Modified 16s–23S rRNA intergenic region restriction endonuclease analysis for species identification of enterococcus strains isolated from pigs, compared with identification using classical methods and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry

Journal of Medical Microbiology

Volumn 64, Issue 3, 2015, Pages 217-223

  Nowakiewicz, Aneta ^a   Ziółkowska, Grażyna ^a   Zięba, Przemysław ^b   Trościańczyk, Aleksandra ^a   Banach, Tomasz ^a   Kowalski, Cezary ^a  

^a UNIVERSITY OF LIFE SCIENCES IN LUBLIN   (Poland)

^b State Veterinary Laboratory   (Poland)

Author keywords

[No Author keywords available]

Indexed keywords

RNA 16S; RNA 23S; SPACER DNA; BACTERIAL DNA; RIBOSOMAL SPACER DNA;

ARTICLE; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; ENTEROCOCCUS; ENTEROCOCCUS AVIUM; ENTEROCOCCUS CECORUM; ENTEROCOCCUS COLUMBAE; ENTEROCOCCUS FAECALIS; ENTEROCOCCUS FAECIUM; ENTEROCOCCUS GALLINARUM; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; NONHUMAN; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RESTRICTION MAPPING; SPECIES DIFFERENTIATION; SWINE; ANIMAL; CHEMISTRY; CLASSIFICATION; COMPARATIVE STUDY; DNA SEQUENCE; GENETICS; GRAM POSITIVE INFECTION; ISOLATION AND PURIFICATION; MASS SPECTROMETRY; MICROBIOLOGY; PIG; POLYMERASE CHAIN REACTION; SPECIES DIFFERENCE; SWINE DISEASE; TIME; VETERINARY;

ANIMALS; BACTERIAL TYPING TECHNIQUES; DNA, BACTERIAL; DNA, RIBOSOMAL SPACER; ENTEROCOCCUS; GRAM-POSITIVE BACTERIAL INFECTIONS; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RESTRICTION MAPPING; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; SWINE; SWINE DISEASES; TIME FACTORS;

EID: 84923683822     PISSN: 00222615     EISSN: None     Source Type: Journal    
DOI: 10.1099/jmm.0.000008     Document Type: Article

References (29)

