Article thumbnail

Complete genome sequence of the acetate-degrading sulfate reducer Desulfobacca acetoxidans type strain (ASRB2T)

By Markus Göker, Hazuki Teshima, Alla Lapidus, Matt Nolan, Susan Lucas, Nancy Hammon, Shweta Deshpande, Jan-Fang Cheng, Roxanne Tapia, Cliff Han, Lynne Goodwin, Sam Pitluck, Marcel Huntemann, Konstantinos Liolios, Natalia Ivanova, Ioanna Pagani, Konstantinos Mavromatis, Galina Ovchinikova, Amrita Pati, Amy Chen, Krishna Palaniappan, Miriam Land, Loren Hauser, Evelyne-Marie Brambilla, Manfred Rohde, Stefan Spring, John C. Detter, Tanja Woyke, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides and Hans-Peter Klenk


Desulfobacca acetoxidans Elferink et al. 1999 is the type species of the genus Desulfobacca, which belongs to the family Syntrophaceae in the class Deltaproteobacteria. The species was first observed in a study on the competition of sulfate-reducers and acetoclastic methanogens for acetate in sludge. D. acetoxidans is considered to be the most abundant acetate-degrading sulfate reducer in sludge. It is of interest due to its isolated phylogenetic location in the 16S rRNA-based tree of life. This is the second completed genome sequence of a member of the family Syntrophaceae to be published and only the third genome sequence from a member of the order Syntrophobacterales. The 3,282,536 bp long genome with its 2,969 protein-coding and 54 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project

Topics: Short Genome Reports
Publisher: Michigan State University
OAI identifier:
Provided by: PubMed Central

To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.

Suggested articles


  1. (2009). A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. Nature
  2. (2008). A rapid bootstrap algorithm for the RAxML web servers. Syst Biol
  3. (1980). An algorithm for suffix stripping. Program: electronic library and information systems
  4. (1990). Bascic local alignment search tool.
  5. (2010). BrowserTool takes expertise out of the database and puts it right in the browser. Microbiol Today
  6. Classification of bacteria and archaea in risk groups.
  7. (2007). De Moraes Russo CA. An empirical test of the midpoint rooting method.
  8. (1999). Desulfobacca acetoxidans gen. nov., sp. nov., a novel acetate-degrading sulfate reducer isolated from sulfidogenic granular sludge.
  9. (2010). En route to a genome-based classification of Archaea and Bacteria? Syst Appl Microbiol
  10. (2006). Finishing repeat regions automatically with Dupfinisher. In:
  11. (2000). Gene Ontology: tool for the unification of biology.
  12. (2010). GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes. Nat Methods
  13. (2006). Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol
  14. (2009). How many bootstrap replicates are necessary? Lect Notes Comput Sci
  15. (2009). IMG ER: a system for microbial genome annotation expert review and curation. Bioinformatics
  16. List of growth media used at DSMZ: hp.
  17. (2006). List of new names and new combinations previously effectively, but not validly, published.
  18. (2002). Multiple sequence alignment using partial order graphs. Bioinformatics
  19. (2002). Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4.0 b10. Sinauer Associates,
  20. (2008). POLISHER: An effective tool for using ultra short reads in microbial genome assembly and finishing. AGBT,
  21. (2010). Prodigal: prokaryotic gene recognition and translation initiation site identification.
  22. (2000). Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis.
  23. (2011). The DNA Bank Network: the start from a German initiative. Biopreservation and Biobanking
  24. (2007). The genome of Syntrophus aciditrophicus: Life at the thermodynamic limit of microbial growth. Proc Natl Acad Sci USA
  25. The Genomes On Line Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res 2010; 38:D346-D354.
  26. (2008). The minimum information about a genome sequence (MIGS) specification. Nat Biotechnol
  27. (2001). The Road Map to the Manual. In:
  28. (1990). Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
  29. (2005). Validation of publication of new names and new combinations previously effectively published outside the IJSEM. List no.
  30. (2008). Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res