Takeshi Itoh
Head of Bioinformatics Research Unit, Division of Genome and Biodiversity Research,
National Institute of Agrobiological Sciences

• The Pennsylvania State University, 2000-2002
• National Institute of Genetics, 1999-2000

• Nara Institute of Science and Technology, Ph.D., 1999
• The University of Tokyo, B.A., 1994

Deluge of genome sequence data is anticipated to accelerate molecular evolutoinary studies. My concern is bioinformatics approach to molecular evolution, where large-scale analyses give us an opportunity to examine intensity of natural selection, genome rerrangement, molecular phylogeny, etc.

1. Ohyanagi H, Tanaka T, Sakai H, Shigemoto Y, Yamaguchi K, Habara T, Fujii Y, Antonio BA, Nagamura Y, Imanishi T, Ikeo K, Itoh T, Gojobori T, Sasaki T "The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information" Nuculeic Acids Res, 34 (Database issue): D741-744 (2006).
   [PubMed] [NAR]
2. Yamasaki C, Koyanagi KO, Fujii Y, Itoh T, Barrero R, Tamura T, Yamaguchi-Kabata Y, Tanino M, Takeda J, Fukuchi S, Miyazaki S, Nomura N, Sugano S, Imanishi T, Gojobori T "Investigation of protein functions through data-mining on integrated human transcriptome database, H-Invitational database (H-InvDB)" Gene, 364: 99-107 (2005).
   [PubMed] [Gene]
3. Fujii Y, Itoh T, Sakate R, Koyanagi KO, Matsuya A, Habara T, Yamaguchi K, Kaneko Y, Gojobori T, and Imanishi T "A web tool for comparative genomics: G-compass" Gene, 364: 45-52 (2005).
   [PubMed] [Gene]
4. International Rice Genome Sequencing Project (Matsumoto T, Itoh T, et at.) "The map-based sequence of the rice genome" Nature, 436 (7052): 793-800 (2005).
   [PubMed] [Nature]
5. Koyanagi KO, Hagiwara M, Itoh T, Gojobori T, Imanishi T "Comparative genomics of bidirectional gene pairs and its implications for the evolution of a transcriptional regulation system" Gene, 353 (2): 169-176 (2005).
   [PubMed] [Gene]

1. Nakamura, Y., Itoh, T., Matsuda, H. and Gojobori, T. "Biased biological functions of horizontally transferred genes in prokaryotic genomes" Nat. Genet., 36: 760-766 (2004).
   [PubMed] [Nat Genet]
2. Imanishi, T., Itoh, T., et al. (158 coauthors) "Integrative annotation of 21,037 human genes validated by full-length cDNA clones" PLoS Biol., 6: 864-875 (2004).
   [PubMed] [PLoS Biol]
3. Itoh, T., Martin, W. and Nei, M. "Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts" Proc. Natl. Acad. Sci. USA, 99: 12944-12948 (2002).
   [PubMed] [PNAS]
4. Itoh, T., Okayama, T., Hashimoto, H., Takeda, J., Davis, R. W., Mori, H. and Gojobori, T. "A low rate of nucleotide changes in Escherichia coli K-12 estimated from a comparison of the genome sequences between two different substrains" FEBS Lett., 450: 72-76 (1999).
   [PubMed] [FEBS]
5. Itoh, T., Takemoto, K., Mori, H. and Gojobori, T. "Evolutionary instability of operon structures disclosed by sequence comparisons of complete microbial genomes" Mol. Biol. Evol., 16: 332-346 (1999).
   [PubMed] [MBE]
6. Watanabe, H., Mori, H., Itoh, T. and Gojobori, T. "Genome plasticity as a paradigm of eubacteria evolution" J. Mol. Evol., 44 (suppl 1): S57-S64 (1997).
   [PubMed] [JME]
7. Itoh, T., Aiba, H., Baba, T., Hayashi, K., Inada, T., Isono, K., Kasai, H., Kimura, S., Kitakawa, M., Kitagawa, M., Makino, K., Miki, T., Mizobuchi, K., Mori, H., Mori, T., Motomura, K., Nakade, S., Nakamura, Y., Nashimoto, H., Nishio, Y., Oshima, T., Saito, N., Sampei, G., Seki, Y., Sivasundaram, S., Tagami, H., Takeda, J., Takemoto, K., Wada, C., Yamamoto, Y. and Horiuchi, T. "A 460-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 40.1-50.0 min region on the linkage map" DNA Res., 3: 379-392 (1996).
   [PubMed] [DNA Res]