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

Yoshihiro Yamamoto, Hiroji Aiba, Tomoya Baba, Kouji Hayashi, Toshifumi Inada, Katumi Isono, Takeshi Itoh, Sigenobu Kimura, Masanari Kitagawa, Kozo Makino, Takeyoshi Miki, Nobutaka Mitsuhashi, Kiyoshi Mizobuchi, Hirotada Mori, Shinsuke Nakade, Yoshikazu Nakamura, Hiroko Nashimoto, Taku Oshima, Satoshi Oyama, Noriko SaitoGen Ichi Sampei, Yu Ji Satoh, Suharnan Sivasundaram, Hideaki Tagami, Hideyuki Takahashi, Jun Ichi Takeda, Keiko Takemoto, Kazuyuki Uehara, Chieko Wada, Sayaka Yamagata, Takashi Horiuchi

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39 Citations (Scopus)


The contiguous 874.423 base pair sequence corresponding to the 50.0-68.8 min region on the genetic map of the Escherichia coli K-12 (W3110) was constructed by the determination of DNA sequences in the 50.0-57.9 min region (360 kb) and two large (100 kb in all) and five short gaps in the 57.9-68.8 min region whose sequences had been registered in the DNA databases. We analyzed its sequence features and found that this region contained at least 894 potential open reading frames (ORFs), of which 346 (38.7%) were previously reported, 158 (17.7%) were homologous to other known genes, 232 (26.0%) were identical or similar to hypothetical genes registered in databases, and the remaining 158 (17.7%) showed no significant similarity to any other genes. A homology search of the ORFs also identified several new gene clusters. Those include two clusters of fimbrial genes, a gene cluster of three genes encoding homologues of the human long chain fatty acid degradation enzyme complex in the mitochondrial membrane, a cluster of at least nine genes involved in the utilization of ethanolamine, a cluster of the secondary set of 11 hyc genes participating in the formate hydrogenlyase reaction and a cluster of five genes coding for the homologues of degradation enzymes for aromatic hydrocarbons in Pseudomonas putida. We also noted a variety of novel genes, including two ORFs, which were homologous to the putative genes encoding xanthine dehydrogenase in the fly and a protein responsible for axonal guidance and outgrowth of the rat, mouse and nematode. An isoleucine tRNA gene, designated ileY, was also newly identified at 60.0 min.

Original languageEnglish
Pages (from-to)91-113
Number of pages23
JournalDNA Research
Issue number2
Publication statusPublished - 1997
Externally publishedYes


  • Escherichia coli K12
  • Genome sequence
  • ORF analysis
  • Position of 50.0-68.8 min

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics


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