Genomic variation and evolution of Staphylococcus aureus

International Journal of Medical Microbiology

Volumn 300, Issue 2-3, 2010, Pages 98-103

  Lindsay, Jodi A ^a  

^a Centre for Infection   (United Kingdom)

Author keywords

Evolution; Genomes; Mobile genetic elements; Restriction modification; Staphylococcus aureus

Indexed keywords

ANTIBIOTIC RESISTANCE; BACTERIAL STRAIN; BACTERIAL VIRULENCE; BACTERIUM CONJUGATION; BACTERIUM ISOLATE; BACTERIUM TRANSDUCTION; CELL LINEAGE; EVOLUTION; GENETIC VARIABILITY; HOST RANGE; HUMAN; METHICILLIN RESISTANT STAPHYLOCOCCUS AUREUS; NONHUMAN; POINT MUTATION; SHORT SURVEY; STAPHYLOCOCCUS AUREUS;

ANIMALS; CROSS INFECTION; DNA RESTRICTION-MODIFICATION ENZYMES; EVOLUTION, MOLECULAR; GENETIC VARIATION; GENOME, BACTERIAL; HUMANS; INTERSPERSED REPETITIVE SEQUENCES; METHICILLIN RESISTANCE; STAPHYLOCOCCAL INFECTIONS; STAPHYLOCOCCUS AUREUS; VIRULENCE;

EID: 73649093750     PISSN: 14384221     EISSN: 16180607     Source Type: Journal    
DOI: 10.1016/j.ijmm.2009.08.013     Document Type: Short Survey

References (69)

