1887

Abstract

Bacteria belonging to the genus are ubiquitous in soil and water. Only a few species, including , and the unnamed genomic species (gen. sp.) 3 and 13TU, which together with the soil organism are combined in the (Acb) complex, have been recognized as important nosocomial infectious agents. The ecology, epidemiology and pathology of most species are not yet well established. Lack of practical and accurate methods limits routine identification of clinical isolates and thus hampers precise identification of those of the Acb complex and other species of possible clinical significance. We previously identified a 350 bp highly variable zone on the gene which appeared to be a promising target for rapid molecular identification. In the present study, we validated this method for accuracy on a collection of reference strains belonging to (5 strains), gen. sp. 3 (29 strains), gen. sp. 13TU (18 strains), (30 strains) and one strain each of , . gen. sp. 15TU, . gen. sp. 10, . gen. sp. 11, . gen. sp. ‘between 1 and 3’ and . gen. sp. 14TU=13BJ. This represents the largest analysis to date that compares a large number of well-identified strains of the Acb complex to assess the intra- and interspecies variation within this complex. All were correctly identified with 98.9–100 % intraspecies relatedness based on partial sequence analysis. We then applied this tool to identify 99 clinical isolates from four public hospitals in Marseille, France. All isolates could easily be identified to species as they were separated into 13 species sequence types with a sequence variance of 0–2.6 % from their respective type strains. Of these 99 isolates, 10 were , 52 were , 27 were gen. sp. 3, 5 were , 1 was , and 1 was gen. sp. 13TU. Three were provisionally identified as gen. sp. 9. This is the first work to identify all specimens of a set of clinical isolates at species level using sequence analysis. Our data emphasize the recognition of as an emerging cause of -related infection and confirm that gen. sp. 3 is the second most commonly isolated species after in patients.

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2009-07-01
2019-11-14
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References

