Quorumpeps database: Chemical space, microbial origin and functionality of quorum sensing peptides

Nucleic Acids Research

Volumn 41, Issue D1, 2013, Pages

  Wynendaele, Evelien ^a   Bronselaer, Antoon ^b   Nielandt, Joachim ^b   D'Hondt, Matthias ^a   Stalmans, Sofie ^a   Bracke, Nathalie ^a   Verbeke, Frederick ^a   Van De Wiele, Christophe ^b   De Tré, Guy ^b   De Spiegeleer, Bart ^a  

^a Faculty of Pharmaceutical Sciences   (Belgium)

^b GHENT UNIVERSITY HOSPITAL   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

OLIGOPEPTIDE;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARTICLE; BACILLUS SUBTILIS; CHEMICAL STRUCTURE; FACTUAL DATABASE; ISOELECTRIC POINT; MICROBIAL DIVERSITY; MOLECULAR WEIGHT; PHYSICAL CHEMISTRY; PRIORITY JOURNAL; PROTEIN PROCESSING; QUORUM SENSING; SIGNAL TRANSDUCTION; STAPHYLOCOCCUS AUREUS;

DATABASES, CHEMICAL; INTERNET; PEPTIDES; QUORUM SENSING;

EID: 84876546173     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gks1137     Document Type: Article

References (55)

