Biofilms 2012: New discoveries and significant wrinkles in a dynamic field

Journal of Bacteriology

Volumn 195, Issue 13, 2013, Pages 2947-2958

  Haussler, Susanne ^a,b   Fuqua, Clay ^c  

^a INSTITUTE OF INFECTION IMMUNOLOGY   (Germany)

^b HANNOVER MEDICAL SCHOOL   (Germany)

^c INDIANA UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMYLOID PROTEIN; EXOPOLYSACCHARIDE; LIPID; NUCLEIC ACID; POLYSACCHARIDE;

ADAPTIVE IMMUNITY; ANTIBIOTIC RESISTANCE; ASPERGILLUS FUMIGATUS; BACTERIAL CELL; BACTERIAL GROWTH; BACTERIAL SURVIVAL; BACTERIUM ADHERENCE; BACTERIUM COLONY; BIOFILM; CELL DAMAGE; CHEMICAL ANALYSIS; EVOLUTION; HOST PATHOGEN INTERACTION; IMMUNE RESPONSE; IN VITRO STUDY; INFLAMMATION; MEDICAL RESEARCH; MICROBIAL COMMUNITY; MICROBIOLOGY; MOLECULAR BIOLOGY; MOLECULAR GENETICS; MORPHOLOGY; NONHUMAN; PLANKTON; PRIORITY JOURNAL; REVIEW;

BIOFILMS; CONGRESSES AS TOPIC; FLORIDA;

EID: 84880030786     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.00239-13     Document Type: Review

References (73)

