메뉴 건너뛰기




Volumn 6, Issue 3, 2012, Pages 325-335

Complete genome sequence of Thauera aminoaromatica strain MZ1T

(30)  Jiang, Ke a   Sanseverino, John a   Chauhan, Archana a   Lucas, Susan b   Copeland, Alex b   Lapidus, Alla b   Del Rio, Tijana Glavina b   Dalin, Eileen b   Tice, Hope b   Bruce, David b   Goodwin, Lynne b   Pitluck, Sam b   Sims, David b   Brettin, Thomas b   Detter, John C b   Han, Cliff c   Chang, Y J d   Larimer, Frank d   Land, Miriam d   Hauser, Loren d   more..


Author keywords

Genome; MZ1T; Thauera aminoaromatica

Indexed keywords

ACETIC ACID; AROMATIC COMPOUND; BACTERIAL PROTEIN; EXOPOLYSACCHARIDE; METHANE; NITRATE; ORGANIC MATTER;

EID: 84865268125     PISSN: 19443277     EISSN: None     Source Type: Journal    
DOI: 10.4056/sigs.2696029     Document Type: Article
Times cited : (50)

References (38)
  • 1
    • 0033959926 scopus 로고    scopus 로고
    • Zoogleal clusters and sludge dewatering potential in an industrial activated-sludge wastewater treatment plant
    • http://dx.doi.org/10.2175/106143000X137112
    • Lajoie CA, Layton AC, Gregory IR, Sayler GS, Taylor DE, Meyers AJ. Zoogleal clusters and sludge dewatering potential in an industrial activated-sludge wastewater treatment plant. Water Environ Res 2000; 72:56-64. http://dx.doi.org/10.2175/106143000X137112
    • (2000) Water Environ Res , vol.72 , pp. 56-64
    • Lajoie, C.A.1    Layton, A.C.2    Gregory, I.R.3    Sayler, G.S.4    Taylor, D.E.5    Meyers, A.J.6
  • 2
    • 3543109164 scopus 로고    scopus 로고
    • Analysis and glycosyl composition of the exopolysaccharide isolated from the floc-forming wastewater bacterium Thauera sp. MZ1T
    • Pub-Med http://dx.doi.org/10.1111/j.1462-2920.2004.00615.x
    • Allen MS, Welch KT, Prebyl BS, Baker DC, Meyers AJ, Sayler GS. Analysis and glycosyl composition of the exopolysaccharide isolated from the floc-forming wastewater bacterium Thauera sp. MZ1T. Environ Microbiol 2004; 6:780-790. Pub-Med http://dx.doi.org/10.1111/j.1462-2920.2004.00615.x
    • (2004) Environ Microbiol , vol.6 , pp. 780-790
    • Allen, M.S.1    Welch, K.T.2    Prebyl, B.S.3    Baker, D.C.4    Meyers, A.J.5    Sayler, G.S.6
  • 3
    • 0027408903 scopus 로고
    • Thauera selenatis gen. nov., sp. nov., a member of the beta subclass of Proteobacteria with a novel type of anaerobic respiration
    • PubMed http://dx.doi.org/10.1099/00207713-43-1-135
    • Macy JM, Rech S, Auling G, Dorsch M, Stackebrandt E, Sly LI. Thauera selenatis gen. nov., sp. nov., a member of the beta subclass of Proteobacteria with a novel type of anaerobic respiration. Int J Syst Bacteriol 1993; 43:135-142. PubMed http://dx.doi.org/10.1099/00207713-43-1-135
    • (1993) Int J Syst Bacteriol , vol.43 , pp. 135-142
    • Macy, J.M.1    Rech, S.2    Auling, G.3    Dorsch, M.4    Stackebrandt, E.5    Sly, L.I.6
  • 6
    • 0025300402 scopus 로고
    • Towards a natural system of organisms: Proposal for the domains Archaea, Bacteria, and Eucarya
    • PubMed http://dx.doi.org/10.1073/pnas.87.12.4576
    • 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. PubMed http://dx.doi.org/10.1073/pnas.87.12.4576
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 4576-4579
    • Woese, C.R.1    Kandler, O.2    Wheelis, M.L.3
  • 7
    • 33646193540 scopus 로고    scopus 로고
    • Proteobacteria phyl. nov
    • Garrity GM, Brenner DJ, Krieg NR, Staley JT, The Proteobacteria), 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, vol. 2 (The Proteobacteria), 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
  • 8
