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Volumn 4, Issue 1, 2011, Pages 54-62

Complete genome sequence of Calditerrivibrio nitroreducens type strain (Yu37-1 T)

(36)  Pitluck, Sam a   Sikorski, Johannes b   Zeytun, Ahmet a,c   Lapidus, Alla a   Nolan, Matt a   Lucas, Susan a   Hammon, Nancy a   Deshpande, Shweta a   Cheng, Jan Fang a   Tapia, Roxane a,c   Han, Cliff a,c   Goodwin, Lynne a,c   Liolios, Konstantinos a   Pagani, Ioanna a   Ivanova, Natalia a   Mavromatis, Konstantinos a   Pati, Amrita a   Chen, Amy d   Palaniappan, Krishna d   Hauser, Loren a,e   more..


Author keywords

Chemoorga noheterotroph; Deferribacteraceae; GEBA; Gram negative; Hot spring; Moderately thermophilic; Motile; Strictly anaerobic

Indexed keywords

ARCHAEA; BACTERIA (MICROORGANISMS); DEFERRIBACTERACEAE; NEGIBACTERIA;

EID: 80053360941     PISSN: 19443277     EISSN: None     Source Type: Journal    
DOI: 10.4056/sigs.1523807     Document Type: Article
Times cited : (8)

References (37)
  • 1
    • 52449110514 scopus 로고    scopus 로고
    • Calditerrivibrio nitroreducens gen. nov., sp. nov., a thermophilic, nitrate-reducing bacterium isolated from a terrestrial hot spring in Japan
    • PubMed doi:10.1099/ijs.0.65714-0
    • Iino T, Nakagawa T, Mori K, Harayama S, Suzuki K. Calditerrivibrio nitroreducens gen. nov., sp. nov., a thermophilic, nitrate-reducing bacterium isolated from a terrestrial hot spring in Japan. Int J Syst Evol Microbiol 2008; 58:1675-1679. PubMed doi:10.1099/ijs.0.65714-0
    • (2008) Int J Syst Evol Microbiol , vol.58 , pp. 1675-1679
    • Iino, T.1    Nakagawa, T.2    Mori, K.3    Harayama, S.4    Suzuki, K.5
  • 2
    • 0025328505 scopus 로고
    • Flexistipes sinusarabici, a novel genus and species of eubacteria occurring in the Atlantis II Deep brines of the Red Sea
    • doi:10.1007/BF00423320
    • Fiala G, Woese CR, Langworthy TA, Stetter KO. Flexistipes sinusarabici, a novel genus and species of eubacteria occurring in the Atlantis II Deep brines of the Red Sea. Arch Microbiol 1990; 154:120-126. doi:10.1007/BF00423320
    • (1990) Arch Microbiol , vol.154 , pp. 120-126
    • Fiala, G.1    Woese, C.R.2    Langworthy, T.A.3    Stetter, K.O.4
  • 3
    • 0030899435 scopus 로고    scopus 로고
    • Deferribacter thermophilus gen. nov., sp. nov., a novel thermo-philic manganese and iron-reducing bacterium isolated from a petroleum reservoir
    • PubMed doi:10.1099/00207713-47-2-505
    • Greene AC, Patel BKC, Sheehy AJ. Deferribacter thermophilus gen. nov., sp. nov., a novel thermo-philic manganese and iron-reducing bacterium isolated from a petroleum reservoir. Int J Syst Bac-teriol 1997; 47:505-509. PubMed doi:10.1099/00207713-47-2-505
    • (1997) Int J Syst Bac-teriol , vol.47 , pp. 505-509
    • Greene, A.C.1    Patel, B.K.C.2    Sheehy, A.J.3
  • 4
    • 0033865171 scopus 로고    scopus 로고
    • Denitrovibrio acetiphilus, a novel genus and species of dissimilatory nitrate reducing bacterium isolated from an oil reservoir model column
    • PubMed
    • Myhr S, Torsvik T. Denitrovibrio acetiphilus, a novel genus and species of dissimilatory nitrate reducing bacterium isolated from an oil reservoir model column. Int J Syst Evol Microbiol 2000; 50:1611-1619. PubMed
