Complete genome sequence of Marivirga tractuosa type strain (H-43T)

Pagani, Ioanna; Chertkov, Olga; Lapidus, Alla; Lucas, Susan; Del Rio, Tijana Glavina; Tice, Hope; Copeland, Alex; Cheng, Jan-Fang; Nolan, Matt; Saunders, Elizabeth; Pitluck, Sam; Held, Brittany; Goodwin, Lynne; Liolios, Konstantinos; Ovchinikova, Galina; Ivanova, Natalia; Mavromatis, Konstantinos; Pati, Amrita; Chen, Amy; Palaniappan, Krishna; Land, Miriam; Hauser, Loren; Jeffries, Cynthia D.; Detter, John C.; Han, Cliff; Tapia, Roxanne; Ngatchou-Djao, Olivier D.; Rohde, Manfred; Göker, Markus; Spring, Stefan; Sikorski, Johannes; Woyke, Tanja; Bristow, Jim; Eisen, Jonathan A.; Markowitz, Victor; Hugenholtz, Philip; Klenk, Hans-Peter; Kyrpides, Nikos C.

doi:10.4056/sigs.1623941

Title: Complete genome sequence of Marivirga tractuosa type strain (H-43^T)

Journal Article · Fri Apr 29 00:00:00 EDT 2011 · Standards in Genomic Sciences

DOI:https://doi.org/10.4056/sigs.1623941· OSTI ID:1630566

Pagani, Ioanna ^[1]; Chertkov, Olga ^[2]; Lapidus, Alla ^[1]; Lucas, Susan ^[1]; Del Rio, Tijana Glavina ^[1]; Tice, Hope ^[1]; Copeland, Alex ^[1]; Cheng, Jan-Fang ^[1]; Nolan, Matt ^[1]; Saunders, Elizabeth ^[2]; Pitluck, Sam ^[1]; Held, Brittany ^[2]; Goodwin, Lynne ^[2]; Liolios, Konstantinos ^[1]; Ovchinikova, Galina ^[1]; Ivanova, Natalia ^[1]; Mavromatis, Konstantinos ^[1]; Pati, Amrita ^[1]; Chen, Amy ^[3]; Palaniappan, Krishna ^[3] more »

USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Helmholtz Centre for Infection Research, Braunschweig (Germany)
German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig (Germany)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Univ. of California, Davis, CA (United States)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Univ. of Queensland, Brisbane, QLD (Australia)

Marivirga tractuosa (Lewin 1969) Nedashkovskaya et al. 2010 is the type species of the genus Marivirga, which belongs to the family Flammeovirgaceae. Members of this genus are of interest because of their gliding motility. The species is of interest because representative strains show resistance to several antibiotics, including gentamicin, kanamycin, neomycin, polymixin and streptomycin. This is the first complete genome sequence of a member of the family Flammeovirgaceae. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 4,511,574 bp long chromosome and the 4,916 bp plasmid with their 3,808 protein-coding and 49 RNA genes are a part of the Genomic Encyclopedia of Bacteria and Archaea project.

View Accepted Manuscript (DOE)

Cite

Export

Save

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER); German Research Foundation (DFG)

Grant/Contract Number:: AC02-05CH11231; AC52-07NA27344; AC02-06NA25396; AC05-00OR22725; INST 599/1-2

OSTI ID:: 1630566

Journal Information:: Standards in Genomic Sciences, Vol. 4, Issue 2; ISSN 1944-3277

Publisher:: BioMed CentralCopyright Statement

Country of Publication:: United States

Language:: English

Citation Metrics:

Cited by: 12 works

Citation information provided by
Web of Science

References (22)