1. Martin, C.A., Hoven, A.D. and Cook, A.M. (2008) Therapeutic frontiers: preventing and treating infectious diseases by inhibiting bacterial quorum sensing. Eur. J. Clin. Microbiol. Infect. Dis., 27, 635-642.
2. Diggle, S.P., Crusz, S.A. and Camara, M. (2007) Quorum sensing. Curr. Biol., 17, 907-910.
3. Tomasz, A. (1965) Control of the competent state in Pneumococcus by a hormone-like cell product: an example of a new type of regulatory mechanism in bacteria. Nature, 208, 155-159.
4. Nealson, K.H., Platt, T. and Hastings, J.W. (1970) Cellular control of the synthesis and activity of bacterial luminescent system. J. Bacteriol., 104, 313-322.
5. Eberhard, A., Burlingame, A.L., Eberhard, C., Kenyon, G.L., Nealson, K.H. and Oppenheimer, N.J. (1981) Structural identification of autoinducer of Photobacterium fischeri luciferase. Biochemistry, 20, 2444-2449.
6. Miller, M.B. and Bassler, B.L. (2001) Quorum sensing in bacteria. Annu. Rev. Microbiol., 55, 165-199.
7. Chen, X., Schauder, S., Potier, N., Van Dorsselaer, A., Pelczer, I., Bassler, B.L. and Hughson, F.M. (2002) Structural identification of a bacterial quorum-sensing signal containing boron. Nature, 415, 545-549.
8. Kleerebezem, M., Quadri, L.E.N., Kuipers, O.P. and de Vos, W.M. (1997) Quorum sensing by peptide pheromones and two-component signal-transduction systems in Gram-positive bacteria. Mol. Microbiol., 24, 895-904.
9. Bassler, B.L. and Losick, R. (2006) Bacterially speaking. Cell, 125, 237-246.
10. Ni, N., Li, M., Wang, J. and Wang, B. (2009) Inhibitors and antagonists of bacterial quorum sensing. Med. Res. Rev., 29, 65-124.
11. Chen, G., Swem, L.R., Swem, D.L., Stauff, D.L., O'Loughlin, C.T., Jeffrey, P.D., Bassler, B.L. and Hughson, F.M. (2011) A strategy for antagonizing quorum sensing. Mol. Cell, 42, 199-209.
12. Heilmann, C. and Gotz, F. (2010) Cell-cell communication and biofilm formation in gram-positive bacteria. In: Kramer, R. and Jung, K. (eds), Bacterial Signaling. WILEY-VCH, Weinheim, pp. 7-22.
13. Pritchard, D.I. (2006) Immune modulation by Pseudomonas aeruginosa quorum-sensing signal molecules. Int. J. Med. Microbiol., 296, 111-116.
14. Wynendaele, E., Pauwels, E., Van de Wiele, C., Burvenich, C. and De Spiegeleer, B. (2012) The potential role of quorum-sensing peptides in oncology. Med. Hypotheses, 78, 814-817.
15. Bhutia, S.K. and Maiti, T.K. (2008) Targeting tumors with peptides from natural sources. Trends Biotechnol., 26, 210-217.
16. Zaccaro, L., del Gatto, A., Pedone, C. and Saviano, M. (2009) Peptides for tumour therapy and diagnosis: current status and future directions. Curr. Med. Chem., 16, 780-795.
17. Adessi, C. and Soto, C. (2002) Converting a peptide into a drug: strategies to improve stability and bioavailability. Curr. Med. Chem., 9, 963-978.
18. Svenson, J., Vergote, V., Karstad, R., Burvenich, C., Svendsen, J.S. and De Spiegeleer, B. (2010) Metabolic fate of lactoferricin-based antimicrobial peptides: effect of truncation and incorporation of amino acid analogs on the in vitro metabolic stability. J. Pharmacol. Exp. Ther., 332, 1032-1039.
19. Codd, E.F. (1970) A relational model of data for large shared data banks. Commun. ACM, 13, 377-387.
20. Eriksson, E.J.L., Kettaneh-Wold, N., Trygg, J., Wikstrom, C. and Wold, S. (2006) Multi- and Megavariate Data Analysis: Part I - Basic Principles and Applications. Umetrics Academy, pp. 39-101.
21. Baert, B., Deconinck, E., Van Gele, M., Slodicka, M., Stoppie, P., Bode, S., Slegers, G., Vander Heyden, Y., Lambert, J., Beetens, J. et al. (2007) Transdermal penetration behaviour of drugs: CART-clustering, QSPR and selection of model compounds. Bioorg. Med. Chem., 15, 6943-6955.
22. Yap, C.W., Li, Z.R. and Chen, Y.Z. (2006) Quantitative structure-pharmacokinetic relationships for drug clearance by using statistical learning methods. J. Mol. Graph. Model., 24, 383-395.
23. Schmitz, S., Hoffmann, A., Szekat, C., Rudd, B. and Bierbaum, G. (2006) The lantibiotic mersacidin is an autoinducing peptide. Appl. Environ. Microbiol., 72, 7270-7277.
24. Al-Hussaini, R. and Mahasneh, A.M. (2009) Microbial growth and quorum sensing antagonist activities of herbal plants extracts. Molecules, 14, 3425-3435.
25. Tortosa, P., Logsdon, L., Kraigher, B., Itoh, Y., Mandic-Mulec, I. and Dubnau, D. (2001) Specificity and genetic polymorphism of the Bacillus competence quorum-sensing system. J. Bacteriol., 183, 451-460.
26. Brelles-Marino, G. and Bedmar, E.J. (2001) Detection, purification and characterization of quorum-sensing signal molecules in plant-associated bacteria. J. Biotechnol., 91, 197-209.
27. Okada, M., Sato, I., Cho, S.J., Dubnau, D. and Sakagami, Y. (2006) Chemical synthesis of ComX pheromone and related peptides containing isoprenoidal tryptophan residues. Tetrahedron, 62, 8907-8918.
28. Blomqvist, T., Steinmoen, H. and Havarstein, L.S. (2006) Pheromone-induced expression of recombinant proteins in Streptococcus thermophilus. Arch. Microbiol., 186, 465-473.
29. Ji, G., Beavis, R.C. and Novick, R.P. (1995) Cell density control of Staphylococcal virulence mediated by an octapeptide pheromone. Proc. Natl Acad. Sci. USA, 92, 12055-12059.
