Mechanisms and biological roles of contact-dependent growth inhibition systems

Cold Spring Harbor Perspectives in Medicine

Volumn 4, Issue 2, 2014, Pages

  Hayes, Christopher S ^a   Koskiniemi, Sanna ^a   Ruhe, Zachary C ^a   Poole, Stephen J ^a   Low, David A ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBONUCLEASE; RIBONUCLEASE;

ARTICLE; BACTERIAL GROWTH; BACTERIAL STRAIN; BIOSYNTHESIS; BURKHOLDERIA INFECTION; CONTACT DEPENDENT GROWTH INHIBITION; ENZYME ACTIVITY; ESCHERICHIA COLI; GENETIC ANALYSIS; GROWTH RATE AND GROWTH REGULATION; IMMUNE RESPONSE; IMMUNITY; MICROBIAL IMMUNITY; MOLECULAR BIOLOGY; NUCLEOTIDE SEQUENCE; PATHOGENESIS; SIGNAL TRANSDUCTION; UNINDEXED SEQUENCE;

BACTERIAL ADHESION; BACTERIAL OUTER MEMBRANE PROTEINS; BACTERIAL TOXINS; BURKHOLDERIA; CONTACT INHIBITION; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; MEMBRANE PROTEINS;

EID: 84893290527     PISSN: None     EISSN: 21571422     Source Type: Journal    
DOI: 10.1101/cshperspect.a010025     Document Type: Article

References (40)

