메뉴 건너뛰기




Volumn 36, Issue 6, 2013, Pages 401-407

Classification of Streptomyces phylogroup pratensis (Doroghazi and Buckley, 2010) based on genetic and phenotypic evidence, and proposal of Streptomyces pratensis sp. nov.

Author keywords

16S rRNA; DDH; MLSA; Phenotypic characteristics; Streptomyces phylogroup pratensis; Streptomyces pratensis sp. nov.

Indexed keywords

BACTERIAL DNA; GENOMIC DNA; RNA 16S;

EID: 84881622607     PISSN: 07232020     EISSN: 16180984     Source Type: Journal    
DOI: 10.1016/j.syapm.2013.03.010     Document Type: Article
Times cited : (21)

References (39)
  • 1
    • 1942443733 scopus 로고    scopus 로고
    • Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons
    • Acinas S.G., Marcelino L.A., Klepac-Ceraj V., Polz M.F. Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons. J. Bacteriol. 2004, 186:2629-2635.
    • (2004) J. Bacteriol. , vol.186 , pp. 2629-2635
    • Acinas, S.G.1    Marcelino, L.A.2    Klepac-Ceraj, V.3    Polz, M.F.4
  • 2
    • 79959752367 scopus 로고    scopus 로고
    • Actinobacteria of the extremobiosphere
    • Springer, Tokyo/ Dordrecht/ Heidelberg/ London/ NewYork, K. Horikoshi, G. Antranikian, A.T. Bull, F.T. Robb, K.O. Stetter (Eds.)
    • Bull A.T. Actinobacteria of the extremobiosphere. Extremophiles Handbook 2011, 1203-1240. Springer, Tokyo/ Dordrecht/ Heidelberg/ London/ NewYork. K. Horikoshi, G. Antranikian, A.T. Bull, F.T. Robb, K.O. Stetter (Eds.).
    • (2011) Extremophiles Handbook , pp. 1203-1240
    • Bull, A.T.1
  • 3
    • 84856632691 scopus 로고    scopus 로고
    • Diversity of Micromonospora strains isolated from nitrogen fixing nodules and rhizosphere of Pisumsativum analyzed by multilocus sequence analysis
    • Carro L., Spröer C., Alonso P., Trujillo M.E. Diversity of Micromonospora strains isolated from nitrogen fixing nodules and rhizosphere of Pisumsativum analyzed by multilocus sequence analysis. Syst. Appl. Microbiol. 2012, 35:73-80.
    • (2012) Syst. Appl. Microbiol. , vol.35 , pp. 73-80
    • Carro, L.1    Spröer, C.2    Alonso, P.3    Trujillo, M.E.4
  • 4
    • 0028904058 scopus 로고
    • A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences
    • Chun J., Goodfellow M. A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int. J. Syst. Bacteriol. 1995, 45:240-245.
    • (1995) Int. J. Syst. Bacteriol. , vol.45 , pp. 240-245
    • Chun, J.1    Goodfellow, M.2
  • 5
    • 0030024243 scopus 로고    scopus 로고
    • Sequence heterogeneities among 16S ribosomal RNA sequences, and their effect on phylogenetic analyses at the species level
    • Cilia V., Lafay B., Christen R. Sequence heterogeneities among 16S ribosomal RNA sequences, and their effect on phylogenetic analyses at the species level. Mol. Biol. Evol. 1996, 13:451-461.
    • (1996) Mol. Biol. Evol. , vol.13 , pp. 451-461
    • Cilia, V.1    Lafay, B.2    Christen, R.3
  • 6
    • 0003122014 scopus 로고
    • Isoprenoid quinone analyses in bacterial classification and identification
    • Academic Press, London, M. Goodfellow, D.E. Minnikin (Eds.)
    • Collins M.D. Isoprenoid quinone analyses in bacterial classification and identification. Chemical Methods in Bacterial Systematics 1985, 267-287. Academic Press, London. M. Goodfellow, D.E. Minnikin (Eds.).
    • (1985) Chemical Methods in Bacterial Systematics , pp. 267-287
    • Collins, M.D.1
  • 7
    • 78751561457 scopus 로고    scopus 로고
    • Quantifying nonvertical inheritance in the evolution of Legionella pneumophila
    • Coscolla M., Comas I., Gonzalez-Candelas F. Quantifying nonvertical inheritance in the evolution of Legionella pneumophila. Mol. Biol. Evol. 2011, 28:985-1001.
    • (2011) Mol. Biol. Evol. , vol.28 , pp. 985-1001
    • Coscolla, M.1    Comas, I.2    Gonzalez-Candelas, F.3
  • 8
    • 0033603539 scopus 로고    scopus 로고
    • Phylogenetic classification and the universal tree
    • Doolittle W.F. Phylogenetic classification and the universal tree. Science 1999, 284:2124-2129.
    • (1999) Science , vol.284 , pp. 2124-2129
    • Doolittle, W.F.1
  • 9
    • 77956094202 scopus 로고    scopus 로고
    • Widespread homologous recombination within and between Streptomyces species
    • Doroghazi J.R., Buckley D.H. Widespread homologous recombination within and between Streptomyces species. ISME J. 2010, 4:1136-1143.
    • (2010) ISME J. , vol.4 , pp. 1136-1143
    • Doroghazi, J.R.1    Buckley, D.H.2
