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Volumn 9, Issue 3, 2013, Pages 574-584

Genomic analysis of Agrobacterium radiobacter DSM 30147T and emended description of A. radiobacter (Beijerinck and Van Delden 1902) conn 1942 (approved lists 1980) emend. Sawada et al. 1993

Author keywords

Agrobacterium radiobacter; Comparative genomics; Emended species description; Genome sequence; Non phytopathogenic agrobacterium

Indexed keywords

ACID PHOSPHATASE; ALKALINE PHOSPHATASE; ALPHA GLUCOSIDASE; ARGININE DEIMINASE; BETA GLUCOSIDASE; ESTERASE; FATTY ACID; N ACETYL BETA GLUCOSAMINIDASE; NITRATE; RNA 16S; UREASE;

EID: 84893347784     PISSN: 19443277     EISSN: None     Source Type: Journal    
DOI: 10.4056/sigs.4688352     Document Type: Article
Times cited : (11)

References (46)
  • 2
    • 0006501997 scopus 로고
    • Validity of the Genus Alcaligenes
    • [pmid:16560572]
    • Conn HJ. Validity of the Genus Alcaligenes. J Bacteriol 1942; 44:353-360. [pmid:16560572]
    • (1942) J Bacteriol , vol.44 , pp. 353-360
    • Conn, H.J.1
  • 3
    • 0034984184 scopus 로고    scopus 로고
    • Agrobacterium larrymoorei sp. nov., a pathogen isolated from aerial tumours of Ficus benjamina
    • [doi:10.1099/00207713-51-3-1023] [pmid:11411669]
    • Bouzar H, Jones JB. Agrobacterium larrymoorei sp. nov., a pathogen isolated from aerial tumours of Ficus benjamina. Int J Syst Evol Microbiol 2001; 51:1023-1026. [doi:10.1099/00207713-51-3-1023] [pmid:11411669]
    • (2001) Int J Syst Evol Microbiol , vol.51 , pp. 1023-1026
    • Bouzar, H.1    Jones, J.B.2
  • 4
    • 0025369844 scopus 로고
    • Agrobacterium vitis sp. nov. for strains of Agrobacterium biovar 3 from grapevines
    • Ophel K, Kerr A. Agrobacterium vitis sp. nov. for strains of Agrobacterium biovar 3 from grapevines. Int J Syst Evol Microbiol 1990; 40:236-241.
    • (1990) Int J Syst Evol Microbiol , vol.40 , pp. 236-241
    • Ophel, K.1    Kerr, A.2
  • 5
    • 0001459695 scopus 로고
    • Cane gall of brambles caused by Phytomonas rubi n.sp
    • Hildebrand EM. Cane gall of brambles caused by Phytomonas rubi n.sp. J Agric Res 1940; 61:685-696.
    • (1940) J Agric Res , vol.61 , pp. 685-696
    • Hildebrand, E.M.1
  • 6
    • 0006441299 scopus 로고
    • Growth of phytopathogenic bacteria in a synthetic asparagin medium
    • Starr MP, Weiss JE. Growth of phytopathogenic bacteria in a synthetic asparagin medium. Phytopathology 1943; 33:314-318.
