The Thermococcus kodakaraensis KOD1 genome is 2.09 Million bp long and contains approximately 2357 predicted genes. T. kodakaraensis (also spelled kodakarensis) is a hyperthermophile that grows at 60-100C (optimally at 85C) and in a pH range of 5-9 (optimally at 6.5). It was isolated from a solfatara on the shore of Kodakara Island, Japan. It can use elemental sulfur in respiration, or grow by fermentation on starch, maltose, or pyruvate.

The sequence was released May 2004 by the Kyoto University, Japan, and was described in Genome Res 15:352-63 (2005) Fukui T, Atomi H, Kanai T, Matsumi R, Fujiwara S, et al.  "Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes. "
Abstract: The genus Thermococcus, comprised of sulfur-reducing hyperthermophilic archaea, belongs to the order Thermococcales in Euryarchaeota along with the closely related genus Pyrococcus. The members of Thermococcus are ubiquitously present in natural high-temperature environments, and are therefore considered to play a major role in the ecology and metabolic activity of microbial consortia within hot-water ecosystems. To obtain insight into this important genus, we have determined and annotated the complete 2,088,737-base genome of Thermococcus kodakaraensis strain KOD1, followed by a comparison with the three complete genomes of Pyrococcus spp. A total of 2306 coding DNA sequences (CDSs) have been identified, among which half (1165 CDSs) are annotatable, whereas the functions of 41% (936 CDSs)... [Click above reference link for full abstract]

Sample position queries

A genome position can be specified by chromosomal coordinate range, COG ID, or keywords from the GenBank or TIGR description of a gene. The available chromosome/plasmid names are:

Browser Chrom/Plasmid NameLength (bp)GC Content (%)Gene CountNCBI RefSeq Accession
chr208873752.002357NC_006624

The following list shows examples of valid position queries for this genome: 

Request:Genome Browser Response:
chrDisplays the entire sequence "chr" in the browser window
chr:1-10000    Displays first ten thousand bases of the sequence "chr"
transporter    Lists all genes with "transporter" in the name or description
TK0008Display genome at position of gene TK0008


Credits

The Archaeal Genome Browsers at UCSC were developed by members of the Lowe Lab (Kevin Schneider, Katherine Pollard, Andy Pohl, Todd Lowe) and Robert Baertsch, with significant support from the UCSC Human Genome Browser group. The Archaeal Browsers are run by a slightly modified version of the UCSC Human Genome Browser system. All queries, bug reports, content corrections, suggested improvements, and new track data submissions should be sent to Todd Lowe (lowe @soe.ucsc.edu).

If you use the browser in your published research, please cite our publication in the Nucleic Acids Research Database Issue. Citations and positive feedback will help us obtain funding to continue development of this community resource.