1. Asally M, Kittisopikul M, Rue P, Du Y, Hu Z, Cagatay T, Robinson AB, Lu H, Garcia-Ojalvo J, Suel GM. 2012. Localized cell death focuses mechanical forces during 3D patterning in a biofilm. Proc. Natl. Acad. Sci. U. S. A. 109:18891-18896.
2. Seminara A, Angelini TE, Wilking JN, Vlamakis H, Ebrahim S, Kolter R, Weitz DA, Brenner MP. 2012. Osmotic spreading of Bacillus subtilis biofilms driven by an extracellular matrix. Proc. Natl. Acad. Sci. U. S. A. 109:1116-1121.
3. Chandler JR, Duerkop BA, Hinz A, West TE, Herman JP, Churchill ME, Skerrett SJ, Greenberg EP. 2009. Mutational analysis of Burkholderia thailandensis quorum sensing and self-aggregation. J. Bacteriol. 191:5901-5909.
4. Tuson HH, Copeland MF, Carey S, Sacotte R, Weibel DB. 2012. Flagella density regulates Proteus mirabilis swarm cell motility in viscous environments. J. Bacteriol.
5. Heun M, Binnenkade L, Kreienbaum M, Thormann KM. 2012. Functional specificity of extracellular nucleases of Shewanella oneidensis MR-1. Appl. Environ. Microbiol. 78:4400-4411.
6. Nenninger AA, Robinson LS, Hammer ND, Epstein EA, Badtke MP, Hultgren SJ, Chapman MR. 2011. CsgE is a curli secretion specificity factor that prevents amyloid fibre aggregation. Mol. Microbiol. 81:486-499.
7. Schwartz K, Syed AK, Stephenson RE, Rickard AH, Boles BR. 2012. Functional amyloids composed of phenol soluble modulins stabilize Staphylococcus aureus biofilms. PLoS Pathog. 8:e1002744.
8. Depas WH, Hufnagel DA, Lee JS, Blanco LP, Bernstein HC, Fisher ST, James GA, Stewart PS, Chapman MR. 2013. Iron induces bimodal population development by Escherichia coli. Proc. Natl. Acad. Sci. U. S. A.
9. Franklin MJ, Nivens DE, Weadge JT, Howell PL. 2011. Biosynthesis of the Pseudomonas aeruginosa Extracellular Polysaccharides, Alginate, Pel, and Psl. Front. Microbiol. 2:167.
10. Dubey GP, Ben-Yehuda S. 2011. Intercellular nanotubes mediate bacterial communication. Cell 144:590-600.
11. Gjermansen M, Nilsson M, Yang L, Tolker-Nielsen T. 2010. Characterization of starvation-induced dispersion in Pseudomonas putida biofilms: genetic elements and molecular mechanisms. Mol. Microbiol. 75:815-826.
12. Fazli M, O'Connell A, Nilsson M, Niehaus K, Dow JM, Givskov M, Ryan RP, Tolker-Nielsen T. The CRP/FNR family protein Bcam1349 is a c-di-GMP effector that regulates biofilm formation in the respiratory pathogen Burkholderia cenocepacia. Mol. Microbiol. 82:327-341.
13. Jain R, Behrens AJ, Kaever V, Kazmierczak BI. 2012. Type IV pilus assembly in Pseudomonas aeruginosa over a broad range of cyclic di-GMP concentrations. J. Bacteriol. 194:4285-4294.
14. Moscoso JA, Mikkelsen H, Heeb S, Williams P, Filloux A. 2011. The Pseudomonas aeruginosa sensor RetS switches type III and type VI secretion via c-di-GMP signalling. Environ. Microbiol. 13:3128-3138.
15. Mikkelsen H, Ball G, Giraud C, Filloux A. 2009. Expression of Pseudomonas aeruginosa CupD fimbrial genes is antagonistically controlled by RcsB and the EAL-containing PvrR response regulators. PLoS One 4:e6018.
16. Bordi C, Lamy MC, Ventre I, Termine E, Hachani A, Fillet S, Roche B, Bleves S, Mejean V, Lazdunski A, Filloux A. 2010. Regulatory RNAs and the HptB/RetS signalling pathways fine-tune Pseudomonas aeruginosa pathogenesis. Mol. Microbiol. 76:1427-1443.
17. Mikkelsen H, Sivaneson M, Filloux A. 2011. Key two-component regulatory systems that control biofilm formation in Pseudomonas aeruginosa. Environ. Microbiol. 13:1666-1681.
18. Colvin KM, Gordon VD, Murakami K, Borlee BR, Wozniak DJ, Wong GC, Parsek MR. 2011. The pel polysaccharide can serve a structural and protective role in the biofilm matrix of Pseudomonas aeruginosa. PLoS Pathog. 7:e1001264.
