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Volumn 63, Issue PART9, 2013, Pages 3379-3397

Molecular signatures for the class Coriobacteriia and its different clades; proposal for division of the class Coriobacteriia into the emended order Coriobacteriales, containing the emended family Coriobacteriaceae and Atopobiaceae fam. nov., and Eggerthellales ord. nov., containing the family Eggerthellaceae fam. nov.

Author keywords

[No Author keywords available]

Indexed keywords

MOLECULAR MARKER; RNA 16S;

EID: 84878858016     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.048371-0     Document Type: Article
Times cited : (76)

References (51)
  • 1
    • 0034068101 scopus 로고    scopus 로고
    • Denitrobacterium detoxificans gen. nov., sp. nov., a ruminal bacterium that respires on nitrocompounds
    • Anderson, R. C., Rasmussen, M. A., Jensen, N. S. & Allison, M. J. (2000). Denitrobacterium detoxificans gen. nov., sp. nov., a ruminal bacterium that respires on nitrocompounds. Int J Syst Evol Microbiol 50, 633-638.
    • (2000) Int J Syst Evol Microbiol , vol.50 , pp. 633-638
    • Anderson, R.C.1    Rasmussen, M.A.2    Jensen, N.S.3    Allison, M.J.4
  • 2
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • Castresana, J. (2000). Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17, 540-552.
    • (2000) Mol Biol Evol , vol.17 , pp. 540-552
    • Castresana, J.1
  • 6
    • 0026656494 scopus 로고
    • Comparative sequence analyses of the 16S rRNA genes of Lactobacillus minutus, Lactobacillus rimae and Streptococcus parvulus: Proposal for the creation of a new genus Atopobium
    • Collins, M. D. & Wallbanks, S. (1992). Comparative sequence analyses of the 16S rRNA genes of Lactobacillus minutus, Lactobacillus rimae and Streptococcus parvulus: proposal for the creation of a new genus Atopobium. FEMS Microbiol Lett 95, 235-240.
    • (1992) FEMS Microbiol Lett , vol.95 , pp. 235-240
    • Collins, M.D.1    Wallbanks, S.2
  • 8
    • 0034802146 scopus 로고    scopus 로고
    • Characterization of novel human oral isolates and cloned 16S rDNA sequences that fall in the family Coriobacteriaceae: Description of Olsenella gen. nov., reclassification of Lactobacillus uli as Olsenella uli comb. nov. and description of Olsenella profusa sp. nov
    • Dewhirst, F. E., Paster, B. J., Tzellas, N., Coleman, B., Downes, J., Spratt, D. A. & Wade, W. G. (2001). Characterization of novel human oral isolates and cloned 16S rDNA sequences that fall in the family Coriobacteriaceae: description of Olsenella gen. nov., reclassification of Lactobacillus uli as Olsenella uli comb. nov. and description of Olsenella profusa sp. nov. Int J Syst Evol Microbiol 51, 1797-1804.
    • (2001) Int J Syst Evol Microbiol , vol.51 , pp. 1797-1804
    • Dewhirst, F.E.1    Paster, B.J.2    Tzellas, N.3    Coleman, B.4    Downes, J.5    Spratt, D.A.6    Wade, W.G.7
  • 10
    • 27844604206 scopus 로고    scopus 로고
    • Conserved indels in protein sequences that are characteristic of the phylum Actinobacteria
    • Gao, B. & Gupta, R. S. (2005). Conserved indels in protein sequences that are characteristic of the phylum Actinobacteria. Int J Syst Evol Microbiol 55, 2401-2412.
    • (2005) Int J Syst Evol Microbiol , vol.55 , pp. 2401-2412
    • Gao, B.1    Gupta, R.S.2
  • 11
    • 84856228043 scopus 로고    scopus 로고
    • Microbial systematics in the postgenomics era
    • Gao, B. & Gupta, R. S. (2012a). Microbial systematics in the postgenomics era. Antonie van Leeuwenhoek 101, 45-54.
    • (2012) Antonie van Leeuwenhoek , vol.101 , pp. 45-54
    • Gao, B.1    Gupta, R.S.2
  • 12
    • 84860523799 scopus 로고    scopus 로고
    • Phylogenetic framework and molecular signatures for the main clades of the phylum Actinobacteria
    • Gao, B. & Gupta, R. S. (2012b). Phylogenetic framework and molecular signatures for the main clades of the phylum Actinobacteria. Microbiol Mol Biol Rev 76, 66-112.
