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Volumn 5, Issue 1, 2011, Pages 86-96

Genome sequence of the moderately thermophilic halophile Flexistipes sinusarabici strain (MAS10t)

(34)  Lapidus, Alla a   Chertkov, Olga a,b   Nolan, Matt a   Lucas, Susan a   Hammon, Nancy a   Deshpande, Shweta a   Cheng, Jan Fang a   Tapia, Roxanne a,b   Han, Cliff a,b   Goodwin, Lynne a,b   Pitluck, Sam a   Liolios, Konstantinos a   Pagani, Ioanna a   Ivanova, Natalia a   Huntemann, Marcel a   Mavromatis, Konstantinos a   Mikhailova, Natalia a   Pati, Amrita a   Chen, Amy c   Palaniappan, Krishna c   more..


Author keywords

Brine; Deferribacteraceae; Geba; Gram negative; Heterotrophic; Marine; Moderately thermo philic; Non motile; Strictly anaerobic

Indexed keywords

ARCHAEA; BACTERIA (MICROORGANISMS); DEFERRIBACTERACEAE; FLEXISTIPES; FLEXISTIPES SINUSARABICI; NEGIBACTERIA;

EID: 80054865547     PISSN: 19443277     EISSN: None     Source Type: Journal    
DOI: 10.4056/sigs.2235024     Document Type: Article
Times cited : (12)

