TY - JOUR AU - Cohan, F. M. PY - 2006 DA - 2006// TI - Towards a conceptual and operational union of bacterial systematics, ecology, and evolution JO - Phil Trans R Soc B VL - 361 UR - https://doi.org/10.1098/rstb.2006.1918 DO - 10.1098/rstb.2006.1918 ID - Cohan2006 ER - TY - JOUR AU - Gevers, D. AU - Cohan, F. AU - Lawrence, J. AU - Spratt, B. G. AU - Coenye, T. AU - Feil, E. J. AU - Stackebrandt, E. AU - Manfio, G. AU - Peer, Y. V. a. n. d. e. AU - Nesme, X. AU - Thompson, F. AU - Swings, J. PY - 2005 DA - 2005// TI - Re-evaluating bacterial species JO - Nature Microbiol Rev VL - 3 UR - https://doi.org/10.1038/nrmicro1236 DO - 10.1038/nrmicro1236 ID - Gevers2005 ER - TY - JOUR AU - Gevers, D. AU - Dawyndt, P. AU - Vandamme, P. AU - Willems, A. AU - Vancanneyt, M. AU - Swings, J. AU - de Vos, P. PY - 2006 DA - 2006// TI - Stepping stones to a new prokaryotic taxonomy JO - Phil Trans Roy Soc B VL - 361 UR - https://doi.org/10.1098/rstb.2006.1915 DO - 10.1098/rstb.2006.1915 ID - Gevers2006 ER - TY - JOUR AU - Staley, J. T. PY - 2006 DA - 2006// TI - The bacterial species dilemma and the genomic-phylogenetic species concept JO - Phil Trans R Soc B VL - 361 UR - https://doi.org/10.1098/rstb.2006.1914 DO - 10.1098/rstb.2006.1914 ID - Staley2006 ER - TY - JOUR AU - Achtman, M. AU - Wagner, M. PY - 2008 DA - 2008// TI - Microbial diversity and the genetic nature of microbial species JO - Nat Rev Microbiol VL - 6 ID - Achtman2008 ER - TY - JOUR AU - Cohan, F. M. PY - 2002 DA - 2002// TI - What are bacterial species? JO - Ann Rev Microbiol VL - 56 UR - https://doi.org/10.1146/annurev.micro.56.012302.160634 DO - 10.1146/annurev.micro.56.012302.160634 ID - Cohan2002 ER - TY - JOUR AU - Fraser, C. AU - Hanage, W. P. AU - Spratt, B. G. PY - 2007 DA - 2007// TI - Recombination and the nature of bacterial speciation JO - Science VL - 315 UR - https://doi.org/10.1126/science.1127573 DO - 10.1126/science.1127573 ID - Fraser2007 ER - TY - JOUR AU - Vandamme, P. AU - Pot, B. AU - Gillis, M. AU - de Vos, P. AU - Kersters, K. AU - Swings, J. PY - 1996 DA - 1996// TI - Polyphasic taxonomy, a consensus approach to bacterial systematics JO - Microbiol Rev VL - 60 ID - Vandamme1996 ER - TY - JOUR AU - Wayne, L. G. AU - Brenner, D. J. AU - Colwell, R. R. AU - Grimont, P. A. D. AU - Kandler, O. AU - Krichevsky, M. I. AU - Moore, L. H. AU - Moore, W. E. C. AU - Murray, R. G. E. AU - Stackebrandt, E. AU - Starr, M. P. AU - Trüper, H. G. PY - 1987 DA - 1987// TI - Report of the ad hoc committee on reconciliation of approaches to bacterial systematics JO - Int J System Bact VL - 37 ID - Wayne1987 ER - TY - JOUR AU - Stackebrandt, E. AU - Frederiksen, W. AU - Garrity, G. M. AU - Grimont, P. A. D. AU - Kämpfer, P. AU - Maiden, M. C. J. AU - Nesme, X. AU - Rosselló-Mora, R. AU - Swings, J. AU - Trüper, H. G. AU - Vauterin, L. AU - Wards, A. C. AU - Whitman, W. B. PY - 