19. Kolodkin-Gal I, Romero D, Cao S, Clardy J, Kolter R, Losick R. 2010. D-amino acids trigger biofilm disassembly. Science 328:627-629.
20. Kolodkin-Gal I, Cao S, Chai L, Bottcher T, Kolter R, Clardy J, Losick R. 2012. A self-produced trigger for biofilm disassembly that targets exopolysaccharide. Cell 149:684-692.
21. Ivanov IE, Boyd CD, Newell PD, Schwartz ME, Turnbull L, Johnson MS, Whitchurch CB, O'Toole GA, Camesano TA. 2012. Atomic force and super-resolution microscopy support a role for LapA as a cell-surface biofilm adhesin of Pseudomonas fluorescens. Res. Microbiol.
22. Berk V, Fong JC, Dempsey GT, Develioglu ON, Zhuang X, Liphardt J, Yildiz FH, Chu S. 2012. Molecular architecture and assembly principles of Vibrio cholerae biofilms. Science 337:236-239.
23. Morris AR, Visick KL. 2012. The response regulator SypE controls biofilm formation and colonization through phosphorylation of the sypencoded regulator SypA in Vibrio fischeri. Mol. Microbiol.
24. Petrova OE, Schurr JR, Schurr MJ, Sauer K. 2012. Microcolony formation by the opportunistic pathogen Pseudomonas aeruginosa requires pyruvate and pyruvate fermentation. Mol. Microbiol.
25. Marsh PD, Moter A, Devine DA. 2011. Dental plaque biofilms: communities, conflict and control. Periodontol 2000 55:16-35.
26. Mallmann C, Siemoneit S, Schmiedel D, Petrich A, Gescher DM, Halle E, Musci M, Hetzer R, Gobel UB, Moter A. 2010. Fluorescence in situ hybridization to improve the diagnosis of endocarditis: a pilot study. Clin. Microbiol. Infect. 16:767-773.
27. Hadjifrangiskou M, Gu AP, Pinkner JS, Kostakioti M, Zhang EW, Greene SE, Hultgren SJ. 2012. Transposon Mutagenesis Identifies Uropathogenic Escherichia coli Biofilm Factors. J. Bacteriol. 194:6195-6205.
28. Desalermos A, Fuchs BB, Mylonakis E. 2012. Selecting an invertebrate model host for the study of fungal pathogenesis. PLoS Pathog. 8:e1002451.
29. Davis SC, Ricotti C, Cazzaniga A, Welsh E, Eaglstein WH, Mertz PM. 2008. Microscopic and physiologic evidence for biofilm-associated wound colonization in vivo. Wound Repair Regen. 16:23-29.
30. Mertz PM, Alvarez OM, Smerbeck RV, Eaglstein WH. 1984. A new in vivo model for the evaluation of topical antiseptics on superficial wounds. The effect of 70% alcohol and povidone-iodine solution. Arch. Dermatol. 120:58-62.
31. Buffie CG, Jarchum I, Equinda M, Lipuma L, Gobourne A, Viale A, Ubeda C, Xavier J, Pamer EG. 2012. Profound alterations of intestinal microbiota following a single dose of clindamycin results in sustained susceptibility to Clostridium difficile-induced colitis. Infect. Immun. 80: 62-73.
32. Bucci V, Bradde S, Biroli G, Xavier JB. 2012. Social interaction, noise and antibiotic-mediated switches in the intestinal microbiota. PLoS Comput. Biol. 8:e1002497.
33. Min KR, Zimmer MN, Rickard AH. 2010. Physicochemical parameters influencing coaggregation between the freshwater bacteria Sphingomonas natatoria 2.1 and Micrococcus luteus 2.13. Biofouling 26:931-940.
34. Besemer K, Peter H, Logue JB, Langenheder S, Lindstrom ES, Tranvik LJ, Battin TJ. 2012. Unraveling assembly of stream biofilm communities. ISME J. 6:1459-1468.
35. Augspurger C, Karwautz C, Mussmann M, Daims H, Battin TJ. 2010. Drivers of bacterial colonization patterns in stream biofilms. FEMS Microbiol. Ecol.
36. Goodman SD, Obergfell KP, Jurcisek JA, Novotny LA, Downey JS, Ayala EA, Tjokro N, Li B, Justice SS, Bakaletz LO. 2011. Biofilms can be dispersed by focusing the immune system on a common family of bacterial nucleoid-associated proteins. Mucosal Immunol. 4:625-637.
