Molecular identification key of the family Streptococcaceae

Acta Microbiologica et Immunologica Hungarica

Volumn 61, Issue 1, 2014, Pages 27-48

  Kanyó, István ^a   Nagy, Dénes ^a  

^a Nikola Crossed D Signurkovi School Department of Biology Feketi   (Serbia)

Author keywords

bacterial species definition; molecular identification key; Streptococcaceae

Indexed keywords

ARTICLE; BACTERIAL GENETICS; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; DNA REPLICATION; GENE ORDER; GENE SEQUENCE; GENETIC CONSERVATION; NONHUMAN; SPECIES COMPARISON; STREPTOCOCCACEAE; STREPTOCOCCUS PARAUBERIS; STREPTOCOCCUS UBERIS;

BACTERIAL SPECIES DEFINITION; MOLECULAR IDENTIFICATION KEY; STREPTOCOCCACEAE;

DNA, BACTERIAL; GENOME, BACTERIAL; NUCLEIC ACID HYBRIDIZATION; STREPTOCOCCACEAE;

EID: 84896334534     PISSN: 12178950     EISSN: 15882640     Source Type: Journal    
DOI: 10.1556/AMicr.61.2014.1.4     Document Type: Article

References (29)

1. Vandamme, P., Pot, B., Gillis, M., de Vos, P., Kersters, K., Swings, J.: Polyphasic taxonomy, a consensus approach to bacterial systematics. Microbiol Rev 60, 407-438 (1996).
2. Roselló-Mora, R.: Updating procaryotic taxonomy. J Bacteriol 187, 6255-6257 (2005).
3. Staley, J.T.: The bacterial species dilemma and the genomic-phylogenetic species concept. Phil Trans R Soc B 361, 1899-1909 (2006).
4. Janda, J.M., Abbott, S.L.: 16S rRNA Gene sequencing for bacterial identification in the diagnostic laboratory: Pluses, perils, and pitfalls. J Clin Microbiol 45, 2761-2764 (2007).
5. Tunkel, A.R., Sepkowitz, K.A.: Infections caused by viridans Streptococci in patients with neutropenia. Clin Infect Dis 34, 1524-1529 (2002).
6. Zbinden, A., Mueller, N.J., Tarr, P.E., Eich, G., Schulthess, B., Bahlmann, A.S., Keller, P.M., Bloemberg, G.V.: Streptococcus tigurinus, a novel member of the Streptococcus mitis group, causes invasive infections. J Clin Microbiol 50, 2969-2973 (2012).
7. Roskov, Y., Kunze, T., Paglinawan, L., Abucay L., Orrell, T., Nicolson, D., Culham, A., Bailly, N., Kirk, P., Bourgoin, T., Baillargeon, G., Decock, W., De Wever, A., Didžiulis, V.: Species 2000 & ITIS Catalogue of Life, 17th October 2013. Digital resource at http://www.catalogueoflife.org/col/www. catalogueoflife.org/col/. Species 2000: Reading, UK, 2013
8. Kawamura, Y., Hou, X., Sultana, F., Miura, H., Ezaki, T.: Determination of 16S rRNA sequences of Streptococcus mitis and Streptococcus gordonii and phylogenetic relationships among members of the genus Streptococcus. Int J Syst Bacteriol 45, 406-408 (1995).
9. Kunin, V., Ahren, D., Goldovsky, L., Janssen, P., Ouzounis, C.A.: Measuring genome conservation across taxa: Divided strains and United Kingdoms. Nucleic Acids Res 33, 616-621 (2005).
10. Konstantinidis, K.T., Tiedje, J.M.: Toward a genome-based taxonomy for procaryotes. J Bacteriol 187, 6258-6264 (2005).
11. Konstantinidis, K.T., Ramette, A., Tiedje, J.M.: Toward a more robust assessment of intraspecific diversity, using fewer genetic markers. Appl Environ Microbiol 72, 7286-7293 (2006).
12. Baldwin, A., Mahenthiralingam, E., Thickett, K.M., Honeybourne, D., Maiden, M.C.J., Govan, J.R., Speert, D.P., LiPuma, J.J., Vandamme, P., Dowson, C.G.: Multilocus sequnce typing sheme that provides both species and strain differentiation for the Burkholderia cepacia complex. J Clin Microbiol 43, 4665-4673 (2005).
13. Kanjo, I.: Determination of the species among mitis group of genus Streptococcus using molecular identification key. Proc Nat Sci Matica Srpska 122, 17-24 (2012).
14. Altschul, S.F., Madden, T.L., Schäffer, A.A., Zhang, J., Zhang, Z., Miller, W., Lipman, D.J.: Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 25, 3389-3402 (1997).