    • (1943) Phytopathology , vol.33 , pp. 314-318
    • Starr, M.P.1    Weiss, J.E.2
  • 7
    • 77954386573 scopus 로고    scopus 로고
    • Analysis of core genes supports the reclassification of strains Agrobacterium radiobacter K84 and Agrobacterium tumefaciens AKE10 into the species Rhizobium rhizogenes
    • [doi:10.1016/j.syapm.2010.04.004] [pmid:20627641]
    • Velázquez E, Palomo JL, Rivas R, Guerra H, Peix A, Trujillo ME, Garcia-Benavides P, Mateos PF, Wabiko H, Martinez-Molina E. Analysis of core genes supports the reclassification of strains Agrobacterium radiobacter K84 and Agrobacterium tumefaciens AKE10 into the species Rhizobium rhizogenes. Syst Appl Microbiol 2010; 33:247-251. [doi:10.1016/j.syapm.2010.04.004] [pmid:20627641]
    • (2010) Syst Appl Microbiol , vol.33 , pp. 247-251
    • Velázquez, E.1    Palomo, J.L.2    Rivas, R.3    Guerra, H.4    Peix, A.5    Trujillo, M.E.6    Garcia-Benavides, P.7    Mateos, P.F.8    Wabiko, H.9    Martinez-Molina, E.10
  • 8
    • 84856662200 scopus 로고    scopus 로고
    • International Committee on Systematics of Prokaryotes Subcommittee on the taxonomy of Agrobacterium and Rhizobium: Minutes of the meeting, 7 September 2010, Geneva, Switzerland
    • [doi:10.1099/ijs.0.036913-0] [pmid:22156799]
    • Lindström K, Young JP. International Committee on Systematics of Prokaryotes Subcommittee on the taxonomy of Agrobacterium and Rhizobium: minutes of the meeting, 7 September 2010, Geneva, Switzerland. Int J Syst Evol Microbiol 2011; 61:3089-3093. [doi:10.1099/ijs.0.036913-0] [pmid:22156799]
    • (2011) Int J Syst Evol Microbiol , vol.61 , pp. 3089-3093
    • Lindström, K.1    Young, J.P.2
  • 9
    • 33244458867 scopus 로고    scopus 로고
    • Proposal that Agrobacterium radiobacter has priority over Agrobacterium tumefaciens. Request for an opinion
    • [doi:10.1099/ijs.0.64030-0] [pmid:16449463]
    • Young JM, Pennycook SR, Watson DR. Proposal that Agrobacterium radiobacter has priority over Agrobacterium tumefaciens. Request for an opinion. Int J Syst Evol Microbiol 2006; 56:491-493. [doi:10.1099/ijs.0.64030-0] [pmid:16449463]
    • (2006) Int J Syst Evol Microbiol , vol.56 , pp. 491-493
    • Young, J.M.1    Pennycook, S.R.2    Watson, D.R.3
  • 10
    • 0003351392 scopus 로고
    • Agrobacterium Cohn 1942
    • eds Krieg NR, Holt JG. (The Williams & Wilkins Co. Baltimore, Md)
    • Kersters K, de Ley J. Genus III. Agrobacterium Cohn 1942. in Bergey's manual of systematic bacteriology, eds Krieg NR, Holt JG. (The Williams & Wilkins Co. Baltimore, Md), Volume 1, 1984; p. 244-254.
    • (1984) Bergey's Manual of Systematic Bacteriology , vol.1 , pp. 244-254
    • Kersters, K.1    De Ley, J.2    Genus, I.I.I.3
  • 11
    • 78149466102 scopus 로고    scopus 로고
    • Rapid and efficient identification of Agrobacterium species by recA allele analysis: Agrobacterium recA diversity
    • [doi:10.1007/s00248-010-9685-7] [pmid:20521039]
    • Costechareyre D, Rhouma A, Lavire C, Portier P, Chapulliot D, Bertolla F, Boubaker A, Dessaux Y, Nesme X. Rapid and efficient identification of Agrobacterium species by recA allele analysis: Agrobacterium recA diversity. Microb Ecol 2010; 60:862-872. [doi:10.1007/s00248-010-9685-7] [pmid:20521039]
    • (2010) Microb Ecol , vol.60 , pp. 862-872
    • Costechareyre, D.1    Rhouma, A.2    Lavire, C.3    Portier, P.4    Chapulliot, D.5    Bertolla, F.6    Boubaker, A.7    Dessaux, Y.8    Nesme, X.9
  • 12
    • 65249095980 scopus 로고    scopus 로고
    • Genome sequences of three Agrobacterium biovars help elucidate the evolution of multichromosome genomes in bacteria
    • [doi:10.1128/JB.01779-08] [pmid:19251847]