2002 DA - 2002// TI - Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology JO - Int J Sys Evol Microbiol VL - 52 ID - Stackebrandt2002 ER - TY - JOUR AU - Hanage, W. P. AU - Fraser, C. AU - Spratt, B. G. PY - 2006 DA - 2006// TI - Sequences, sequence clusters and bacterial species JO - Phil Trans Roy Soc B VL - 361 UR - https://doi.org/10.1098/rstb.2006.1917 DO - 10.1098/rstb.2006.1917 ID - Hanage2006 ER - TY - JOUR AU - Nørskov-Lauritsen, N. AU - Bruun, B. AU - Kilian, M. PY - 2005 DA - 2005// TI - Multilocus sequence phylogenetic study of the genus Haemophilus with description of Haemophilus pittmaniae sp. nov JO - Int J Syst Evol Microbiol VL - 55 UR - https://doi.org/10.1099/ijs.0.63325-0 DO - 10.1099/ijs.0.63325-0 ID - Nørskov-Lauritsen2005 ER - TY - JOUR AU - Godoy, D. AU - Randle, G. AU - Simpson, A. J. AU - Aanensen, D. M. AU - Pitt, T. L. AU - Kinoshita, R. AU - Spratt, B. G. PY - 2003 DA - 2003// TI - Multilocus sequence typing and evolutionary relationships among the causative agents of melioidosis and glanders, Burkholderia pseudomallei and Burkholderia mallei JO - J Clin Microbiol VL - 41 UR - https://doi.org/10.1128/JCM.41.5.2068-2079.2003 DO - 10.1128/JCM.41.5.2068-2079.2003 ID - Godoy2003 ER - TY - JOUR AU - Hanage, W. P. AU - Fraser, C. AU - Spratt, B. G. PY - 2005 DA - 2005// TI - Fuzzy species in recombinogenic bacteria JO - BMC Biol VL - 3 UR - https://doi.org/10.1186/1741-7007-3-6 DO - 10.1186/1741-7007-3-6 ID - Hanage2005 ER - TY - JOUR AU - Hanage, W. P. AU - Kaijalainen, T. AU - Herva, E. AU - Saukkoriipi, A. AU - Syrjänen, R. AU - Spratt, B. G. PY - 2005 DA - 2005// TI - Using multilocus sequence data to define the pneumococcus JO - J Bacteriol VL - 187 UR - https://doi.org/10.1128/JB.187.17.6223-6230.2005 DO - 10.1128/JB.187.17.6223-6230.2005 ID - Hanage2005 ER - TY - JOUR AU - Hoshino, T. AU - Fujiwara, T. AU - Kilian, M. PY - 2005 DA - 2005// TI - Use of phylogenetic and phenotypic analyses to identify nonhemolytic streptococci isolated from bacteremic patients JO - J Clin Microbiol VL - 43 UR - https://doi.org/10.1128/JCM.43.12.6073-6085.2005 DO - 10.1128/JCM.43.12.6073-6085.2005 ID - Hoshino2005 ER - TY - JOUR AU - Bennett, J. S. AU - Jolley, K. A. AU - Sparling, P. F. AU - Saunders, N. J. AU - Hart, C. A. AU - Feavers, I. M. AU - Maiden, M. C. J. PY - 2007 DA - 2007// TI - Species status of Neisseria gonorrhoeae: evolutionary and epidemiological inferences from multilocus sequence typing JO - BMC Biol VL - 5 UR - https://doi.org/10.1186/1741-7007-5-35 DO - 10.1186/1741-7007-5-35 ID - Bennett2007 ER - TY - JOUR AU - Kilian, M. AU - Poulsen, K. AU - Blomqvist, T. AU - Håvarstein, L. S. AU - Bek-Thomsen, M. AU - Tettelin, H. AU - Sørensen, U. B. PY - 2008 DA - 2008// TI - Evolution of Streptococcus pneumoniaeand its close commensal relatives JO - PLoS ONE VL - 3 UR - https://doi.org/10.1371/journal.pone.0002683 