Comparative genomic analysis of rapid evolution of an extreme-drug- resistant Acinetobacter baumannii clone

Genome Biology and Evolution

Volumn 5, Issue 5, 2013, Pages 807-818

  Tan, Sean Yang Yi ^a,b   Chua, Song Lin ^c   Liu, Yang ^a   Høiby, Niels ^d   Andersen, Leif Percival ^e   Givskov, Michael ^a,f   Song, Zhijun ^d   Yang, Liang ^a,b,g  

^a NANYANG TECHNOLOGICAL UNIVERSITY   (Singapore)

^b NANYANG TECHNOLOGICAL UNIVERSITY   (Singapore)

^c NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^d Unit for Infectious Hygiene ^*  (Denmark)

^e University of Copenhagen   (Denmark)

^f UNIVERSITY OF COPENHAGEN   (Denmark)

^g TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

Author keywords

Acinetobacter baumannii; Antibiotic resistance; Comparative genomics; Single nucleotide polymorphism

Indexed keywords

ANTIINFECTIVE AGENT;

ACINETOBACTER BAUMANNII; ACINETOBACTER INFECTION; ANTIBIOTIC RESISTANCE; BACTERIAL GENOME; COMPARATIVE GENOMIC HYBRIDIZATION; CROSS INFECTION; DNA FINGERPRINTING; DRUG EFFECTS; GENETICS; HUMAN; MICROBIOLOGY; MOLECULAR EPIDEMIOLOGY; PATHOGENICITY; SINGLE NUCLEOTIDE POLYMORPHISM; ARTICLE; COMPARATIVE GENOMICS; DRUG EFFECT; SINGLE-NUCLEOTIDE POLYMORPHISM;

ACINETOBACTER BAUMANNII; ACINETOBACTER INFECTIONS; ANTI-BACTERIAL AGENTS; COMPARATIVE GENOMIC HYBRIDIZATION; CROSS INFECTION; DNA FINGERPRINTING; DRUG RESISTANCE, BACTERIAL; GENOME, BACTERIAL; HUMANS; MOLECULAR EPIDEMIOLOGY; POLYMORPHISM, SINGLE NUCLEOTIDE;

ACINETOBACTER BAUMANNII; ANTIBIOTIC RESISTANCE; COMPARATIVE GENOMICS; SINGLE-NUCLEOTIDE POLYMORPHISM;

EID: 84887524784     PISSN: None     EISSN: 17596653     Source Type: Journal    
DOI: 10.1093/gbe/evt047     Document Type: Article

References (42)