    • Slater SC, Goldman BS, Goodner B, Setubal JC, Farrand SK, Nester EW, Burr TJ, Banta L, Dickerman AW, Paulsen I, et al. Genome sequences of three Agrobacterium biovars help elucidate the evolution of multichromosome genomes in bacteria. J Bacteriol 2009; 191:2501-2511. [doi:10.1128/JB.01779-08] [pmid:19251847]
    • (2009) J Bacteriol , vol.191 , pp. 2501-2511
    • Slater, S.C.1    Goldman, B.S.2    Goodner, B.3    Setubal, J.C.4    Farrand, S.K.5    Nester, E.W.6    Burr, T.J.7    Banta, L.8    Dickerman, A.W.9    Paulsen, I.10
  • 13
    • 0018572557 scopus 로고
    • Involvement of a plasmid in the hairy root disease of plants caused by Agrobacterium rhizogenes
    • [doi:10.1016/0147-619X(79)90059-3] [pmid:231271]
    • Moore L, Warren G, Strobel G. Involvement of a plasmid in the hairy root disease of plants caused by Agrobacterium rhizogenes. Plasmid 1979; 2:617-626. [doi:10.1016/0147-619X(79)90059-3] [pmid:231271]
    • (1979) Plasmid , vol.2 , pp. 617-626
    • Moore, L.1    Warren, G.2    Strobel, G.3
  • 15
    • 0037886485 scopus 로고
    • Transfer of virulence between isolates of Agrobacterium
    • [doi:10.1038/2231175a0]
    • Kerr A. Transfer of virulence between isolates of Agrobacterium. Nature 1969; 223:1175-1176. [doi:10.1038/2231175a0]
    • (1969) Nature , vol.223 , pp. 1175-1176
    • Kerr, A.1
  • 16
    • 0001165255 scopus 로고
    • Acquisition of virulence by non-pathogenic isolates of Agrobacterium radiobacter
    • [doi:10.1016/0048-4059(71)90045-2]
    • Kerr A. Acquisition of virulence by non-pathogenic isolates of Agrobacterium radiobacter. Physiol Plant Pathol 1971; 1:241-246. [doi:10.1016/0048-4059(71)90045-2]
    • (1971) Physiol Plant Pathol , vol.1 , pp. 241-246
    • Kerr, A.1
  • 18
    • 80054688607 scopus 로고    scopus 로고
    • Effect of applying an arsenic-resistant and plant growth-promoting rhizobacterium to enhance soil arsenic phytoremediation by Populus deltoides LH05-17
    • [doi:10.1111/j.1365-2672.2011.05142.x] [pmid:21895895]
    • Wang Q, Xiong D, Zhao P, Yu X, Tu B, Wang G. Effect of applying an arsenic-resistant and plant growth-promoting rhizobacterium to enhance soil arsenic phytoremediation by Populus deltoides LH05-17. J Appl Microbiol 2011; 111:1065-1074. [doi:10.1111/j.1365-2672.2011.05142.x] [pmid:21895895]
    • (2011) J Appl Microbiol , vol.111 , pp. 1065-1074
    • Wang, Q.1    Xiong, D.2    Zhao, P.3    Yu, X.4    Tu, B.5    Wang, G.6
  • 19
    • 54349089412 scopus 로고    scopus 로고
    • Agrobacterium radiobacter bacteremia in oncologic and geriatric patients: Presentation of two cases and review of the literature
    • [doi:10.1016/j.ijid.2008.03.010] [pmid:18539494]
    • Detrait M, D'Hondt L, Andre M, Lonchay C, Holemans X, Maton JP, Canon JL. Agrobacterium radiobacter bacteremia in oncologic and geriatric patients: presentation of two cases and review of the literature. Int J Infect Dis 2008; 12:e7-e10. [doi:10.1016/j.ijid.2008.03.010] [pmid:18539494]
    • (2008) Int J Infect Dis , vol.12
    • Detrait, M.1    D'Hondt, L.2    Andre, M.3    Lonchay, C.4    Holemans, X.5    Maton, J.P.6    Canon, J.L.7
  • 22
    • 0027495405 scopus 로고
    • Proposal for rejection of Agrobacterium tumefaciens and revised descriptions for the genus Agrobacterium and for Agrobacterium radiobacter and Agrobacterium rhizogenes
    • [doi:10.1099/00207713-43-4-694] [pmid:8240952]
    • Sawada H, Ieki H, Oyaizu H, Matsumoto S. Proposal for rejection of Agrobacterium tumefaciens and revised descriptions for the genus Agrobacterium and for Agrobacterium radiobacter and Agrobacterium rhizogenes. Int J Syst Bacteriol 1993; 43:694-702. [doi:10.1099/00207713-43-4-694] [pmid:8240952]
    • (1993) Int J Syst Bacteriol , vol.43 , pp. 694-702
    • Sawada, H.1    Ieki, H.2    Oyaizu, H.3    Matsumoto, S.4
  • 23
    • 79955875239 scopus 로고    scopus 로고
