Complete genome sequence of Paludibacter propionicigenes type strain (WB4T)

被引：27

作者：

Gronow, Sabine ^{[1
]}

Munk, Christine ^{[2
,3
]}

Lapidus, Alla ^{[2
]}

Nolan, Matt ^{[2
]}

Lucas, Susan ^{[2
]}

Hammon, Nancy ^{[2
]}

Deshpande, Shweta ^{[2
]}

Cheng, Jan-Fang ^{[2
]}

Tapia, Roxane ^{[2
,3
]}

Han, Cliff ^{[2
,3
]}

Goodwin, Lynne ^{[2
,3
]}

Pitluck, Sam ^{[2
]}

Liolios, Konstantinos ^{[2
]}

Ivanova, Natalia ^{[2
]}

Mavromatis, Konstantinos ^{[2
]}

Mikhailova, Natalia ^{[2
]}

Pati, Amrita ^{[2
]}

Chen, Amy ^{[4
]}

Palaniappan, Krishna ^{[4
]}

Land, Miriam ^{[2
,5
]}

Hauser, Loren ^{[2
,5
]}

Chang, Yun-Juan ^{[2
,5
]}

Jeffries, Cynthia D. ^{[2
,5
]}

Brambilla, Evelyne ^{[1
]}

Rohde, Manfred ^{[6
]}

Goeker, Markus ^{[1
]}

Detter, John C. ^{[2
,3
]}

Woyke, Tanja ^{[2
]}

Bristow, James ^{[2
]}

Eisen, Jonathan A. ^{[2
,7
]}

Markowitz, Victor ^{[4
]}

Hugenholtz, Philip ^{[2
,8
]}

Kyrpides, Nikos C. ^{[2
]}

Klenk, Hans-Peter ^{[1
]}

机构：

[1] DSMZ German Collect Microorganisms & Cell Culture, Braunschweig, Germany

[2] US DOE, Joint Genome Inst, Walnut Creek, CA USA

[3] Los Alamos Natl Lab, Biosci Div, Los Alamos, NM USA

[4] Univ Calif Berkeley, Lawrence Berkeley Lab, Biol Data Management & Technol Ctr, Berkeley, CA 94720 USA

[5] Oak Ridge Natl Lab, Oak Ridge, TN USA

[6] HZI Helmholtz Ctr Infect Res, Braunschweig, Germany

[7] Univ Calif Davis, Genome Ctr, Davis, CA 95616 USA

[8] Univ Queensland, Sch Chem & Mol Biosci, Australian Ctr Ecogenom, Brisbane, Qld, Australia

来源：

STANDARDS IN GENOMIC SCIENCES | 2011年 / 4卷 / 01期

关键词：

strictly anaerobic; nonmotile; Gram-negative; anoxic rice-field soil; mesophilic; chemoorganotrophic; Porphyromonadaceae; GEBA; PLANT RESIDUE; FIELD SOIL; BACTERIA; ARCHAEA; PHYLOGENY; ALGORITHM; DATABASE; SYSTEM; GRAPHS;

D O I：

10.4056/sigs.1503846

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Paludibacter propionicigenes Ueki et al. 2006 is the type species of the genus Paludibacter, which belongs to the family Porphyromonadaceae. The species is of interest because of the position it occupies in the tree of life where it can be found in close proximity to members of the genus Dysgonomonas. This is the first completed genome sequence of a member of the genus Paludibacter and the third sequence from the family Porphyromonadaceae. The 3,685,504 bp long genome with its 3,054 protein-coding and 64 RNA genes consists of one circular chromosome and is a part of the Genomic Encyclopedia of Bacteria and Archaea project.

引用

页码：36 / 44

页数：9

共 28 条

[1]

Akasaka H, 2003, FEMS MICROBIOL ECOL, V43, P149, DOI 10.1111/j.1574-6941.2003.tb01054.x

[2]

[Anonymous], PHRAP PHRED WINDOWS

[3]

[Anonymous], P 2006 INT C BIOINF

[4]

[Anonymous], 2008, POLISHER EFFECTIVE T

[5]

[Anonymous], MICROBIOL TODAY

[6] Gene Ontology: tool for the unification of biology [J].

Ashburner, M ;

Ball, CA ;

Blake, JA ;

Botstein, D ;

Butler, H ;

Cherry, JM ;

Davis, AP ;

Dolinski, K ;

Dwight, SS ;

Eppig, JT ;

Harris, MA ;

Hill, DP ;

Issel-Tarver, L ;

Kasarskis, A ;

Lewis, S ;

Matese, JC ;

Richardson, JE ;

Ringwald, M ;

Rubin, GM ;

Sherlock, G .

NATURE GENETICS, 2000, 25 (01) :25-29

[7]

*BAUA, 2005, TRBA, V466, P84

[8] Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis [J].

Castresana, J .

MOLECULAR BIOLOGY AND EVOLUTION, 2000, 17 (04) :540-552

[9] Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB [J].

DeSantis, T. Z. ;

Hugenholtz, P. ;

Larsen, N. ;

Rojas, M. ;

Brodie, E. L. ;

Keller, K. ;

Huber, T. ;

Dalevi, D. ;

Hu, P. ;

Andersen, G. L. .

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2006, 72 (07) :5069-5072

[10] The minimum information about a genome sequence (MIGS) specification [J].

Field, Dawn ;

Garrity, George ;

Gray, Tanya ;

Morrison, Norman ;

Selengut, Jeremy ;

Sterk, Peter ;

Tatusova, Tatiana ;

Thomson, Nicholas ;

Allen, Michael J. ;

Angiuoli, Samuel V. ;

Ashburner, Michael ;

Axelrod, Nelson ;

Baldauf, Sandra ;

Ballard, Stuart ;

Boore, Jeffrey ;

Cochrane, Guy ;

Cole, James ;

Dawyndt, Peter ;

De Vos, Paul ;

dePamphilis, Claude ;

Edwards, Robert ;

Faruque, Nadeem ;

Feldman, Robert ;

Gilbert, Jack ;

Gilna, Paul ;

Gloeckner, Frank Oliver ;

Goldstein, Philip ;

Guralnick, Robert ;

Haft, Dan ;

Hancock, David ;

Hermjakob, Henning ;

Hertz-Fowler, Christiane ;

Hugenholtz, Phil ;

Joint, Ian ;

Kagan, Leonid ;

Kane, Matthew ;

Kennedy, Jessie ;

Kowalchuk, George ;

Kottmann, Renzo ;

Kolker, Eugene ;

Kravitz, Saul ;

Kyrpides, Nikos ;

Leebens-Mack, Jim ;

Lewis, Suzanna E. ;

Li, Kelvin ;

Lister, Allyson L. ;

Lord, Phillip ;

Maltsev, Natalia ;

Markowitz, Victor ;

Martiny, Jennifer .

NATURE BIOTECHNOLOGY, 2008, 26 (05) :541-547

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