    • 33644852672 scopus 로고    scopus 로고
    • List of new names and new combinations previously effectively, but not validly, published
    • Validation List No. 107, PubMed http://dx.doi.org/10.1099/ijs.0.64188-0
    • 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. PubMed http://dx.doi.org/10.1099/ijs.0.64188-0
    • (2006) Int J Syst Evol Microbiol , vol.56 , pp. 1-6
  • 9
    • 33747880275 scopus 로고    scopus 로고
    • Betaproteobacteria class. nov
    • Garrity GM, Brenner DJ, Krieg NR, Staley JT, Second Edition, Volume 2, Part C, Springer, New York
    • Garrity GM, Bell JA, Lilburn T. Class II. Betaproteobacteria 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. 575.
    • (2005) Bergey's Manual of Systematic Bacteriology , pp. 575
    • Garrity, G.M.1    Bell, J.A.2    Lilburn, T.3    Class, I.I.4
  • 10
    • 33747880275 scopus 로고    scopus 로고
    • Order VI. Rhodocyclales ord. nov
    • In: Garrity GM, Brenner DJ, Krieg NR, Staley JT, Second Edition, Volume 2, Part C, Springer, New York
    • Garrity GM, Bell JA, Lilburn T. Order VI. Rhodocyclales 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. 887.
    • (2005) Bergey's Manual of Systematic Bacteriology , pp. 887
    • Garrity, G.M.1    Bell, J.A.2    Lilburn, T.3
  • 11
    • 33646193540 scopus 로고    scopus 로고
    • Family I. Rhodocyclaceae fam. nov
    • Second Edition, In: DJ Brenner, NR Krieg, JT Staley, Part C, Springer, New York
    • Garrity GM, Bell JA, Lilburn T. Family I. Rhodocyclaceae fam. nov., In: DJ Brenner, NR Krieg, JT Staley, (eds) GG (eds), Bergey's Manual of Systematic Bacteriology, Second Edition, Volume 2, Part C, Springer, New York, 2005, p. 887.
    • (2005) Bergey's Manual of Systematic Bacteriology , vol.2 , pp. 887
    • Garrity, G.M.1    Bell, J.A.2    Lilburn, T.3
  • 12
    • 59549092807 scopus 로고    scopus 로고
    • Thauera Macy, Rech, Auling, Dorsch, Stackebrandt and Sly 1993, 139VP emend. Song, Young and Palleroni 1998, 893
    • In: Garrity G, Brenner DJ, Krieg NR, Staley JR, Second Edition, Volume 2, Part C, Springer, New York
    • Heider J, Fuchs G. Genus XI. Thauera Macy, Rech, Auling, Dorsch, Stackebrandt and Sly 1993, 139VP emend. Song, Young and Palleroni 1998, 893, In: Garrity G, Brenner DJ, Krieg NR, Staley JR (eds), Bergey's Manual of Systematic Bacteriology, Second Edition, Volume 2, Part C, Springer, New York, 2005, p. 907.
    • (2005) Bergey's Manual of Systematic Bacteriology , pp. 907
    • Heider, J.1    Fuchs, G.2    Genus, X.I.3
  • 13
    • 0031856287 scopus 로고    scopus 로고
    • Identification of denitrifier strain T1 as Thauera aromatica and proposal for emendation of the genus Thauera definition
    • PubMed http://dx.doi.org/10.1099/00207713-48-3-889
    • Song B, Young LY, Palleroni NJ. Identification of denitrifier strain T1 as Thauera aromatica and proposal for emendation of the genus Thauera definition. Int J Syst Syst Bacteriol 1998; 48:889-894. PubMed http://dx.doi.org/10.1099/00207713-48-3-889
    • (1998) Int J Syst Syst Bacteriol , vol.48 , pp. 889-894
    • Song, B.1    Young, L.Y.2    Palleroni, N.J.3
  • 14
    • 0028964829 scopus 로고
    • Taxonomic position of aromatic-degrading denitrifying pseudomonad strains K 172 and KB 740 and their description as new members of the genera Thauera, as Thauera aromatica sp. nov., and Azoarcus, as Azoarcus evansii sp. nov., respectively, members of the beta subclass of the Proteobacteria
    • PubMed http://dx.doi.org/10.1099/00207713-45-2-327