    • Rhizobium rosettiformans sp. nov., isolated from a hexachlorocyclohexane dump site, and reclassification of Blastobacter aggregatus Hirsch and Muller 1986 as Rhizobium aggregatum comb
    • [doi:10.1099/ijs.0.017491-0] [pmid:20584817]
    • Kaur J, Verma M, Lal R. Rhizobium rosettiformans sp. nov., isolated from a hexachlorocyclohexane dump site, and reclassification of Blastobacter aggregatus Hirsch and Muller 1986 as Rhizobium aggregatum comb. nov. Int J Syst Evol Microbiol 2011; 61:1218-1225. [doi:10.1099/ijs.0.017491-0] [pmid:20584817]
    • (2011) Nov. Int J Syst Evol Microbiol , vol.61 , pp. 1218-1225
    • Kaur, J.1    Verma, M.2    Lal, R.3
  • 24
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
    • [doi:10.1093/molbev/msr121] [pmid:21546353]
    • 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. [doi:10.1093/molbev/msr121] [pmid:21546353]
    • (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
  • 25
    • 84879840454 scopus 로고    scopus 로고
    • Comparative genome characterization of Achromobacter members reveals potential genetic determinants facilitating the adaptation to a pathogenic lifestyle
    • [doi:10.1007/s00253-013-5018-3] [pmid:23749121]
    • Li X, Hu Y, Gong J, Zhang L, Wang G. Comparative genome characterization of Achromobacter members reveals potential genetic determinants facilitating the adaptation to a pathogenic lifestyle. Appl Microbiol Biotechnol 2013; 97:6413-6425. [doi:10.1007/s00253-013-5018-3] [pmid:23749121]
    • (2013) Appl Microbiol Biotechnol , vol.97 , pp. 6413-6425
    • Li, X.1    Hu, Y.2    Gong, J.3    Zhang, L.4    Wang, G.5
  • 26
    • 46449130540 scopus 로고    scopus 로고
    • Evolution. Building the tree of life, genome by genome
    • [doi:10.1126/science.320.5884.1716] [pmid:18583591]
    • Pennisi E. Evolution. Building the tree of life, genome by genome. Science 2008; 320:1716-1717. [doi:10.1126/science.320.5884.1716] [pmid:18583591]
    • (2008) Science , vol.320 , pp. 1716-1717
    • Pennisi, E.1
  • 28
    • 33646193540 scopus 로고    scopus 로고
    • Proteobacteria phyl. nov
    • In: Garrity GM, Brenner DJ, Krieg NR, Staley JT, Second Edition, Part B, Springer, New York
    • Garrity GM, Bell JA, Lilburn T. Phylum XIV. Proteobacteria phyl. nov. In: Garrity GM, Brenner DJ, Krieg NR, Staley JT (eds), Bergey's Manual of Systematic Bacteriology, Second Edition, Volume 2, Part B, Springer, New York, 2005, p. 1
    • (2005) Bergey's Manual of Systematic Bacteriology , vol.2 , pp. 1
    • Garrity, G.M.1    Bell, J.A.2    Lilburn, T.3    Phylum, X.I.V.4
  • 29
    • 0025300402 scopus 로고
    • Towards a natural system of organisms: Proposal for the domains Archaea, Bacteria, and Eucarya
    • [doi:10.1073/pnas.87.12.4576] [pmid:2112744]
    • Woese CR, Kandler O, Wheelis ML. Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci USA 1990; 87:4576-4579. [doi:10.1073/pnas.87.12.4576] [pmid:2112744]
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 4576-4579
    • Woese, C.R.1    Kandler, O.2    Wheelis, M.L.3
  • 30
    • 33644852672 scopus 로고    scopus 로고
    • List of new names and new combinations previously effectively, but not validly, published
    • Validation List No. 107, [doi:10.1099/ijs.0.64188-0] [pmid:16403855]
    • Validation List No. 107. List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 2006; 56:1-6. [doi:10.1099/ijs.0.64188-0] [pmid:16403855]
    • (2006) Int J Syst Evol Microbiol , vol.56 , pp. 1-6
  • 31
    • 33646193540 scopus 로고    scopus 로고
    • Alphaproteobacteria class. nov
    • In: Garrity GM, Brenner DJ, Krieg NR, Staley JT, Part C, Springer, New York,Second Edition
    • Garrity GM, Bell JA, Lilburn T. Class I. Alphaproteobacteria class. nov. In: Garrity GM, Brenner DJ, Krieg NR, Staley JT (eds), Bergey's Manual of Systematic Bacteriology, Second Edition, Volume 2, Part C, Springer, New York, 2005, p. 1.