1. Aligholi M., Emaneini M., Jabalameli F., Shahsavan S., Dabiri H., and Sedaght H. Emergence of high-level vancomycin-resistant Staphylococcus aureus in the Imam Khomeini Hospital in Tehran. Med. Princ. Pract. 17 (2008) 432-434
2. Berg T., Firth N., Apisiridej S., Hettiaratchi A., Leelaporn A., and Skurray R.A. Complete nucleotide sequence of pSK41: evolution of staphylococcal conjugative multiresistance plasmids. J. Bacteriol. 180 (1998) 4350-4359
3. Betley M.J., and Mekalanos J.J. Staphylococcal enterotoxin A is encoded by phage. Science 229 (1985) 185-187
4. Clark N.C., Weigel L.M., Patel J.B., and Tenover F.C. Comparison of Tn1546-like elements in vancomycin-resistant Staphylococcus aureus isolates from Michigan and Pennsylvania. Antimicrob. Agents Chemother. 49 (2005) 470-472
5. Clewell D.B., An F.Y., White B.A., and Gawron-Burke C. Streptococcus faecalis sex pheromone (cAM373) also produced by Staphylococcus aureus and identification of a conjugative transposon (Tn918). J. Bacteriol. 162 (1985) 1212-1220
6. Cockfield J.D., Edgeworth J.D., Pathak S., and Lindsay J.A. Rapid lineage typing of hospital MRSA. J. Med. Microbiol. 56 (2007) 614-619
7. de Haas C.J., Veldkamp K.E., Peschel A., Weerkamp F., Van Wamel W.J., Heezius E.C., Poppelier M.J., Van Kessel K.P., and van Strijp J.A. Chemotaxis inhibitory protein of Staphylococcus aureus, a bacterial antiinflammatory agent. J. Exp. Med. 199 (2004) 687-695
8. Dempsey R.M., Carroll D., Kong H., Higgins L., Keane C.T., and Coleman D.C. Sau42I, a BcgI-like restriction-modification system encoded by the Staphylococcus aureus quadruple-converting phage Phi42. Microbiology 151 (2005) 1301-1311
9. Diep B.A., Gill S.R., Chang R.F., Phan T.H., Chen J.H., Davidson M.G., Lin F., Lin J., Carleton H.A., Mongodin E.F., Sensabaugh G.F., and Perdreau-Remington F. Complete genome sequence of USA300, an epidemic clone of community-acquired meticillin-resistant Staphylococcus aureus. Lancet 367 (2006) 731-739
10. Enright M.C., Day N.P., Davies C.E., Peacock S.J., and Spratt B.G. Multilocus sequence typing for characterization of methicillin-resistant and methicillin-susceptible clones of Staphylococcus aureus. J. Clin. Microbiol. 38 (2000) 1008-1015
11. Feil E.J., Cooper J.E., Grundmann H., Robinson D.A., Enright M.C., Berendt T., Peacock S.J., Smith J.M., Murphy M., Spratt B.G., Moore C.E., and Day N.P. How clonal is Staphylococcus aureus?. J. Bacteriol. 185 (2003) 3307-3316
12. Foucault M.L., Courvalin P., and Grillot-Courvalin C. Fitness cost of VanA-type vancomycin resistance in methicillin resistant Staphylococcus aureus. Antimicrob. Agents Chemother. 53 (2009) 2354-2359
13. Gill S.R., Fouts D.E., Archer G.L., Mongodin E.F., Deboy R.T., Ravel J., Paulsen I.T., Kolonay J.F., Brinkac L., Beanan M., Dodson R.J., Daugherty S.C., Madupu R., Angiuoli S.V., Durkin A.S., Haft D.H., Vamathevan J., Khouri H., Utterback T., Lee C., Dimitrov G., Jiang L., Qin H., Weidman J., Tran K., Kang K., Hance I.R., Nelson K.E., and Fraser C.M. Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillin-resistant Staphylococcus epidermidis strain. J. Bacteriol. 187 (2005) 2426-2438
14. Gladysheva I.P., Turner R.B., Sazonova I.Y., Liu L., and Reed G.L. Coevolutionary patterns in plasminogen activation. Proc. Natl. Acad. Sci. USA 100 (2003) 9168-9172
15. Goerke C., Wirtz C., Flückiger U., and Wolz C. Extensive phage dynamics in Staphylococcus aureus contributes to adaptation to the human host during infection. Mol. Microbiol. 61 (2006) 1673-1685
16. Grundmann H., Aires-de-Sousa M., Boyce J., and Tiemersma E. Emergence and resurgence of meticillin-resistant Staphylococcus aureus as a public-health threat. Lancet 368 (2006) 874-885
17. Guinane C.M., Sturdevant D.E., Herron-Olson L., Otto M., Smyth D.S., Villaruz A.E., Kapur V., Hartigan P.J., Smyth C.J., and Fitzgerald J.R. Pathogenomic analysis of the common bovine Staphylococcus aureus clone (ET3): emergence of a virulent subtype with potential risk to public health. J. Infect. Dis. 197 (2008) 205-213
18. Han S.H., Chin B.S., Lee H.S., Jeong S.J., Choi H.K., Kim C.K., Kim C.O., Yong D., Choi J.Y., Song Y.G., Lee K., and Kim J.M. Recovery of both vancomycin-resistant enterococci and methicillin-resistant Staphylococcus aureus from culture of a single clinical specimen from colonized or infected patients. Infect. Control Hosp. Epidemiol. 30 (2009) 130-138
