI NIH HHS · R37 CA44848 · United States
External Links
PubMed source DOI: 10.1073/pnas.0700962104 PMC Full Text View journal details
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