    • (2000) Int J Syst Evol Microbiol , vol.50 , pp. 1611-1619
    • Myhr, S.1    Torsvik, T.2
  • 6
    • 19544388278 scopus 로고    scopus 로고
    • Mucispirillum schaedleri gen. nov., sp. nov., a spiral-shaped bacterium colonizing the mucus layer of the ga-strointestinal tract of laboratory rodents
    • PubMed doi:10.1099/ijs.0.63472-0
    • Robertson BR, O'Rourke JL, Neilan BA, Van-damme P, On SLW, Fox JG, Lee A. Mucispirillum schaedleri gen. nov., sp. nov., a spiral-shaped bacterium colonizing the mucus layer of the ga-strointestinal tract of laboratory rodents. Int J Syst Evol Microbiol 2005; 55:1199-1204. PubMed doi:10.1099/ijs.0.63472-0
    • (2005) Int J Syst Evol Microbiol , vol.55 , pp. 1199-1204
    • Robertson, B.R.1    O'Rourke, J.L.2    Neilan, B.A.3    Van-Damme, P.4    On, S.L.W.5    Fox, J.G.6    Lee, A.7
  • 9
    • 33750368884 scopus 로고    scopus 로고
    • Enrichment, performance, and microbi-al diversity of a thermophilic mediatorless micro-bial fuel cell
    • PubMed doi:10.1021/es0613512
    • Jong BC, Kim BH, Chang IS, Liew PW, Choo YF, Kang GS. Enrichment, performance, and microbi-al diversity of a thermophilic mediatorless micro-bial fuel cell. Environ Sci Technol 2006; 40:6449-6454. PubMed doi:10.1021/es0613512
    • (2006) Environ Sci Technol , vol.40 , pp. 6449-6454
    • Jong, B.C.1    Kim, B.H.2    Chang, I.S.3    Liew, P.W.4    Choo, Y.F.5    Kang, G.S.6
  • 10
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • PubMed
    • Castresana J. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 2000; 17:540-552. PubMed
    • (2000) Mol Biol Evol , vol.17 , pp. 540-552
    • Castresana, J.1
  • 11
    • 0036203448 scopus 로고    scopus 로고
    • Multiple sequence alignment using partial order graphs
    • PubMed doi:10.1093/bioinformatics/18.3.452
    • Lee C, Grasso C, Sharlow MF. Multiple sequence alignment using partial order graphs. Bioinformat-ics 2002; 18:452-464. PubMed doi:10.1093/bioinformatics/18.3.452
    • (2002) Bioinformatics , vol.18 , pp. 452-464
    • Lee, C.1    Grasso, C.2    Sharlow, M.F.3
  • 12
    • 50249100595 scopus 로고    scopus 로고
    • A rapid bootstrap algorithm for the RAxML web servers
    • PubMed doi:10.1080/10635150802429642
    • Stamatakis A, Hoover P, Rougemont J. A rapid bootstrap algorithm for the RAxML web servers. Syst Biol 2008; 57:758-771. PubMed doi:10.1080/10635150802429642
    • (2008) Syst Biol , vol.57 , pp. 758-771
    • Stamatakis, A.1    Hoover, P.2    Rougemont, J.3
  • 14
    • 75549086416 scopus 로고    scopus 로고
    • The Genomes On Line Database (GOLD) in 2009: Status of genomic and metagenomic projects and their associated metadata
    • PubMed doi:10.1093/nar/gkp848
    • Liolios K, Chen IM, 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 doi:10.1093/nar/gkp848
    • (2010) Nucleic Acids Res , vol.38
    • Liolios, K.1    Chen, I.M.2    Mavromatis, K.3    Tavernarakis, N.4    Hugenholtz, P.5    Markowitz, V.M.6    Kyrpides, N.C.7
  • 17
    • 0025300402 scopus 로고
    • Towards a natural system of organisms: Proposal for the do-mains Archaea, Bacteria, and Eucarya
    • PubMed doi:10.1073/pnas.87.12.4576
    • Woese CR, Kandler O, Wheelis ML. Towards a natural system of organisms: proposal for the do-mains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci USA 1990; 87:4576-4579. PubMed doi: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
