Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262T)
Abstract
Fluviicola taffensis O'Sullivan et al. 2005 belongs to the monotypic genus Fluviicola within the family Cryomorphaceae. The species is of interest because of its isolated phylogenetic location in the genome-sequenced fraction of the tree of life. Strain RW262(T) forms a monophyletic lineage with uncultivated bacteria represented in freshwater 16S rRNA gene libraries. A similar phylogenetic differentiation occurs between freshwater and marine bacteria in the family Flavobacteriaceae, a sister family to Cryomorphaceae. Most remarkable is the inability of this freshwater bacterium to grow in the presence of Na(+) ions. All other genera in the family Cryomorphaceae are from marine habitats and have an absolute requirement for Na(+) ions or natural sea water. F. taffensis is the first member of the family Cryomorphaceae with a completely sequenced and publicly available genome. The 4,633,577 bp long genome with its 4,082 protein-coding and 49 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project.
- Authors:
-
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- 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)
- German Collection of Microorganisms and Cell Cultures, Braunschweig (Germany)
- Helmholtz Centre for Infection Research, Braunschweig (Germany)
- Jomo Kenyatta Univ. of Agriculture and Technology (Kenya)
- USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States);Jomo Kenyatta Univ. of Agriculture and Technology (Kenya)
- Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
- USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Univ. of Queensland, Brisbane, QLD (Australia)
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER); German Research Foundation (DFG)
- OSTI Identifier:
- 1630578
- Grant/Contract Number:
- AC02-05CH11231; AC52-07NA27344; AC02-06NA25396; AC05-00OR22725; INST 599/1-2
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Standards in Genomic Sciences
- Additional Journal Information:
- Journal Volume: 5; Journal Issue: 1; Journal ID: ISSN 1944-3277
- Publisher:
- BioMed Central
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; strictly aerobic; motile by gliding; Gram-negative; flexirubin-synthesizing; mesophilic; chemoorganotrophic Cryomorphaceae; GEBA
Citation Formats
Woyke, Tanja, Chertkov, Olga, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Del Rio, Tijana Glavina, Tice, Hope, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Huntemann, Marcel, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Brambilla, Evelyne-Marie, Rohde, Manfred, Mwirichia, Romano, Sikorski, Johannes, Tindall, Brian J., Göker, Markus, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Klenk, Hans-Peter, and Kyrpides, Nikos C. Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262T). United States: N. p., 2011.
Web. doi:10.4056/sigs.2124912.
Woyke, Tanja, Chertkov, Olga, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Del Rio, Tijana Glavina, Tice, Hope, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Huntemann, Marcel, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Brambilla, Evelyne-Marie, Rohde, Manfred, Mwirichia, Romano, Sikorski, Johannes, Tindall, Brian J., Göker, Markus, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Klenk, Hans-Peter, & Kyrpides, Nikos C. Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262T). United States. https://doi.org/10.4056/sigs.2124912
Woyke, Tanja, Chertkov, Olga, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Del Rio, Tijana Glavina, Tice, Hope, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Huntemann, Marcel, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Brambilla, Evelyne-Marie, Rohde, Manfred, Mwirichia, Romano, Sikorski, Johannes, Tindall, Brian J., Göker, Markus, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Klenk, Hans-Peter, and Kyrpides, Nikos C. Sat .
"Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262T)". United States. https://doi.org/10.4056/sigs.2124912. https://www.osti.gov/servlets/purl/1630578.
@article{osti_1630578,
title = {Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262T)},
author = {Woyke, Tanja and Chertkov, Olga and Lapidus, Alla and Nolan, Matt and Lucas, Susan and Del Rio, Tijana Glavina and Tice, Hope and Cheng, Jan-Fang and Tapia, Roxanne and Han, Cliff and Goodwin, Lynne and Pitluck, Sam and Liolios, Konstantinos and Pagani, Ioanna and Ivanova, Natalia and Huntemann, Marcel and Mavromatis, Konstantinos and Mikhailova, Natalia and Pati, Amrita and Chen, Amy and Palaniappan, Krishna and Land, Miriam and Hauser, Loren and Brambilla, Evelyne-Marie and Rohde, Manfred and Mwirichia, Romano and Sikorski, Johannes and Tindall, Brian J. and Göker, Markus and Bristow, James and Eisen, Jonathan A. and Markowitz, Victor and Hugenholtz, Philip and Klenk, Hans-Peter and Kyrpides, Nikos C.},
abstractNote = {Fluviicola taffensis O'Sullivan et al. 2005 belongs to the monotypic genus Fluviicola within the family Cryomorphaceae. The species is of interest because of its isolated phylogenetic location in the genome-sequenced fraction of the tree of life. Strain RW262(T) forms a monophyletic lineage with uncultivated bacteria represented in freshwater 16S rRNA gene libraries. A similar phylogenetic differentiation occurs between freshwater and marine bacteria in the family Flavobacteriaceae, a sister family to Cryomorphaceae. Most remarkable is the inability of this freshwater bacterium to grow in the presence of Na(+) ions. All other genera in the family Cryomorphaceae are from marine habitats and have an absolute requirement for Na(+) ions or natural sea water. F. taffensis is the first member of the family Cryomorphaceae with a completely sequenced and publicly available genome. The 4,633,577 bp long genome with its 4,082 protein-coding and 49 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project.},
doi = {10.4056/sigs.2124912},
journal = {Standards in Genomic Sciences},
number = 1,
volume = 5,
place = {United States},
year = {Sat Oct 15 00:00:00 EDT 2011},
month = {Sat Oct 15 00:00:00 EDT 2011}
}
Web of Science
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