37. Gustave JE, Jurcisek JA, McCoy KS, Goodman SD, Bakaletz LO. 2012. Targeting bacterial integration host factor to disrupt biofilms associated with cystic fibrosis. J. Cyst. Fibros.
38. Prabhakara R, Harro JM, Leid JG, Harris M, Shirtliff ME. 2011. Murine immune response to a chronic Staphylococcus aureus biofilm infection. Infect. Immun. 79:1789-1796.
39. Tukel C, Nishimori JH, Wilson RP, Winter MG, Keestra AM, van Putten JP, Baumler AJ. 2010. Toll-like receptors 1 and 2 cooperatively mediate immune responses to curli, a common amyloid from enterobacterial biofilms. Cell Microbiol. 12:1495-1505.
40. Oppong GO, Rapsinski GJ, Newman TN, Nishimori JH, Biesecker SG, Tukel C. 2013. Epithelial Cells Augment Barrier Function via Activation of the Toll-Like Receptor 2/Phosphatidylinositol 3-Kinase Pathway upon Recognition of Salmonella enterica Serovar Typhimurium Curli Fibrils in the Gut Infect. Immun. 81:478-486.
41. Nishimori JH, Newman TN, Oppong GO, Rapsinski GJ, Yen JH, Biesecker SG, Wilson RP, Butler BP, Winter MG, Tsolis RM, Ganea D, Tukel C. 2012. Microbial Amyloids Induce Interleukin 17A (IL-17A) and IL-22 Responses via Toll-Like Receptor 2 Activation in the Intestinal Mucosa. Infect. Immun. 80:4398-4408.
42. Lovewell RR, Collins RM, Acker JL, O'Toole GA, Wargo MJ, Berwin B. 2011. Step-wise loss of bacterial flagellar torsion confers progressive phagocytic evasion. PLoS Pathog. 7:e1002253.
43. Conrad EC, Hsu YY, Bortz DM, Younger JG. 2013. Spatiotemporal Dynamics of Complement C5a Production within Bacterial Extracellular Polymeric Substance. J. Innate Immun.
44. Mowat E, Lang S, Williams C, McCulloch E, Jones B, Ramage G. 2008. Phase-dependent antifungal activity against Aspergillus fumigatus developing multicellular filamentous biofilms. J. Antimicrob. Chemother. 62: 1281-1284.
45. Rajendran R, Mowat E, McCulloch E, Lappin DF, Jones B, Lang S, Majithiya JB, Warn P, Williams C, Ramage G. 2011. Azole resistance of Aspergillus fumigatus biofilms is partly associated with efflux pump activity. Antimicrob. Agents Chemother. 55:2092-2097.
46. Rajendran R, Williams C, Lappin DF, Millington O, Martins M, Ramage G. 2013. Extracellular DNA release acts as an antifungal resistance mechanism in mature Aspergillus fumigatus biofilms. Eukaryot. Cell.
47. Xi C, Wu J. 2010. dATP/ATP, a multifunctional nucleotide, stimulates bacterial cell lysis, extracellular DNA release and biofilm development. PLoS One 5:e13355.
48. Nguyen D, Joshi-Datar A, Lepine F, Bauerle E, Olakanmi O, Beer K, McKay G, Siehnel R, Schafhauser J, Wang Y, Britigan BE, Singh PK. 2011. Active starvation responses mediate antibiotic tolerance in biofilms and nutrient-limited bacteria. Science 334:982-986.
49. Kohanski MA, Dwyer DJ, Hayete B, Lawrence CA, Collins JJ. 2007. A common mechanism of cellular death induced by bactericidal antibiotics. Cell 130:797-810.
50. Haussler S, Becker T. 2008. The pseudomonas quinolone signal (PQS) balances life and death in Pseudomonas aeruginosa populations. PLoS Pathog. 4:e1000166.
51. Folsom JP, Richards L, Pitts B, Roe F, Ehrlich GD, Parker A, Mazurie A, Stewart PS. 2010. Physiology of Pseudomonas aeruginosa in biofilms as revealed by transcriptome analysis. BMC Microbiol. 10:294.
52. Lellouche J, Friedman A, Gedanken A, Banin E. 2012. Antibacterial and antibiofilm properties of yttrium fluoride nanoparticles. Int. J. Nanomedicine. 7:5611-5624.
53. Allison KR, Brynildsen MP, Collins JJ. 2011. Heterogeneous bacterial persisters and engineering approaches to eliminate them. Curr. Opin. Microbiol. 14:593-598.
54. Chauhan A, Lebeaux D, Decante B, Kriegel I, Escande MC, Ghigo JM, Beloin C. 2012. A rat model of central venous catheter to study establishment of long-term bacterial biofilm and related acute and chronic infections. PLoS One 7:e37281.