    • Anders HJ, Kaetzke A, Kämper P, Ludwig W, Fuchs G. Taxonomic position of aromatic-degrading denitrifying pseudomonad strains K 172 and KB 740 and their description as new members of the genera Thauera, as Thauera aromatica sp. nov., and Azoarcus, as Azoarcus evansii sp. nov., respectively, members of the beta subclass of the Proteobacteria. Int J Syst Bacteriol 1995; 45:327-333. PubMed http://dx.doi.org/10.1099/00207713-45-2-327
    • (1995) Int J Syst Bacteriol , vol.45 , pp. 327-333
    • Anders, H.J.1    Kaetzke, A.2    Kämper, P.3    Ludwig, W.4    Fuchs, G.5
  • 16
    • 75549086416 scopus 로고    scopus 로고
    • The Genomes On Line Database (GOLD) in 2009: Status of genomic and metagenomic projects and their associated metadata
    • PubMed http://dx.doi.org/10.1093/nar/gkp848
    • Liolios K, Chen IMA, Mavromatis K, Tavernarakis N, Hugenholtz P, Markowitz VM, Kyrpides NC. The Genomes On Line Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res 2010; 38:D346-D354. PubMed http://dx.doi.org/10.1093/nar/gkp848
    • (2010) Nucleic Acids Res , vol.38
    • Liolios, K.1    Chen, I.M.A.2    Mavromatis, K.3    Tavernarakis, N.4    Hugenholtz, P.5    Markowitz, V.M.6    Kyrpides, N.C.7
  • 17
    • 0031526548 scopus 로고    scopus 로고
    • Modification of a CTAB DNA extraction protocol for plants containing high polysaccharide and polyphenol components
    • Porebski S, Bailey L, Baum B. Modification of a CTAB DNA extraction protocol for plants containing high polysaccharide and polyphenol components. Plant Mol Biol Rep 1997; 15:8-15. http://dx.doi.org/10.1007/BF02772108
    • (1997) Plant Mol Biol Rep , vol.15 , pp. 8-15
    • Porebski, S.1    Bailey, L.2    Baum, B.3
  • 18
    • 84865232925 scopus 로고    scopus 로고
    • DOE Joint Genome Institute
    • DOE Joint Genome Institute. http://www.jgi.doe.gov.
  • 19
    • 84865232928 scopus 로고    scopus 로고
    • Phred/Phrap/Consed software package
    • Phred/Phrap/Consed software package. http://www.phrap.com
  • 20
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. I. accuracy assessment
    • PubMed
    • Ewing B, Green P. Base-calling of automated sequencer traces using phred. I. accuracy assessment. Genome Res 1998; 8:186-194. PubMed
    • (1998) Genome Res , Issue.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 21
    • 0031955518 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. I. accuracy assessment
    • PubMed
    • Ewing B, Hillier L, Wendl MC, Green P. Base-calling of automated sequencer traces using phred. I. accuracy assessment. Genome Res 1998; 8:175-185. PubMed
    • (1998) Genome Res , Issue.8 , pp. 175-185
    • Ewing, B.1    Hillier, L.2    Wendl, M.C.3    Green, P.4
  • 22
    • 0031955116 scopus 로고    scopus 로고
    • Consed: A graphical tool for sequence finishing
    • PubMed
    • Gordon D, Abajian C, Green P. Consed: a graphical tool for sequence finishing. Genome Res 1998; 8:195-202. PubMed
    • (1998) Genome Res , vol.8 , pp. 195-202
    • Gordon, D.1    Abajian, C.2    Green, P.3
  • 24
    • 77952299957 scopus 로고    scopus 로고
    • Prodigal: Prokaryotic gene recogni tion and translation initiation site identification
    • PubMed http://dx.doi.org/10.1186/1471-2105-11-119
    • Hyatt D, Chen GL, LoCascio P, Land M, Larimer F, Hauser L. Prodigal: prokaryotic gene recogni tion and translation initiation site identification. BMC Bioinformatics 2010; 11:119. PubMed http://dx.doi.org/10.1186/1471-2105-11-119
    • (2010) BMC Bioinformatics , vol.11 , pp. 119
    • Hyatt, D.1    Chen, G.L.2    Locascio, P.3    Land, M.4    Larimer, F.5    Hauser, L.6
  • 25
