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DNA Research 1996 3(6):363-377; doi:10.1093/dnares/3.6.363
© 1996 by Kazusa DNA Research Institute
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A 570-kb DNA Sequence of the Escherichia coli K-12 Genome Corresponding to the 28.0–40.1 min Region on the Linkage Map

Hiroji Aiba1, Tomoya Baba2, Kouji Hayashi3, Toshifumi Inada1, Katumi Isono2, Takeshi Itoh4, Hiroaki Kasai2, Kaoru Kashimoto5, Shigenobu Kimura6, Madoka Kitakawa2, Masanari Kitagawa4, Kozo Makino6, Takeyoshi Miki5, Kiyoshi Mizobuchi7, Hirotada Mori4, Tomoko Mori3, Kouji Motomura7, Shinsuke Nakade4, Yoshikazu Nakamura8, Hiroko Nashimoto9, Yoshitaka Nishio7, Taku Oshima8, Noriko Saito9, Gen-ichi Sampei7, Yasushi Seki7, Suharnan Sivasundaram4, Hideaki Tagami4, Jun-ichi Takeda4, Keiko Takemoto10, Yasushi Takeuchi3, Chieko Wada10, Yoshihiro Yamamoto11 and Takashi Horiuchi3,*

1Department of Molecular Biology, School of Science, Nagoya University Furo-cho, Chikusaku, Nagoya 464-01, Japan
2Department of Biology, Faculty of Science, Kobe University 1-1 Rokkodai-cho, Nadaku, Kobe 657, Japan
3National Institute for Basic Biology 38 Nishigonaka, Myodaiji-cho, Okazaki 444, Japan
4Research and Education Center for Genetic Information, Nara Institute of Science and Technology 8916-5 Takayama-cho, Ikoma 630-01, Japan
5Faculty of Pharmaceutical Sciences, Kyushu University 3-1-1 Maedashi, Higashiku, Fukuoka 812-82, Japan
6Research Institute for Microbial Diseases, Osaka University 3-1 Yamadagaoka, Suita 565, Japan
7Department of Applied Physics and Chemistry, University of Electro-Communications 1-5-1 Chofugaoka, Chofu 182, Japan
8Institute of Medical Science, University of Tokyo 4-6-1 Shiroganedai, Minatoku, Tokyo 108, Japan
9Department of BioSciences, Teikyo University 1-1 Toyosatodai, Utsunomiya 320, Japan
10Institute for Virus Research, Kyoto University Kawahara-cho, Shogoin, Sakyoku, Kyoto 606-01, Japan
11Department of Genetics, Hyogo College of Medicine 1-1 Mukogawa-cho, Nishinomiya 663, Japan

* To whom correspondence should be addressed. Tel. and Fax. +81-564-55-7690, E-mail; kishori{at}nibb.ac.jp

The 569,750 base pair sequence corresponding to the 28.0–40.1 min region on the genetic map of Escherichia coli K-12 (W3110) was determined. This region includes the replication terminus region and contained at least 549 potential open reading frames. Among them, 160 (29%) were previously reported, 174 (32%) were homologous to other known genes, 102 (18%) were identical or similar to hypothetical genes registered in databases, and the remaining 113 (21%) did not show a significant similarity to any other gene. Of interest was the finding of a large number of genes and gene clusters in andnear the replication termination region which had been thought to be genetically silent. Those includeda cluster of genes for fatty acid ß-oxidation, the third copy of the pot (spermidine/putrescine transport system) gene cluster, the second dpp (dipeptide transport system) operon, the second dsm (anaerobic dimethyl sulfoxide reductase) operon, a cluster of fim (fimbrial) genes anda DNA helicase-like gene with a high molecular weight. In addition, we found the dnaC- and dnaT-like genes in the cryptic prophage, Rac, anda number of genes originated probably from plasmids.

Key words: Escherichia coli K12; genome sequence; ORF analysis; replication termination region


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