Complete genome sequence of Halomicrobium mukohataei type strain (arg-2T)

被引：18

作者：

Tindall, Brian J. ^{[2
]}

Schneider, Susanne ^{[2
]}

Lapidus, Alla ^{[1
]}

Copeland, Alex ^{[1
]}

Del Rio, Tijana Glavina ^{[1
]}

Nolan, Matt ^{[1
]}

Lucas, Susan ^{[1
]}

Chen, Feng ^{[1
]}

Tice, Hope ^{[1
]}

Cheng, Jan-Fang ^{[1
]}

Saunders, Elizabeth ^{[1
]}

Bruce, David ^{[1
,3
]}

Goodwin, Lynne ^{[1
,3
]}

Pitluck, Sam ^{[1
]}

Mikhailova, Natalia ^{[1
]}

Pati, Amrita ^{[1
]}

Ivanova, Natalia ^{[1
]}

Mavrommatis, Konstantinos ^{[1
]}

Chen, Amy ^{[4
]}

Palaniappan, Krishna ^{[4
]}

Chain, Patrick ^{[1
,5
]}

Land, Miriam ^{[1
,6
]}

Hauser, Loren ^{[1
,6
]}

Chang, Yun-Juan ^{[1
,6
]}

Jeffries, Cynthia D. ^{[1
,6
]}

Brettin, Thomas ^{[1
,3
]}

Han, Cliff ^{[1
,3
]}

Rohde, Manfred ^{[7
]}

Goeker, Markus ^{[2
]}

Bristow, Jim ^{[1
]}

Eisen, Jonathan A. ^{[1
,8
]}

Markowitz, Victor ^{[4
]}

Hugenholtz, Philip ^{[1
]}

Klenk, Hans-Peter ^{[2
]}

Kyrpides, Nikos C. ^{[1
]}

Detter, John C. ^{[1
]}

机构：

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

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

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

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

[5] Lawrence Livermore Natl Lab, Livermore, CA USA

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

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

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

来源：

STANDARDS IN GENOMIC SCIENCES | 2009年 / 1卷 / 03期

关键词：

extreme halophile; mesophile; free-living; motile; non-pathogenic; facultatively anaerobic; rod-shaped; Halobacteriaceae; HALOARCULA; ARCHAEA; SYSTEM; NOV;

D O I：

10.4056/sigs.42644

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Halomicrobium mukohataei (Ihara et al. 1997) Oren et al. 2002 is the type species of the genus Halomicrobium. It is of phylogenetic interest because of its isolated location within the large euryarchaeal family Halobacteriaceae. H. mukohataei is an extreme halophile that grows essentially aerobically, but can also grow anaerobically under a change of morphology and with nitrate as electron acceptor. The strain, whose genome is described in this report, is a free-living, motile, Gram-negative euryarchaeon, originally isolated from Salinas Grandes in Jujuy, Andes highlands, Argentina. Its genome contains three genes for the 16S rRNA that differ from each other by up to 9%. Here we describe the features of this organism, together with the complete genome sequence and annotation. This is the first completed genome sequence from the poorly populated genus Halomicrobium, and the 3,332,349 bp long genome (chromosome and one plasmid) with its 3416 protein-coding and 56 RNA genes is part of the Genomic Encyclopedia of Bacteria and Archaea project.

引用

页码：270 / 277

页数：8

共 24 条

[1] Complete genome sequence of Methanocorpusculum labreanum type strain Z [J].

Anderson, Iain J. ;

Sieprawska-Lupa, Magdalena ;

Goltsman, Eugene ;

Lapidus, Alla ;

Copeland, Alex ;

Del Rio, Tijana Glavina ;

Tice, Hope ;

Dalin, Eileen ;

Barry, Kerrie ;

Pitluck, Sam ;

Hauser, Loren ;

Land, Miriam ;

Lucas, Susan ;

Richardson, Paul ;

Whitman, William B. ;

Kyrpides, Nikos C. .

STANDARDS IN GENOMIC SCIENCES, 2009, 1 (02) :197-203

[2] 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

[3] 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

[4] Intraspecific polymorphism of 16S rRNA genes in two halophilic archaeal genera, Haloarcula and Halomicrobium [J].

Cui, Heng-Lin ;

Zhou, Pei-Jin ;

Oren, Aharon ;

Liu, Shuang-Jiang .

EXTREMOPHILES, 2009, 13 (01) :31-37

[5] 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

[6]

Garrity GM., 2001, The Archaea and the deeply branching and phototrophic Bacteria, V2nd, P211

[7]

Gibbons N.E., 1974, BERGEYS MANUAL DETER, V8th, P269

[8]

Grand WD., 1989, BERGEYS MANUAL SYSTE, V3, P2216

[9]

Grant W.D., 2001, BERGEYS MANUAL SYSTE, V2nd, P294

[10] Haloarcula argentinensis sp nov and Haloarcula mukohataei sp nov, two new extremely halophilic Archaea collected in Argentina [J].

Ihara, K ;

Watanabe, S ;

Tamura, T .

INTERNATIONAL JOURNAL OF SYSTEMATIC BACTERIOLOGY, 1997, 47 (01) :73-77

← 1 2 3 →