15. Mahadevan, P., Seto, D.: Rapid pair-wise synteny analysis of large bacterial genomes using web-based GeneOrder4.0. BMC Res Notes 3, 41 (2010).
16. Mahadevan, P., King, J.F., Seto, D.: CGUG: In silico proteome and genome parsing tool for the determination of "core" and unique genes in the analysis of genomes up to ca. 1.9 Mb. BMC Res Notes 2, 168 (2009).
17. Tamames, J.: Evolution of gene order conservation in prokaryotes. Genom Biol 2, research0020.1-research0020.11 (2001).
18. Bishop, C.J., Aanensen, D.M., Jordan, G.E., Kilian, M., Hanage, W.P., Spratt, B.G.: Assigning strains to bacterial species via the internet. BMC Biol 7, 3 (2009).
19. Hinse, D., Vollmer, T., Rückert, C., Blom, J., Kalinowski, J., Knabbe, C., Dreier, J.: Complete genome and comparative analysis of Streptococcus gallolyticus subsp. gallolyticus, an emerging pathogen of infective endocarditis. BMC Genomics 12, 400 (2011).
20. Georgiades, K., Raoult, D.: Defining pathogenic bacterial species in the genomic era. Front Microbiol 1, 1-13 (2011).
21. Chan, J.Z-M., Halachev, M.R., Loman, N.J., Constantinidou, C., Pallen, M.J.: Defining bacterial species in the genomic era: Insights from the genus Acinetobacter. BMC Microbiol 12, 302 (2012).
22. Rasko, D.A., Rosovitz, M.J., Myers, G.S.A., Mongodin, E.F., Fricke, W.F., Gajer, P., Crabtree, J., Sebaihia, M., Thomson, N.R., Chaudhuri, R., Henderson, I.R., Sperandio, V., Ravel, J.: The pangenome structure of Escherichia coli: Comparative genomic analysis of E. coli commensal and pathogenic isolates. J Bacteriol 190, 6881-6893 (2008).
23. Donati, C., Hiller, N.L., Tettelin, H., Muzzi, A., Croucher, N.J., Angiuoli, S.V., Oggioni, M., Hotopp, J.C.D., Hu, F.Z., Riley, D.R., Covacci, A., Mitchell, T.J., Bentley, S.D., Kilian, M., Ehrlich, G.D., Rappuoli, R., Moxon, E.R., Masignani, V.: Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species. Genome Biol 11, R107 (2010).
24. Bessen, D.E., Kumar, N., Hall, G.S., Riley, D.R., Luo, F., Lizano, S., Ford, C.N., McShan, W.M., Nguyen, S.V., Hotopp, J.C.D.: Whole-genome association study on tissue tropism phenotypes in group A Streptococcus. J Bacteriol 193, 6651-6663 (2011).
25. Lin, I.H., Liu, T.T., Teng, Y.T., Wu, H.L., Liu, Y.M., Wu, K.M., Chang, C.H., Hsu, M.T.: Sequencing and comparative genome analysis of two pathogenic Streptococcus gallolyticus subspecies: Genome plasticity, adaptation and virulence. PLoS One 6: e20519 (2011).
26. Schlegel, L., Grimont, F., Ageron, E., Grimont, P.A., Bouvet, A.: Reappraisal of the taxonomy of the Streptococcus bovis/Streptococcus equinus complex and related species: Description of Streptococcus gallolyticus subsp. gallolyticus subsp. nov., S. gallolyticus subsp. macedonicus subsp. nov. and S. gallolyticus subsp. pasteurianus subsp. nov. Int J Syst Evol Microbiol 53, 631-645 (2003).
27. Nho, S.W., Hikima, J., Cha, I.S., Park, S.B., Jang, H.B., del Castillo, C.S., Kondo, H., Hirono, I., Aoki, T., Jung, T.S.: Complete genome sequence and immunoproteomic analyses of the bacterial fish pathogen Streptococcus parauberis. J Bacteriol 193, 3356-3366 (2011).
28. Hassan, A.A., Khan, I.U., Abdulmawjood, A., Lämmler, C.: Evaluation of PCR methods for rapid identification and differentiation of Streptococcus uberis and Streptococcus parauberis. J Clin Microbiol 39, 1618-1621 (2001).
29. Jayarao, B.M., Doré, J.J. Jr, Baumbach, G.A., Matthews, K.R., Oliver, S.P.: Differentiation of Streptococcus uberis from Streptococcus parauberis by polymerase chain reaction and restriction fragment length polymorphism analysis of 16S ribosomal DNA. J Clin Microbiol 29, 2774-2778 (1991).