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Volumn 12, Issue 12, 2016, Pages 1007-1014

Polyketide and nonribosomal peptide retro-biosynthesis and global gene cluster matching

Author keywords

[No Author keywords available]

Indexed keywords

ACYLTRANSFERASE; ANTHRAMYCIN; APOPTOLIDIN; ARTHROFACTIN; AVERMECTIN; BLEOMYCIN; CEPHALOSPORIN; EPONEMYCIN; ERYTHROMYCIN; KENDOMYCIN; MONENSIN; MYCOPLANECIN; NATURAL PRODUCT; NONRIBOSOMAL PEPTIDE; PENICILLIN DERIVATIVE; PEPTIDE; PIERCIDIN; POLYKETIDE; PSEUDOMONIC ACID; SALINOSPORIMIDE; THIOCORALINE; UNCLASSIFIED DRUG; VANCOMYCIN; YERSINIABACTIN;

EID: 84990060398     PISSN: 15524450     EISSN: 15524469     Source Type: Journal    
DOI: 10.1038/nchembio.2188     Document Type: Article
Times cited : (104)

References (34)
  • 1
    • 84922466451 scopus 로고    scopus 로고
    • A roadmap for natural product discovery based on large-scale genomics and metabolomics
    • Doroghazi, J. R. et al. A roadmap for natural product discovery based on large-scale genomics and metabolomics. Nat. Chem. Biol. 10, 963-968 (2014).
    • (2014) Nat. Chem. Biol. , vol.10 , pp. 963-968
    • Doroghazi, J.R.1
  • 3
    • 84937253653 scopus 로고    scopus 로고
    • Discovery of microbial natural products by activation of silent biosynthetic gene clusters
    • Rutledge, P. J. & Challis, G. L. Discovery of microbial natural products by activation of silent biosynthetic gene clusters. Nat. Rev. Microbiol. 13, 509-523 (2015).
    • (2015) Nat. Rev. Microbiol. , vol.13 , pp. 509-523
    • Rutledge, P.J.1    Challis, G.L.2
  • 4
    • 0025275007 scopus 로고
    • Organization of a cluster of erythromycin genes in Saccharopolyspora erythraea
    • Weber, J. M. et al. Organization of a cluster of erythromycin genes in Saccharopolyspora erythraea. J. Bacteriol. 172, 2372-2383 (1990).
    • (1990) J. Bacteriol. , vol.172 , pp. 2372-2383
    • Weber, J.M.1
  • 5
    • 84939557642 scopus 로고    scopus 로고
    • Minimum Information about a Biosynthetic Gene cluster
    • Medema, M. H. et al. Minimum Information about a Biosynthetic Gene cluster. Nat. Chem. Biol. 11, 625-631 (2015).
    • (2015) Nat. Chem. Biol. , vol.11 , pp. 625-631
    • Medema, M.H.1
  • 6
    • 33748631825 scopus 로고    scopus 로고
    • Assembly-line enzymology for polyketide and nonribosomal peptide antibiotics: Logic, machinery, and mechanisms
    • Fischbach, M. A. & Walsh, C. T. Assembly-line enzymology for polyketide and nonribosomal peptide antibiotics: logic, machinery, and mechanisms. Chem. Rev. 106, 3468-3496 (2006).
    • (2006) Chem. Rev. , vol.106 , pp. 3468-3496
    • Fischbach, M.A.1    Walsh, C.T.2
  • 7
    • 69249202590 scopus 로고    scopus 로고
    • The biosynthetic logic of polyketide diversity
    • Hertweck, C. The biosynthetic logic of polyketide diversity. Angew. Chem. Int. Ed. Engl. 48, 4688-4716 (2009).
    • (2009) Angew. Chem. Int. Ed. Engl. , vol.48 , pp. 4688-4716
    • Hertweck, C.1
  • 8
    • 84880149568 scopus 로고    scopus 로고
    • Nonproteinogenic amino acid building blocks for nonribosomal peptide and hybrid polyketide scaffolds
    • Walsh, C. T., O'Brien, R. V. & Khosla, C. Nonproteinogenic amino acid building blocks for nonribosomal peptide and hybrid polyketide scaffolds. Angew. Chem. Int. Ed. Engl. 52, 7098-7124 (2013).
    • (2013) Angew. Chem. Int. Ed. Engl. , vol.52 , pp. 7098-7124
    • Walsh, C.T.1    O'Brien, R.V.2    Khosla, C.3
  • 9
    • 84942761231 scopus 로고    scopus 로고
    • An automated Genomes-to-Natural Products platform (GNP) for the discovery of modular natural products
    • Johnston, C. W. et al. An automated Genomes-to-Natural Products platform (GNP) for the discovery of modular natural products. Nat. Commun. 6, 8421 (2015).
    • (2015) Nat. Commun. , vol.6 , pp. 8421
    • Johnston, C.W.1
  • 10
    • 84928549042 scopus 로고    scopus 로고
    • The colibactin warhead crosslinks DNA
    • Vizcaino, M. I. & Crawford, J. M. The colibactin warhead crosslinks DNA. Nat. Chem. 7, 411-417 (2015).