1. Aggarwal K, Lee KH. 2011. Overexpression of cloned RhsA sequences perturbs the cellular translational machinery in Escherichia coli. J Bacteriol 193: 4869-4880.
2. Anderson MS, Garcia EC, Cotter PA. 2012. The Burkholderia bcpAIOB genes define unique classes of two-partner secretion and contact dependent growth inhibition systems. PLoS Genet 8: e1002877.
3. Aoki SK, Pamma R, Hernday AD, Bickham JE, Braaten BA, Low DA. 2005. Contact-dependent inhibition of growth in Escherichia coli. Science 309: 1245-1248.
4. Aoki SK, Malinverni JC, Jacoby K, Thomas B, Pamma R, Trinh BN, Remers S, Webb J, Braaten BA, Silhavy TJ, et al. 2008. Contact-dependent growth inhibition requires the essential outer membrane protein BamA (YaeT) as the receptor and the inner membrane transport protein AcrB. Mol Microbiol 70: 323-340.
5. Aoki SK, Webb JS, Braaten BA, Low DA. 2009. Contactdependent growth inhibition causes reversible metabolic downregulation in Escherichia coli. J Bacteriol 191: 1777-1786.
6. Aoki SK, Diner EJ, de Roodenbeke CT, Burgess BR, Poole SJ, Braaten BA, Jones AM, Webb JS, Hayes CS, Cotter PA, et al. 2010. Awidespread family of polymorphic contactdependent toxin delivery systems in bacteria. Nature 468: 439-442.
7. Bakken JS, Borody T, Brandt LJ, Brill JV, Demarco DC, Franzos MA, Kelly C, Khoruts A, Louie T, Martinelli LP, et al. 2011. Treating Clostridium difficile infection with fecal microbiota transplantation. Clin Gastroenterol Hepatol 9: 1044-1049.
8. Benson AK, Kelly SA, Legge R, Ma F, Low SJ, Kim J, Zhang M, Oh PL, Nehrenberg D, Hua K, et al. 2010. Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors. Proc Natl Acad Sci 107: 18933-18938.
9. Bos MP, Robert V, Tommassen J. 2007. Biogenesis of the Gram-negative bacterial outer membrane. Ann Rev Microbiol 61: 191-214.
10. Cahoon LA, Seifert HS. 2009. An alternative DNA structure is necessary for pilin antigenic variation in Neisseria gonorrhoeae. Science 325: 764-767.
11. Capage M, Hill CW. 1979. Preferential unequal recombination in the glyS region of the Escherichia coli chromosome. J Mol Biol 127: 73-87.
12. Chen G, Swem LR, Swem DL, Stauff DL, O'Loughlin CT, Jeffrey PD, Bassler BL, Hughson FM. 2011. A strategy for antagonizing quorum sensing. Mol Cell 42: 199-209.
13. Diner EJ, Beck CM, Webb JS, Low DA, Hayes CS. 2012. Identification of a target cell permissive factor required for contact-dependent growth inhibition (CDI). Genes Dev 26: 515-525.
14. Dominguez-Bello MG, Blaser MJ. 2008. Do you have a probiotic in your future? Microbes Infect /Institut Pasteur 10: 1072-1076.
15. Hayes CS, Aoki SK, Low DA. 2010. Bacterial contact-dependent delivery systems. Annu Rev Genet 44: 71-90.
16. Hill CW, Sandt CH, Vlazny DA. 1994. Rhs elements of Escherichia coli: A family of genetic composites each encoding a large mosaic protein. Mol Microbiol 12: 865-871.
17. Ichinohe T, Pang IK, Kumamoto Y, Peaper DR, Ho JH, Murray TS, Iwasaki A. 2011. Microbiota regulates immune defense against respiratory tract influenza A virus infection. Proc Natl Acad Sci 108: 5354-5359.
18. Jackson AP, Thomas GH, Parkhill J, Thomson NR. 2009. Evolutionary diversification of an ancient gene family (rhs) through C-terminal displacement. BMC Genomics 10: 584.
19. Jacob-Dubuisson F, Guerin J, Baelen S, Clantin B. 2013. Two-partner secretion: As simple as it sounds? ResMicrobiol 164: 583-595.
20. Kajava AV, Cheng N, Cleaver R, Kessel M, Simon MN, Willery E, Jacob-Dubuisson F, Locht C, Steven AC. 2001. β-Helix model for the filamentous haemagglutinin adhesin of Bordetella pertussis and related bacterial secretory proteins. Mol Microbiol 42: 279-292.
21. Keller L, Surette MG. 2006. Communication in bacteria: An ecological and evolutionary perspective. Nat Rev Microbiol 4: 249-258.
22. Knowles TJ, Scott-Tucker A, Overduin M, Henderson IR. 2009. Membrane protein architects: The role of the BAM complex in outer membrane protein assembly. Nat Rev Microbiol 7: 206-214.
23. Konovalova A, Sogaard-Andersen L. 2011. Close encounters: Contact-dependent interactions in bacteria. Mol Microbiol 81: 297-301.
24. Koskiniemi S, Lamoureux JG, Nikolakakis KC, Kint de Roodenbeke C, Kaplan MD, Low DA, Hayes CS. 2013. Rhs proteins from diverse bacteria mediate intercellular competition. Proc Natl Acad Sci 110: 7032-7037.
25. Kung VL, Khare S, Stehlik C, Bacon EM, Hughes AJ, Hauser AR. 2012. An rhs gene of Pseudomonas aeruginosa encodes a virulence protein that activates the inflammasome. Proc Natl Acad Sci 109: 1275-1280.
26. Lederberg J. 2000. Infectious history. Science 288: 287-293. Ley RE. 2010. Obesity and the human microbiome. Curr Opin Gastroenterol 26: 5-11.
27. Lin RJ, Capage M, Hill CW. 1984. A repetitive DNA sequence, rhs, responsible for duplications within the Escherichia coli K-12 chromosome. J Mol Biol 177: 1-18.
28. McNulty C, Thompson J, Barrett B, Lord L, Andersen C, Roberts IS. 2006. The cell surface expression of group 2 capsular polysaccharides in Escherichia coli: The role of KpsD, RhsA and a multi-protein complex at the pole of the cell. Mol Microbiol 59: 907-922.
29. Minet AD, Chiquet-Ehrismann R. 2000. Phylogenetic analysis of teneurin genes and comparison to the rearrangement hot spot elements of E. coli. Gene 257: 87-97.
30. Ng WL, Bassler BL. 2009. Bacterial quorum-sensing network architectures. Annu Rev Genet 43: 197-222.
31. Nikolakakis K, Amber S, Wilbur JS, Diner EJ, Aoki SK, Poole SJ, Tuanyok A, Keim PS, Peacock S, Hayes CS, et al. 2012. The toxin/immunity network of Burkholderia pseudomallei contact-dependent growth inhibition (CDI) systems. Mol Microbiol 84: 516-529.
32. Noinaj N, Kuszak AJ, Gumbart JC, Lukacik P, Chang H, Easley NC, Lithgow T, Buchanan SK. 2013. Structural insight into the biogenesis of b-barrel membrane proteins. Nature 501: 385-390.
33. Pathak DT, Wei X, Bucuvalas A, Haft DH, Gerloff DL, Wall D. 2012. Cell contact-dependent outer membrane exchange in myxobacteria: Genetic determinants and mechanism. PLoS Genet 8: e1002626.
34. Poole SJ, Diner EJ, Aoki SK, Braaten BA, Kint de Roodenbeke C, Low DA, Hayes CS. 2011. Identification of functional toxin/immunity genes linked to contact-dependent growth inhibition (CDI) and rearrangement hotspot (Rhs) systems. PLoS Genet 7: e1002217.
35. Reams AB, Kofoid E, Savageau M, Roth JR. 2010. Duplication frequency in a population of Salmonella enterica rapidly approaches steady state with or without recombination. Genetics 184: 1077-1094.
36. Ricci DP, Silhavy TJ. 2012. The Bam machine: A molecular cooper. Biochim Biophys Acta 1818: 1067-1084.
37. Ruhe ZC, Wallace AB, Low DA, Hayes CS. 2013. Receptor polymorphism restricts contact-dependent growth inhibition to members of the same species. mBio 4: e00480.
38. Vlazny DA, Hill CW. 1995. A stationary-phase-dependent viability block governed by two different polypeptides from the RhsA genetic element of Escherichia coli K-12. J Bacteriol 177: 2209-2213.
39. Wang YD, Zhao S, Hill CW. 1998. Rhs elements comprise three subfamilies which diverged prior to acquisition by Escherichia coli. J Bacteriol 180: 4102-4110.
40. Zhang D, Iyer LM, Aravind L. 2011. A novel immunity system for bacterial nucleic acid degrading toxins and its recruitment in various eukaryotic and DNAviral systems. Nucleic Acids Res 39: 4532-4552.