Molecular and Chemical Life Science :
Molecular and Network Genomics


Associate Professor OTSUBO Yoshiyuki
Campus Katahira campus
Laboratory Microbial Genetics and Evolution
Tel +81-22-217-5696
E-mail yohtsubo @ige.tohoku.ac.jp
Website http://www.ige.tohoku.ac.jp/joho/gmProject/gmhomeJP.html

I love outdoor activities: hiking, skiing, fishing, and collecting wild plants for eating TEMPRA.


I received a Ph.D. degree from Graduate School of Agricultural and Life Sciences, The University of Tokyo. After working as a special postdoctoral researcher at RIKEN for two years, I was appointed an assistant professor at Tohoku University.

Selected Publications
  1. Ohtsubo, Y., F. Maruyama, H. Mitsui, Y. Nagata, and M. Tsuda: Complete genome sequence of Acidovorax sp. KKS102, a polychlorinated biphenyl-degrading strain: J. Bacteriol. 194: 6970-6971 (2012)
  2. Ohtsubo, Y., Y. Ishibashi, H. Naganawa, S. Hirokawa, S. Atobe, Y. Nagata, and M. Tsuda: Conjugal transfer of polychlorinated biphenyl/biphenyl degradation genes in Acidovorax sp. KKS102 located on integrative and conjugative element. J, Bacteriol. 184: 4237-4248 (2012)
  3. Ohtsubo, Y., E. Nishiyama, Y. Ishibashi, Y. Nagata, and M. Tsuda: Strategies to reveal genomic function in natural soil systems. In: Nojiri, H., M. Tsuda, M. Fukuda, and Y. Kamagata (eds), Biodegradative Bacteria: How Bacteria Degrade, Survive, Adapt, and Evolve. Springer, Tokyo. pp. 279-291 (2014)
Activities in Academic Societies

Society of Genome Microbiology, Japan; Japan Society for Bioscience, Biotechnology and Agrochemistry

Recent Activities

The genes for PCB degradation are located on a mobile genetic element, and its intercellular transposition was demonstrated first among related elements. I have also been conducting research that aims to understand the catabolite control mechanisms of a soil bacterium that degrades PCBs, which are man-made persistent substances. While conducting such so-called “wet research,” I have been creating and publishing computer software that allows efficient analysis of genomic data. A software program designated “GenomeMatcher” enables comparative genomics as well as information processing for a wide variety of purposes. “AceFileViewer” and “GenoFinisher” support finishing of microbial genomic sequencing, while “ShortReadManager” is useful for processing a huge amount of data generated by next-generation sequencers.