  • 18
    • 0036867676 scopus 로고    scopus 로고
    • Validation of publication of new names and new combinations previously ef-fectively published outside the IJSEM
    • Validation list 85, PubMed doi:10.1099/ijs.0.02358-0
    • Validation list 85: Validation of publication of new names and new combinations previously ef-fectively published outside the IJSEM. Int J Syst Evol Microbiol 2002; 52:685-690. PubMed doi:10.1099/ijs.0.02358-0
    • (2002) Int J Syst Evol Microbiol , vol.52 , pp. 685-690
  • 19
    • 0002461549 scopus 로고    scopus 로고
    • Phylum BIX. Deferribacteres phy. nov
    • 2nd edn, The Archaea and the Deeply Branching and Phototrophic Bacteria, Edited by D. R. Boone, R. W. Castenholz and G. M. Garrity. New York: Springer
    • Garrity GM, Holt JG. Phylum BIX. Deferribacteres phy. nov. In Bergey's Manual of Systematic Bacte-riology, 2nd edn, vol. 1 (The Archaea and the Deeply Branching and Phototrophic Bacteria), Edited by D. R. Boone, R. W. Castenholz and G. M. Garrity. New York: Springer 2001, pp.465-471.
    • (2001) Bergey's Manual of Systematic Bacte-riology , vol.1 , pp. 465-471
    • Garrity, G.M.1    Holt, J.G.2
  • 20
    • 67649828064 scopus 로고    scopus 로고
    • De-scription of 'Synergistetes' phyl. nov. and emended description of the phylum 'Deferribac-teres' and of the family Syntrophomonadaceae, phylum 'Firmicutes'
    • PubMed doi:10.1099/ijs.0.006718-0
    • Jumas-Bilak E, Roudière L, Marchandin H. De-scription of 'Synergistetes' phyl. nov. and emended description of the phylum 'Deferribac-teres' and of the family Syntrophomonadaceae, phylum 'Firmicutes'. Int J Syst Evol Microbiol 2009; 59:1028-1035. PubMed doi:10.1099/ijs.0.006718-0
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 1028-1035
    • Jumas-Bilak, E.1    Roudière, L.2    Marchandin, H.3
  • 21
    • 0002461548 scopus 로고    scopus 로고
    • Class I. Deferribacteres class. nov
    • 2nd edn, The Archaea and the Deeply Branching and Phototrophic Bacteria, Edited by D. R. Boone, R. W. Castenholz and G. M. Garrity. New York: Springer
    • Huber H, Stetter KO. Class I. Deferribacteres class. nov. In Bergey's Manual of Systematic Bac-teriology, 2nd edn, vol. 1 (The Archaea and the Deeply Branching and Phototrophic Bacteria), Edited by D. R. Boone, R. W. Castenholz and G. M. Garrity. New York: Springer 2001, pp. 465-471.
    • (2001) Bergey's Manual of Systematic Bac-teriology , vol.1 , pp. 465-471
    • Huber, H.1    Stetter, K.O.2
  • 22
    • 0002461548 scopus 로고    scopus 로고
    • Order I. Deferribacterales ord. nov
    • 2nd edn, The Archaea and the Deeply Branching and Phototrophic Bacteria, Edited by D. R. Boone, R. W. Castenholz and G. M. Garrity. New York: Springer
    • Huber H, Stetter KO. Order I. Deferribacterales ord. nov. In Bergey's Manual of Systematic Bacte-riology, 2nd edn, vol.1 (The Archaea and the Deeply Branching and Phototrophic Bacteria) Edited by D. R. Boone, R. W. Castenholz and G. M. Garrity. New York: Springer 2001:pp.465-471.
    • (2001) Bergey's Manual of Systematic Bacte-riology , vol.1 , pp. 465-471
    • Huber, H.1    Stetter, K.O.2
  • 23
    • 0002461548 scopus 로고    scopus 로고
