메뉴 건너뛰기




Volumn 11, Issue 1, 2012, Pages 85-94

A proteomic survey of nonribosomal peptide and polyketide biosynthesis in actinobacteria

Author keywords

actinobacteria; de novo sequencing; Fourier Transform Mass Spectrometry; natural product biosynthesis; nonribosomal peptide; polyketide

Indexed keywords

NONRIBOSOMAL PEPTIDE SYNTHETASE; POLYKETIDE SYNTHASE;

EID: 84862907959     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr2009115     Document Type: Article
Times cited : (37)

References (37)
  • 1
    • 70349959824 scopus 로고    scopus 로고
    • Nat. Biotechnol. 2009, 27, 951 - 956
    • (2009) Nat. Biotechnol. , vol.27 , pp. 951-956
  • 2
    • 34247109045 scopus 로고    scopus 로고
    • Natural products as sources of new drugs over the last 25 years
    • DOI 10.1021/np068054v
    • Newman, D. J.; Cragg, G. M. Natural products as sources of new drugs over the last 25 years J. Nat. Prod. 2007, 70, 461-477 (Pubitemid 46595760)
    • (2007) Journal of Natural Products , vol.70 , Issue.3 , pp. 461-477
    • Newman, D.J.1    Cragg, G.M.2
  • 3
    • 34250701119 scopus 로고    scopus 로고
    • Mining and engineering natural-product biosynthetic pathways
    • DOI 10.1038/nchembio.2007.7, PII NCHEMBIO20077
    • Wilkinson, B.; Micklefield, J. Mining and engineering natural-product biosynthetic pathways Nat. Chem. Biol. 2007, 3, 379-386 (Pubitemid 46956325)
    • (2007) Nature Chemical Biology , vol.3 , Issue.7 , pp. 379-386
    • Wilkinson, B.1    Micklefield, J.2
  • 4
    • 27544477567 scopus 로고    scopus 로고
    • Discovery of a new peptide natural product by Streptomyces coelicolor genome mining
    • Lautru, S.; Deeth, R. J.; Bailey, L. M.; Challis, G. L. Discovery of a new peptide natural product by Streptomyces coelicolor genome mining Nat. Chem. Biol. 2005, 1, 265-269
    • (2005) Nat. Chem. Biol. , vol.1 , pp. 265-269
    • Lautru, S.1    Deeth, R.J.2    Bailey, L.M.3    Challis, G.L.4
  • 5
    • 33744533954 scopus 로고    scopus 로고
    • Microbial genomics for the improvement of natural product discovery
    • DOI 10.1016/j.mib.2006.04.002, PII S1369527406000506
    • Van Lanen, S. G.; Shen, B. Microbial genomics for the improvement of natural product discovery Curr. Opin. Microbiol. 2006, 9, 252-260 (Pubitemid 43817616)
    • (2006) Current Opinion in Microbiology , vol.9 , Issue.3 , pp. 252-260
    • Van Lanen, S.G.1    Shen, B.2
  • 6
    • 70349959824 scopus 로고    scopus 로고
    • A proteomics approach to discovering natural products and their biosynthetic pathways
    • Bumpus, S. B.; Evans, B. S.; Thomas, P. M.; Ntai, I.; Kelleher, N. L. A proteomics approach to discovering natural products and their biosynthetic pathways Nat. Biotechnol. 2009, 27, 951-956
    • (2009) Nat. Biotechnol. , vol.27 , pp. 951-956
    • Bumpus, S.B.1    Evans, B.S.2    Thomas, P.M.3    Ntai, I.4    Kelleher, N.L.5
  • 7
    • 33748631825 scopus 로고    scopus 로고
    • Assembly-line enzymology for polyketide and nonribosomal peptide antibiotics: Logic machinery, and mechanisms
    • DOI 10.1021/cr0503097
    • Fischbach, M. A.; Walsh, C. T. Assembly-line enzymology for polyketide and nonribosomal Peptide antibiotics: logic, machinery, and mechanisms Chem. Rev. 2006, 106, 3468-3496 (Pubitemid 44376945)
    • (2006) Chemical Reviews , vol.106 , Issue.8 , pp. 3468-3496