    • (2015) Nat. Chem. , vol.7 , pp. 411-417
    • Vizcaino, M.I.1    Crawford, J.M.2
  • 11
    • 77949363508 scopus 로고    scopus 로고
    • Closthioamide: An unprecedented polythioamide antibiotic from the strictly anaerobic bacterium Clostridium cellulolyticum
    • Lincke, T., Behnken, S., Ishida, K., Roth, M. & Hertweck, C. Closthioamide: an unprecedented polythioamide antibiotic from the strictly anaerobic bacterium Clostridium cellulolyticum. Angew. Chem. Int. Ed. Engl. 49, 2011-2013 (2010).
    • (2010) Angew. Chem. Int. Ed. Engl. , vol.49 , pp. 2011-2013
    • Lincke, T.1    Behnken, S.2    Ishida, K.3    Roth, M.4    Hertweck, C.5
  • 12
    • 77957709176 scopus 로고    scopus 로고
    • Induced biosynthesis of cryptic polyketide metabolites in a Burkholderia thailandensis quorum sensing mutant
    • Ishida, K., Lincke, T., Behnken, S. & Hertweck, C. Induced biosynthesis of cryptic polyketide metabolites in a Burkholderia thailandensis quorum sensing mutant. J. Am. Chem. Soc. 132, 13966-13968 (2010).
    • (2010) J. Am. Chem. Soc. , vol.132 , pp. 13966-13968
    • Ishida, K.1    Lincke, T.2    Behnken, S.3    Hertweck, C.4
  • 13
    • 84979859096 scopus 로고    scopus 로고
    • AntiSMASH 3. 0 - A comprehensive resource for the genome mining of biosynthetic gene clusters
    • Weber, T. et al. antiSMASH 3. 0-a comprehensive resource for the genome mining of biosynthetic gene clusters. Nucleic Acids Res. 43, W237-W243 (2015).
    • (2015) Nucleic Acids Res. , vol.43 , pp. W237-W243
    • Weber, T.1
  • 14
    • 84949999706 scopus 로고    scopus 로고
    • Genomes to natural products PRediction Informatics for Secondary Metabolomes (PRISM)
    • Skinnider, M. A. et al. Genomes to natural products PRediction Informatics for Secondary Metabolomes (PRISM). Nucleic Acids Res. 43, 9645-9662 (2015).
    • (2015) Nucleic Acids Res. , vol.43 , pp. 9645-9662
    • Skinnider, M.A.1
  • 15
    • 77952517931 scopus 로고    scopus 로고
    • Biosynthesis: Is it time to go retro?
    • Bachmann, B. O. Biosynthesis: is it time to go retro? Nat. Chem. Biol. 6, 390-393 (2010).
    • (2010) Nat. Chem. Biol. , vol.6 , pp. 390-393
    • Bachmann, B.O.1
  • 16
    • 64249084052 scopus 로고    scopus 로고
    • Complex enzymes in microbial natural product biosynthesis, part A: Overview articles and peptides
    • Academic Press
    • Bachmann, B. O. & Ravel, J. Complex enzymes in microbial natural product biosynthesis, part A: overview articles and peptides. in Methods in Enzymology 458, 181-217 (Academic Press, 2009).
    • (2009) Methods in Enzymology , vol.458 , pp. 181-217
    • Bachmann, B.O.1    Ravel, J.2
  • 17
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul, S. F. et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402 (1997).
    • (1997) Nucleic Acids Res. , vol.25 , pp. 3389-3402
    • Altschul, S.F.1
  • 18
    • 84876340080 scopus 로고    scopus 로고
    • Classification of the adenylation and acyl-transferase activity of NRPS and PKS systems using ensembles of substrate specific hidden Markov models
    • Khayatt, B. I., Overmars, L., Siezen, R. J. & Francke, C. Classification of the adenylation and acyl-transferase activity of NRPS and PKS systems using ensembles of substrate specific hidden Markov models. PLoS One 8, e62136 (2013).
    • (2013) PLoS One , vol.8 , pp. e62136
    • Khayatt, B.I.1    Overmars, L.2    Siezen, R.J.3    Francke, C.4
  • 20
    • 33745135773 scopus 로고    scopus 로고
    • Recent developments of the chemistry development kit (CDK)-an open-source Java library for chemo-and bioinformatics
    • Steinbeck, C. et al. Recent developments of the chemistry development kit (CDK)-an open-source java library for chemo-and bioinformatics. Curr. Pharm. Des. 12, 2111-2120 (2006).
    • (2006) Curr. Pharm. Des. , vol.12 , pp. 2111-2120
    • Steinbeck, C.1
  • 22
    • 73349126460 scopus 로고    scopus 로고