    • Family I. Deferribacteraceae fam. nov
    • 2nd edn, vol. 1, Edited by D. R. Boone and R. W. Castenholz. New York: Springer
    • Huber H, Stetter KO. Family I. Deferribacteraceae fam. nov. In Bergey's Manual of Systematic Bacte-riology, 2nd edn, vol. 1, Edited by D. R. Boone and R. W. Castenholz. New York: Springer 2002:pp. 465-466.
    • (2002) Bergey's Manual of Systematic Bacte-riology , pp. 465-466
    • Huber, H.1    Stetter, K.O.2
  • 26
    • 77952889628 scopus 로고    scopus 로고
    • En route to a genome-based classification of Archaea and Bacteria?
    • PubMed doi:10.1016/j.syapm.2010.03.003
    • Klenk HP, Göker M. En route to a genome-based classification of Archaea and Bacteria? Syst Appl Microbiol 2010; 33:175-182. PubMed doi:10.1016/j.syapm.2010.03.003
    • (2010) Syst Appl Microbiol , vol.33 , pp. 175-182
    • Klenk, H.P.1    Göker, M.2
  • 28
    • 84860339127 scopus 로고    scopus 로고
    • List of growth media used at DSMZ
    • List of growth media used at DSMZ: http://www.dsmz.de/microorganisms/media_list.php.
  • 30
    • 84860339126 scopus 로고    scopus 로고
    • DOE Joint Genome Institute
    • DOE Joint Genome Institute. http://www.jgi.doe.gov
  • 31
  • 32
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
    • PubMed doi:10.1101/gr.074492.107
    • Zerbino DR, Birney E. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 2008; 18:821-829. PubMed doi:10.1101/gr.074492.107
    • (2008) Genome Res , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 33
    • 80053349651 scopus 로고    scopus 로고
    • in Proceeding of the 2006 international conference on bioinfor-matics & computational biology. Edited by Hamid R. Arabnia & Homayoun Valafar, CSREA Press. June 26-29, 2006
    • Han C, Chain P. 2006. Finishing repeat regions automatically with Dupfinisher. in Proceeding of the 2006 international conference on bioinfor-matics & computational biology. Edited by Hamid R. Arabnia & Homayoun Valafar, CSREA Press. June 26-29, 2006: 141-146.
    • (2006) Finishing Repeat Regions Automatically With Dupfinisher , pp. 141-146
    • Han, C.1    Chain, P.2
  • 35
    • 77952299957 scopus 로고    scopus 로고
    • Prodigal: Prokaryotic gene recognition and translation initiation site identifi-cation
    • PubMed doi:10.1186/1471-2105-11-119
    • Hyatt D, Chen GL, Locascio PF, Land ML, Lari-mer FW, Hauser LJ. Prodigal: prokaryotic gene recognition and translation initiation site identifi-cation. BMC Bioinformatics 2010; 11:119. PubMed doi:10.1186/1471-2105-11-119
    • (2010) BMC Bioinformatics , vol.11 , pp. 119
    • Hyatt, D.1    Chen, G.L.2    Locascio, P.F.3    Land, M.L.4    Lari-Mer, F.W.5    Hauser, L.J.6
  • 37
    • 69949116874 scopus 로고    scopus 로고
    • IMG ER: A system for microbial ge-nome annotation expert review and curation
    • PubMed doi:10.1093/bioinformatics/btp393
    • Markowitz VM, Ivanova NN, Chen IMA, Chu K, Kyrpides NC. IMG ER: a system for microbial ge-nome annotation expert review and curation. Bio-informatics 2009; 25:2271-2278. PubMed doi:10.1093/bioinformatics/btp393
    • (2009) Bio-informatics , vol.25 , pp. 2271-2278
    • Markowitz, V.M.1    Ivanova, N.N.2    Chen, I.M.A.3    Chu, K.4    Kyrpides, N.C.5


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