19. Harmsen D., Claus H., Witte W., Rothgänger J., Claus H., Turnwald D., and Vogel U. Typing of methicillin-resistant Staphylococcus aureus in a university hospital setting by using novel software for spa repeat determination and database management. J. Clin. Microbiol. 41 (2003) 5442-5448
20. Holden M.T.G., and Lindsay J.A. Whole genomes: sequence, microarray and systems biology. In: Lindsay J.A. (Ed). Staphylococcus: Molecular Genetics (2008), Caister Academic Press, UK 1-28
21. Holden M.T.G., Feil E.J., Lindsay J.A., Day N.P.J., Enright M.C., Foster T.J., Moore C.E., Peacock S.J., Hurst L., Atkin R., Barron A., Bason N., Bentley S.D., Chillingworth C., Chillingworth T., Churcher C., Clark L., Corton C., Cronin A., Doggett J., Dowd L., Feltwell T., Hance Z., Harris B., Hauser H., Holroyd S., Jagels K., James K.D., Lennard N., Line A., Mayes R., Moule S., Mungall K., Ormond D., Quail M.A., Rabbinowitsch E., Rutherford K., Sanders M., Sharp S., Simmonds M., Stevens K., Whitehead S., Barrell B.G., Spratt B.G., and Parkhill J. Complete genomes of two clinical Staphylococcus aureus strains: evidence for the rapid evolution of virulence and drug resistance. Proc. Natl. Acad. Sci. USA 101 (2004) 9786-9791
22. Ito T., Katayama Y., Asada K., Mori N., Tsutsumimoto K., Tiensasitorn C., and Hiramatsu K. Structural comparison of three types of staphylococcal cassette chromosome mec integrated in the chromosome in methicillin-resistant Staphylococcus aureus. Antimicrob. Agents Chemother. 45 (2001) 1323-1336
23. Ito T., Ma X.X., Takeuchi F., Okuma K., Yuzawa H., and Hiramatsu K. Novel type V staphylococcal cassette chromosome mec driven by a novel cassette chromosome recombinase, ccrC. Antimicrob. Agents Chemother. 48 (2004) 2637-2651
24. Kaito, C., Omae, Y., Matsumoto, Y., Nagata, M., Yamaguchi, H., Aoto, T., Ito, T., Hiramatsu, K., Sekimizu, K., 2008. A novel gene, fudoh, in the SCCmec region suppresses the colony spreading ability and virulence of Staphylococcus aureus. PLoS One 3, e3921.
25. Kaneko J., Kimura T., Narita S., Tomita T., and Kamio Y. Complete nucleotide sequence and molecular characterization of the temperate staphylococcal bacteriophage phiPVL carrying Panton-Valentine leukocidin genes. Gene 215 (1998) 57-67
26. Katayama Y., Ito T., and Hiramatsu K. A new class of genetic element, Staphylococcus cassette chromosome mec, encodes methicillin resistance in Staphylococcus aureus. Antimicrob. Agents Chemother. 44 (2000) 1549-1555
27. Kehrenberg C., Cuny C., Strommenger B., Schwarz S., and Witte W. Methicillin-resistant and -susceptible Staphylococcus aureus strains of clonal lineages ST398 and ST9 from swine carry the multidrug resistance gene cfr. Antimicrob. Agents Chemother. 53 (2009) 779-781
28. Khan S.A. Plasmid rolling-circle replication: highlights of two decades of research. Plasmid 53 (2005) 126-136
29. Labandeira-Rey M., Couzon F., Boisset S., Brown E.L., Bes M., Benito Y., Barbu E.M., Vazquez V., Höök M., Etienne J., Vandenesch F., and Bowden M.G. Staphylococcus aureus Panton-Valentine leukocidin causes necrotizing pneumonia. Science 315 (2007) 1130-1133
30. Lee S.M., Ender M., Adhikari R., Smith J.M., Berger-Bächi B., and Cook G.M. Fitness cost of staphylococcal cassette chromosome mec in methicillin-resistant Staphylococcus aureus by way of continuous culture. Antimicrob. Agents Chemother. 51 (2007) 1497-1499
31. Lindsay J.A. S. aureus evolution: lineages and mobile genetic elements (MGE). In: Lindsay J.A. (Ed). Staphylococcus: Molecular Genetics (2008), Caister Academic Press, UK 45-69
32. Lindsay J.A., and Holden M.T.G. Staphylococcus aureus: SuperBug, SuperGenome?. Trends Microbiol. 12 (2004) 378-385
33. Lindsay J.A., and Holden M.T.G. Understanding the rise of the super bug: investigation of the evolution and genomic variation of Staphylococcus aureus. Funct. Integrat. Genomics 6 (2006) 186-201
34. Lindsay J.A., Ruzin A., Ross H., Kurepina N., and Novick R.P. The gene for toxic shock toxin is carried by a family of mobile pathogenicity islands in Staphylococcus aureus. Mol. Microbiol. 29 (1998) 527-543
35. Lindsay J.A., Moore C.E., Day N.P., Peacock S.J., Witney A.A., Stabler R.A., Hussain S.E., Butcher P.D., and Hinds J. Microarrays reveal each of the ten dominant lineages of Staphylococcus aureus have unique combinations of surface-associated and regulatory genes. J. Bacteriol. 188 (2006) 669-676