    • (2012) Microbiol Mol Biol Rev , vol.76 , pp. 66-112
    • Gao, B.1    Gupta, R.S.2
  • 13
    • 33745963185 scopus 로고    scopus 로고
    • Signature proteins that are distinctive characteristics of Actinobacteria and their subgroups
    • Gao, B., Paramanathan, R. & Gupta, R. S. (2006). Signature proteins that are distinctive characteristics of Actinobacteria and their subgroups. Antonie van Leeuwenhoek 90, 69-91.
    • (2006) Antonie van Leeuwenhoek , vol.90 , pp. 69-91
    • Gao, B.1    Paramanathan, R.2    Gupta, R.S.3
  • 14
    • 0036898759 scopus 로고    scopus 로고
    • Prokaryotic evolution in light of gene transfer
    • Gogarten, J. P., Doolittle, W. F. & Lawrence, J. G. (2002). Prokaryotic evolution in light of gene transfer. Mol Biol Evol 19, 2226-2238.
    • (2002) Mol Biol Evol , vol.19 , pp. 2226-2238
    • Gogarten, J.P.1    Doolittle, W.F.2    Lawrence, J.G.3
  • 16
    • 0031794743 scopus 로고    scopus 로고
    • Protein phylogenies and signature sequences: A reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes
    • Gupta, R. S. (1998). Protein phylogenies and signature sequences: A reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes. Microbiol Mol Biol Rev 62, 1435-1491.
    • (1998) Microbiol Mol Biol Rev , vol.62 , pp. 1435-1491
    • Gupta, R.S.1
  • 17
    • 0035756272 scopus 로고    scopus 로고
    • The branching order and phylogenetic placement of species from completed bacterial genomes, based on conserved indels found in various proteins
    • Gupta, R. S. (2001). The branching order and phylogenetic placement of species from completed bacterial genomes, based on conserved indels found in various proteins. Int Microbiol 4, 187-202.
    • (2001) Int Microbiol , vol.4 , pp. 187-202
    • Gupta, R.S.1
  • 18
    • 70350719159 scopus 로고    scopus 로고
    • Protein signatures (molecular synapomorphies) that are distinctive characteristics of the major cyanobacterial clades
    • Gupta, R. S. (2009). Protein signatures (molecular synapomorphies) that are distinctive characteristics of the major cyanobacterial clades. Int J Syst Evol Microbiol 59, 2510-2526.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 2510-2526
    • Gupta, R.S.1
  • 19
    • 0036597701 scopus 로고    scopus 로고
    • Critical issues in bacterial phylogeny
    • Gupta, R. S. & Griffiths, E. (2002). Critical issues in bacterial phylogeny. Theor Popul Biol 61, 423-434.
    • (2002) Theor Popul Biol , vol.61 , pp. 423-434
    • Gupta, R.S.1    Griffiths, E.2
  • 20
    • 0023684340 scopus 로고
    • Coriobacterium glomerans gen. nov., sp. nov. from the intestinal tract of the red soldier bug
    • Haas, F. & König, H. (1988). Coriobacterium glomerans gen. nov., sp. nov. from the intestinal tract of the red soldier bug. Int J Syst Bacteriol 38, 382-384.
    • (1988) Int J Syst Bacteriol , vol.38 , pp. 382-384
    • Haas, F.1    König, H.2
  • 23
    • 0026691182 scopus 로고
    • The rapid generation of mutation data matrices from protein sequences
    • Jones, D. T., Taylor, W. R. & Thornton, J. M. (1992). The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci 8, 275-282.
    • (1992) Comput Appl Biosci , vol.8 , pp. 275-282
    • Jones, D.T.1    Taylor, W.R.2    Thornton, J.M.3
  • 24
    • 0033804107 scopus 로고    scopus 로고
    • Emendation of genus Collinsella and proposal of Collinsella stercoris sp. nov. and Collinsella intestinalis sp. nov
    • Kageyama, A. & Benno, Y. (2000). Emendation of genus Collinsella and proposal of Collinsella stercoris sp. nov. and Collinsella intestinalis sp. nov. Int J Syst Evol Microbiol 50, 1767-1774.