References (42)
  • 1
    • 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
  • 2
    • 0034220463 scopus 로고    scopus 로고
    • Validation List No. 75, PubMed doi:10.1099/00207713-50-4-1415
    • Validation List No. 75. Int J Syst Evol Microbiol 2000; 50:1415-1417. PubMed doi:10.1099/00207713-50-4-1415
    • (2000) Int J Syst Evol Microbiol , vol.50 , pp. 1415-1417
  • 7
    • 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
  • 8
    • 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) Bioinformat-ics , vol.18 , pp. 452-464
    • Lee, C.1    Grasso, C.2    Sharlow, M.F.3
  • 9
    • 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
  • 10
    • 36849014457 scopus 로고    scopus 로고
    • An empirical test of the midpoint rooting method
    • doi:10.1111/j.1095-8312.2007.00864.x
    • Hess PN, De Moraes Russo CA. An empirical test of the midpoint rooting method. Biol J Linn Soc Lond 2007; 92:669-674. doi:10.1111/j.1095-8312.2007.00864.x
    • (2007) Biol J Linn Soc Lond , vol.92 , pp. 669-674
    • Hess, P.N.1    de Moraes, R.C.A.2
  • 13
    • 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
  • 14
    • 77955955103 scopus 로고    scopus 로고
    • Bacterial lifestyle in a deep-sea hydrothermal vent chimney revealed by the genome sequence of the thermophilic bacte-rium Deferribacter desulfuricans SSM1
    • PubMed doi:10.1093/dnares/dsq005
    • Takaki Y, Shimamura S, Nakagawa S, Fukuhara Y, Horikawa H, Ankai A, Harada T, Hosoyama A, Oguchi A, Fukui S, et al. Bacterial lifestyle in a deep-sea hydrothermal vent chimney revealed by the genome sequence of the thermophilic bacte-rium Deferribacter desulfuricans SSM1. DNA Res 2010; 17:123-137. PubMed doi:10.1093/dnares/dsq005
    • (2010) DNA Res , vol.17 , pp. 123-137
    • Takaki, Y.1    Shimamura, S.2    Nakagawa, S.3    Fukuhara, Y.4    Horikawa, H.5    Ankai, A.6    Harada, T.7    Hosoyama, A.8    Oguchi, A.9    Fukui, S.10
  • 18
    • 77955908592 scopus 로고    scopus 로고
    • NamesforLife. BrowserTool takes ex-pertise out of the database and puts it right in the browser
    • Garrity G. NamesforLife. BrowserTool takes ex-pertise out of the database and puts it right in the browser. Microbiol Today 2010; 37:9.
    • (2010) Microbiol Today , vol.37 , pp. 9
    • Garrity, G.1
  • 19
    • 0025300402 scopus 로고
    • Towards a natural system of organisms: Proposal for the do-mains Archaea, Bacteria, and
    • PubMed doi:10.1073/pnas.87.12.4576 20
    • 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 20.
    • (1990) Eucarya. Proc Natl Acad Sci USA , vol.87 , pp. 4576-4579
    • Woese, C.R.1    Kandler, O.2    Wheelis, M.L.3
  • 20
    • 0002461549 scopus 로고    scopus 로고
    • Phylum BIX. Deferribacteres phy. nov
    • In: Garrity GM, Boone DR, Castenholz RW, Second Edition, Volume 1, Springer, New York
    • Garrity GM, Holt JG. Phylum BIX. Deferribacteres phy. nov. In: Garrity GM, Boone DR, Castenholz RW (eds), Bergey's Manual of Systematic Bacteri-ology, Second Edition, Volume 1, Springer, New York, 2001, p. 465.
    • (2001) Bergey's Manual of Systematic Bacteri-ology , pp. 465
    • Garrity, G.M.1    Holt, J.G.2
  • 21
    • 67649828064 scopus 로고    scopus 로고
    • De-scription of 'Synergistetes' phyl. nov. and emended description of the phylum 'Deferribacteres' and of the family Syntrophomo-nadaceae, 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 'Deferribacteres' and of the family Syntrophomo-nadaceae, phylum 'Firmicutes'. Int J Syst Evol Mi-crobiol 2009; 59:1028-1035. PubMed doi:10.1099/ijs.0.006718-0
    • (2009) Int J Syst Evol Mi-crobiol , vol.59 , pp. 1028-1035
    • Jumas-Bilak, E.1    Roudière, L.2    Marchandin, H.3
  • 22
    • 0036560850 scopus 로고    scopus 로고
    • Validation List no. 85. Validation of publication of new names and new combinations previously effectively published outside the IJ-SEM
    • List Editor, PubMed doi:10.1099/ijs.0.02358-0
    • List Editor. Validation List no. 85. Validation of publication of new names and new combinations previously effectively published outside the IJ-SEM. 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
  • 23
    • 0002461548 scopus 로고    scopus 로고
    • Class I. Deferribacteres class. nov
    • In: Garrity GM, Boone DR, Castenholz RW, Second Edition, Volume 1, Springer, New York
    • Huber H, Stetter KO. Class I. Deferribacteres class. nov. In: Garrity GM, Boone DR, Castenholz RW (eds), Bergey's Manual of Systematic Bacteri-ology, Second Edition, Volume 1, Springer, New York, 2001, p. 465.
    • (2001) Bergey's Manual of Systematic Bacteri-ology , pp. 465
    • Huber, H.1    Stetter, K.O.2
  • 24
    • 0002461548 scopus 로고    scopus 로고
    • Deferribacterales ord. nov
    • Garrity GM, Boone DR, Castenholz RW (eds, Second Edition, Springer, New York
    • Huber H, Stetter KO. Order I. Deferribacterales ord. nov. In: Garrity GM, Boone DR, Castenholz RW (eds), Bergey's Manual of Systematic Bacteri-ology, Second Edition, Volume 1, Springer, New York, 2001, p. 465.
    • (2001) Bergey's Manual of Systematic Bacteri-ology , vol.1 , pp. 465
    • Huber, H.1    Order, I.2    Stetter, K.O.3
  • 25
    • 0002461548 scopus 로고    scopus 로고
    • Family I. Deferribacteraceae fam. nov
    • Garrity GM, Boone DR, Castenholz RW (eds, Second Edition, Springer, New York
    • Huber H, Stetter KO. Family I. Deferribacteraceae fam. nov. In: Garrity GM, Boone DR, Castenholz RW (eds), Bergey's Manual of Systematic Bacteri-ology, Second Edition, Volume 1, Springer, New York, 2001, p. 465-466.
    • (2001) Bergey's Manual of Systematic Bacteri-ology , vol.1 , pp. 465-466
    • Huber, H.1    Stetter, K.O.2
  • 26
    • 80054867939 scopus 로고    scopus 로고
    • Classification of bacteria and archaea in risk groups
    • BAuA
    • BAuA. Classification of bacteria and archaea in risk groups. TRBA 2005; 466:190.
    • (2005) TRBA , vol.466 , pp. 190
  • 28
    • 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
  • 30
    • 84861343392 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.
  • 32
    • 84861347204 scopus 로고    scopus 로고
    • The DOE Joint Genome Institute
    • The DOE Joint Genome Institute. http://www.jgi.doe.gov
  • 33
    • 84861341555 scopus 로고    scopus 로고
    • Phrap and Phred for Windows. MacOS, Linux, and Unix
    • Phrap and Phred for Windows. MacOS, Linux, and Unix. http://www.phrap.com
  • 34
    • 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
  • 37
    • 77952299957 scopus 로고    scopus 로고
    • Prodigal: Prokaryotic gene recognition and translation initiation site identification
    • PubMed doi:10.1186/1471-2105-11-119
    • Hyatt D, Chen GL, LoCascio PF, Land ML, Larimer FW, Hauser LJ. Prodigal: prokaryotic gene recognition and translation initiation site identification. 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    Larimer, F.W.5    Hauser, L.J.6
  • 39
    • 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
  • 40
    • 77952891913 scopus 로고    scopus 로고
    • Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome se-quence comparison
    • PubMed doi:10.4056/sigs.531120
    • Auch AF, von Jan M, Klenk HP, Göker M. Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome se-quence comparison. Stand Genomic Sci 2010; 2:117-134. PubMed doi:10.4056/sigs.531120
    • (2010) Stand Genomic Sci , vol.2 , pp. 117-134
    • Auch, A.F.1    von Jan, M.2    Klenk, H.P.3    Göker, M.4
  • 41
    • 77952891045 scopus 로고    scopus 로고
    • Standard operating procedure for calculating genome-to-genome dis-tances based on high-scoring segment pairs
    • PubMed doi:10.4056/sigs.541628
    • Auch AF, Klenk HP, Göker M. Standard operating procedure for calculating genome-to-genome dis-tances based on high-scoring segment pairs. Stand Genomic Sci 2010; 2:142-148. PubMed doi:10.4056/sigs.541628
    • (2010) Stand Genomic Sci , vol.2 , pp. 142-148
    • Auch, A.F.1    Klenk, H.P.2    Göker, M.3
  • 42
    • 0028339637 scopus 로고
    • Characterization of a Pseudomonas aeruginosa gene cluster involved in pilus biosyn-thesis and twitching motility: Sequence similarity to the chemotaxis proteins of enterics and the gliding bacterium
    • PubMed doi:10.1111/j.1365-2958.1994.tb00296.x
    • Darzins A. Characterization of a Pseudomonas aeruginosa gene cluster involved in pilus biosyn-thesis and twitching motility: sequence similarity to the chemotaxis proteins of enterics and the gliding bacterium Myxococcus xanthus. Mol Mi-crobiol 1994; 11:137-153. PubMed doi:10.1111/j.1365-2958.1994.tb00296.x
    • (1994) Myxococcus Xanthus. Mol Mi-crobiol , vol.11 , pp. 137-153
    • Darzins, A.1


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