36. Loeffler A., Boag A., Sung J., Lindsay J., Guardabassi L., Dalsgaard A., Smith H., Stevens K., and Lloyd D. Methicillin-resistant Staphylococcus aureus among staff and pets in a small animal referral hospital in the UK. J. Antimicrob. Chemother. 56 (2005) 692-697
37. McDougal L.K., Steward C.D., Killgore G.E., Chaitram J.M., McAllister S.K., and Tenover F.C. Pulsed-field gel electrophoresis typing of oxacillin-resistant Staphylococcus aureus isolates from the United States: establishing a national database. J. Clin. Microbiol. 41 (2003) 5113-5120
38. Milstone A.M., Song X., Beers C., Berkowitz I., Carroll K.C., and Perl T.M. Unrecognized burden of methicillin-resistant Staphylococcus aureus and vancomycin-resistant Enterococcus carriage in the pediatric intensive care unit. Infect. Control Hosp. Epidemiol. 29 (2008) 1174-1176
39. Moore P.C.L., and Lindsay J.A. Genetic variation among hospital isolates of methicillin-sensitive Staphylococcus aureus: evidence for horizontal transfer of virulence genes. J. Clin. Microbiol. 39 (2001) 2760-2767
40. Moore P.C.L., and Lindsay J.A. Molecular characterisation of the dominant UK methicillin-resistant Staphylococcus aureus strains, EMRSA-15 and EMRSA-16. J. Med. Microbiol. 51 (2002) 516-521
41. Mwangi M.M., Wu S.W., Zhou Y., Sieradzki K., de Lencastre H., Richardson P., Bruce D., Rubin E., Myers E., Siggia E.D., and Tomasz A. Tracking the in vivo evolution of multidrug resistance in Staphylococcus aureus by whole-genome sequencing. Proc. Natl. Acad. Sci. USA 104 (2007) 9451-9456
42. Novick R.P. Plasmid incompatibility. Microbiol. Rev. 51 (1987) 381-395
43. Nübel U., Roumagnac P., Feldkamp M., Song J.H., Ko K.S., Huang Y.C., Coombs G., Ip M., Westh H., Skov R., Struelens M.J., Goering R.V., Strommenger B., Weller A., Witte W., and Achtman M. Frequent emergence and limited geographic dispersal of methicillin-resistant Staphylococcus aureus. Proc. Natl. Acad. Sci. USA 105 (2008) 14130-14135
44. O'Neill A.J., Larsen A.R., Skov R., Henriksen A.S., and Chopra I. Characterization of the epidemic European fusidic acid-resistant impetigo clone of Staphylococcus aureus. J. Clin. Microbiol. 45 (2007) 1505-1510
45. Pakyz A.L., MacDougall C., Oinonen M., and Polk R.E. Trends in antibacterial use in US academic health centers: 2002 to 2006. Arch. Intern. Med. 168 (2008) 2254-2260
46. Patel M., Waites K.B., Hoesley C.J., Stamm A.M., Canupp K.C., and Moser S.A. Emergence of USA300 MRSA in a tertiary medical centre: implications for epidemiological studies. J. Hosp. Infect. 68 (2008) 208-213
47. Pereira P.M., Filipe S.R., Tomasz A., and Pinho M.G. Fluorescence ratio imaging microscopy shows decreased access of vancomycin to cell wall synthetic sites in vancomycin-resistant Staphylococcus aureus. Antimicrob. Agents Chemother. 51 (2007) 3627-3633
48. Robinson D.A., and Enright M.C. Evolutionary models of the emergence of methicillin-resistant Staphylococcus aureus. Antimicrob. Agents Chemother. 47 (2003) 3926-3934
49. Robinson D.A., and Enright M.C. Evolution of Staphylococcus aureus by large chromosomal replacements. J. Bacteriol. 186 (2004) 1060-1064
50. Rooijakkers S.H., Ruyken M., Roos A., Daha M.R., Presanis J.S., Sim R.B., van Wamel W.J., van Kessel K.P., and van Strijp J.A. Immune evasion by a staphylococcal complement inhibitor that acts on C3 convertases. Nat. Immunol. 6 (2005) 920-927
51. Rowland S.J., and Dyke K.G. Characterisation of the staphylococcal beta-lactamase tranpsoson Tn552. EMBO J. 8 (1989) 2761-2773
52. Ruimy R., Maiga A., Armand-Lefevre L., Maiga I., Diallo A., Koumaré A.K., Ouattara K., Soumaré S., Gaillard K., Lucet J.C., Andremont A., and Feil E.J. The carriage population of Staphylococcus aureus from Mali is composed of a combination of pandemic clones and the divergent Panton-Valentine leukocidin-positive genotype ST152. J. Bacteriol. 190 (2008) 3962-3968
53. Saha B., Singh A.K., Ghosh A., and Bal M. Identification and characterization of a vancomycin-resistant Staphylococcus aureus isolated from Kolkata (South Asia). J. Med. Microbiol. 57 (2008) 72-79
54. Severin A., Tabei K., Tenover F., Chung M., Clarke N., and Tomasz A. High level oxacillin and vancomycin resistance and altered cell wall composition in Staphylococcus aureus carrying the staphylococcal mecA and the enterococcal vanA gene complex. J. Biol. Chem. 279 (2004) 3398-3407
