Antibiotic resistance genes in the bacteriophage DNA fraction of environmental samples

PLoS ONE

Volumn 6, Issue 3, 2011, Pages

  Colomer Lluch, Marta ^a   Jofre, Juan ^a   Muniesa, Maite ^a  

^a UNIVERSITY OF BARCELONA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; BACTERIOPHAGE DNA; BETA LACTAM ANTIBIOTIC; BETA LACTAMASE; BETA LACTAMASE CTX M; BETA LACTAMASE TEM; PENICILLIN BINDING PROTEIN 2A; RIVER WATER; UNCLASSIFIED DRUG; VIRUS DNA;

ANTIBIOTIC RESISTANCE; AQUATIC ENVIRONMENT; ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; CONTROLLED STUDY; DNA ISOLATION; ELECTROPORATION; GENE DOSAGE; METHICILLIN RESISTANT STAPHYLOCOCCUS AUREUS; NONHUMAN; SEWAGE; URBAN AREA; WATER ANALYSIS; BACTERIOPHAGE; BACTERIUM; CITY; GENETIC TRANSFECTION; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; RIVER; SPAIN; ULTRASTRUCTURE; VIROLOGY; VIRUS GENE;

BACTERIA (MICROORGANISMS);

BACTERIA; BACTERIOPHAGES; BASE SEQUENCE; CITIES; DNA, VIRAL; DRUG RESISTANCE, MICROBIAL; ENVIRONMENTAL MICROBIOLOGY; GENE DOSAGE; GENES, VIRAL; MOLECULAR SEQUENCE DATA; RIVERS; SEWAGE; SPAIN; TRANSFECTION;

EID: 79952306616     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0017549     Document Type: Article

References (61)