1. Arias, C. A., Robredo, B., Singh, K. V., Torres, C., Panesso, D. & Murray, B. E. (2006). Rapid identification of Enterococcus hirae and Enterococcus durans by PCR and detection of a homologue of the E. hirae mur-2 gene in E. durans. J Clin Microbiol 44, 1567–1570.
2. Arias, C. A., Contreras, G. A. & Murray, B. E. (2010). Management of multidrug-resistant enterococcal infections. Clin Microbiol Infect 16, 555–562.
3. Champagne, J., Diarra, M. S., Rempel, H., Topp, E., Greer, C. W., Harel, J. & Masson, L. (2011). Development of a DNA microarray for enterococcal species, virulence, and antibiotic resistance gene determinations among isolates from poultry. Appl Environ Microbiol 77, 2625–2633.
4. Chan, T.-S., Wu, M.-S., Suk, F.-M., Chen, C.-N., Chen, Y.-F., Hou, Y.-H. & Lien, G.-S. (2012). Enterococcus hirae-related acute pyelonephritis and cholangitis with bacteremia: an unusual infection in humans. Kaohsiung J Med Sci 28, 111–114.
5. Devriese, L. A., Pot, B. & Collins, M. D. (1993). Phenotypic identification of the genus Enterococcus and differentiation of phylogenetically distinct enterococcal species and species groups. J Appl Bacteriol 75, 399–408.
6. Domig, K. J., Mayer, H. K. & Kneifel, W. (2003). Methods used for the isolation, enumeration, characterisation and identification of Enterococcus spp. 2. Pheno- and genotypic criteria. Int J Food Microbiol 88, 165–188.
7. Dutka-Malen, S., Evers, S. & Courvalin, P. (1995). Detection of glycopeptide resistance genotypes and identification to the species level of clinically relevant enterococci by PCR. J Clin Microbiol 33, 24–27.
8. Harwood, V. J., Delahoya, N. C., Ulrich, R. M., Kramer, M. F., Whitlock, J. E., Garey, J. R. & Lim, D. V. (2004). Molecular confirmation of Enterococcus faecalis and E. faecium from clinical, faecal and environmental sources. Lett Appl Microbiol 38, 476–482.
9. Hayes, J. R., English, L. L., Carter, P. J., Proescholdt, T., Lee, K. Y., Wagner, D. D. & White, D. G. (2003). Prevalence and antimicrobial resistance of Enterococcus species isolated from retail meats. Appl Environ Microbiol 69, 7153–7160.
10. Jackson, C. R., Fedorka-Cray, P. J. & Barrett, J. B. (2004). Use of a genus- and species-specific multiplex PCR for identification of enterococci. J Clin Microbiol 42, 3558–3565.
11. Jensen, M. A., Webster, J. A. & Straus, N. (1993). Rapid identification of bacteria on the basis of polymerase chain reaction-amplified ribosomal DNA spacer polymorphisms. Appl Environ Microbiol 59, 945–952.
12. Jurkovič, D., Krizková, L., Dusinský, R., Belicová, A., Sojka, M., Krajčovič, J. & Ebringer, L. (2006). Identification and characterization of enterococci from bryndza cheese. Lett Appl Microbiol 42, 553–559.
13. Knijff, E., Dellaglio, F., Lombardi, A., Andrighetto, C. & Torriani, S. (2001). Rapid identification of Enterococcus durans and Enterococcus hirae by PCR with primers targeted to the ddl genes. J Microbiol Methods 47, 35–40.
14. Kühn, I., Iversen, A., Burman, L. G., Olsson-Liljequist, B., Franklin, A., Finn, M., Aarestrup, F., Seyfarth, A.-M., Blanch, A. R. & other authors (2000). Epidemiology and ecology of enterococci, with special reference to antibiotic resistant strains, in animals, humans and the environment. Example of an ongoing project within the European research programme. Int J Antimicrob Agents 14, 337–342.
15. Lavová, M., Bezeková, J., Čanigová, M., Kročko, M. & Domig, K. J. (2014). Species identification of enterococci by biochemical test and molecular-genetic methods. Potravinarstvo 8, 124–129.
16. Lleò, M. M., Bonato, B., Benedetti, D. & Canepari, P. (2005). Survival of enterococcal species in aquatic environments. FEMS Microbiol Ecol 54, 189–196.
17. Moore, D. F., Zhowandai, M. H., Ferguson, D. M., McGee, C., Mott, J. B. & Stewart, J. C. (2006). Comparison of 16S rRNA sequencing with conventional and commercial phenotypic techniques for identification of enterococci from the marine environment. J Appl Microbiol 100, 1272–1281.
18. Naser, S. M., Thompson, F. L., Hoste, B., Gevers, D., Dawyndt, P., Vancanneyt, M. & Swings, J. (2005). Application of multilocus sequence analysis (MLSA) for rapid identification of Enterococcus species based on rpoA and pheS genes. Microbiology 151, 2141–2150.
19. Poyart, C., Quesnes, G. & Trieu-Cuot, P. (2000). Sequencing the gene encoding manganese-dependent superoxide dismutase for rapid species identification of enterococci. J Clin Microbiol 38, 415–418.
20. Prakash, V. P., Rao, S. R. & Parija, S. C. (2005). Emergence of unusual species of enterococci causing infections, South India. BMC Infect Dis 5, 14.
21. Reid, K. C., Cockerill, F. R., & Patel, R. (2001). Clinical and epidemiological features of Enterococcus casseliflavus/flavescens and Enterococcus gallinarum bacteremia: a report of 20 cases. Clin Infect Dis 32, 1540–1546.
22. Shewmaker, P. L., Steigerwalt, A. G., Nicholson, A. C., Carvalho, M. G., Facklam, R. R., Whitney, A. M. & Teixeira, L. M. (2011). Reevaluation of the taxonomic status of recently described species of Enterococcus: evidence that E. thailandicus is a senior subjective synonym of ‘‘E. sanguinicola’’ and confirmation of E. caccae as a species distinct from E. silesiacus. J Clin Microbiol 49, 2676–2679.
23. Sood, S., Malhotra, M., Das, B. K. & Kapil, A. (2008). Enterococcal infections & antimicrobial resistance. Indian J Med Res 128, 111–121.
24. Tanasupawat, S., Sukontasing, S. & Lee, J.-S. (2008). Enterococcus thailandicus sp. nov., isolated from fermented sausage (‘mum’) in Thailand. Int J Syst Evol Microbiol 58, 1630–1634.
25. Teng, L.-J., Hsueh, P.-R., Wang, Y.-H., Lin, H.-M., Luh, K.-T. & Ho, S.-W. (2001). Determination of Enterococcus faecalis groESL fulllength sequence and application for species identification. J Clin Microbiol 39, 3326–3331.
26. Trivedi, K., Cupakova, S. & Karpiskova, R. (2011). Virulence factors and antibiotic resistance in enterococci isolated from food-stuffs. Veterinarni Medicina 56, 352–357.
27. Tyrrell, G. J., Bethune, R. N., Willey, B. & Low, D. E. (1997). Species identification of enterococci via intergenic ribosomal PCR. J Clin Microbiol 35, 1054–1060.
28. US Environmental Protection Agency (1986). Ambient Water Quality Criteria for Bacteria - 1986. Washington, DC: US Environmental Protection Agency.
29. Velasco, D., Perez, S., Peñ a, F., Dominguez, M. A., Cartelle, M., Molina, F., Moure, R., Villanueva, R. & Bou, G. (2004). Lack of correlation between phenotypic techniques and PCR-based genotypic methods for identification of Enterococcus spp. Diagn Microbiol Infect Dis 49, 151–156.