Diversity of Acinetobacter baumannii in Four French Military Hospitals, as Assessed by Multiple Locus Variable Number of Tandem Repeats Analysis

PLoS ONE

Volumn 7, Issue 9, 2012, Pages

  Hauck, Yolande ^a,b   Soler, Charles ^c   Jault, Patrick ^c   Mérens, Audrey ^d   Gérome, Patrick ^e   Nab, Christine Mac ^c   Trueba, François ^f   Bargues, Laurent ^c   Thien, Hoang Vu ^g   Vergnaud, Gilles ^a,b,h   Pourcel, Christine ^a,b  

^a UNIVERSITÉ PARIS SACLAY   (France)

^b CNRS   (France)

^c PERCY MILITARY HOSPITAL   (France)

^d SERVICE D ENDOCRINOLOGIE   (France)

^e HIA Desgenettes   (France)

^f University of Paris Descartes   (France)

^g ASSISTANCE PUBLIQUE HÔPITAUX DE PARIS   (France)

^h DGA/MRIS Mission Pour la Recherche et L'Innovation Scientifique   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA;

ACINETOBACTER BAUMANNII; ARTICLE; BACTERIAL GENOME; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; CONTROLLED STUDY; DNA SEQUENCE; GENE CLUSTER; GENETIC VARIABILITY; GENOTYPE; MOLECULAR CLONING; MULTIPLE LOCUS VARIABLE NUMBER OF TANDEM REPEAT; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PUBLIC HOSPITAL; VARIABLE NUMBER OF TANDEM REPEAT;

ACINETOBACTER BAUMANNII; ACINETOBACTER INFECTIONS; AUTOMATION; CROSS INFECTION; DRUG RESISTANCE, MULTIPLE, BACTERIAL; FRANCE; GENETIC VARIATION; GENOTYPE; HOSPITALS; HOSPITALS, MILITARY; HUMANS; MINISATELLITE REPEATS; MOLECULAR SEQUENCE DATA; OLIGONUCLEOTIDES; POLYMORPHISM, GENETIC;

ACINETOBACTER; ACINETOBACTER BAUMANNII; ACINETOBACTER CALCOACETICUS;

EID: 84866316311     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0044597     Document Type: Article

References (53)