    • Fischbach, M.A.1    Walsh, C.T.2
  • 8
    • 79955924618 scopus 로고    scopus 로고
    • Proteomics-based discovery of koranimine, a cyclic imine natural product
    • Evans, B. S.; Ntai, I.; Chen, Y.; Robinson, S. J.; Kelleher, N. L. Proteomics-based discovery of koranimine, a cyclic imine natural product J. Am. Chem. Soc. 2011, 133, 7316-7319
    • (2011) J. Am. Chem. Soc. , vol.133 , pp. 7316-7319
    • Evans, B.S.1    Ntai, I.2    Chen, Y.3    Robinson, S.J.4    Kelleher, N.L.5
  • 9
    • 33750098500 scopus 로고    scopus 로고
    • Proteome analysis of Myxococcus xanthus by off-line two-dimensional chromatographic separation using monolithic poly-(styrene-divinylbenzene) columns combined with ion-trap tandem mass spectrometry
    • DOI 10.1021/pr0602489
    • Schley, C.; Altmeyer, M. O.; Swart, R.; Muller, R.; Huber, C. G. Proteome analysis of Myxococcus xanthus by off-line two-dimensional chromatographic separation using monolithic poly-(styrene-divinylbenzene) columns combined with ion-trap tandem mass spectrometry J. Proteome Res. 2006, 5, 2760-2768 (Pubitemid 44595177)
    • (2006) Journal of Proteome Research , vol.5 , Issue.10 , pp. 2760-2768
    • Schley, C.1    Altmeyer, M.O.2    Swart, R.3    Muller, R.4    Huber, C.G.5
  • 11
    • 73449131845 scopus 로고    scopus 로고
    • An orthogonal active site identification system (OASIS) for proteomic profiling of natural product biosynthesis
    • Meier, J. L.; Niessen, S.; Hoover, H. S.; Foley, T. L.; Cravatt, B. F.; Burkart, M. D. An orthogonal active site identification system (OASIS) for proteomic profiling of natural product biosynthesis ACS Chem. Biol. 2009, 4, 948-957
    • (2009) ACS Chem. Biol. , vol.4 , pp. 948-957
    • Meier, J.L.1    Niessen, S.2    Hoover, H.S.3    Foley, T.L.4    Cravatt, B.F.5    Burkart, M.D.6
  • 13
    • 70350722394 scopus 로고    scopus 로고
    • Genomic basis for natural product biosynthetic diversity in the actinomycetes
    • Nett, M.; Ikeda, H.; Moore, B. S. Genomic basis for natural product biosynthetic diversity in the actinomycetes Nat. Prod. Rep. 2009, 26, 1362-1384
    • (2009) Nat. Prod. Rep. , vol.26 , pp. 1362-1384
    • Nett, M.1    Ikeda, H.2    Moore, B.S.3
  • 15
    • 34548178909 scopus 로고    scopus 로고
    • In-gel digestion for mass spectrometric characterization of proteins and proteomes
    • Shevchenko, A.; Tomas, H.; Havlis, J.; Olsen, J. V.; Mann, M. In-gel digestion for mass spectrometric characterization of proteins and proteomes Nat. Protoc. 2006, 1, 2856-2860
    • (2006) Nat. Protoc. , vol.1 , pp. 2856-2860
    • Shevchenko, A.1    Tomas, H.2    Havlis, J.3    Olsen, J.V.4    Mann, M.5
  • 16
    • 79952306399 scopus 로고    scopus 로고
    • COMPASS: A suite of pre- and post-search proteomics software tools for OMSSA
    • Wenger, C. D.; Phanstiel, D. H.; Lee, M. V.; Bailey, D. J.; Coon, J. J. COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA Proteomics 2011, 11, 1064-1074
    • (2011) Proteomics , vol.11 , pp. 1064-1074
    • Wenger, C.D.1    Phanstiel, D.H.2    Lee, M.V.3    Bailey, D.J.4    Coon, J.J.5
  • 18
    • 0034794886 scopus 로고    scopus 로고
    • Informatics and multiplexing of intact protein identification in bacteria and the archaea
    • DOI 10.1038/nbt1001-952
