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Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica. / Udwary, Daniel W.; Zeigler, Lisa; Asolkar, Ratnakar N.; Singan, Vasanth; Lapidus, Alla; Fenical, William; Jensen, Paul R.; Moore, Bradley S.

In: Proc Natl Acad Sci U S A, Vol. 104, No. 25, 19.06.2007, p. 10376-10381.

Research output: Contribution to journal › Article › peer-review

Harvard

Udwary, DW, Zeigler, L, Asolkar, RN, Singan, V, Lapidus, A, Fenical, W, Jensen, PR & Moore, BS 2007, 'Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica', Proc Natl Acad Sci U S A, vol. 104, no. 25, pp. 10376-10381. https://doi.org/10.1073/pnas.0700962104

APA

Udwary, D. W., Zeigler, L., Asolkar, R. N., Singan, V., Lapidus, A., Fenical, W., Jensen, P. R., & Moore, B. S. (2007). Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica. Proc Natl Acad Sci U S A, 104(25), 10376-10381. https://doi.org/10.1073/pnas.0700962104

Vancouver

Udwary DW, Zeigler L, Asolkar RN, Singan V, Lapidus A, Fenical W et al. Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica. Proc Natl Acad Sci U S A. 2007 Jun 19;104(25):10376-10381. https://doi.org/10.1073/pnas.0700962104

Author

Udwary, Daniel W. ; Zeigler, Lisa ; Asolkar, Ratnakar N. ; Singan, Vasanth ; Lapidus, Alla ; Fenical, William ; Jensen, Paul R. ; Moore, Bradley S. / Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica. In: Proc Natl Acad Sci U S A. 2007 ; Vol. 104, No. 25. pp. 10376-10381.

BibTeX

@article{2e147058bed84a1380122952eb54e2f3,
title = "Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica",
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 (≈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.",
keywords = "Genome mining, Marine bacteria, Natural products, Polyketide synthase",
author = "Udwary, {Daniel W.} and Lisa Zeigler and Asolkar, {Ratnakar N.} and Vasanth Singan and Alla Lapidus and William Fenical and Jensen, {Paul R.} and Moore, {Bradley S.}",
year = "2007",
month = jun,
day = "19",
doi = "10.1073/pnas.0700962104",
language = "English",
volume = "104",
pages = "10376--10381",
journal = "Proceedings of the National Academy of Sciences of the United States of America",
issn = "0027-8424",
publisher = "National Academy of Sciences",
number = "25",

}

RIS

TY - JOUR

T1 - Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica

AU - Udwary, Daniel W.

AU - Zeigler, Lisa

AU - Asolkar, Ratnakar N.

AU - Singan, Vasanth

AU - Lapidus, Alla

AU - Fenical, William

AU - Jensen, Paul R.

AU - Moore, Bradley S.

PY - 2007/6/19

Y1 - 2007/6/19

N2 - 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 (≈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.

AB - 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 (≈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.

KW - Genome mining

KW - Marine bacteria

KW - Natural products

KW - Polyketide synthase

UR - http://www.scopus.com/inward/record.url?scp=34447302758&partnerID=8YFLogxK

U2 - 10.1073/pnas.0700962104

DO - 10.1073/pnas.0700962104

M3 - Article

C2 - 17563368

VL - 104

SP - 10376

EP - 10381

JO - Proceedings of the National Academy of Sciences of the United States of America

JF - Proceedings of the National Academy of Sciences of the United States of America

SN - 0027-8424

IS - 25

ER -

ID: 5472287