    • (2000) Int J Syst Evol Microbiol , vol.50 , pp. 1767-1774
    • Kageyama, A.1    Benno, Y.2
  • 25
    • 0032899737 scopus 로고    scopus 로고
    • Phylogenetic and phenotypic evidence for the transfer of Eubacterium aerofaciens to the genus Collinsella as Collinsella aerofaciens gen. nov., comb. nov
    • Kageyama, A., Benno, Y. & Nakase, T. (1999). Phylogenetic and phenotypic evidence for the transfer of Eubacterium aerofaciens to the genus Collinsella as Collinsella aerofaciens gen. nov., comb. nov. Int J Syst Bacteriol 49, 557-565.
    • (1999) Int J Syst Bacteriol , vol.49 , pp. 557-565
    • Kageyama, A.1    Benno, Y.2    Nakase, T.3
  • 26
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111-120.
    • (1980) J Mol Evol , vol.16 , pp. 111-120
    • Kimura, M.1
  • 27
    • 84878245701 scopus 로고    scopus 로고
    • Class III. Coriobacteriia class. nov
    • In, Edited by M. Goodfellow, P. Kämpfer, H. J. Busse, M. E. Trujillo, K. Suzuki, W. Ludwig & W. B. Whitman. New York: Springer
    • König, H. (2012). Class III. Coriobacteriia class. nov. In Bergey's Manual of Systematic Bacteriology, pp. 1975-1976. Edited by M. Goodfellow, P. Kämpfer, H. J. Busse, M. E. Trujillo, K. Suzuki, W. Ludwig & W. B. Whitman. New York: Springer.
    • (2012) Bergey's Manual of Systematic Bacteriology , pp. 1975-1976
    • König, H.1
  • 28
    • 45949109669 scopus 로고    scopus 로고
    • mega: A biologistcentric software for evolutionary analysis of DNA and protein sequences
    • Kumar, S., Nei, M., Dudley, J. & Tamura, K. (2008). mega: a biologistcentric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 9, 299-306.
    • (2008) Brief Bioinform , vol.9 , pp. 299-306
    • Kumar, S.1    Nei, M.2    Dudley, J.3    Tamura, K.4
  • 29
    • 4143081458 scopus 로고    scopus 로고
    • Eggerthella hongkongensis sp. nov. and Eggerthella sinensis sp. nov., two novel Eggerthella species, account for half of the cases of Eggerthella bacteremia
    • Lau, S. K., Woo, P. C., Woo, G. K., Fung, A. M., Wong, M. K., Chan, K. M., Tam, D. M. & Yuen, K. Y. (2004). Eggerthella hongkongensis sp. nov. and Eggerthella sinensis sp. nov., two novel Eggerthella species, account for half of the cases of Eggerthella bacteremia. Diagn Microbiol Infect Dis 49, 255-263.
    • (2004) Diagn Microbiol Infect Dis , vol.49 , pp. 255-263
    • Lau, S.K.1    Woo, P.C.2    Woo, G.K.3    Fung, A.M.4    Wong, M.K.5    Chan, K.M.6    Tam, D.M.7    Yuen, K.Y.8
  • 30
    • 84881548388 scopus 로고    scopus 로고
    • Road map of the phylum Actinobacteria
    • In, Edited by M. Goodfellow, P. Kämpfer, H. J. Busse, M. E. Trujillo, K. Suzuki, W. Ludwig & W. B. Whitman. New York: Springer
    • Ludwig, W., Euzéby, J., Schumann, P., Busse, H. J., Trujillo, M. E., Kämpfer, P. & Whitman, W. B. (2012). Road map of the phylum Actinobacteria. In Bergey's Manual of Systematic Bacteriology, pp. 1-28. Edited by M. Goodfellow, P. Kämpfer, H. J. Busse, M. E. Trujillo, K. Suzuki, W. Ludwig & W. B. Whitman. New York: Springer.
    • (2012) Bergey's Manual of Systematic Bacteriology , pp. 1-28
    • Ludwig, W.1    Euzéby, J.2    Schumann, P.3    Busse, H.J.4    Trujillo, M.E.5    Kämpfer, P.6    Whitman, W.B.7
  • 31
    • 47049107667 scopus 로고    scopus 로고
    • Adlercreutzia equolifaciens gen. nov., sp. nov., an equol-producing bacterium isolated from human faeces, and emended description of the genus Eggerthella
    • Maruo, T., Sakamoto, M., Ito, C., Toda, T. & Benno, Y. (2008). Adlercreutzia equolifaciens gen. nov., sp. nov., an equol-producing bacterium isolated from human faeces, and emended description of the genus Eggerthella. Int J Syst Evol Microbiol 58, 1221-1227.