    • 77953023066 scopus 로고    scopus 로고
    • GenePRIMP: A gene prediction improvement pipeline for prokaryotic genomes
    • PubMed http://dx.doi.org/10.1038/nmeth.1457
    • Pati A, Ivanova NN, Mikhailova N, Ovchinnikova G, Hooper SD, Lykidis A, Kyrpides NC. GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes. Nat Methods 2010; 7:455-457. PubMed http://dx.doi.org/10.1038/nmeth.1457
    • (2010) Nat Methods , vol.7 , pp. 455-457
    • Pati, A.1    Ivanova, N.N.2    Mikhailova, N.3    Ovchinnikova, G.4    Hooper, S.D.5    Lykidis, A.6    Kyrpides, N.C.7
  • 26
    • 0030854739 scopus 로고    scopus 로고
    • Trnascan-SE: A program for improved detection of transfer RNA genes in ge-nomic sequence
    • PubMed
    • Lowe TM, Eddy SR. tRNAscan-SE: a program for improved detection of transfer RNA genes in ge-nomic sequence. Nucleic Acids Res 1997; 25:955-964. PubMed
    • (1997) Nucleic Acids Res , vol.25 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2
  • 27
    • 34250665888 scopus 로고    scopus 로고
    • RNAmmer: Consistent and rapid annotation of ribosomal RNA genes
    • PubMed http://dx.doi.org/10.1093/nar/gkm160
    • Lagesen K, Hallin P, Rødland EA, Stærfeldt HH, Rognes T, Ussery DW. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res 2007; 35:3100-3108. PubMed http://dx.doi.org/10.1093/nar/gkm160
    • (2007) Nucleic Acids Res , vol.35 , pp. 3100-3108
    • Lagesen, K.1    Hallin, P.2    Rødland, E.A.3    Stærfeldt, H.H.4    Rognes, T.5    Ussery, D.W.6
  • 29
    • 0035910270 scopus 로고    scopus 로고
    • Predicting transmembrane protein topology with a hidden markov model: Application to complete genomes
    • PubMed http://dx.doi.org/10.1006/jmbi.2000.4315
    • Krogh A, Larsson B, von Heijne G, Sonnhammer ELL. Predicting transmembrane protein topology with a hidden markov model: application to complete genomes. J Mol Biol 2001; 305:567-580. PubMed http://dx.doi.org/10.1006/jmbi.2000.4315
    • (2001) J Mol Biol , vol.305 , pp. 567-580
    • Krogh, A.1    Larsson, B.2    von Heijne, G.3    Sonnhammer, E.L.L.4
  • 30
    • 3042521098 scopus 로고    scopus 로고
    • Improved Prediction of Signal Peptides: SignalP 3.0
    • PubMed http://dx.doi.org/10.1016/j.jmb.2004.05.028
    • Bendtsen DJ, Nielsen H, von Heijne G, Brunak S. Improved Prediction of Signal Peptides: SignalP 3.0. J Mol Biol 2004; 340:783-795. PubMed http://dx.doi.org/10.1016/j.jmb.2004.05.028
    • (2004) J Mol Biol , vol.340 , pp. 783-795
    • Bendtsen, D.J.1    Nielsen, H.2    von Heijne, G.3    Brunak, S.4
  • 31
    • 34249073405 scopus 로고    scopus 로고
    • Roseovarius sp. strain 217: Aerobic taurine dissimilation via acetate kinase and acetate-CoA lig-ase
    • PubMed http://dx.doi.org/10.1111/j.1574-6968.2007.00719.x
    • Baldock MI, Denger K, Smits THM, Cook AM. Roseovarius sp. strain 217: aerobic taurine dissimilation via acetate kinase and acetate-CoA lig-ase. FEMS Microbiol Lett 2007; 271:202-206. PubMed http://dx.doi.org/10.1111/j.1574-6968.2007.00719.x
    • (2007) FEMS Microbiol Lett , vol.271 , pp. 202-206
    • Baldock, M.I.1    Denger, K.2    Smits, T.H.M.3    Cook, A.M.4
  • 32
    • 33750892424 scopus 로고    scopus 로고
    • Wza the translocon for E. coli capsular polysaccharides defines a new class of membrane protein
    • PubMed http://dx.doi.org/10.1038/nature05267
    • Dong C, Beis K, Nesper J, Brunkan-LaMontagne AL, Clarke BR, Whitfield C, Naismith JH. Wza the translocon for E. coli capsular polysaccharides defines a new class of membrane protein. Nature 2006; 444:226-229. PubMed http://dx.doi.org/10.1038/nature05267
