Department of Environmental Life Sciences
Division of Genetic Ecology

Microbial Genetics and Genomics 分野

Masataka Tsuda
キャンパス Katahira キャンパス
専攻分野 Molecular genetics and genomics of environmental microbes
連絡先 022-217-5699

My basic research field has been the molecular genetics and molecular biology of environmental microbes. From the beginning of this century, these microbes and their communities have also been investigated from the standpoints of genome science and molecular ecology.


Educational Career
Received B.S. from Faculty of Science, The University of Tokyo
Received Ph.D. from Graduate School of Science, The University of Tokyo

Professional Career
Postdoctoral fellow: Max Planck Institute for Molecular Genetics (Berlin, Germany)
Assistant professor: Department of Biology, Faculty of Science, The University of Tokyo (Tokyo, Japan)
Lecturer: Department of Microbiology, Yamaguchi University School of Medicine (Ube, Japan)
Associate professor: Department of Biology, Faculty of Science, Okayama University (Okayama, Japan)
Professor: Institute of Genetic Ecology, Tohoku University (Sendai, Japan)
Professor: Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University (Sendai, Japan) (from 2001)


Identification of Burkholderia multivorans ATCC 17616 genetic determinants for fitness in soil by using signature-tagged mutagenesis. Microbiology 160: 883-891 (2014)

Design and experimental application of a novel non-degenerate universal primer set that amplifies prokaryotic 16S rRNA genes with a low possibility to amplify eukaryotic rRNA genes. DNA Research 21: 217-227 (2014)

Mobile catabolic genetic elements in pseudomonads. In: Nojiri, H., M. Tsuda, M. Fukuda, and Y. Kamagata (eds), Biodegradative Bacteria: How Bacteria Degrade, Survive, Adapt, and Evolve. Springer, Tokyo, pp. 83-103 (2014)

ParI, an orphan ParA family protein from Pseudomonas putida KT2440-specific genomic island, interferes with the partition system of IncP-7 plasmids. Environmental Microbiology 14: 2946-2959 (2012)

Suppression of pleiotrophic phenotypes of Burkholderia multivorans fur mutant by oxyR mutation. Microbiology 158: 1284-1293 (2012)

Identification of Burkholderia multivorans ATCC 17616 genes induced in soil environment by in vivo expression technology. Environmental Microbiology 12: 2539-2558 (2010)

Novel organization of aromatic degradation pathway genes in a microbial community as revealed by metagenomic analysis. ISME Journal 3: 1335-1348 (2009)

Revised nomenclature for transposable genetic elements. Plasmid 60: 167-173 (2008)

Complete sequence determination combined with analysis of transposition/site-specific recombination events to explain genetic organization of IncP-7 TOL plasmid pWW53 and related mobile genetic elements. Journal of Molecular Biology 369: 11-26 (2007)

Isolation and characterization of naphthalene-catabolic genes and plasmids from oil-contaminated soil by using two cultivation-independent approaches. Applied Microbiology and Biotechnology 74: 501-510 (2007)

Genomic and functional analysis of the IncP-9 naphthalene-catabolic plasmid NAH7 and its transposon Tn4655 suggests catabolic gene spread by a tyrosine recombinase. Journal of Bacteriology 188: 4057-4067 (2006)

Identification of a response regulator gene for catabolite control from a PCB-degrading β-proteobacteria, Acidovorax sp. KKS102. Molecular Microbiology 60: 1563-1575 (2006)

所属学会 Japan Society for Bioscience, Biotechnology and Agrochemistry; Japanese Society for Bacteriology; Society of Genome Microbiology, Japan; Japanese Society of Microbial Ecology; American Society for Microbiology; International Society for Plasmid Biology; International Society for Microbial Ecology

Dynamic System Life Science (graduate students of the Graduate School of Life Science)
Gene Information Dynamics (students of the Graduate School of Life Science)
Joint Lecture on Dynamics (students of the Graduate School of Life Science)
Life Science B (all students)


The following research projects are now in progress using the methods of microbial genetics, molecular biology, genome biology, and molecular ecology:
  1. Comprehensive analysis of the structural dynamics and evolution of microbial genes involved in the degradation of recalcitrant aromatic compounds.
  2. Analysis of genome-level responses of environmental microbial strains against changes in their growth conditions.
  3. Integrative genomic and metagenomic analysis of soil microbial communities.


The microbes that could be accessed in the last century were those able to easily be cultivated by conventional methods. It is now well recognized that the proportion of such microbes in natural environments is less than 1%. Furthermore, the lifestyles and behaviors of such microbial strains in the natural environment are considerably different from those under laboratory conditions. These observations mean that we understand only a very tiny fraction of microbial lifestyles and roles in the natural environment. I hope to clarify these unresolved points in collaboration with various scientists from different research fields.