    • (2008) Int J Syst Evol Microbiol , vol.58 , pp. 1221-1227
    • Maruo, T.1    Sakamoto, M.2    Ito, C.3    Toda, T.4    Benno, Y.5
  • 34
    • 0030587564 scopus 로고    scopus 로고
    • Human dUTP pyrophosphatase: Uracil recognition by a b hairpin and active sites formed by three separate subunits
    • Mol, C. D., Harris, J. M., McIntosh, E. M. & Tainer, J. A. (1996). Human dUTP pyrophosphatase: uracil recognition by a b hairpin and active sites formed by three separate subunits. Structure 4, 1077-1092.
    • (1996) Structure , vol.4 , pp. 1077-1092
    • Mol, C.D.1    Harris, J.M.2    McIntosh, E.M.3    Tainer, J.A.4
  • 35
    • 78649234849 scopus 로고    scopus 로고
    • Slackia piriformis sp. nov. and Collinsella tanakaei sp. nov., new members of the family Coriobacteriaceae, isolated from human faeces
    • Nagai, F., Watanabe, Y. & Morotomi, M. (2010). Slackia piriformis sp. nov. and Collinsella tanakaei sp. nov., new members of the family Coriobacteriaceae, isolated from human faeces. Int J Syst Evol Microbiol 60, 2639-2646.
    • (2010) Int J Syst Evol Microbiol , vol.60 , pp. 2639-2646
    • Nagai, F.1    Watanabe, Y.2    Morotomi, M.3
  • 36
    • 0033032356 scopus 로고    scopus 로고
    • Cryptobacterium curtum gen. nov., sp. nov., a new genus of Gram-positive anaerobic rod isolated from human oral cavities
    • Nakazawa, F., Poco, S. E., Ikeda, T., Sato, M., Kalfas, S., Sundqvist, G. & Hoshino, E. (1999). Cryptobacterium curtum gen. nov., sp. nov., a new genus of Gram-positive anaerobic rod isolated from human oral cavities. Int J Syst Bacteriol 49, 1193-1200.
    • (1999) Int J Syst Bacteriol , vol.49 , pp. 1193-1200
    • Nakazawa, F.1    Poco, S.E.2    Ikeda, T.3    Sato, M.4    Kalfas, S.5    Sundqvist, G.6    Hoshino, E.7
  • 37
    • 84878856447 scopus 로고    scopus 로고
    • NCBI, Accessed 3-9-2012
    • NCBI (2012). NCBI Genome Database. Accessed 3-9-2012. http:// www.ncbi.nlm.nih.gov/genome/.
    • (2012) NCBI Genome Database
  • 39
    • 0345466412 scopus 로고    scopus 로고
    • Characterization of a novel Atopobium isolate from the human vagina: Description of Atopobium vaginae sp. nov
    • Rodriguez Jovita, M., Collins, M. D., Sjödén, B. & Falsen, E. (1999). Characterization of a novel Atopobium isolate from the human vagina: description of Atopobium vaginae sp. nov. Int J Syst Bacteriol 49, 1573-1576.
    • (1999) Int J Syst Bacteriol , vol.49 , pp. 1573-1576
    • Rodriguez Jovita, M.1    Collins, M.D.2    Sjödén, B.3    Falsen, E.4
  • 40
    • 0033793019 scopus 로고    scopus 로고
    • Rare genomic changes as a tool for phylogenetics
    • Rokas, A. & Holland, P. W. H. (2000). Rare genomic changes as a tool for phylogenetics. Trends Ecol Evol 15, 454-459.
    • (2000) Trends Ecol Evol , vol.15 , pp. 454-459
    • Rokas, A.1    Holland, P.W.H.2
  • 41
    • 0242365676 scopus 로고    scopus 로고
    • Genomescale approaches to resolving incongruence in molecular phylogenies
    • Rokas, A., Williams, B. L., King, N. & Carroll, S. B. (2003). Genomescale approaches to resolving incongruence in molecular phylogenies. Nature 425, 798-804.