1. Dijkshoorn L, Nemec A, Seifert H, (2007) An increasing threat in hospitals: multidrug-resistant Acinetobacter baumannii. Nat Rev Microbiol 5: 939-951.
2. Nemec A, De Baere T, Tjernberg I, Vaneechoutte M, van der Reijden TJ, et al. (2001) Acinetobacter ursingii sp. nov. and Acinetobacter schindleri sp. nov., isolated from human clinical specimens. Int J Syst Evol Microbiol 51: 1891-1899.
3. Nemec A, Krizova L, Maixnerova M, van der Reijden TJ, Deschaght P, et al. (2011) Genotypic and phenotypic characterization of the Acinetobacter calcoaceticus-Acinetobacter baumannii complex with the proposal of Acinetobacter pittii sp. nov. (formerly Acinetobacter genomic species 3) and Acinetobacter nosocomialis sp. nov. (formerly Acinetobacter genomic species 13TU). Res Microbiol 162: 393-404.
4. Peleg AY, Seifert H, Paterson DL, (2008) Acinetobacter baumannii: emergence of a successful pathogen. Clin Microbiol Rev 21: 538-582.
5. Gerner-Smidt P, Tjernberg I, Ursing J, (1991) Reliability of phenotypic tests for identification of Acinetobacter species. J Clin Microbiol 29: 277-282.
6. Fournier PE, Richet H, (2006) The epidemiology and control of Acinetobacter baumannii in health care facilities. Clin Infect Dis 42: 692-699.
7. Perez F, Hujer AM, Hujer KM, Decker BK, Rather PN, et al. (2007) Global challenge of multidrug-resistant Acinetobacter baumannii. Antimicrob Agents Chemother 51: 3471-3484.
8. Higgins PG, Dammhayn C, Hackel M, Seifert H, (2010) Global spread of carbapenem-resistant Acinetobacter baumannii. J Antimicrob Chemother 65: 233-238.
9. Magiorakos AP, Srinivasan A, Carey RB, Carmeli Y, Falagas ME, et al. (2011) Multidrug-resistant, extensively drug-resistant and pandrug-resistant bacteria: an international expert proposal for interim standard definitions for acquired resistance. Clin Microbiol Infect.
10. Dijkshoorn L, Aucken H, Gerner-Smidt P, Janssen P, Kaufmann ME, et al. (1996) Comparison of outbreak and nonoutbreak Acinetobacter baumannii strains by genotypic and phenotypic methods. J Clin Microbiol 34: 1519-1525.
11. van Dessel H, Dijkshoorn L, van der Reijden T, Bakker N, Paauw A, et al. (2004) Identification of a new geographically widespread multiresistant Acinetobacter baumannii clone from European hospitals. Res Microbiol 155: 105-112.
12. van den Broek PJ, van der Reijden TJ, van Strijen E, Helmig-Schurter AV, Bernards AT, et al. (2009) Endemic and epidemic acinetobacter species in a university hospital: an 8-year survey. J Clin Microbiol 47: 3593-3599.
13. Lee YC, Huang YT, Tan CK, Kuo YW, Liao CH, et al. (2011) Acinetobacter baumannii and Acinetobacter genospecies 13TU and 3 bacteraemia: comparison of clinical features, prognostic factors and outcomes. J Antimicrob Chemother 66: 1839-1846.
14. Berlau J, Aucken HM, Houang E, Pitt TL, (1999) Isolation of Acinetobacter spp. including A. baumannii from vegetables: implications for hospital-acquired infections. J Hosp Infect 42: 201-204.
15. Houang ET, Chu YW, Leung CM, Chu KY, Berlau J, et al. (2001) Epidemiology and infection control implications of Acinetobacter spp. in Hong Kong. J Clin Microbiol 39: 228-234.
16. Sachdev D, Nema P, Dhakephalkar P, Zinjarde S, Chopade B, (2010) Assessment of 16S rRNA gene-based phylogenetic diversity and promising plant growth-promoting traits of Acinetobacter community from the rhizosphere of wheat. Microbiol Res 165: 627-638.
17. Fournier PE, Vallenet D, Barbe V, Audic S, Ogata H, et al. (2006) Comparative genomics of multidrug resistance in Acinetobacter baumannii. PLoS Genet 2: e7.
18. Snitkin ES, Zelazny AM, Montero CI, Stock F, Mijares L, et al. (2011) Genome-wide recombination drives diversification of epidemic strains of Acinetobacter baumannii. Proc Natl Acad Sci U S A 108: 13758-13763.
19. Petersen K, Cannegieter SC, van der Reijden TJ, van Strijen B, You DM, et al. (2011) Diversity and clinical impact of Acinetobacter baumannii colonization and infection at a military medical center. J Clin Microbiol 49: 159-166.
20. Scott P, Deye G, Srinivasan A, Murray C, Moran K, et al. (2007) An outbreak of multidrug-resistant Acinetobacter baumannii-calcoaceticus complex infection in the US military health care system associated with military operations in Iraq. Clin Infect Dis 44: 1577-1584.
21. Seifert H, Dolzani L, Bressan R, van der Reijden T, van Strijen B, et al. (2005) Standardization and interlaboratory reproducibility assessment of pulsed-field gel electrophoresis-generated fingerprints of Acinetobacter baumannii. J Clin Microbiol 43: 4328-4335.
22. Carretto E, Barbarini D, Dijkshoorn L, van der Reijden TJ, Brisse S, et al. (2011) Widespread carbapenem resistant Acinetobacter baumannii clones in Italian hospitals revealed by a multicenter study. Infect Genet Evol 11: 1319-1326.
23. Bartual SG, Seifert H, Hippler C, Luzon MA, Wisplinghoff H, et al. (2005) Development of a multilocus sequence typing scheme for characterization of clinical isolates of Acinetobacter baumannii. J Clin Microbiol 43: 4382-4390.
24. Ecker JA, Massire C, Hall TA, Ranken R, Pennella TT, et al. (2006) Identification of Acinetobacter species and genotyping of Acinetobacter baumannii by multilocus PCR and mass spectrometry. J Clin Microbiol 44: 2921-2932.
25. Hamouda A, Evans BA, Towner KJ, Amyes SG, (2010) Characterization of epidemiologically unrelated Acinetobacter baumannii isolates from four continents by use of multilocus sequence typing, pulsed-field gel electrophoresis, and sequence-based typing of bla(OXA-51-like) genes. J Clin Microbiol 48: 2476-2483.