DO - 10.1371/journal.pone.0002683 ID - Kilian2008 ER - TY - JOUR AU - Martens, M. AU - Dawyndt, P. AU - Coopman, R. AU - Gillis, M. AU - De Vos, P. AU - Willems, A. PY - 2008 DA - 2008// TI - Advantages of multilocus sequence analysis for taxonomic studies: a case study using 10 housekeeping genes in the genus Ensifer (including former Sinorhizobium) JO - Int J Syst Evol Microbiol VL - 58 UR - https://doi.org/10.1099/ijs.0.65392-0 DO - 10.1099/ijs.0.65392-0 ID - Martens2008 ER - TY - JOUR AU - Sawabe, T. AU - Kita-Tsukamoto, K. AU - Thompson, F. L. PY - 2007 DA - 2007// TI - Inferring the evolutionary history of vibrios by means of multilocus sequence analysis JO - J Bacteriol VL - 189 UR - https://doi.org/10.1128/JB.00693-07 DO - 10.1128/JB.00693-07 ID - Sawabe2007 ER - TY - JOUR AU - Postic, D. AU - Garnier, M. AU - Baranton, G. PY - 2007 DA - 2007// TI - Multilocus sequence analysis of atypical Borrelia burgdorferi sensu lato isolates – description of Borrelia californiensissp. nov., and genomospecies 1 and 2 JO - Int J Med Microbiol VL - 297 UR - https://doi.org/10.1016/j.ijmm.2007.01.006 DO - 10.1016/j.ijmm.2007.01.006 ID - Postic2007 ER - TY - JOUR AU - Thompson, F. L. AU - Gomez-Gil, B. AU - Vasconcelos, A. T. AU - Sawabe, T. PY - 2007 DA - 2007// TI - Multilocus sequence analysis reveals that Vibrio harveyi and V. campbelliiare distinct species JO - Appl Environ Microbiol VL - 73 UR - https://doi.org/10.1128/AEM.00020-07 DO - 10.1128/AEM.00020-07 ID - Thompson2007 ER - TY - JOUR AU - Maiden, M. C. J. AU - Bygraves, J. A. AU - Feil, E. AU - Morelli, G. AU - Russell, J. E. AU - Urwin, R. AU - Zhang, Q. AU - Zhou, J. AU - Zurth, K. AU - Caugant, D. A. AU - Feavers, I. M. AU - Achtman, M. AU - Spratt, B. G. PY - 1998 DA - 1998// TI - Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms JO - Proc Natl Acad Sci USA VL - 95 UR - https://doi.org/10.1073/pnas.95.6.3140 DO - 10.1073/pnas.95.6.3140 ID - Maiden1998 ER - TY - CHAP AU - Kilian, M. ED - Borriello, P. ED - Murray, P. R. ED - Funke, G. PY - 2005 DA - 2005// TI - Streptococcus and Lactobacillus BT - Topley and Wilson's Microbiology and Microbial Infections PB - Hodder Arnold CY - London ID - Kilian2005 ER - TY - JOUR AU - Kilian, M. AU - Mikkelsen, L. AU - Henrichsen, J. PY - 1989 DA - 1989// TI - Taxonomic study of viridans streptococci: description of Streptococcus gordonii sp. Nov. and emended descriptions of Streptococcus sanguis (White and Niven, 1946), Streptococcus oralis (Bridge and Sneath, 1982), and Streptococcus mitis(Andrewes and Horder, 1906) JO - Int J Syst Bacteriol VL - 39 UR - https://doi.org/10.1099/00207713-39-4-471 DO - 10.1099/00207713-39-4-471 ID - Kilian1989 ER - TY - JOUR AU - Whiley, R. A. AU - Fraser, H. Y. AU - Douglas, C. W. AU - Hardie, J. M. AU - Williams, A. M. AU - Collins, M. D. PY - 1990 DA - 1990// TI - Streptococcus parasanguis sp. nov., an