Reclassification of Flexibacter tractuosus (Lewin 1969) Leadbetter 1974 and 'Microscilla sericea' Lewin 1969 in the genus Marivirga gen. nov. as Marivirga tractuosa comb. nov. and Marivirga sericea nom. rev., comb. nov. Nedashkovskaya, O. I.; Vancanneyt, M.; Kim, S. B. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 60, Issue 8 https://doi.org/10.1099/ijs.0.016121-0	journal	September 2009
Isolation, Cultivation and Characterization of Flexibacteria Lewin, R. A.; Lounsbery, D. M. Journal of General Microbiology, Vol. 58, Issue 2 https://doi.org/10.1099/00221287-58-2-145	journal	October 1969
A Classification of Flexibacteria Lewin, R. A. Journal of General Microbiology, Vol. 58, Issue 2 https://doi.org/10.1099/00221287-58-2-189	journal	October 1969
The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata Liolios, K.; Mavromatis, K.; Tavernarakis, N. Nucleic Acids Research, Vol. 36, Issue Database https://doi.org/10.1093/nar/gkm884	journal	December 2007
Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis Castresana, J. Molecular Biology and Evolution, Vol. 17, Issue 4 https://doi.org/10.1093/oxfordjournals.molbev.a026334	journal	April 2000
The DNA Bank Network: The Start from a German Initiative Gemeinholzer, Birgit; Dröge, Gabriele; Zetzsche, Holger Biopreservation and Biobanking, Vol. 9, Issue 1 https://doi.org/10.1089/bio.2010.0029	journal	March 2011
Cesiribacter andamanensis gen. nov., sp. nov., isolated from a soil sample from a mud volcano Srinivas, T. N. R.; Anil Kumar, P.; Madhu, S. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 61, Issue 7 https://doi.org/10.1099/ijs.0.025429-0	journal	July 2010
The minimum information about a genome sequence (MIGS) specification Field, Dawn; Garrity, George; Gray, Tanya Nature Biotechnology, Vol. 26, Issue 5 https://doi.org/10.1038/nbt1360	journal	May 2008
Complete genome sequence of Kytococcus sedentarius type strain (541T) Sims, David; Brettin, Thomas; Detter, John C. Standards in Genomic Sciences, Vol. 1, Issue 1 https://doi.org/10.4056/sigs.761	journal	July 2009
A Rapid Bootstrap Algorithm for the RAxML Web Servers Stamatakis, Alexandros; Hoover, Paul; Rougemont, Jacques Systematic Biology, Vol. 57, Issue 5 https://doi.org/10.1080/10635150802429642	journal	October 2008
An algorithm for suffix stripping Porter, M. F. Program, Vol. 14, Issue 3 https://doi.org/10.1108/eb046814	journal	March 1980
Gene Ontology: tool for the unification of biology Ashburner, Michael; Ball, Catherine A.; Blake, Judith A. Nature Genetics, Vol. 25, Issue 1 https://doi.org/10.1038/75556	journal	May 2000
Phylogenetic structure of the genera Flexibacter, Flexithrix, and Microscilla deduced from 16S rRNA sequence analysis. Nakagawa, Yasuyoshi; Sakane, Takeshi; Suzuki, Makoto The Journal of General and Applied Microbiology, Vol. 48, Issue 3 https://doi.org/10.2323/jgam.48.155	journal	January 2002
Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. Woese, C. R.; Kandler, O.; Wheelis, M. L. Proceedings of the National Academy of Sciences, Vol. 87, Issue 12 https://doi.org/10.1073/pnas.87.12.4576	journal	June 1990
Prodigal: prokaryotic gene recognition and translation initiation site identification Hyatt, Doug; Chen, Gwo-Liang; LoCascio, Philip F. BMC Bioinformatics, Vol. 11, Issue 1 https://doi.org/10.1186/1471-2105-11-119	journal	March 2010
Multiple sequence alignment using partial order graphs Lee, C.; Grasso, C.; Sharlow, M. F. Bioinformatics, Vol. 18, Issue 3 https://doi.org/10.1093/bioinformatics/18.3.452	journal	March 2002
Velvet: Algorithms for de novo short read assembly using de Bruijn graphs Zerbino, D. R.; Birney, E. Genome Research, Vol. 18, Issue 5 https://doi.org/10.1101/gr.074492.107	journal	February 2008
IMG ER: a system for microbial genome annotation expert review and curation Markowitz, Victor M.; Mavromatis, Konstantinos; Ivanova, Natalia N. Bioinformatics, Vol. 25, Issue 17 https://doi.org/10.1093/bioinformatics/btp393	journal	June 2009
En route to a genome-based classification of Archaea and Bacteria? Klenk, H. -P.; Göker, M. Systematic and Applied Microbiology, Vol. 33, Issue 4 https://doi.org/10.1016/j.syapm.2010.03.003	journal	June 2010
A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea Wu, Dongying; Hugenholtz, Philip; Mavromatis, Konstantinos Nature, Vol. 462, Issue 7276 https://doi.org/10.1038/nature08656	journal	December 2009
GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes Pati, Amrita; Ivanova, Natalia N.; Mikhailova, Natalia Nature Methods, Vol. 7, Issue 6 https://doi.org/10.1038/nmeth.1457	journal	May 2010
Metagenome of a Versatile Chemolithoautotroph from Expanding Oceanic Dead Zones Walsh, D. A.; Zaikova, E.; Howes, C. G. Science, Vol. 326, Issue 5952 https://doi.org/10.1126/science.1175309	journal	October 2009