  1. Bergogne-Berezin, E. & Towner, K. J. ( 1996; ). Acinetobacter spp. as nosocomial pathogens: microbiological, clinical, and epidemiological features. Clin Microbiol Rev 9, 148–165.
    [Google Scholar]
  2. Berlau, J., Aucken, H., Malnick, H. & Pitt, T. ( 1999; ). Distribution of Acinetobacter species on skin of healthy humans. Eur J Clin Microbiol Infect Dis 18, 179–183.[CrossRef]
    [Google Scholar]
  3. Bernards, A. T., Dijkshoorn, L., van der Toorn, J., Bochner, B. R. & van Boven, C. P. ( 1995; ). Phenotypic characterisation of Acinetobacter strains of 13 DNA–DNA hybridisation groups by means of the biolog system. J Med Microbiol 42, 113–119.[CrossRef]
    [Google Scholar]
  4. Bernards, A. T., van der Toorn, J., van Boven, C. P. & Dijkshoorn, L. ( 1996; ). Evaluation of the ability of a commercial system to identify Acinetobacter genomic species. Eur J Clin Microbiol Infect Dis 15, 303–308.[CrossRef]
    [Google Scholar]
  5. Bernards, A. T., Harinck, H. I., Dijkshoorn, L., van der Reijden, T. J. & Van den Broek, P. J. ( 2004; ). Persistent Acinetobacter baumannii? Look inside your medical equipment. Infect Control Hosp Epidemiol 25, 1002–1004.[CrossRef]
    [Google Scholar]
  6. Boom, R., Sol, C. J., Salimans, M. M., Jansen, C. L., Wertheim-van Dillen, P. M. & van der Noordaa, J. ( 1990; ). Rapid and simple method for purification of nucleic acids. J Clin Microbiol 28, 495–503.
    [Google Scholar]
  7. Bouvet, P. J. & Grimont, P. A. ( 1987; ). Identification and biotyping of clinical isolates of Acinetobacter. Ann Inst Pasteur Microbiol 138, 569–578.[CrossRef]
    [Google Scholar]
  8. Bouvet, P. J. & Jeanjean, S. ( 1989; ). Delineation of new proteolytic genomic species in the genus Acinetobacter. Res Microbiol 140, 291–299.[CrossRef]
    [Google Scholar]
  9. Chu, Y. W., Leung, C. M., Houang, E. T., Ng, K. C., Leung, C. B., Leung, H. Y. & Cheng, A. F. ( 1999; ). Skin carriage of acinetobacters in Hong Kong. J Clin Microbiol 37, 2962–2967.
    [Google Scholar]
  10. Davis, K. A., Moran, K. A., Mcallister, C. K. & Gray, P. J. ( 2005; ). Multidrug-resistant Acinetobacter extremity infections in soldiers. Emerg Infect Dis 11, 1218–1224.[CrossRef]
    [Google Scholar]
  11. Dijkshoorn, L. & van der Toorn, J. ( 1992; ). Acinetobacter species: which do we mean? Clin Infect Dis 15, 748–749.[CrossRef]
    [Google Scholar]
  12. Dijkshoorn, L., van Dalen, R., van Ooyen, A., Bijl, D., Tjernberg, I., Michel, M. F. & Horrevorts, A. M. ( 1993; ). Endemic Acinetobacter in intensive care units: epidemiology and clinical impact. J Clin Pathol 46, 533–536.[CrossRef]
    [Google Scholar]
  13. Dijkshoorn, L., Aucken, H., Gerner-Smidt, P., Janssen, P., Kaufmann, M. E., Garaizar, J., Ursing, J. & Pitt, T. L. ( 1996; ). Comparison of outbreak and nonoutbreak Acinetobacter baumannii strains by genotypic and phenotypic methods. J Clin Microbiol 34, 1519–1525.
    [Google Scholar]
  14. Dijkshoorn, L., Van Harsselaar, B., Tjernberg, I., Bouvet, P. J. & Vaneechoutte, M. ( 1998; ). Evaluation of amplified ribosomal DNA restriction analysis for identification of Acinetobacter genomic species. Syst Appl Microbiol 21, 33–39.[CrossRef]
    [Google Scholar]
  15. Dijkshoorn, L., van Aken, E., Shunburne, L., van der Reijden, T. J., Bernards, A. T., Nemec, A. & Towner, K. J. ( 2005; ). Prevalence of Acinetobacter baumannii and other Acinetobacter spp. in faecal samples from non-hospitalised individuals. Clin Microbiol Infect 11, 329–332.[CrossRef]
    [Google Scholar]
  16. Dijkshoorn, L., Nemec, A. & Seifert, H. ( 2007; ). An increasing threat in hospitals: multidrug-resistant Acinetobacter baumannii. Nat Rev Microbiol 5, 939–951.[CrossRef]
    [Google Scholar]
  17. Dortet, L., Legrand, P., Soussy, C. J. & Cattoir, V. ( 2006; ). Bacterial identification, clinical significance, and antimicrobial susceptibilities of Acinetobacter ursingii and Acinetobacter schindleri, two frequently misidentified opportunistic pathogens. J Clin Microbiol 44, 4471–4478.[CrossRef]
    [Google Scholar]
  18. Drancourt, M., Berger, P. & Raoult, D. ( 2004; ). Systematic 16S rRNA gene sequencing of atypical clinical isolates identified 27 new bacterial species associated with humans. J Clin Microbiol 42, 2197–2202.[CrossRef]
    [Google Scholar]
  19. Felsenstein, J. ( 1989; ). PHYLIP – phylogeny inference package (version 3.2). Cladistics 5, 164–166.
    [Google Scholar]
  20. Gerner-Smidt, P. & Tjernberg, I. ( 1993; ). Acinetobacter in Denmark: II. Molecular studies of the Acinetobacter calcoaceticusAcinetobacter baumannii complex. APMIS 101, 826–832.[CrossRef]