    • Emergent gene order in a model of modular polyketide synthases
    • Callahan, B., Thattai, M. & Shraiman, B. I. Emergent gene order in a model of modular polyketide synthases. Proc. Natl. Acad. Sci. USA 106, 19410-19415 (2009).
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 19410-19415
    • Callahan, B.1    Thattai, M.2    Shraiman, B.I.3
  • 23
    • 9944250036 scopus 로고    scopus 로고
    • Structural aspects of non-ribosomal peptide biosynthesis
    • Challis, G. L. & Naismith, J. H. Structural aspects of non-ribosomal peptide biosynthesis. Curr. Opin. Struct. Biol. 14, 748-756 (2004).
    • (2004) Curr. Opin. Struct. Biol. , vol.14 , pp. 748-756
    • Challis, G.L.1    Naismith, J.H.2
  • 25
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • Smith, T. F. & Waterman, M. S. Identification of common molecular subsequences. J. Mol. Biol. 147, 195-197 (1981).
    • (1981) J. Mol. Biol. , vol.147 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 26
    • 0014757386 scopus 로고
    • A general method applicable to the search for similarities in the amino acid sequence of two proteins
    • Needleman, S. B. & Wunsch, C. D. A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol. 48, 443-453 (1970).
    • (1970) J. Mol. Biol. , vol.48 , pp. 443-453
    • Needleman, S.B.1    Wunsch, C.D.2
  • 27
    • 0001008029 scopus 로고
    • An efficient method for finding the minimum of a function of several variables without calculating derivatives
    • Powell, M. J. D. An efficient method for finding the minimum of a function of several variables without calculating derivatives. Comput. J. 7, 155-162 (1964).
    • (1964) Comput. J. , vol.7 , pp. 155-162
    • Powell, M.J.D.1
  • 29
    • 84862999012 scopus 로고    scopus 로고
    • Mass spectral molecular networking of living microbial colonies
    • Watrous, J. et al. Mass spectral molecular networking of living microbial colonies. Proc. Natl. Acad. Sci. USA 109, E1743-E1752 (2012).
    • (2012) Proc. Natl. Acad. Sci. USA , vol.109 , pp. E1743-E1752
    • Watrous, J.1
  • 30
    • 0013927106 scopus 로고
    • The structure of lucensomycin. Part i
    • Gaudiano, G., Bravo, P. & Qiulico, A. The structure of lucensomycin. Part I. Tetrahedr. Lett. 7, 3559-3565 (1966).
    • (1966) Tetrahedr. Lett. , vol.7 , pp. 3559-3565
    • Gaudiano, G.1    Bravo, P.2    Qiulico, A.3
  • 31
    • 0023743260 scopus 로고
    • Novel antifungal antibiotics octacosamicins A and B. II. the structure elucidation using various NMR spectroscopic methods
    • Dobashi, K., Naganawa, H., Takahashi, Y., Takita, T. & Takeuchi, T. Novel antifungal antibiotics octacosamicins A and B. II. The structure elucidation using various NMR spectroscopic methods. J. Antibiot. (Tokyo) 41, 1533-1541 (1988).
    • (1988) J. Antibiot. (Tokyo) , vol.41 , pp. 1533-1541
    • Dobashi, K.1    Naganawa, H.2    Takahashi, Y.3    Takita, T.4    Takeuchi, T.5
  • 32
    • 0035825748 scopus 로고    scopus 로고
    • Bogorol A produced in culture by a marine Bacillus sp. Reveals a novel template for cationic peptide antibiotics
    • Barsby, T., Kelly, M. T., Gagné, S. M. & Andersen, R. J. Bogorol A produced in culture by a marine Bacillus sp. reveals a novel template for cationic peptide antibiotics. Org. Lett. 3, 437-440 (2001).
    • (2001) Org. Lett. , vol.3 , pp. 437-440
    • Barsby, T.1    Kelly, M.T.2    Gagné, S.M.3    Andersen, R.J.4
  • 33
    • 38349061819 scopus 로고    scopus 로고
    • Tauramamide, a lipopeptide antibiotic produced in culture by Brevibacillus laterosporus isolated from a marine habitat: Structure elucidation and synthesis
    • Desjardine, K. et al. Tauramamide, a lipopeptide antibiotic produced in culture by Brevibacillus laterosporus isolated from a marine habitat: structure elucidation and synthesis. J. Nat. Prod. 70, 1850-1853 (2007).
    • (2007) J. Nat. Prod. , vol.70 , pp. 1850-1853
    • Desjardine, K.1


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