    • (2003) Nature , vol.425 , pp. 798-804
    • Rokas, A.1    Williams, B.L.2    King, N.3    Carroll, S.B.4
  • 43
    • 67651173642 scopus 로고    scopus 로고
    • Introduction to the taxonomy of Actinobacteria
    • In, 3rd edn, Edited by M. Dworkin, S. Falkow, E. Rosenberg, K. H. Schleifer & E. Stackebrandt. New York: Springer
    • Stackebrandt, E. & Schumann, P. (2006). Introduction to the taxonomy of Actinobacteria. In The Prokaryotes, 3rd edn, vol. 3, pp. 297-321. Edited by M. Dworkin, S. Falkow, E. Rosenberg, K. H. Schleifer & E. Stackebrandt. New York: Springer.
    • (2006) The Prokaryotes , vol.3 , pp. 297-321
    • Stackebrandt, E.1    Schumann, P.2
  • 44
    • 0030893495 scopus 로고    scopus 로고
    • Proposal for a new hierarchic classification system, Actinobacteria classis nov
    • Stackebrandt, E., Rainey, F. A. & Ward-Rainey, N. L. (1997). Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47, 479-491.
    • (1997) Int J Syst Bacteriol , vol.47 , pp. 479-491
    • Stackebrandt, E.1    Rainey, F.A.2    Ward-Rainey, N.L.3
  • 45
    • 0032955594 scopus 로고    scopus 로고
    • The family Coriobacteriaceae: Reclassification of Eubacterium exiguum (Poco et al. 1996) and Peptostreptococcus heliotrinreducens (Lanigan 1976) as Slackia exigua gen. nov., comb. nov. and Slackia heliotrinireducens gen. nov., comb. nov., and Eubacterium lentum (Prevot 1938) as Eggerthella lenta gen. nov., comb. nov
    • Wade, W. G., Downes, J., Dymock, D., Hiom, S. J., Weightman, A. J., Dewhirst, F. E., Paster, B. J., Tzellas, N. & Coleman, B. (1999). The family Coriobacteriaceae: reclassification of Eubacterium exiguum (Poco et al. 1996) and Peptostreptococcus heliotrinreducens (Lanigan 1976) as Slackia exigua gen. nov., comb. nov. and Slackia heliotrinireducens gen. nov., comb. nov., and Eubacterium lentum (Prevot 1938) as Eggerthella lenta gen. nov., comb. nov. Int J Syst Bacteriol 49, 595-600.
    • (1999) Int J Syst Bacteriol , vol.49 , pp. 595-600
    • Wade, W.G.1    Downes, J.2    Dymock, D.3    Hiom, S.J.4    Weightman, A.J.5    Dewhirst, F.E.6    Paster, B.J.7    Tzellas, N.8    Coleman, B.9
  • 46
    • 0035031966 scopus 로고    scopus 로고
    • A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
    • Whelan, S. & Goldman, N. (2001). A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol 18, 691-699.
    • (2001) Mol Biol Evol , vol.18 , pp. 691-699
    • Whelan, S.1    Goldman, N.2
  • 48
    • 67651112070 scopus 로고    scopus 로고
    • Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn's disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov
    • Würdemann, D., Tindall, B. J., Pukall, R., Lünsdorf, H., Strömpl, C., Namuth, T., Nahrstedt, H., Wos-Oxley, M., Ott, S. & other authors (2009). Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn's disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov. Int J Syst Evol Microbiol 59, 1405-1415.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 1405-1415
    • Würdemann, D.1    Tindall, B.J.2    Pukall, R.3    Lünsdorf, H.4    Strömpl, C.5    Namuth, T.6    Nahrstedt, H.7    Wos-Oxley, M.8    Ott, S.9
  • 50
    • 80053608103 scopus 로고    scopus 로고
    • Complete genomic sequence of the equol-producing bacterium Eggerthella sp. strain YY7918, isolated from adult human intestine
    • Yokoyama, S., Oshima, K., Nomura, I., Hattori, M. & Suzuki, T. (2011). Complete genomic sequence of the equol-producing bacterium Eggerthella sp. strain YY7918, isolated from adult human intestine. J Bacteriol 193, 5570-5571.
    • (2011) J Bacteriol , vol.193 , pp. 5570-5571
    • Yokoyama, S.1    Oshima, K.2    Nomura, I.3    Hattori, M.4    Suzuki, T.5
  • 51
    • 67651165968 scopus 로고    scopus 로고
    • An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the class Actinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa
    • Zhi, X. Y., Li, W. J. & Stackebrandt, E. (2009). An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the class Actinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa. Int J Syst Evol Microbiol 59, 589-608.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 589-608
    • Zhi, X.Y.1    Li, W.J.2    Stackebrandt, E.3


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