  • 10
    • 0024358339 scopus 로고
    • Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in micro-dilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains
    • Ezaki T., Hashimoto Y., Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in micro-dilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int. J. Syst. Bacteriol. 1989, 39:224-229.
    • (1989) Int. J. Syst. Bacteriol. , vol.39 , pp. 224-229
    • Ezaki, T.1    Hashimoto, Y.2    Yabuuchi, E.3
  • 11
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: an approach using the bootstrap
    • Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985, 39:783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 13
    • 59849086092 scopus 로고    scopus 로고
    • The bacterial species challenge: making sense of genetic and ecological diversity
    • Fraser C., Alm E.J., Polz M.F., Spratt B.G., Hanage W.P. The bacterial species challenge: making sense of genetic and ecological diversity. Science 2009, 323:741-746.
    • (2009) Science , vol.323 , pp. 741-746
    • Fraser, C.1    Alm, E.J.2    Polz, M.F.3    Spratt, B.G.4    Hanage, W.P.5
  • 16
    • 40449120034 scopus 로고    scopus 로고
    • A multilocus phylogeny of the Streptomyces griseus 16S rRNA gene clade: use of multilocus sequence analysis for streptomycete systematics
    • Guo Y., Zheng W., Rong X., Huang Y. A multilocus phylogeny of the Streptomyces griseus 16S rRNA gene clade: use of multilocus sequence analysis for streptomycete systematics. Int. J. Syst. Evol. Microbiol. 2008, 58:149-159.
    • (2008) Int. J. Syst. Evol. Microbiol. , vol.58 , pp. 149-159
    • Guo, Y.1    Zheng, W.2    Rong, X.3    Huang, Y.4
  • 17
    • 0021077093 scopus 로고
    • A rapid analysis for chemical grouping of aerobic actinomycetes
    • Hasegawa T., Takizawa M., Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J. Gen. Appl. Microbiol. 1983, 29:319-322.
    • (1983) J. Gen. Appl. Microbiol. , vol.29 , pp. 319-322
    • Hasegawa, T.1    Takizawa, M.2    Tanida, S.3
  • 18
    • 0031982528 scopus 로고    scopus 로고
    • Microbial evolution, diversity, and ecology: a decade of ribosomal RNA analysis of uncultivated microorganisms
    • Head I.M., Saunders J.R., Pickup R.W. Microbial evolution, diversity, and ecology: a decade of ribosomal RNA analysis of uncultivated microorganisms. Microb. Ecol. 1998, 35:1-21.
    • (1998) Microb. Ecol. , vol.35 , pp. 1-21
    • Head, I.M.1    Saunders, J.R.2    Pickup, R.W.3
  • 19
    • 0018851911 scopus 로고
    • Cellulase complex of a mesophilic Streptomyces strain
    • Ishaque M., Kluepfel D. Cellulase complex of a mesophilic Streptomyces strain. Can. J. Microbiol. 1980, 26:183-189.
    • (1980) Can. J. Microbiol. , vol.26 , pp. 183-189
    • Ishaque, M.1    Kluepfel, D.2
  • 21
    • 38949146160 scopus 로고    scopus 로고
    • The family Streptomycetaceae. Part I: taxonomy
    • Springer, New York, M. Dworkin (Ed.)
    • Kämpfer P. The family Streptomycetaceae. Part I: taxonomy. The Prokaryotes 2006, 538-604. Springer, New York. M. Dworkin (Ed.).
    • (2006) The Prokaryotes , pp. 538-604
    • Kämpfer, P.1
  • 22
    • 0025887644 scopus 로고
    • A numerical classification of the genera Streptomyces and Streptoverticillium using miniaturized physiological tests
    • Kämpfer P., Kroppenstedt R.M., Dott W. A numerical classification of the genera Streptomyces and Streptoverticillium using miniaturized physiological tests. J. Gen. Microbiol. 1991, 137:1831-1891.
    • (1991) J. Gen. Microbiol. , vol.137 , pp. 1831-1891
    • Kämpfer, P.1    Kroppenstedt, R.M.2    Dott, W.3
  • 23
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 1980, 16:111-120.
    • (1980) J. Mol. Evol. , vol.16 , pp. 111-120
    • Kimura, M.1
  • 24
    • 0001551934 scopus 로고
    • The chemotaxonomy of actinomycetes
    • Society for Industrial Microbiology Special Publication, Arlington, VA
    • Lechevalier M.P., Lechevalier H.A. The chemotaxonomy of actinomycetes. Actinomycete Taxonomy 1980, 6:277-284. Society for Industrial Microbiology Special Publication, Arlington, VA.
    • (1980) Actinomycete Taxonomy , vol.6 , pp. 277-284
    • Lechevalier, M.P.1    Lechevalier, H.A.2
  • 25
    • 58549119329 scopus 로고    scopus 로고
    • Prokaryotic diversity, distribution, and insights into their role in biogeochemical cycling in marine basalts