    • (2005) Bergey's Manual of Systematic Bacteriology , vol.2 , pp. 1
    • Garrity, G.M.1    Bell, J.A.2    Lilburn, T.3    Class, I.4
  • 32
    • 36349011895 scopus 로고    scopus 로고
    • Rhizobiales ord. nov
    • In: Garrity GM, Brenner DJ, Krieg NR, Staley JT, Part C, Springer, New York,Second Edition
    • Kuykendall LD. Order VI. Rhizobiales ord. nov. In: Garrity GM, Brenner DJ, Krieg NR, Staley JT (eds), Bergey's Manual of Systematic Bacteriology, Second Edition, Volume 2, Part C, Springer, New York, 2005, p. 324.
    • (2005) Bergey's Manual of Systematic Bacteriology , vol.2 , pp. 324
    • Kuykendall, L.D.1    Order, V.I.2
  • 33
    • 33846560406 scopus 로고
    • Taxonomic relationships of certain non-sporeforming rods in soil
    • Conn HJ. Taxonomic relationships of certain non-sporeforming rods in soil. J Bacteriol 1938; 36:320-321.
    • (1938) J Bacteriol , vol.36 , pp. 320-321
    • Conn, H.J.1
  • 34
    • 19544371397 scopus 로고
    • Agrobacterium Conn 1942, 359; Nom. gen. cons. Opin. 33, Jud. Comm. 1970, 10
    • In: Buchanan RE, Gibbons NE, Eighth Edition, The Williams and Wilkins Co., Baltimore
    • Allen ON, Holding AJ. Genus II. Agrobacterium Conn 1942, 359; Nom. gen. cons. Opin. 33, Jud. Comm. 1970, 10. In: Buchanan RE, Gibbons NE (eds), Bergey's Manual of Determinative Bacteriology, Eighth Edition, The Williams and Wilkins Co., Baltimore, 1974, p. 264-267.
    • (1974) Bergey's Manual of Determinative Bacteriology , pp. 264-267
    • Allen, O.N.1    Holding, A.J.2    Genus, I.I.3
  • 35
    • 0006499301 scopus 로고
    • OPINION 33: Conservation of the Generic Name Agrobacterium Conn 1942
    • Editorial Secretary (for the Judicial Commission of the International Committee on Nomenclature of Bacteria), [doi:10.1099/00207713-20-1-10]
    • Editorial Secretary (for the Judicial Commission of the International Committee on Nomenclature of Bacteria). OPINION 33: Conservation of the Generic Name Agrobacterium Conn 1942. Int J Syst Bacteriol 1970; 20:10. [doi:10.1099/00207713-20-1-10]
    • (1970) Int J Syst Bacteriol , vol.20 , pp. 10
  • 38
    • 84873799110 scopus 로고
    • Studies on lysogenesis. I. The mode of phage liberation by lysogenic Escherichia coli
    • The mode of phage liberation by lysogenic Escherichia coli, [pmid:14888646]
    • Bertani G. Studies on lysogenesis. I. The mode of phage liberation by lysogenic Escherichia coli. J Bacteriol 1951; 62:293-300. [pmid:14888646]
    • (1951) J Bacteriol , vol.62 , pp. 293-300
    • Bertani, G.1
  • 39
    • 84893392034 scopus 로고    scopus 로고
    • Illumina
    • Illumina. www.illumina.com.cn
  • 40
    • 84893358408 scopus 로고    scopus 로고
    • SOAPdenovo v1.05
    • SOAPdenovo v1.05. http://soap.genomics.org.cn/
  • 41
    • 84893348820 scopus 로고    scopus 로고
    • Prokaryotic Genome Annotation Pipeline
    • Prokaryotic Genome Annotation Pipeline. http://www.ncbi.nlm.nih.gov/genome/annotation_prok
  • 42
    • 0035875343 scopus 로고    scopus 로고
    • GeneMarkS: A self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions
    • [doi:10.1093/nar/29.12.2607] [pmid:11410670]
    • Besemer J, Lomsadze A, Borodovsky M. GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res 2001; 29:2607-2618. [doi:10.1093/nar/29.12.2607] [pmid:11410670]
    • (2001) Nucleic Acids Res , vol.29 , pp. 2607-2618
    • Besemer, J.1    Lomsadze, A.2    Borodovsky, M.3
  • 45
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: Identification of ortholog groups for eukaryotic genomes
    • [doi:10.1101/gr.1224503] [pmid:12952885]
    • Li L, Stoeckert CJ, Roos DS. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res 2003; 13:2178-2189. [doi:10.1101/gr.1224503] [pmid:12952885]
    • (2003) Genome Res , vol.13 , pp. 2178-2189
    • Li, L.1    Stoeckert, C.J.2    Roos, D.S.3


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