1. World Health Organization (1996) The world health report. Geneva, Switzerland.
2. American Academy of Microbiology (2009) Antibiotic Resistance: An Ecological Perspective on an Old Problem. ASM. Washington.
3. Hawkey PM, Jones AM, (2009) The changing epidemiology of resistance. J Antimicrob Chemother 64S1: i3-10.
4. Jansen WTM, Van Der Bruggen JT, Verhoef J, Fluit AC, (2006) Bacterial resistance: a sensitive issue. Complexity of the challenge and containment strategy in Europe. Drug Res Updates 9: 123-133.
5. Canton R, (2009) Antibiotic resistance genes from the environment: a perspective through newly identified antibiotic resistance mechanisms in the clinical setting. Clin Microbiol Infect 1: 20-25.
6. Davies J, (1994) Inactivation of antibiotics and the dissemination of resistance genes. Science 264: 375-382.
7. Murray BE, (1992) Problems and dilemmas of antimicrobial resistance. Pharmacotherapy 12 (6 Pt 2): 86S-93S.
8. Wright GD, (2010) Antibiotic resistance in the environment: a link to the clinic? Curr Opin Microbiol 13: 589-594.
9. Muniesa M, García A, Miró E, Mirelis B, Prats G, et al. (2004) Bacteriophages and diffusion of β-lactamase genes. Emerg Infect Dis 10: 1134-1137.
10. Witte W, (2004) International dissemination of antibiotic resistant strains of bacterial pathogens. Infect Genet Evol 4: 187-191.
11. Brabban AD, Hite E, Callaway TR, (2005) Evolution of foodborne pathogens via temperate bacteriophage-mediated gene transfer. Foodborne Pathog Dis 2: 287-303.
12. D'Costa VM, McGrann KM, Hughes DW, Wright GD, (2006) Sampling the antibiotic resistome. Science 311: 374-377.
13. Cangelosi GA, Freitag NE, Buckley MR, (2004) From outside to Inside. Environmental Microorganisms as Human Pathogens. American Academy of Microbiology Report. ASM. Washington.
14. Blahova J, Hupkova M, Babalova M, Krcmery V, Schafer V, (1993) Transduction of resistance to imipenem, aztreonam and ceftazidime in nosocomial strains of Pseudomonas aeruginosa by wild-type phages. Acta Virol 37: 429-436.
15. Willi K, Sandmeier H, Kulik EM, Meyer J, (1997) Transduction of antibiotic resistance markers among Actinobacillus actinomycetemcomitans strains by temperate bacteriophages Aaphi 23. Cell Mol Life Sci 53: 904-910.
16. Schmieger H, Schicklmaier P, (1999) Transduction of multiple drug resistance of Salmonella enterica serovar typhimurium DT104. FEMS Microbiol Lett 170: 251-256.
17. Hyder SL, Streitfeld MM, (1978) Transfer of erythromycin resistance from clinically isolated lysogenic strains of Streptococcus pyogenes via their endogenous phage. J Infect Dis 138: 281-286.
18. Banks DJ, Porcella SF, Barbian KD, Beres SB, Philips LE, et al. (2004) Progress toward Characterization of the Group A Streptococcus Metagenome: Complete Genome Sequence of a Macrolide-Resistant Serotype M6 Strain. J Infect Dis 190: 727-738.
19. Parsley LC, Consuegra EJ, Kakirde KS, Land AM, Harper WF Jr, et al. (2010) Identification of Diverse Antimicrobial Resistance Determinants Carried on Bacterial, Plasmid, or Viral Metagenomes from an Activated Sludge Microbial Assemblage. Appl Environ Microbiol 76: 3753-3757.
20. Barlow M, Reik RA, Jacobs SD, Medina M, Meyer MP, et al. (2008) High rate of mobilization for blaCTX-M. Emerging Infectious Diseases 14: 423-428.
21. Ito T, Katayama Y, Asada K, Mori N, Tsutsumimoto K, et al. (2001) Structural comparison of three types of staphylococcal cassette chromosome mec integrated in the chromosome in methicillin-resistant Staphylococcus aureus. Antimicrob Agents Chemother 45: 1323-1336.
22. Ito T, Okuma K, Ma XX, Yuzawa H, Hiramatsu K, (2003) Insights on antibiotic resistance of Staphylococcus aureus from its whole genome: genomic island SCC, Drug Resist Updat 6: 41-52.
23. Lindsay JA, Holden MT, (2006) Understanding the rise of the superbug: investigation of the evolution and genomic variation of Staphylococcus aureus. Funct Integr Genomics 6: 186-201.
24. Patterson JE, (2003) Extended-spectrum beta-lactamases (2003) Semin Respir Crit Care Med 24: 79-88.
25. Rodríguez-Baño J, Alcalá JC, Cisneros JM, Grill F, Oliver A, et al. (2008) Community infections caused by extended-spectrum β-lactamase-producing Escherichia coli. Arch Intern Med 168: 1897-1902.
26. Díaz MA, Hernández-Bello JR, Rodríguez-Baño J, Martínez-Martínez L, Calvo J, et al. (2010) The Diversity of Escherichia coli Producing Extended-Spectrum β-lactamases in Spain: Second Nationwide Study. J Clin Microbiol 48: 2840-2845.
27. Dinsdale EA, Edwards RA, Hall D, Angly F, Breitbart M, et al. (2008) Functional metagenomic profiling of nine biomes. Nature 452: 629-632.
28. Muniesa M, Lucena F, Jofre J, (1999) Comparative survival of free shiga toxin 2-encoding phages and Escherichia coli strains outside the gut. Appl Environ Microbiol 65: 5615-5618.
29. Durán AE, Muniesa M, Méndez X, Valero F, Lucena F, et al. (2002) Removal and inactivation of indicator bacteriophages in fresh waters. J Appl Microbiol 92: 338-347.
30. Lucena F, Duran AE, Moron A, Calderon E, Campos C, et al. (2004) Reduction of bacterial indicators and bacteriophages infecting faecal bacteria in primary and secondary wastewater treatments. J Appl Microbiol 97: 1069-1076.