    [Google Scholar]
  21. Gerner-Smidt, P., Tjernberg, I. & Ursing, J. ( 1991; ). Reliability of phenotypic tests for identification of Acinetobacter species. J Clin Microbiol 29, 277–282.
    [Google Scholar]
  22. Horrevorts, A., Bergman, K., Kollee, L., Breuker, I., Tjernberg, I. & Dijkshoorn, L. ( 1995; ). Clinical and epidemiological investigations of Acinetobacter genomospecies 3 in a neonatal intensive care unit. J Clin Microbiol 33, 1567–1572.
    [Google Scholar]
  23. Houang, E. T., Chu, Y. W., Leung, C. M., Chu, K. Y., Berlau, J., Ng, K. C. & Cheng, A. F. ( 2001; ). Epidemiology and infection control implications of Acinetobacter spp. in Hong Kong. J Clin Microbiol 39, 228–234.[CrossRef]
    [Google Scholar]
  24. Idzenga, D., Schouten, M. A. & van Zanten, A. R. ( 2006; ). Outbreak of Acinetobacter genomic species 3 in a Dutch intensive care unit. J Hosp Infect 63, 485–487.[CrossRef]
    [Google Scholar]
  25. Janssen, P. & Dijkshoorn, L. ( 1996; ). High resolution DNA fingerprinting of Acinetobacter outbreak strains. FEMS Microbiol Lett 142, 191–194.[CrossRef]
    [Google Scholar]
  26. Joly-Guillou, M. L. ( 2005; ). Clinical impact and pathogenicity of Acinetobacter. Clin Microbiol Infect 11, 868–873.[CrossRef]
    [Google Scholar]
  27. Kampfer, P., Tjernberg, I. & Ursing, J. ( 1993; ). Numerical classification and identification of Acinetobacter genomic species. J Appl Bacteriol 75, 259–268.[CrossRef]
    [Google Scholar]
  28. La Scola, B., Gundi, V. A., 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.[CrossRef]
    [Google Scholar]
  29. Nemec, A., De, B. T., Tjernberg, I., Vaneechoutte, M., van der Reijden, T. J. & Dijkshoorn, L. ( 2001; ). Acinetobacter ursingii sp. nov. and Acinetobacter schindleri sp. nov., isolated from human clinical specimens. Int J Syst Evol Microbiol 51, 1891–1899.[CrossRef]
    [Google Scholar]
  30. Nemec, A., Maixnerova, M., van der Reijden, T. J., Van den Broek, P. J. & Dijkshoorn, L. ( 2007; ). Relationship between the AdeABC efflux system gene content, netilmicin susceptibility and multidrug resistance in a genotypically diverse collection of Acinetobacter baumannii strains. J Antimicrob Chemother 60, 483–489.[CrossRef]
    [Google Scholar]
  31. Seifert, H., Baginski, R., Schulze, A. & Pulverer, G. ( 1993; ). The distribution of Acinetobacter species in clinical culture materials. Zentralbl Bakteriol 279, 544–552.[CrossRef]
    [Google Scholar]
  32. Seifert, H., Strate, A. & Pulverer, G. ( 1995; ). Nosocomial bacteremia due to Acinetobacter baumannii. Clinical features, epidemiology, and predictors of mortality. Medicine (Baltimore) 74, 340–349.[CrossRef]
    [Google Scholar]
  33. Tamura, K., Dudley, J., Nei, M. & Kumar, S. ( 2007; ). mega4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24, 1596–1599.[CrossRef]
    [Google Scholar]
  34. Thompson, J. D., Higgins, D. G. & Gibson, T. J. ( 1994; ). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673–4680.[CrossRef]
    [Google Scholar]
  35. Tjernberg, I. & Ursing, J. ( 1989; ). Clinical studies of Acinetobacter classified By DNA-DNA hybridization. 1989. APMIS 115, 646–656.
    [Google Scholar]
  36. van Dessel, H., Kamp-Hopmans, T. E., Fluit, A. C., Brisse, S., de Smet, A. M., Dijkshoorn, L., Troelstra, A., Verhoef, J. & Mascini, E. M. ( 2002; ). Outbreak of a susceptible strain of Acinetobacter species 13 (sensu Tjernberg and Ursing) in an adult neurosurgical intensive care unit. J Hosp Infect 51, 89–95.[CrossRef]
    [Google Scholar]
  37. van Dessel, H., Dijkshoorn, L., van der Reijden, T., Bakker, N., Paauw, A., van den Broek, P., Verhoef, J. & Brisse, S. ( 2004; ). Identification of a new geographically widespread multiresistant Acinetobacter baumannii clone from European hospitals. Res Microbiol 155, 105–112.[CrossRef]
    [Google Scholar]
  38. Vaneechoutte, M., De, B. T., Nemec, A., Musilek, M., van der Reijden, T. J. & Dijkshoorn, L. ( 2008; ). Reclassification of Acinetobacter grimontii Carr et al. 2003 as a later synonym of Acinetobacter junii Bouvet and Grimont 1986. Int J Syst Evol Microbiol 58, 937–940.[CrossRef]
    [Google Scholar]
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vol. , part 7, pp. 2333 - 2341

Supplementary tables [ PDF] (34 kb): Seqtype results of the training set of 107 strains by partial gene sequence analysis Identification of 99 clinical isolates of by partial gene sequence analysis



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