26. Diancourt L, Passet V, Nemec A, Dijkshoorn L, Brisse S, (2010) The population structure of Acinetobacter baumannii: expanding multiresistant clones from an ancestral susceptible genetic pool. PLoS One 5: e10034.
27. Turton JF, Matos J, Kaufmann ME, Pitt TL, (2009) Variable number tandem repeat loci providing discrimination within widespread genotypes of Acinetobacter baumannii. Eur J Clin Microbiol Infect Dis 28: 499-507.
28. Turton JF, Baddal B, Perry C, (2011) Use of the accessory genome for characterization and typing of Acinetobacter baumannii. J Clin Microbiol 49: 1260-1266.
29. Pourcel C, Minandri F, Hauck Y, D'Arezzo S, Imperi F, et al. (2011) Identification of variable-number tandem-repeat (VNTR) sequences in Acinetobacter baumannii and interlaboratory validation of an optimized multiple-locus VNTR analysis typing scheme. J Clin Microbiol 49: 539-548.
30. Vergnaud G, Pourcel C, (2009) Multiple locus variable number of tandem repeats analysis. Methods Mol Biol 551: 141-158.
31. Visca P, D'Arezzo S, Ramisse F, Gelfand Y, Benson G, et al. (2011) Investigation of the population structure of Legionella pneumophila by analysis of tandem repeat copy number and internal sequence variation. Microbiology 157: 2582-2594.
32. Minandri F, D'Arezzo S, Antunes LC, Pourcel C, Principe L, et al. (2012) Evidence of diversity among epidemiologically related carbapenemase-producing Acinetobacter baumannii strains belonging to international clonal lineage II. J Clin Microbiol 50: 590-597.
33. Horvath P, Barrangou R, (2010) CRISPR/Cas, the immune system of bacteria and archaea. Science 327: 167-170.
34. Swarts DC, Mosterd C, van Passel MW, Brouns SJ, (2012) CRISPR interference directs strand specific spacer acquisition. PLoS One 7: e35888.
35. Chakraborty S, Snijders AP, Chakravorty R, Ahmed M, Tarek AM, et al. (2010) Comparative network clustering of direct repeats (DRs) and cas genes confirms the possibility of the horizontal transfer of CRISPR locus among bacteria. Mol Phylogenet Evol 56: 878-887.
36. Grissa I, Vergnaud G, Pourcel C, (2009) Clustered regularly interspaced short palindromic repeats (CRISPRs) for the genotyping of bacterial pathogens. Methods Mol Biol 551: 105-116.
37. Grissa I, Vergnaud G, Pourcel C, (2007) The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats. BMC Bioinformatics 8: 172.
38. Pourcel C, Salvignol G, Vergnaud G, (2005) CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies. Microbiology 151: 653-663.
39. Gant VA, Wren MW, Rollins MS, Jeanes A, Hickok SS, et al. (2007) Three novel highly charged copper-based biocides: safety and efficacy against healthcare-associated organisms. J Antimicrob Chemother 60: 294-299.
40. Falagas ME, Giannopoulou KP, Kokolakis GN, Rafailidis PI, (2008) Fosfomycin: use beyond urinary tract and gastrointestinal infections. Clin Infect Dis 46: 1069-1077.
41. Lu CL, Liu CY, Huang YT, Liao CH, Teng LJ, et al. (2011) Antimicrobial susceptibilities of commonly encountered bacterial isolates to fosfomycin determined by agar dilution and disk diffusion methods. Antimicrob Agents Chemother 55: 4295-4301.
42. Chuang YC, Sheng WH, Li SY, Lin YC, Wang JT, et al. (2011) Influence of genospecies of Acinetobacter baumannii complex on clinical outcomes of patients with acinetobacter bacteremia. Clin Infect Dis 52: 352-360.
43. Wisplinghoff H, Paulus T, Lugenheim M, Stefanik D, Higgins PG, et al. (2012) Nosocomial bloodstream infections due to Acinetobacter baumannii, Acinetobacter pittii and Acinetobacter nosocomialis in the United States. J Infect 64: 282-290.
44. Boo TW, Walsh F, Crowley B, (2009) Molecular characterization of carbapenem-resistant Acinetobacter species in an Irish university hospital: predominance of Acinetobacter genomic species 3. J Med Microbiol 58: 209-216.
45. Ko WC, Lee NY, Su SC, Dijkshoorn L, Vaneechoutte M, et al. (2008) Oligonucleotide array-based identification of species in the Acinetobacter calcoaceticus-A. baumannii complex in isolates from blood cultures and antimicrobial susceptibility testing of the isolates. J Clin Microbiol 46: 2052-2059.
46. Lin YC, Sheng WH, Chang SC, Wang JT, Chen YC, et al. (2008) Application of a microsphere-based array for rapid identification of Acinetobacter spp. with distinct antimicrobial susceptibilities. J Clin Microbiol 46: 612-617.
47. Lista F, Faggioni G, Valjevac S, Ciammaruconi A, Vaissaire J, et al. (2006) Genotyping of Bacillus anthracis strains based on automated capillary 25-loci Multiple Locus Variable-Number Tandem Repeats Analysis. BMC Microbiol 6: 33.
48. La Scola B, Gundi VA, Khamis A, Raoult D, (2006) Sequencing of the rpoB gene and flanking spacers for molecular identification of Acinetobacter species. J Clin Microbiol 44: 827-832.
49. Adams MD, Goglin K, Molyneaux N, Hujer KM, Lavender H, et al. (2008) Comparative genome sequence analysis of multidrug-resistant Acinetobacter baumannii. J Bacteriol 190: 8053-8064.
50. Iacono M, Villa L, Fortini D, Bordoni R, Imperi F, et al. (2008) Whole-genome pyrosequencing of an epidemic multidrug-resistant Acinetobacter baumannii strain belonging to the European clone II group. Antimicrob Agents Chemother 52: 2616-2625.
51. Smith MG, Gianoulis TA, Pukatzki S, Mekalanos JJ, Ornston LN, et al. (2007) New insights into Acinetobacter baumannii pathogenesis revealed by high-density pyrosequencing and transposon mutagenesis. Genes Dev 21: 601-614.
52. Vallenet D, Nordmann P, Barbe V, Poirel L, Mangenot S, et al. (2008) Comparative analysis of Acinetobacters: three genomes for three lifestyles. PLoS One 3: e1805.
53. Di Nocera PP, Rocco F, Giannouli M, Triassi M, Zarrilli R, (2011) Genome organization of epidemic Acinetobacter baumannii strains. BMC Microbiol 11: 224.