31. Edge TA, Hill S, (2005) Occurrence of antibiotic resistance in Escherichia coli from surface waters and fecal pollution sources near Hamilton, Ontario. Can J Microbiol 51: 501-505.
32. Bonnet R, (2004) Growing group of extended-spectrum beta-lactamases: the CTX-M enzymes. Antimicrob Agents Chemother 48 (1): 1-14.
33. Walther-Rasmussen J, Høiby N, (2004) Cefotaximases (CTX-M-ases), an expanding family of extended-spectrum beta-lactamases. Can J Microbiol 50 (3): 137-65.
34. Novais A, Comas I, Baquero F, Cantón R, Coque TM, et al. (2010) Evolutionary trajectories of beta-lactamase CTX-M-1 cluster enzymes: predicting antibiotic resistance. PLoS Pathog 6 (1): e1000735.
35. Coque TM, Baquero F, Canton R, (2008) Increasing prevalence of ESBL-producing Enterobacteriaceae in Europe. Euro Surveill 13 (47): pii: 19044.
36. Lachmayr KL, Kerkhof LJ, Dirienzo AG, Cavanaugh CM, Ford TE, (2009) Quantifying nonspecific TEM beta-lactamase (blaTEM) genes in a wastewater stream. Appl Environ Microbiol 75: 203-211.
37. Pitout JD, Laupland KB, (2008) Extended-spectrum β-lactamase producing Enterobacteriaceae: an emerging public-health problem. Lancet Infect Dis 8: 150-166.
38. Volkmann H, Schwartz T, Bischoff P, Kirchen S, Obst U, (2004) Detection of clinically relevant antibiotic-resistance genes in municipal wastewater using real-time PCR (TaqMan). J Microbiol Methods 56: 277-286.
39. Börjesson S, Melin S, Matussek A, Lindgren PE, (2009) A seasonal study of the mecA gene and Staphylococcus aureus including methicillin-resistant S. aureus in a municipal wastewater treatment plant. Water Res 43: 925-932.
40. Tormo-Más MA, Mir I, Shrestha A, Tallent SM, Campoy S, et al. (2010) Moonlighting bacteriophage proteins derepress staphylococcal pathogenicity islands. Nature 465: 779-782.
41. Chambers HF, (2005) Community-associated MRSA-resistance and virulence converge. N Engl J Med 352: 1485-1487.
42. Muniesa M, Mocé-Llivina L, Katayama H, Jofre J, (2003) Bacterial host strains that support replication of somatic coliphages. Antonie Van Leeuwenhoek 83: 305-315.
43. Berger-Bachi B, Rohrer S, (2002) Factors influencing methicillin resistance in Staphylococci. Arch Microbiol 178: 165-171.
44. Cooke MD, (1976) Antibiotic resistance among coliform and fecal coliform bacteria isolated from the freshwater mussel Hydridella menziesii. Antimicrob Agents Chemother 9: 885-888.
45. Schwartz T, Kohnen W, Jansen B, Obst U, (2003) Detection of antibiotic-resistant bacteria and their resistance genes in wastewater, surface water, and drinking water biofilms. FEMS Microbiol Ecol 43: 325-335.
46. Oliver A, Coque TM, Alonso D, Valverde A, Baquero F, et al. (2005) CTX-M-10 linked to a phage-related element is widely disseminated among Enterobacteriaceae in a Spanish hospital. Antimicrob Agents Chemother 49: 1567-1571.
47. Schuch R, Fischetti VA, (2006) Detailed genomic analysis of the Wbeta and gamma phages infecting Bacillus anthracis: implications for evolution of environmental fitness and antibiotic resistance. J Bacteriol 188: 3037-3051.
48. McShan WM, (2000) The bacteriophages of group A streptococci. In: Fischetti VA, editors. Gram-Positive Pathogens Washington DC ASM Press pp. 105-116.
49. Beres SB, Musser JM, (2007) Contribution of exogenous genetic elements to the group A Streptococcus metagenome. PLoS One 2 (8): e800.
50. Lingohr EJ, Villegas A, She YM, Ceyssens PJ, Kropinski AM, (2008) The genome and proteome of the Kluyvera bacteriophage Kvp1-another member of the T7-like Autographivirinae. Virol J 5: 122.
51. Smith HW, (1972) Ampicillin resistance in Escherichia coli by phage infection. Nat New Biol 238: 205-206.
52. Lorenz MG, Wackernagel W, (1994) Bacterial gene transfer by natural genetic transformation in the environment. Microbiol Rev 58: 563-602.
53. Dupray E, Caprais MP, Derrien A, Fach P, (1997) Salmonella DNA persistence in natural seawaters using PCR analysis. J Appl Microbiol 82: 507-510.
54. Zhu B, (2006) Degradation of plasmid and plant DNA in water microcosms monitored by natural transformation and real-time polymerase chain reaction (PCR). Water Res 40: 3231-3238.
55. Beaber JW, Hochhut B, Waldor MK, (2003) SOS response promotes horizontal dissemination of antibiotic resistance genes. Nature 427: 72-74.
56. Imamovic L, Jofre J, Schmidt H, Serra-Moreno R, Muniesa M, (2009) Phage-mediated Shiga toxin 2 gene transfer in food and water. Appl Environ Microbiol 75: 1764-1768.
57. Anonymous (1998) Standard methods for the examination of water and wastewater. 20th Edition.1200 pp. American Public Health Association, American Works Association and Water Environmental Federation. Washington, D.C.
58. Anonymous (2000) ISO 10705-2: Water quality. Detection and enumeration of bacteriophages-part 2: Enumeration of somatic coliphages. International Organisation for Standardisation Geneva Switzerland.
59. Sambrook J, Russell DW, (2001) Molecular cloning: a laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Cold Spring Harbor, N.Y.
60. Muniesa M, Blanch AR, Lucena F, Jofre J, (2005) Bacteriophages may bias outcome of bacterial enrichment cultures. Appl Environ Microbiol 71: 4269-4275.
61. Sander M, Schmieger H, (2001) Method for host-independent detection of generalized transducing bacteriophages in natural habitats. Appl Environ Microbiol 67: 1490-1493.