Genome sequence of Victivallis vadensis ATCC BAA-548, an anaerobic bacterium from the phylum Lentisphaerae, isolated from the human gastrointestinal tract

Journal of Bacteriology

Volumn 193, Issue 9, 2011, Pages 2373-2374

  van Passel, Mark W J ^a   Kant, Ravi ^b   Palva, Airi ^b   Lucas, Susan ^c,d   Copeland, Alex ^c,e   Lapidus, Alla ^c,e,i   del Rio, Tijana Glavina ^c,e   Dalin, Eileen ^c,e,j   Tice, Hope ^c,e   Bruce, David ^f   Goodwin, Lynne ^f   Pitluck, Sam ^c,e   Davenport, Karen Walston ^f   Sims, David ^g   Brettin, Thomas S ^h   Detter, John C ^f   Han, Shunsheng ^f   Larimer, Frank W ^h   Land, Miriam L ^h   Hauser, Loren ^h   Kyrpides, Nikolaos ^c,e   Ovchinnikova, Galina ^c,e   Richardson, P Paul ^c,e   de Vos, Willem M ^a,b   Smidt, Hauke ^a   Zoetendal, Erwin G ^a   more..

^a WAGENINGEN UNIVERSITY   (Netherlands)

^b UNIVERSITY OF HELSINKI   (Finland)

^c DOE JOINT GENOME INSTITUTE   (United States)

^d LAWRENCE LIVERMORE NATIONAL LABORATORY   (United States)

^e LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^f LOS ALAMOS NATIONAL LABORATORY   (United States)

^g HUDSONALPHA INSTITUTE FOR BIOTECHNOLOGY   (United States)

^h OAK RIDGE NATIONAL LABORATORY   (United States)

ⁱ FOX CHASE CANCER CENTER   (United States)

^j Synthetic Genomics Inc   (United States)

more..

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL GENOME; BACTERIUM CULTURE; BACTERIUM ISOLATE; BACTERIUM ISOLATION; GASTROINTESTINAL TRACT; GENE SEQUENCE; GRAM NEGATIVE ANAEROBIC BACTERIA; NONHUMAN; NOTE; PRIORITY JOURNAL; VICTIVALLIS VADENSIS;

BACTERIA, ANAEROBIC; BASE SEQUENCE; DNA, BACTERIAL; GASTROINTESTINAL TRACT; GENOME, BACTERIAL; HUMANS; MOLECULAR SEQUENCE DATA;

BACTERIA (MICROORGANISMS); LENTISPHAERAE; VICTIVALLIS VADENSIS ATCC BAA-548;

EID: 79955525748     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.00271-11     Document Type: Note

References (13)

1. Bendtsen, J. D., H. Nielsen, G. von Heijne, and S. Brunak. 2004. Improved prediction of signal peptides: SignalP 3.0. J. Mol. Biol. 340:783-795.
2. Cho, J. C., K. L. Vergin, R. M. Morris, and S. J. Giovannoni. 2004. Lentisphaera araneosa gen. nov., sp. nov, a transparent exopolymer producing marine bacterium, and the description of a novel bacterial phylum, Lentisphaerae. Environ. Microbiol. 6:611-621.
3. Griffiths-Jones, S., A. Bateman, M. Marshall, A. Khanna, and S. R. Eddy. 2003. Rfam: an RNA family database. Nucleic Acids Res. 31:439-441.
4. Hyatt, D., et al. 2010. Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinform. 11:119.
5. Krogh, A., B. Larsson, G. von Heijne, and E. L. Sonnhammer. 2001. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305:567-580.
6. Lagesen, K., et al. 2007. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res. 35:3100-3108.
7. Lowe, T. M., and S. R. Eddy. 1997. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25:955-964.
8. Pati, A., et al. 2010. GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes. Nat. Methods 7:455-457.
9. Qin, J., et al. 2010. A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464:59-65.
10. Thrash, J. C., J. C. Cho, K. L. Vergin, R. M. Morris, and S. J. Giovannoni. 2010. Genome sequence of Lentisphaera araneosa HTCC2155T, the type species of the order Lentisphaerales in the phylum Lentisphaerae. J. Bacteriol. 192:2938-2939.
11. van Passel, M. W. J., et al. 2011. The genome of Akkermansia muciniphila, a dedicated intestinal mucin degrader, and its use in exploring intestinal metagenomes. PLoS One 6:316876.
12. Zoetendal, E. G., C. M. Plugge, A. D. Akkermans, and W. M. de Vos. 2003. Victivallis vadensis gen. nov., sp. nov., a sugar-fermenting anaerobe from human faeces. Int. J. Syst. Evol. Microbiol. 53:211-215.
13. Zoetendal, E. G., M. Rajilic-Stojanovic, and W. M. de Vos. 2008. Highthroughput diversity and functionality analysis of the gastrointestinal tract microbiota. Gut 57:1605-1615.