Cited By (6)

Nitrous Oxide Reduction by an Obligate Aerobic Bacterium, Gemmatimonas aurantiaca Strain T-27 Park, Doyoung; Kim, Hayeon; Yoon, Sukhwan Applied and Environmental Microbiology, Vol. 83, Issue 12 https://doi.org/10.1128/aem.00502-17	journal	April 2017
The unusual cellulose utilization system of the aerobic soil bacterium Cytophaga hutchinsonii Zhu, Yongtao; McBride, Mark J. Applied Microbiology and Biotechnology, Vol. 101, Issue 19 https://doi.org/10.1007/s00253-017-8467-2	journal	August 2017
Effects of the biocontrol agent Bacillus amyloliquefaciens SN16-1 on the rhizosphere bacterial community and growth of tomato Wan, Tingting; Zhao, Huihui; Wang, Wei Journal of Phytopathology, Vol. 166, Issue 5 https://doi.org/10.1111/jph.12690	journal	February 2018
Gliding Motility and Por Secretion System Genes Are Widespread among Members of the Phylum Bacteroidetes McBride, Mark J.; Zhu, Yongtao Journal of Bacteriology, Vol. 195, Issue 2 https://doi.org/10.1128/jb.01962-12	journal	November 2012
Metagenomics reveals niche partitioning within the phototrophic zone of a microbial mat Lee, Jackson Z.; Everroad, R. Craig; Karaoz, Ulas PLOS ONE, Vol. 13, Issue 9 https://doi.org/10.1371/journal.pone.0202792	journal	September 2018
Antigen Discovery for Vaccines Using High-Throughput Proteomic Screening Technologies Davies, D. Huw Vaccinology: Principles and Practice https://doi.org/10.1002/9781118345313.ch10	book	January 2012

Figures / Tables (7)

Similar Records

Complete genome sequence of Marivirga tractuosa type strain (H-43T)

Journal Article · Sat Jan 01 00:00:00 EST 2011 · Standards in Genomic Sciences · OSTI ID:1630566

Pagani, Ioanna; Chertkov, Olga; Lapidus, Alla L; +35 more

Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1A^T)

Journal Article · Fri Jul 01 00:00:00 EDT 2011 · Standards in Genomic Sciences · OSTI ID:1630566

Anderson, Iain; Göker, Markus; Nolan, Matt; +36 more

Complete genome sequence of Ferrimonas balearica type strain (PAT^T)

Journal Article · Sun Oct 31 00:00:00 EDT 2010 · Standards in Genomic Sciences · OSTI ID:1630566

Nolan, Matt; Sikorski, Johannes; Davenport, Karen; +33 more

Related Subjects

59 BASIC BIOLOGICAL SCIENCES
mesophilic
chemoorganotrophic
strictly aerobic
Gram-negative
slender and flexible rod-shaped
non-sporeforming
motile by gliding
Flammeovirgaceae
GEBA

Title: Complete genome sequence of Marivirga tractuosa type strain (H-43T)

Citation Formats