55. Severin A., Wu S.W., Tabei K., and Tomasz A. Penicillin-binding protein 2 is essential for expression of high-level vancomycin resistance and cell wall synthesis in vancomycin-resistant Staphylococcus aureus carrying the enterococcal vanA gene complex. Antimicrob. Agents Chemother. 48 (2004) 4566-4573
56. Seybold U., Kourbatova E.V., Johnson J.G., Halvosa S.J., Wang Y.F., King M.D., Ray S.M., and Blumberg H.M. Emergence of community-associated methicillin-resistant Staphylococcus aureus USA300 genotype as a major cause of health care-associated blood stream infections. Clin. Infect. Dis. 42 (2006) 647-656
57. Sigurdardottir B., Berg J.V., Hu J., Alamu J., McNutt L.A., Diekema D.J., and Herwaldt L.A. Descriptive epidemiology and case-control study of patients colonized with vancomycin-resistant Enterococcus and methicillin-resistant Staphylococcus aureus. Infect. Control Hosp. Epidemiol. 27 (2006) 913-919
58. Sung J.M.-L., and Lindsay J.A. Staphylococcus aureus that are hyper-susceptible to resistance gene transfer from enterococci. Antimicrob. Agents Chemother. 51 (2007) 2189-2191
59. Sung J.M.-L., Lloyd D.H., and Lindsay J.A. Staphylococcus aureus host specificity: comparative genomics of human versus animal isolates by multi-strain microarray. Microbiology 154 (2008) 1949-1959
60. Tang, C.T., Nguyen, D.T., Ngo, T.H., Nguyen, T.M., Le, V.T., To, S.D., Lindsay, J., Nguyen, T.D., Bach, V.C., Le, Q.T., Le, T.H., Le, D.L., Campbell, J., Nguyen, T.K., Nguyen, V.V., Cockfield, J., Le, T.G., Phan, V.N., Le, H.S., Huynh, T.S., Le, V.P., Counahan, M., Bentsi-Enchill, A., Brown, R., Simmerman, J., Nguyen, T.C., Tran, T.H., Farrar, J., Schultsz, C., 2007. An outbreak of severe infections with community-acquired methicillin-resistant Staphylococcus aureus carrying the Panton-Valentine leukocidin following vaccination, PLoS One 2, e822.
61. Tenover F.C., Lancaster M.V., Hill B.C., Steward C.D., Stocker S.A., Hancock G.A., O'Hara C.M., McAllister S.K., Clark N.C., and Hiramatsu K. Characterization of staphylococci with reduced susceptibilities to vancomycin and other glycopeptides. J. Clin. Microbiol. 36 (1998) 1020-1027
62. Tristan A., Bes M., Meugnier H., Lina G., Bozdogan B., Courvalin P., Reverdy M.E., Enright M.C., Vandenesch F., and Etienne J. Global distribution of Panton-Valentine leukocidin-positive methicillin-resistant Staphylococcus aureus, 2006. Emerg. Infect. Dis. 13 (2007) 594-600
63. van Wamel W.J., Rooijakkers S.H., Ruyken M., van Kessel K.P., and van Strijp J.A. The innate immune modulators staphylococcal complement inhibitor and chemotaxis inhibitory protein of Staphylococcus aureus are located on beta-hemolysin-converting bacteriophages. J. Bacteriol. 188 (2006) 1310-1315
64. Veiga H., and Pinho M.G. Inactivation of the SauI type I restriction-modification system is not sufficient to generate Staphylococcus aureus strains capable of efficiently accepting foreign DNA. Appl. Environ. Microbiol. 75 (2009) 3034-3038
65. Voyich, J.M., Otto, M., Mathema, B., Braughton, K.R., Whitney, A.R., Welty, D., Long, R.D., Dorward, D.W., Gardner, D.J., Lina, G., Kreiswirth, B.N., DeLeo, F.R., 2006. Is Panton-Valentine leukocidin the major virulence determinant in community-associated methicillin-resistant Staphylococcus aureus disease? J. Infect. Dis. 194, 1761-1770.
66. Waldron D.E., and Lindsay J.A. Sau1: a novel lineage-specific type I restriction-modification system that blocks horizontal gene transfer into Staphylococcus aureus and between S. aureus isolates of different lineages. J. Bacteriol. 188 (2006) 5578-5585
67. Witney A.A., Marsden G.L., Holden M.T.G., Stabler R.A., Husain S.E., Vass J.K., Butcher P.D., Hinds J., and Lindsay J.A. Design, validation and application of a seven-strain Staphylococcus aureus PCR product microarray for comparative genomics. Appl. Environ. Microbiol. 71 (2005) 7504-7514
68. Wulf M., and Voss A. MRSA in livestock animals - an epidemic waiting to happen?. Clin. Microbiol. Infect. 14 (2008) 519-521
69. Zhu W., Clark N.C., McDougal L.K., Hageman J., McDonald L.C., and Patel J.B. Vancomycin-resistant Staphylococcus aureus isolates associated with Inc18-like vanA plasmids in Michigan. Antimicrob. Agents Chemother. 52 (2008) 452-457