atypical viridans Streptococcusfrom human clinical specimens JO - FEMS Microbiol Lett VL - 56 UR - https://doi.org/10.1111/j.1574-6968.1990.tb04133.x DO - 10.1111/j.1574-6968.1990.tb04133.x ID - Whiley1990 ER - TY - JOUR AU - Whiley, R. A. AU - Beighton, D. PY - 1991 DA - 1991// TI - Emended descriptions and recognition of Streptococcus constellatus, Streptococcus intermedius, and Streptococcus anginosusas distinct species JO - Int J Syst Bacteriol VL - 41 UR - https://doi.org/10.1099/00207713-41-1-1 DO - 10.1099/00207713-41-1-1 ID - Whiley1991 ER - TY - JOUR AU - Whiley, R. A. AU - Duke, B. AU - Hardie, J. M. AU - Hall, L. M. PY - 1995 DA - 1995// TI - Heterogeneity among 16S-23S rRNA intergenic spacers of species within the 'Streptococcus millerigroup' JO - Microbiology VL - 141 UR - https://doi.org/10.1099/13500872-141-6-1461 DO - 10.1099/13500872-141-6-1461 ID - Whiley1995 ER - TY - JOUR AU - Whiley, R. A. AU - Hall, L. M. AU - Hardie, J. M. AU - Beighton, D. PY - 1999 DA - 1999// TI - A study of small-colony, beta-haemolytic, Lancefield group C streptococci within the anginosus group: description of Streptococcus constellatussubsp. pharyngis subsp. nov., associated with the human throat and pharyngitis JO - Int J Syst Bacteriol VL - 49 UR - https://doi.org/10.1099/00207713-49-4-1443 DO - 10.1099/00207713-49-4-1443 ID - Whiley1999 ER - TY - JOUR AU - Kawamura, Y. AU - Hou, X. -. G. AU - Todome, Y. AU - Sultana, F. AU - Hirose, K. AU - Shu, S. E. AU - Ezaki, T. AU - Ohkuni, H. PY - 1998 DA - 1998// TI - Streptococcus peroris sp. nov. and Streptococcus infantis sp. nov., new members of the Streptococcus mitisgroup, isolated from human clinical specimens JO - Int J Syst Bacteriol VL - 48 UR - https://doi.org/10.1099/00207713-48-3-921 DO - 10.1099/00207713-48-3-921 ID - Kawamura1998 ER - TY - JOUR AU - Kawamura, Y. AU - Whiley, R. A. AU - Shu, S. E. AU - Ezaki, T. AU - Hardie, J. M. PY - 1999 DA - 1999// TI - Genetic approaches to the identification of the mitis group within the genus Streptococcus JO - Microbiology VL - 145 UR - https://doi.org/10.1099/00221287-145-9-2605 DO - 10.1099/00221287-145-9-2605 ID - Kawamura1999 ER - TY - JOUR AU - Kawamura, Y. AU - Whiley, R. A. AU - Zhao, L. AU - Ezaki, T. AU - Hardie, J. M. PY - 2000 DA - 2000// TI - Taxonomic study of "tufted mitior" strains of streptococci (Streptococcus sanguinisbiotype 11); recognition of a new genospecies JO - Syst Appl Microbiol VL - 23 UR - https://doi.org/10.1016/S0723-2020(00)80011-9 DO - 10.1016/S0723-2020(00)80011-9 ID - Kawamura2000 ER - TY - JOUR AU - Whatmore, A. M. AU - Efstratiou, A. AU - Pickerill, A. P. AU - Broughton, K. AU - Woodard, G. AU - Sturgeon, D. AU - George, R. AU - Dowson, C. G. PY - 2000 DA - 2000// TI - Genetic relationships between clinical isolates of Streptococcus pneumoniae, Streptococcus oralis, and Streptococcus mitis: characterization