© 1998 by Kazusa DNA Research Institute
Complete Sequence and Gene Organization of the Genome of a Hyper-thermophilic Archaebacterium, Pyrococcus horikoshii OT3
1National Institute of Technology and Evaluation 2-49-10 Nishihara, Shibuya, Tokyo 151-0066, Japan
2National Institute of Bioscience and Human-Technology 1-1 Higashi, Tsukuba, Ibaraki 305-0046, Japan
3Center of Marine Biotechnology, Columbus Center, University of Maryland, Biotechnology Institute Baltimore, MD, USA
4Japan Marine Science and Technology Center 2-15 Natsushima-cho, Yokosuka, Kanagawa 237-0061, Japan
5University of Tokyo Meguro, Tokyo 153-0041, Japan
6California Institute of Technology Pasadena, CA, USA
* To whom correspondence should be addressed. Tel. +81-3-3481-8951, Fax. +81-3-3481-8424, E-mail: kyutaka{at}kazusa.or.jp
The complete sequence of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3, has been determined by assembling the sequences of the physical map-based contigs of fosmid clones and of long polymerase chain reaction (PCR) products which were used for gap-filling. The entire length of the genome was 1,738,505 bp. The authenticity of the entire genome sequence was supported by restriction analysis of long PCR products, which were directly amplified from the genomic DNA. As the potential protein-coding regions, a total of 2061 open reading frames (ORFs) were assigned, and by similarity search against public databases, 406 (19.7%) were related to genes with putative function and 453 (22.0%) to the sequences registered but with unknown function. The remaining 1202 ORFs (58.3%) did not show any significant similarity to the sequences in the databases. Sequence comparison among the assigned ORFs in the genome provided evidence that a considerable number of ORFs were generated by sequence duplication. By similarity search, 11 ORFs were assumed to contain the intein elements. The RNA genes identified were a single 16S-23S rRNA operon, two 5S rRNA genes and 46 tRNA genes including two with the intron structure. All the assigned ORFs and RNA coding regions occupied 91.25% of the whole genome. The data presented in this paper are available on the internet at http://www.nite.go.jp.
Key words: hyper-thermophilic archaebacterium; Pyrococcus horikoshii OT3; genome sequencing; fosmid; open reading frames; shotgun sequencing
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