    • (2006) Nature , vol.444 , pp. 226-229
    • Dong, C.1    Beis, K.2    Nesper, J.3    Brunkan-Lamontagne, A.L.4    Clarke, B.R.5    Whitfield, C.6    Naismith, J.H.7
  • 33
    • 0031023461 scopus 로고    scopus 로고
    • Modulation of the surface architecture of Gram-negative bacteria by the action of surface polymer:Lipid A-core lig-ase and by determinants of polymer chain length
    • PubMed http://dx.doi.org/10.1046/j.1365-2958.1997.2571614.x
    • Whitfield C, Amor PA, Köplin R. Modulation of the surface architecture of Gram-negative bacteria by the action of surface polymer:lipid A-core lig-ase and by determinants of polymer chain length. Mol Microbiol 1997; 23:629-638. PubMed http://dx.doi.org/10.1046/j.1365-2958.1997.2571614.x
    • (1997) Mol Microbiol , vol.23 , pp. 629-638
    • Whitfield, C.1    Amor, P.A.2    Köplin, R.3
  • 34
    • 0033022996 scopus 로고    scopus 로고
    • Structure, assembly and regulation of expression of capsules in
    • PubMed http://dx.doi.org/10.1046/j.1365-2958.1999.01276
    • Whitfield C, Roberts IS. Structure, assembly and regulation of expression of capsules in Escherichia coli. Mol Microbiol 1999; 31:1307-1319. PubMed http://dx.doi.org/10.1046/j.1365-2958.1999.01276.x
    • (1999) Escherichia Coli. Mol Microbiol , vol.31 , pp. 1307-1319
    • Whitfield, C.1    Roberts, I.S.2
  • 35
    • 0025825745 scopus 로고
    • Anaerobic degradation of toluene by a denitrifying bacterium
    • PubMed
    • Evans PJ, Mang DT, Kim KS, Young LY. Anaerobic degradation of toluene by a denitrifying bacterium. Appl Environ Microbiol 1991; 57:1139-1145. PubMed
    • (1991) Appl Environ Microbiol , vol.57 , pp. 1139-1145
    • Evans, P.J.1    Mang, D.T.2    Kim, K.S.3    Young, L.Y.4
  • 36
    • 0032466209 scopus 로고    scopus 로고
    • Anaerobic metabolism of aromatic compounds via the benzoyl-CoA pathway
    • http://dx.doi.org/10.1111/j.1574-6976.1998.tb00380.x
    • Harwood CS, Burchhardt G, Herrmann H, Fuchs G. Anaerobic metabolism of aromatic compounds via the benzoyl-CoA pathway. FEMS Microbiol Rev 1998; 22:439-458. http://dx.doi.org/10.1111/j.1574-6976.1998.tb00380.x
    • (1998) FEMS Microbiol Rev , vol.22 , pp. 439-458
    • Harwood, C.S.1    Burchhardt, G.2    Herrmann, H.3    Fuchs, G.4
  • 37
    • 1642415111 scopus 로고    scopus 로고
    • Aerobic and anaerobic toluene degradation by a newly isolated denitrifying bacterium, Thauera sp. Strain DNT-1
    • PubMed http://dx.doi.org/10.1128/AEM.70.3.1385-1392.2004
    • Shinoda Y, Sakai Y, Uenishi H, Uchihashi Y, Hiraishi A, Yukawa H, Yurimoto H, Kato N. Aerobic and anaerobic toluene degradation by a newly isolated denitrifying bacterium, Thauera sp. Strain DNT-1. Appl Environ Microbiol 2004; 70:1385-1392. PubMed http://dx.doi.org/10.1128/AEM.70.3.1385-1392.2004
    • (2004) Appl Environ Microbiol , vol.70 , pp. 1385-1392
    • Shinoda, Y.1    Sakai, Y.2    Uenishi, H.3    Uchihashi, Y.4    Hiraishi, A.5    Yukawa, H.6    Yurimoto, H.7    Kato, N.8
  • 38
    • 0242692671 scopus 로고    scopus 로고
    • Multiple sigma subunits and the partitioning of bacterial transcription space
    • PubMed http://dx.doi.org/10.1146/annurev.micro.57.030502.090913
    • Gruber TM, Gross CA. Multiple sigma subunits and the partitioning of bacterial transcription space. Annu Rev Microbiol 2003; 57:441-466. PubMed http://dx.doi.org/10.1146/annurev.micro.57.0305 02.090913
    • (2003) Annu Rev Microbiol , vol.57 , pp. 441-466
    • Gruber, T.M.1    Gross, C.A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.