    • Mason O.U., Di Meo-Savoie C.A., Van Nostrand J.D., Zhou J., Fisk M.R., Giovannoni S.J. Prokaryotic diversity, distribution, and insights into their role in biogeochemical cycling in marine basalts. ISME J. 2009, 3:231-242.
    • (2009) ISME J. , vol.3 , pp. 231-242
    • Mason, O.U.1    Di Meo-Savoie, C.A.2    Van Nostrand, J.D.3    Zhou, J.4    Fisk, M.R.5    Giovannoni, S.J.6
  • 26
    • 0000198211 scopus 로고
    • Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography
    • Mesbah M., Premachandran U., Whitman W.B. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int. J. Syst. Bacteriol. 1989, 39:159-167.
    • (1989) Int. J. Syst. Bacteriol. , vol.39 , pp. 159-167
    • Mesbah, M.1    Premachandran, U.2    Whitman, W.B.3
  • 27
    • 77954574893 scopus 로고    scopus 로고
    • Intragenomic and intraspecific heterogeneity in rrs may surpass interspecific variability in a natural population of Veillonella
    • Michon A.L., Aujoulat F., Roudiere L., Soulier O., Zorgniotti I., Jumas-Bilak E., Marchandin H. Intragenomic and intraspecific heterogeneity in rrs may surpass interspecific variability in a natural population of Veillonella. Microbiology 2010, 156:2080-2091.
    • (2010) Microbiology , vol.156 , pp. 2080-2091
    • Michon, A.L.1    Aujoulat, F.2    Roudiere, L.3    Soulier, O.4    Zorgniotti, I.5    Jumas-Bilak, E.6    Marchandin, H.7
  • 30
    • 0031773680 scopus 로고    scopus 로고
    • MODELTEST: testing the model of DNA substitution
    • Posada D., Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 1998, 14:817-818.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 32
    • 0242365676 scopus 로고    scopus 로고
    • Genome-scale approaches to resolving incongruence in molecular phylogenies
    • Rokas A., Williams B.L., King N., Carroll S.B. Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 2003, 425:798-804.
    • (2003) Nature , vol.425 , pp. 798-804
    • Rokas, A.1    Williams, B.L.2    King, N.3    Carroll, S.B.4
  • 33
    • 77949401250 scopus 로고    scopus 로고
    • Taxonomic evaluation of the Streptomyces griseus clade using multilocus sequence analysis and DNA-DNA hybridization, with proposal to combine 29 species and three subspecies as 11 genomic species
    • Rong X., Huang Y. Taxonomic evaluation of the Streptomyces griseus clade using multilocus sequence analysis and DNA-DNA hybridization, with proposal to combine 29 species and three subspecies as 11 genomic species. Int. J. Syst. Evol. Microbiol. 2010, 60:696-703.
    • (2010) Int. J. Syst. Evol. Microbiol. , vol.60 , pp. 696-703
    • Rong, X.1    Huang, Y.2
  • 34
    • 84455205479 scopus 로고    scopus 로고
    • Taxonomic evaluation of the Streptomyces hygroscopicus clade using multilocus sequence analysis and DNA-DNA hybridization, validating the MLSA scheme for systematics of the whole genus
    • Rong X., Huang Y. Taxonomic evaluation of the Streptomyces hygroscopicus clade using multilocus sequence analysis and DNA-DNA hybridization, validating the MLSA scheme for systematics of the whole genus. Syst. Appl. Microbiol. 2012, 35:7-18.
    • (2012) Syst. Appl. Microbiol. , vol.35 , pp. 7-18
    • Rong, X.1    Huang, Y.2
  • 35
    • 67650369653 scopus 로고    scopus 로고
    • Proposal to reclassify the Streptomyces albidoflavus clade on the basis of multilocus sequence analysis and DNA-DNA hybridization, and taxonomic elucidation of Streptomyces griseus subsp. solvifaciens
    • Rong X., Guo Y., Huang Y. Proposal to reclassify the Streptomyces albidoflavus clade on the basis of multilocus sequence analysis and DNA-DNA hybridization, and taxonomic elucidation of Streptomyces griseus subsp. solvifaciens. Syst. Appl. Microbiol. 2009, 32:314-322.
    • (2009) Syst. Appl. Microbiol. , vol.32 , pp. 314-322
    • Rong, X.1    Guo, Y.2    Huang, Y.3
  • 36
    • 0001859086 scopus 로고
    • Identification of bacteria by gas chromatography of cellular fatty acids
    • Microbial ID, Inc., Newark, Del
    • Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. Technical Note 1990, 101. Microbial ID, Inc., Newark, Del.
    • (1990) Technical Note , vol.101
    • Sasser, M.1
  • 38
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
    • Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 28:2731-2739.
    • (2011) Mol. Biol. Evol. , vol.28 , pp. 2731-2739
    • Tamura, K.1    Peterson, D.2    Peterson, N.3    Stecher, G.4    Nei, M.5    Kumar, S.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.