    • Meng, F.; Cargile, B. J.; Miller, L. M.; Forbes, A. J.; Johnson, J. R.; Kelleher, N. L. Informatics and multiplexing of intact protein identification in bacteria and the archaea Nat. Biotechnol. 2001, 19, 952-957 (Pubitemid 32947574)
    • (2001) Nature Biotechnology , vol.19 , Issue.10 , pp. 952-957
    • Meng, F.1    Cargile, B.J.2    Miller, L.M.3    Forbes, A.J.4    Johnson, J.R.5    Kelleher, N.L.6
  • 20
    • 19944362206 scopus 로고    scopus 로고
    • New PCR primers for the screening of NRPS and PKS-I systems in actinomycetes: Detection and distribution of these biosynthetic gene sequences in major taxonomic groups
    • DOI 10.1007/s00248-004-0249-6
    • Ayuso-Sacido, A.; Genilloud, O. New PCR primers for the screening of NRPS and PKS-I systems in actinomycetes: detection and distribution of these biosynthetic gene sequences in major taxonomic groups Microb. Ecol. 2005, 49, 10-24 (Pubitemid 40747800)
    • (2005) Microbial Ecology , vol.49 , Issue.1 , pp. 10-24
    • Ayuso-Sacido, A.1    Genilloud, O.2
  • 21
    • 64249084052 scopus 로고    scopus 로고
    • Chapter 8. Methods for in silico prediction of microbial polyketide and nonribosomal peptide biosynthetic pathways from DNA sequence data
    • Bachmann, B. O.; Ravel, J. Chapter 8. Methods for in silico prediction of microbial polyketide and nonribosomal peptide biosynthetic pathways from DNA sequence data Methods Enzymol. 2009, 458, 181-217
    • (2009) Methods Enzymol. , vol.458 , pp. 181-217
    • Bachmann, B.O.1    Ravel, J.2
  • 22
    • 26944502019 scopus 로고    scopus 로고
    • Specificity prediction of adenylation domains in nonribosomal peptide synthetases (NRPS) using transductive support vector machines (TSVMs)
    • DOI 10.1093/nar/gki885
    • Rausch, C.; Weber, T.; Kohlbacher, O.; Wohlleben, W.; Huson, D. H. Specificity prediction of adenylation domains in nonribosomal peptide synthetases (NRPS) using transductive support vector machines (TSVMs) Nucleic Acids Res. 2005, 33, 5799-5808 (Pubitemid 41742599)
    • (2005) Nucleic Acids Research , vol.33 , Issue.18 , pp. 5799-5808
    • Rausch, C.1    Weber, T.2    Kohlbacher, O.3    Wohlleben, W.4    Huson, D.H.5
  • 23
    • 55549089660 scopus 로고    scopus 로고
    • Accurate whole human genome sequencing using reversible terminator chemistry
    • Bentley, D. R. Accurate whole human genome sequencing using reversible terminator chemistry Nature 2008, 456, 53-59
    • (2008) Nature , vol.456 , pp. 53-59
    • Bentley, D.R.1
  • 24
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
    • DOI 10.1101/gr.074492.107
    • Zerbino, D. R.; Birney, E. Velvet: algorithms for de novo short read assembly using de Bruijn graphs Genome Res. 2008, 18, 821-829 (Pubitemid 351645072)
    • (2008) Genome Research , vol.18 , Issue.5 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 26
    • 59949093527 scopus 로고    scopus 로고
    • De novo fragment assembly with short mate-paired reads: Does the read length matter?
    • Chaisson, M. J.; Brinza, D.; Pevzner, P. A. De novo fragment assembly with short mate-paired reads: Does the read length matter? Genome Res. 2009, 19, 336-346
    • (2009) Genome Res. , vol.19 , pp. 336-346
    • Chaisson, M.J.1    Brinza, D.2    Pevzner, P.A.3
  • 29
    • 77952299957 scopus 로고    scopus 로고
    • Prodigal: Prokaryotic gene recognition and translation initiation site identification
