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Construction of a Contiguous 874-kb Sequence of the Escherichia coli-K12 Genome Corresponding to 50.0-68.8 min on the Linkage Map and Analysis of Its Sequence Features |
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| Authors: | Yamamoto Yoshihiro; Aiba Hiroji; Baba Tomoya; Hayashi Kouji; Inada Toshifumi; Isono Katumi; Itoh Takeshi; Kimura Sigenobu; Kitagawa Masanari; Makino Kozo; Miki Takeyoshi; Mitsuhashi Nobutaka; Mizobuchi Kiyoshi; Mori Hirotada; Nakade Shinsuke; Nakamura Yoshikazu; Nashimoto Hiroko; Oshima Taku; Oyama Satoshi; Saito Noriko; Sampei Gen-ichi; Satoh Yu-ji; Sivasundaram Suharnan; Tagami Hideaki; Takahashi Hideyuki; Takeda Jun-ichi; Takemoto Keiko; Uehara Kazuyuki; Wada Chieko; Yamagata Sayaka; Horiuchi Takashi |
| Institution: | 1Department of Genetics, Hyogo College of Medicine 1-1 Mukogawa-cho, Nishinomiya 663, Japan 2Department of Molecular Biology, School of Science, Nagoya University Furo-cho, Chikusa-ku, Nagoya 464-01, Japan 3Department of Biology, Faculty of Science, Kobe University 1-1 Rokkodai-cho, Nada-ku, Kobe 657, Japan 4National Institute for Basic Biology 38 Nishigonaka, Myodaiji-cho, Okazaki 444, Japan 5Research and Education Center for Genetic Information, Nara Institute of Science and Technology 8916-5 Takayama-cho, Ikoma 630-01, Japan 6Research Institute for Microbial Diseases, Osaka University 3-1 Yamadagaoka, Suita 565, Japan 7Faculty of Pharmaceutical Sciences, Kyushu University 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-82, Japan 8Human Genome Center, Tokyo University 9Department of Applied Physics and Chemistry, University of Electro-Communications 1-5-1 Chofugaoka, Chofu 182, Japan 10Institute of Medical Science, The University of Tokyo 4-6-1 Shiroganedai, Minatoku, Tokyo 108 Japan 11Department of BioSciences, Teikyo University 1-1 Toyosatodai, Utsunomiya 320, Japan 12Institute for Virus Research, Kyoto University Kawahara-cho, Shogoin, Sakyo-ku, Kyoto 606-01, Japan |
| Abstract: | The contiguous 874.423 base pair sequence corresponding to the50.0–68.8 min region on the genetic map of the Escherichiacoli K-12 (W3110) was constructed by the determination of DNAsequences in the 50.0–57.9 min region (360 kb) and twolarge (100 kb in all) and five short gaps in the 57.9–68.8min region whose sequences had been registered in the DNA databases.We analyzed its sequence features and found that this regioncontained at least 894 potential open reading frames (ORFs),of which 346 (38.7%) were previously reported, 158 (17.7%) werehomologous to other known genes, 232 (26.0%) were identicalor similar to hypothetical genes registered in databases, andthe remaining 158 (17.7%) showed no significant similarity toany other genes. A homology search of the ORFs also identifiedseveral new gene clusters. Those include two clusters of fimbrialgenes, a gene cluster of three genes encoding homologues ofthe human long chain fatty acid degradation enzyme complex inthe mitochondrial membrane, a cluster of at least nine genesinvolved in the utilization of ethanolamine, a cluster of thesecondary set of 11 hyc genes participating in the formate hydrogenlyasereaction and a cluster of five genes coding for the homologuesof degradation enzymes for aromatic hydrocarbons in Pseudomonasputida. We also noted a variety of novel genes, including twoORFs, which were homologous to the putative genes encoding xanthinedehydrogenase in the fly and a protein responsible for axonalguidance and outgrowth of the rat, mouse and nematode. An isoleucinetRNA gene, designated ileY , was also newly identified at 60.0min. |
| Keywords: | Escherichia coli K12 genome sequence position of 50 0– 68 8 min ORF analysis |
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