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Title: Complete genome sequence of Desulfomicrobium baculatum type strain (XT)

Abstract

Desulfomicrobium baculatum is the type species of the genus Desulfomicrobium, which is the type genus of the family Desulfomicrobiaceae. It is of phylogenetic interest because of the isolated location of the family Desulfomicrobiaceae within the order Desulfovibrionales. D. baculatum strain XT is a Gram-negative, motile, sulfate-reducing bacterium isolated from wa-ter-saturated manganese carbonate ore. It is strictly anaerobic and does not require NaCl for growth, although NaCl concentrations up to 6% (w/v) are tolerated. The metabolism is respi-ratory or fermentative. In the presence of sulfate, pyruvate and lactate are incompletely oxi-dized to acetate and CO2. Here we describe the features of this organism, together with the complete genome sequence and annotation. This is the first completed genome sequence of a member of the deltaproteobacterial family Desulfomicrobiaceae, and this 3,942,657 bp long single replicon genome with its 3494 protein-coding and 72 RNA genes is part of the Genomic Encyclopedia of Bacteria and Archaea project.

Authors:
 [1];  [2];  [2];  [2];  [1];  [1];  [1];  [1];  [1];  [1];  [1];  [3];  [1];  [1];  [1];  [1];  [1];  [1];  [1];  [4] more »;  [4];  [4];  [5];  [3];  [3];  [3];  [1];  [3];  [6];  [1];  [1];  [1];  [1];  [1];  [2] « less
  1. U.S. Department of Energy, Joint Genome Institute
  2. DSMZ - German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig, Germany
  3. Los Alamos National Laboratory (LANL)
  4. ORNL
  5. Oak Ridge National Laboratory (ORNL)
  6. Lawrence Livermore National Laboratory (LLNL)
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
972737
DOE Contract Number:
DE-AC05-00OR22725
Resource Type:
Journal Article
Resource Relation:
Journal Name: Standards in Genomic Sciences; Journal Volume: 1; Journal Issue: 1
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 99 GENERAL AND MISCELLANEOUS//MATHEMATICS, COMPUTING, AND INFORMATION SCIENCE; ACETATES; BACTERIA; GENES; LACTATES; MANGANESE CARBONATES; METABOLISM; REMOTE AREAS; REPLICONS; RNA; STRAINS; Sulfate reducer; Gram-negative; free-living; non-pathogenic; freshwater; anaerobe; mesophile; Desulfomicrobiaceae

Citation Formats

Copeland, A, Spring, Stefan, Goker, Markus, Schneider, Susan, Lapidus, Alla L., Glavina Del Rio, Tijana, Tice, Hope, Cheng, Jan-Fang, Chen, Feng, Nolan, Matt, Bruce, David, Goodwin, Lynne A., Pitluck, Sam, Ivanova, N, Mavromatis, K, Ovchinnikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam L, Hauser, Loren John, Chang, Yun-Juan, Jeffries, Cynthia, Meincke, Linda, Sims, David, Brettin, Tom, Detter, J. Chris, Han, Cliff, Chain, Patrick S. G., Bristow, James, Eisen, Jonathan, Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C, and Klenk, Hans-Peter. Complete genome sequence of Desulfomicrobium baculatum type strain (XT). United States: N. p., 2009. Web. doi:10.4056/sigs.13134.
Copeland, A, Spring, Stefan, Goker, Markus, Schneider, Susan, Lapidus, Alla L., Glavina Del Rio, Tijana, Tice, Hope, Cheng, Jan-Fang, Chen, Feng, Nolan, Matt, Bruce, David, Goodwin, Lynne A., Pitluck, Sam, Ivanova, N, Mavromatis, K, Ovchinnikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam L, Hauser, Loren John, Chang, Yun-Juan, Jeffries, Cynthia, Meincke, Linda, Sims, David, Brettin, Tom, Detter, J. Chris, Han, Cliff, Chain, Patrick S. G., Bristow, James, Eisen, Jonathan, Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C, & Klenk, Hans-Peter. Complete genome sequence of Desulfomicrobium baculatum type strain (XT). United States. doi:10.4056/sigs.13134.
Copeland, A, Spring, Stefan, Goker, Markus, Schneider, Susan, Lapidus, Alla L., Glavina Del Rio, Tijana, Tice, Hope, Cheng, Jan-Fang, Chen, Feng, Nolan, Matt, Bruce, David, Goodwin, Lynne A., Pitluck, Sam, Ivanova, N, Mavromatis, K, Ovchinnikova, Galina, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam L, Hauser, Loren John, Chang, Yun-Juan, Jeffries, Cynthia, Meincke, Linda, Sims, David, Brettin, Tom, Detter, J. Chris, Han, Cliff, Chain, Patrick S. G., Bristow, James, Eisen, Jonathan, Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C, and Klenk, Hans-Peter. 2009. "Complete genome sequence of Desulfomicrobium baculatum type strain (XT)". United States. doi:10.4056/sigs.13134.
@article{osti_972737,
title = {Complete genome sequence of Desulfomicrobium baculatum type strain (XT)},
author = {Copeland, A and Spring, Stefan and Goker, Markus and Schneider, Susan and Lapidus, Alla L. and Glavina Del Rio, Tijana and Tice, Hope and Cheng, Jan-Fang and Chen, Feng and Nolan, Matt and Bruce, David and Goodwin, Lynne A. and Pitluck, Sam and Ivanova, N and Mavromatis, K and Ovchinnikova, Galina and Pati, Amrita and Chen, Amy and Palaniappan, Krishna and Land, Miriam L and Hauser, Loren John and Chang, Yun-Juan and Jeffries, Cynthia and Meincke, Linda and Sims, David and Brettin, Tom and Detter, J. Chris and Han, Cliff and Chain, Patrick S. G. and Bristow, James and Eisen, Jonathan and Markowitz, Victor and Hugenholtz, Philip and Kyrpides, Nikos C and Klenk, Hans-Peter},
abstractNote = {Desulfomicrobium baculatum is the type species of the genus Desulfomicrobium, which is the type genus of the family Desulfomicrobiaceae. It is of phylogenetic interest because of the isolated location of the family Desulfomicrobiaceae within the order Desulfovibrionales. D. baculatum strain XT is a Gram-negative, motile, sulfate-reducing bacterium isolated from wa-ter-saturated manganese carbonate ore. It is strictly anaerobic and does not require NaCl for growth, although NaCl concentrations up to 6% (w/v) are tolerated. The metabolism is respi-ratory or fermentative. In the presence of sulfate, pyruvate and lactate are incompletely oxi-dized to acetate and CO2. Here we describe the features of this organism, together with the complete genome sequence and annotation. This is the first completed genome sequence of a member of the deltaproteobacterial family Desulfomicrobiaceae, and this 3,942,657 bp long single replicon genome with its 3494 protein-coding and 72 RNA genes is part of the Genomic Encyclopedia of Bacteria and Archaea project.},
doi = {10.4056/sigs.13134},
journal = {Standards in Genomic Sciences},
number = 1,
volume = 1,
place = {United States},
year = 2009,
month = 1
}
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