55. Jakobsen TH, van Gennip M, Phipps RK, Shanmugham MS, Christensen LD, Alhede M, Skindersoe ME, Rasmussen TB, Friedrich K, Uthe F, Jensen PO, Moser C, Nielsen KF, Eberl L, Larsen TO, Tanner D, Hoiby N, Bjarnsholt T, Givskov M. 2012. Ajoene, a sulfur-rich molecule from garlic, inhibits genes controlled by quorum sensing. Antimicrob. Agents Chemother. 56:2314-2325.
56. Peach KC, Bray WM, Shikuma NJ, Gassner NC, Lokey RS, Yildiz FH, Linington RG. 2011. An image-based 384-well high-throughput screening method for the discovery of biofilm inhibitors in Vibrio cholerae. Mol. Biosyst. 7:1176-1184.
57. Nadell CD, Foster KR, Xavier JB. 2010. Emergence of spatial structure in cell groups and the evolution of cooperation. PLoS Comput. Biol. 6:e1000716.
58. Korolev KS, Xavier JB, Nelson DR, Foster KR. 2011. A quantitative test of population genetics using spatiogenetic patterns in bacterial colonies. Am. Nat. 178:538-552.
59. Foster KR, Bell T. 2012. Competition, no cooperation, dominates interactions among culturable microbial species. Curr. Biol. 22:1845-1850.
60. Folkesson A, Jelsbak L, Yang L, Johansen HK, Ciofu O, Hoiby N, Molin S. 2012. Adaptation of Pseudomonas aeruginosa to the cystic fibrosis airway: an evolutionary perspective. Nat. Rev. Microbiol. 10:841-851.
61. Sautter R, Ramos D, Schneper L, Ciofu O, Wassermann T, Koh CL, Heydorn A, Hentzer M, Hoiby N, Kharazmi A, Molin S, Devries CA, Ohman DE, Mathee K. 2012. A complex multilevel attack on Pseudomonas aeruginosa algT/U expression and algT/U activity results in the loss of alginate production. Gene 498:242-253.
62. Hosseinidoust Z, Van de Ven TG, Tufenkji N. 2011. Bacterial capture efficiency and antimicrobial activity of phage-functionalized model surfaces. Langmuir 27:5472-5480.
63. Granek JA, Murray D, Kayikci O, Magwene PM. 2012. The Genetic Architecture of Biofilm Formation in a Clinical Isolate of Saccharomyces cerevisiae. Genetics.
64. Logan BE, Regan JM. 2006. Electricity-producing bacterial communities in microbial fuel cells. Trends Microbiol. 14:512-518.
65. Young JM, Leschine SB, Reguera G. 2012. Reversible control of biofilm formation by Cellulomonas spp. in response to nitrogen availability. Environ. Microbiol. 14:594-604.
66. Alsteens D, Dupres V, Mc Evoy K, Wildling L, Gruber HJ, Dufrene YF. 2008. Structure, cell wall elasticity and polysaccharide properties of living yeast cells, as probed by AFM. Nanotechnology. 19:384005.
67. Dufrene YF. 2008. AFM for nanoscale microbe analysis. Analyst 133:297-301.
68. Potthoff E, Guillaume-Gentil O, Ossola D, Polesel-Maris J, Leibundgut-Landmann S, Zambelli T, Vorholt JA. 2012. Rapid and serial quantification of adhesion forces of yeast and Mammalian cells. PLoS One 7:e52712.
69. Stiefel P, Schmidt FI, Dorig P, Behr P, Zambelli T, Vorholt JA, Mercer J. 2012. Cooperative vaccinia infection demonstrated at the single-cell level using FluidFM. Nano Lett. 12:4219-4227.
70. Zhang W, Sileika TS, Chen C, Liu Y, Lee J, Packman AI. 2011. A novel planar flow cell for studies of biofilm heterogeneity and flow-biofilm interactions. Biotechnol. Bioeng. 108:2571-2582.
71. Valm AM, Mark Welch JL, Borisy GG. 2012. CLASI-FISH: principles of combinatorial labeling and spectral imaging. Syst. Appl. Microbiol. 35: 496-502.
72. Valm AM, Mark Welch JL, Rieken CW, Hasegawa Y, Sogin ML, Oldenbourg R, Dewhirst FE, Borisy GG. 2011. Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging. Proc. Natl. Acad. Sci. U. S. A. 108:4152-4157.
73. Lopez D, Vlamakis H, Kolter R. 2010. Biofilms. Cold Spring Harbor Perspect. Biol. 2:a000398.