of "Atypical" pneumococci and organisms allied to S. mitis harboring S. pneumoniaevirulence factor-encoding genes JO - Infect Immun VL - 68 UR - https://doi.org/10.1128/IAI.68.3.1374-1382.2000 DO - 10.1128/IAI.68.3.1374-1382.2000 ID - Whatmore2000 ER - TY - JOUR AU - Dowson, C. G. AU - Hutchison, A. AU - Brannigan, J. A. AU - George, R. C. AU - Hansman, D. AU - Liñares, J. AU - Tomasz, A. AU - Smith, J. M. AU - Spratt, B. G. PY - 1989 DA - 1989// TI - Horizontal transfer of penicillin-binding protein genes in penicillin-resistant clinical isolates of Streptococcus pneumoniae JO - Proc Natl Acad Sci USA VL - 86 UR - https://doi.org/10.1073/pnas.86.22.8842 DO - 10.1073/pnas.86.22.8842 ID - Dowson1989 ER - TY - JOUR AU - Laible, G. AU - Spratt, B. G. AU - Hakenbeck, R. PY - 1991 DA - 1991// TI - Interspecies recombinational events during the evolution of altered PBP 2× genes in penicillin-resistant clinical isolates of Streptococcus pneumoniae JO - Mol Microbiol VL - 5 UR - https://doi.org/10.1111/j.1365-2958.1991.tb00821.x DO - 10.1111/j.1365-2958.1991.tb00821.x ID - Laible1991 ER - TY - JOUR AU - Hakenbeck, R. AU - Balmelle, N. AU - Weber, B. AU - Gardès, C. AU - Keck, W. AU - de Saizieu, A. PY - 2001 DA - 2001// TI - Mosaic genes and mosaic chromosomes: intra- and interspecies genomic variation of Streptococcus pneumoniae JO - Infect Immun VL - 69 UR - https://doi.org/10.1128/IAI.69.4.2477-2486.2001 DO - 10.1128/IAI.69.4.2477-2486.2001 ID - Hakenbeck2001 ER - TY - JOUR AU - Dowson, C. G. AU - Coffey, T. J. AU - Kell, C. AU - Whiley, R. A. PY - 1993 DA - 1993// TI - Evolution of penicillin resistance in Streptococcus pneumoniae; the role of Streptococcus mitis in the formation of a low affinity PBP2B in S. pneumoniae JO - Mol Microbiol VL - 9 UR - https://doi.org/10.1111/j.1365-2958.1993.tb01723.x DO - 10.1111/j.1365-2958.1993.tb01723.x ID - Dowson1993 ER - TY - JOUR AU - Stanhope, M. J. AU - Walsh, S. L. AU - Becker, J. A. AU - Italia, M. J. AU - Ingraham, K. A. AU - Gwynn, M. N. AU - Mathie, T. AU - Poupard, J. A. AU - Miller, L. A. AU - Brown, J. R. AU - Amrine-Madsen, H. PY - 2005 DA - 2005// TI - Molecular evolution perspectives on intraspecific lateral DNA transfer of topoisomerase and gyrase loci in Streptococcus pneumoniae, with implications for fluoroquinolone resistance development and spread JO - Antimicrob Agents Chemother VL - 49 UR - https://doi.org/10.1128/AAC.49.10.4315-4326.2005 DO - 10.1128/AAC.49.10.4315-4326.2005 ID - Stanhope2005 ER - TY - JOUR AU - Enright, M. C. AU - Spratt, B. G. PY - 1998 DA - 1998// TI - A multilocus sequence typing scheme for Streptococcus pneumoniae: identification of clones associated with serious invasive disease JO - Microbiology VL - 144 UR - https://doi.org/10.1099/00221287-144-11-3049 DO - 10.1099/00221287-144-11-3049 ID - Enright1998 ER - TY - JOUR AU - Hohwy, J. AU - Kilian, M. PY - 1995 DA - 1995// TI - Clonal diversity of the Streptococcus mitisbiovar 1 population in the human oral cavity and pharynx JO - Oral Microbiol Immunol VL - 10 UR - https://doi.org/10.1111/j.1399-302X.1995.tb00113.x DO - 10.1111/j.1399-302X.1995.tb00113.x ID - Hohwy1995 ER - TY - JOUR AU - Tong, H. AU - Gao, X. AU - Dong, X. PY - 2003 DA - 2003// TI - Streptococcus oligofermentanssp. nov., a novel oral isolate from caries-free humans JO - Int J Syst Evol Microbiol VL - 53 UR - https://doi.org/10.1099/ijs.0.02493-0 DO - 10.1099/ijs.0.02493-0 ID - Tong2003 ER - TY - JOUR AU - Majewski, J. AU - Zawadzki, P. AU - Pickerill, P. AU - Cohan, F. M. AU - Dowson, C. G. PY - 2000 DA - 2000// TI - Barriers to genetic exchange between bacterial species: Streptococcus pneumoniaetransformation JO - J Bacteriol VL - 182 UR - https://doi.org/10.1128/JB.182.4.1016-1023.2000 DO - 10.1128/JB.182.4.1016-1023.2000 ID - Majewski2000 ER - TY - JOUR AU - Falush, D. AU - Torpdahl, M. AU - Didelot, X. AU - Conrad, D. F. AU - Wilson, D. J. AU - Achtman, M. PY - 2006 DA - 2006// TI - Mismatch induced speciation in Salmonella: model and data JO - Phil Trans Roy Soc B VL - 361 UR - https://doi.org/10.1098/rstb.2006.1925 DO - 10.1098/rstb.2006.1925 ID - Falush2006 ER - TY - JOUR AU - Konstantinidis, K. T. AU - Tiedje, J. M. PY - 2005 DA - 2005// TI - Genomic insights that advance the species definition for prokaryotes JO - Proc Natl Acad Sci USA VL - 102 UR - https://doi.org/10.1073/pnas.0409727102 DO - 10.1073/pnas.0409727102 ID - Konstantinidis2005 ER - TY - JOUR AU - Arbique, J. C. AU - Poyart, C. AU - Trieu-Cuot, P. AU - Quesne, G. AU - Carvalho, M. S. AU - Steigerwalt, A. G. AU - Morey, R. E. AU - Jackson, D. AU - Davidson, R. J. AU - Facklam, R. R. PY - 2004 DA - 2004// TI - Accuracy of phenotypic and genotypic testing for identification of Streptococcus pneumoniae and description of Streptococcus pseudopneumoniaesp. nov JO - J Clin Microbiol VL - 42 UR - https://doi.org/10.1128/JCM.42.10.4686-4696.2004 DO - 10.1128/JCM.42.10.4686-4696.2004 ID - Arbique2004 ER - TY - JOUR AU - Hanage, W. P. AU - Cohen, J. PY - 2002 DA - 2002// TI - Stimulation of cytokine release and adhesion molecule expression by products of Viridans streptococci JO - J Infect Dis VL - 185 UR - https://doi.org/10.1086/338375 DO - 10.1086/338375 ID - Hanage2002 ER - TY - JOUR AU - Tamura, K. AU - Dudley, J. AU - Nei, M. AU - Kumar, S. PY - 2007 DA - 2007// TI - MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0 JO - Mol Biol Evol VL - 24 UR - https://doi.org/10.1093/molbev/msm092 DO - 10.1093/molbev/msm092 ID - Tamura2007 ER - TY - JOUR AU - Jordan, G. E. AU - Piel, W. H. PY - 2008 DA - 2008// TI - PhyloWidget: web-based visualizations for the tree of life JO - Bioinformatics VL - 24 UR - https://doi.org/10.1093/bioinformatics/btn235 DO - 10.1093/bioinformatics/btn235 ID - Jordan2008 ER -