1. Aziz R, et al. 2008. The RAST Server: rapid annotations using subsystems technology. BMC Genomics 9:75.
2. Beceiro A, et al. 2011. Phosphoethanolamine modification of lipid A in colistin-resistant variants of Acinetobacter baumannii mediated by the pmrAB two-component regulatory system. Antimicrob Agents Chemother. 557:3370-3379.
3. Bradford PA. 2001. Extended-spectrum p-lactamases in the 21st century: characterization, epidemiology, and detection of this important resistance threat. Clin Microbiol Rev. 144:933-951.
4. Carvalho KR, et al. 2009. Dissemination of multidrug-resistant Acinetobacter baumannii genotypes carrying blaoxa-23 collected from hospitals in Rio de Janeiro, Brazil. Int J Antimicrob Agents. 341:25-28.
5. Clarke MB, Hughes DT, Zhu C, Boedeker EC, Sperandio V. 2006. The QseC sensor kinase: a bacterial adrenergic receptor. Proc Natl Acad Sci U S A. 10327:10420-10425.
6. Corvec S, et al. 2003. AmpC cephalosporinase hyperproduction in Acinetobacter baumannii clinical strains. J Antimicrob Chemother. 524:629-635.
7. Darling AE, Mau B, Perna NT. 2010. progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. PloS One 5(6):e11147.
8. Dijkshoorn L, et al. 1996. Comparison of outbreak and nonoutbreak Acinetobacter baumannii strains by genotypic and phenotypic methods. J Clin Microbiol. 34(6):1519-1525.
9. Eaves DJ, et al. 2004. Prevalence of mutations within the quinolone resistance-determining region of gyrA, gyrB, parC, and parE and association with antibiotic resistance in quinolone-resistant Salmonella enterica. Antimicrob Agents Chemother. 4810:4012-4015.
10. Falagas ME, Kasiakou SK, Saravolatz LD. 2005. Colistin: the revival of polymyxins for the management of multidrug-resistant gram-negative bacterial infections. Clin Infect Dis. 409:1333-1341.
11. Fournier PE, Richet H, Weinstein RA. 2006. The epidemiology and control of Acinetobacter baumannii in health care facilities. Clin Infect Dis. 42(5):692-699.
12. Garnacho-Montero J, Amaya-Villar R. 2010. Multiresistant Acinetobacter baumannii infections: epidemiology and management. Curr Opin Infect Dis. 23 (4) 332-339.
13. Hayes MV, Orr DC. 1983. Mode of action of ceftazidime: affinity for the penicillin-binding proteins of Escherichia coli K12, Pseudomonas aeruginosa and Staphylococcus aureus. J Antimicrob Chemother. 122:119-126.
14. Howard A, O'Donoghue M, Feeney A, Sleator RD. 2012. Acinetobacter baumannii: an emerging opportunistic pathogen. Virulence 3(3):243-250.
15. Iacono M, 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(7):2616-2625.
16. Karavolos M, et al. 2008. Adrenaline modulates the global transcriptional profile of Salmonella revealing a role in the antimicrobial peptide and oxidative stress resistance responses. BMC Genomics 91:458.
17. Karlowsky JA, et al. 2003. Surveillance for antimicrobial susceptibility among clinical isolates of Pseudomonas aeruginosa and Acinetobacter baumannii from hospitalized patients in the United States, 1998 to 2001. Antimicrob Agents Chemother. 47(5):1681-1688.
18. Krawitz P, et al. 2010. Microindel detection in short-read sequence data. Bioinformatics 26(6):722-729.
19. Li H, et al. 2009. The Sequence Alignment/Map format and SAMtools. Bioinformatics 2516:2078-2079.
20. Liu B, Pop M. 2009. ARDB-Antibiotic Resistance Genes Database. Nucleic Acids Res. 37:D443-D447.
21. Livermore DM. 1995. beta-Lactamases in laboratory and clinical resistance. Clin Microbiol Rev. 84:557-584.
22. Lockhart SR, et al. 2007. Antimicrobial resistance among gram-negative bacilli causing infections in intensive care unit patients in the United States between 1993 and 2004. J Clin Microbiol. 45(10):3352-3359.
23. Moffatt JH, et al. 2010. Colistin resistance in Acinetobacter baumannii is mediated by complete loss of lipopolysaccharide production. Antimicrob Agents Chemother. 5412:4971-4977.
24. Mugnier PD, Poirel L, Naas T, Nordmann P. 2010. Worldwide Dissemination of the blaOXA-23 Carbapenemase Gene of Acinetobacter baumannii1. Emerg Infect Dis. 161:35.
25. Nelson E, Elisha BG. 1999. Molecular basis of AmpC hyperproduction in clinical isolates of Escherichia coli. Antimicrob Agents Chemother. 434:957-959.
26. Nikaido H. 2003. Molecular basis of bacterial outer membrane permeability revisited. Microbiol Mol Biol Rev. 674:593-656.
27. Nikaido H. 2009. Multidrug resistance in bacteria. Annu Rev Biochem. 78:119-146.
28. Nukaga M, et al. 1995. Molecular evolution of a class C-lactamase extending its substrate specificity. J Biol Chem. 27011:5729-5735.
29. Paterson DL, Doi Y. 2007. A step closer to extreme drug resistance (XDR) in gram-negative bacilli. Clin Infect Dis. 45(9):1179-1181.
30. Poirel L, Menuteau O, Agoli N, Cattoen C, Nordmann P. 2003. Outbreak of extended-spectrum beta-lactamase VEB-1-producing isolates of Acinetobacter baumannii in a French hospital. J Clin Microbiol. 41(8):3542-3547.
31. Rasko DA, et al. 2008. Targeting QseC signaling and virulence for antibiotic development. Science 321:1078-1080.
32. Runnegar N, et al. 2010. Molecular epidemiology of multidrug-resistant Acinetobacter baumannii in a single institution over a 10-year period. J Clin Microbiol. 48(11):4051-4056.
33. Scaife W, Young H-K, Paton RH, Amyes SG. 1995. Transferable imipenemresistance in Acinetobacter species from a clinical source. J Antimicrob Chemother. 363:585-587.
34. Stoeva T, Higgins P, Bojkova K, Seifert H. 2008. Clonal spread of carbapenem-resistant OXA-23-positive Acinetobacter baumannii in a Bulgarian university hospital. Clin Microb Infect. 147:723-727.
35. Tam V, et al. 2007. Prevalence of AmpC over-expression in bloodstream isolates of Pseudomonas aeruginosa. Clin Microb Infect. 134:413-418.
36. Van Dessel H, et al. 2004. Identification of a new geographically widespread multiresistant Acinetobacter baumannii clone from European hospitals. Res Microbiol. 155(2):105-112.
37. Vila J, Martí S, Sánchez-Céspedes J. 2007. Porins, efflux pumps and multidrug resistance in Acinetobacter baumannii. J Antimicrob Chemother. 596:1210-1215.
38. Vila J, Ruiz J, Goñi P, De Anta TJ. 1997. Quinolone-resistance mutations in the topoisomerase IV parC gene of Acinetobacter baumannii. J Antimicrob Chemother. 396:757-762.
39. Walter F, Vicens Q, Westhof E. 1999. Aminoglycoside-RNA interactions. Curr Opin Chem Biol. 36:694-704.
40. Yoshida H, Bogaki M, Nakamura M, Yamanaka LM, Nakamura S. 1991. Quinolone resistance-determining region in the DNA gyrase gyrB gene of Escherichia coli. Antimicrob Agents Chemother. 358:1647-1650.
41. Zankari E, et al. 2012. Identification of acquired antimicrobial resistance genes. J Antimicrob Chemother. 67:2640-2644.
42. Zhou H, et al. 2007. Dissemination of imipenem-resistant Acinetobacter baumannii strains carrying the ISAba1-blaOXA-23 genes in a Chinese hospital. J Med Microbiol. 568:1076-1080.