30. Lanigan-Gerdes, S., Briceno, G., Dooley, A.N., Faull, K.F. and Lazazzera, B.A. (2008) Identification of residues important for cleavage of the extracellular signaling peptide CSF of Bacillus subtilis from its precursor protein. J. Bacteriol., 190, 6668-6675.
31. Nishiguchi, K., Nagata, K., Tanokura, M., Sonomoto, K. and Nakayama, J. (2009) Structure-activity relationship of gelatinase biosynthesis-activating pheromone of Enterococcus faecalis. J. Bacteriol., 191, 641-650.
32. Abraham, W.R. (2006) Controlling biofilms of gram-positive pathogenic bacteria. Curr. Med. Chem., 13, 1509-1524.
33. Burtin, E., Yakandawala, N. and Lovetri, K. (2007) A microplate spectrofluorometric assay for bacterial biofilms. J. Ind. Microbiol. Biotechnol., 34, 1-4.
34. Cooksley, C.M., Davis, I.J., Winzer, K., Chan, W.C., Peck, M.W. and Minton, N.P. (2010) Regulation of neurotoxin production and sporulation by a putative agrBD signaling system in proteolytic Clostridium botulinum. Appl. Environ. Microbiol., 76, 4448-4460.
35. Jiang, M., Grau, R. and Perego, M. (2000) Differential processing of propeptide inhibitors of rap phosphatases in Bacillus subtilis. J. Bacteriol., 182, 303-310.
36. Martin, M., Showalter, R. and Silverman, M. (1989) Identification of a locus controlling expression of luminescence genes in Vibrio harveyi. J. Bacteriol., 171, 2406-2414.
37. Weber, B., Croxatto, A., Chen, C. and Milton, D.L. (2008) RpoS induces expression of the Vibrio anguillarum quorum-sensing regulator VanT. Microbiology, 154, 767-780.
38. Zhang, K., Ou, M., Wang, W. and Ling, J. (2009) Effect of quorum-sensing on cell viability in Streptococcus mutans biofilm formation. Biochem. Biophys. Res. Commun., 379, 933-938.
39. Zhu, J., Yin, X., Yu, H., Zhao, L., Sabour, P. and Gong, J. (2011) Involvement of quorum sensing and heat-stable enterotoxin a in cell damage caused by a porcine enterotoxigenic Escherichia coli strain. Infect. Immun., 79, 1688-1695.
40. Derengowski, L., De-Souza-Silva, C., Braz, S.V., Mello-De-Sousa, T.M., Bao, S.N., Kyaw, C.M. and Silva-Pereira, I. (2009) Antimicrobial effect of farnesol, a Candida albicans quorum sensing molecule, on Paracoccidioides brasiliensis growth and morphogenesis. Ann. Clin. Microbiol. Antimicrob., 8, 1-9.
41. Kolodkin-Gal, I., Hazan, R., Gaathon, A., Carmeli, S. and Engelberg-Kulka, H. (2007) A linear pentapeptide is a quorum-sensing factor required for mazEF-mediated cell death in Escherichia coli. Science, 318, 652-655.
42. Gorske, B.C. and Blackwell, H.E. (2006) Interception of quorum sensing in Staphylococcus aureus: a new niche for peptidomimetics. Org. Biomol. Chem., 4, 1441-1445.
43. Sifri, C.D. (2008) Quorum sensing: bacteria talk sense. Clin. Infect. Dis., 47, 1070-1076.
44. Ji, G., Beavis, R. and Novick, R.P. (1997) Bacterial interference caused by autoinducing peptide variants. Science, 276, 2027-2030.
45. Ni, N., Li, M., Wang, J. and Wang, B. (2008) Inhibitors and antagonists of bacterial quorum sensing. Med. Res. Rev., 29, 65-124.
46. Shaw, L.N., Jonsson, I., Singh, V.K., Tarkowski, A. and Stewart, G.C. (2007) Inactivation of trap has no effect on the agr quorum-sensing system or virulence of Staphylococcus aureus. Infect. Immun., 75, 4519-4527.
47. Korem, M., Sheoran, A.S., Gov, Y., Tzipori, S., Borovok, I. and Balaban, N. (2003) Characterization of RAP, a quorum sensing activator of Staphylococcus aureus. FEMS Microbiol. Lett., 223, 167-175.
48. Cvitkovitch, D.G., Li, Y. and Ellen, R.P. (2003) Quorum sensing and biofilm formation in Streptococcal infections. J. Clin. Invest., 112, 1626-1632.
49. Lazazzera, B.A., Solomon, J.M. and Grossman, A.D. (1997) An exported peptide functions intracellularly to contribute to cell density signaling in B. subtilis. Cell, 89, 917-925.
50. Comella, N. and Grossman, A.D. (2005) Conservation of genes and processes controlled by the quorum response in bacteria: characterization of genes controlled by the quorum-sensing transcription factor ComA in Bacillus subtilis. Mol. Microbiol., 57, 1159-1174.
51. Perego, M. and Brannigan, J.A. (2001) Pentapeptide regulation of aspartyl-phosphate phosphatases. Peptides, 22, 1541-1547.
52. Bischofs, I.B., Hug, J.A., Liu, A.W., Wolf, D.M. and Arkin, A.P. (2008) Complexity in bacterial cell-cell communication: quorum signal integration and subpopulation signaling in the Bacillus subtilis phosphorelay. Proc. Natl Acad. Sci. USA, 106, 6459-6464.
53. Sifri, C.D., Mylonakis, E., Singh, K.V., Qin, X., Garsin, D.A., Murray, B.E., Ausubel, F.M. and Calderwood, S.B. (2002) Virulence effect of Enterococcus faecalis protease genes and the quorum-sensing locus fsr in Caenorhabditis elegans and mice. Infect. Immun., 70, 5647-5650.
54. Kuipers, O.P., de Ruyter, P.G.G.A., Kleerebezem, M. and de Vos, W.M. (1998) Quorum sensing-controlled gene expression in lactic acid bacteria. J. Biotechnol., 64, 15-21.
55. Johnsborg, O., Dipe, D.B. and Nes, I.F. (2003) Structural analysis of the peptide pheromone receptor PlnB, a histidine protein kinase from Lactobacillus plantarum. J. Bacteriol., 185, 6913-6920.