    • Hyatt, D.; Chen, G. L.; Locascio, P. F.; Land, M. L.; Larimer, F. W.; Hauser, L. J. Prodigal: prokaryotic gene recognition and translation initiation site identification BMC Bioinform. 2010, 11, 119
    • (2010) BMC Bioinform. , vol.11 , pp. 119
    • Hyatt, D.1    Chen, G.L.2    Locascio, P.F.3    Land, M.L.4    Larimer, F.W.5    Hauser, L.J.6
  • 30
    • 55749106422 scopus 로고    scopus 로고
    • Structure elucidation and biosynthesis of fuscachelins, peptide siderophores from the moderate thermophile Thermobifida fusca
    • Dimise, E. J.; Widboom, P. F.; Bruner, S. D. Structure elucidation and biosynthesis of fuscachelins, peptide siderophores from the moderate thermophile Thermobifida fusca Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 15311-15316
    • (2008) Proc. Natl. Acad. Sci. U.S.A. , vol.105 , pp. 15311-15316
    • Dimise, E.J.1    Widboom, P.F.2    Bruner, S.D.3
  • 33
    • 0033617184 scopus 로고    scopus 로고
    • Molecular characterization of the genes of actinomycin synthetase i and of a 4-methyl-3-hydroxyanthranilic acid carrier protein involved in the assembly of the acylpeptide chain of actinomycin in Streptomyces
    • Pfennig, F.; Schauwecker, F.; Keller, U. Molecular characterization of the genes of actinomycin synthetase I and of a 4-methyl-3-hydroxyanthranilic acid carrier protein involved in the assembly of the acylpeptide chain of actinomycin in Streptomyces J. Biol. Chem. 1999, 274, 12508-12516
    • (1999) J. Biol. Chem. , vol.274 , pp. 12508-12516
    • Pfennig, F.1    Schauwecker, F.2    Keller, U.3
  • 34
    • 77955354717 scopus 로고    scopus 로고
    • Common biosynthetic origins for polycyclic tetramate macrolactams from phylogenetically diverse bacteria
    • Blodgett, J. A.; Oh, D. C.; Cao, S.; Currie, C. R.; Kolter, R.; Clardy, J. Common biosynthetic origins for polycyclic tetramate macrolactams from phylogenetically diverse bacteria Proc. Natl. Acad. Sci. U.S.A. 2010, 107, 11692-11697
    • (2010) Proc. Natl. Acad. Sci. U.S.A. , vol.107 , pp. 11692-11697
    • Blodgett, J.A.1    Oh, D.C.2    Cao, S.3    Currie, C.R.4    Kolter, R.5    Clardy, J.6
  • 35
    • 0022365705 scopus 로고
    • Foroxymithine, a new inhibitor of angiotensin-converting enzyme, produced by actinomycetes
    • Umezawa, H.; Aoyagi, T.; Ogawa, K.; Obata, T.; Iinuma, H.; Naganawa, H.; Hamada, M.; Takeuchi, T. Foroxymithine, a new inhibitor of angiotensin- converting enzyme, produced by actinomycetes J. Antibiot. (Tokyo) 1985, 38, 1813-1815 (Pubitemid 16194419)
    • (1985) Journal of Antibiotics , vol.38 , Issue.12 , pp. 1813-1815
    • Umezawa, H.1    Aoyagi, T.2    Ogawa, K.3
  • 36
    • 77049112553 scopus 로고    scopus 로고
    • Biosynthesis of the putative siderophore erythrochelin requires unprecedented crosstalk between separate nonribosomal peptide gene clusters
    • Lazos, O.; Tosin, M.; Slusarczyk, A. L.; Boakes, S.; Cortes, J.; Sidebottom, P. J.; Leadlay, P. F. Biosynthesis of the putative siderophore erythrochelin requires unprecedented crosstalk between separate nonribosomal peptide gene clusters Chem. Biol. 2010, 17, 160-173
    • (2010) Chem. Biol. , vol.17 , pp. 160-173
    • Lazos, O.1    Tosin, M.2    Slusarczyk, A.L.3    Boakes, S.4    Cortes, J.5    Sidebottom, P.J.6    Leadlay, P.F.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.