Kentaro Miyazaki / Professor /
Department of Computational Biology and Medical Sciences / / Functional Biomolecules Engineering

Career Summary
1989: Graduated from Faculty of Science (Tokyo Institute of Technology)
1994: Received Ph.D. from Tokyo Institute of Technology
1994: Research Associate (National Institute of Advanced Industrial Science And Technology, AIST)
1997-2000: Visiting Associate (California Institute of Technology)
2000-2001: NEDO
2004-present: Group Leader (AIST)
2006-present: Adjunct Professor (University of Tokyo)
Educational Activities
Research Activities
Functional metagenomics (ref. 1-8)
Directed evolution (ref. 12-22)
Ribosome engineering (ref. 9-11)
1) Suenaga H., Koyama Y., Miyakoshi M., Miyazaki R., Yano H., Sota M., Ohtsubo Y., Tsuda M., and Miyazaki K. (2009) Novel organization of aromatic degradation pathway genes in a microbial community as revealed by metagenomic analysis. ISME J 3(12):1335-1348.
2) Suenaga H., Ohnuki T., and Miyazaki K. (2007) Functional screening of a metagenomic library for genes involved in microbial degradation of aromatic compounds. Environ Microbiol 9(9):2289-2297.
3) Uchiyama T., Yaoi K., and Miyazaki K. (2015) Glucose-tolerant -glucosidase retrieved from a Kusaya gravy metagenome. Front Microbiol 6:548. doi: 10.3389/fmicb.2015.00548.
4) Uchiyama T., Miyazaki K., and Yaoi K. (2013) Characterization of a novel -glucosidase from a compost microbial metagenome with strong transglycosylation activity. J Biol Chem 288(25):18325-18334.
5) Verma D., Kawarabayasi Y., Miyazaki K., and Satyanarayana T. (2013) Cloning, expression and characteristics of a novel alkalistable and thermostable xylanase encoding gene (mxyl) retrieved from compost-soil metagenome. PLOS ONE 8(1):e52459.
6) Uchiyama T. and Miyazaki K. (2013) Metagenomic screening for aromatic compound-responsive transcriptional regulators. PLOS ONE 8(9):e75795.
7) Uchiyama T. and Miyazaki K. (2010) Product-induced gene expression, a product-responsive reporter assay used to screen metagenomic libraries for enzyme-encoding genes. Appl Environ Microbiol 76(21):7029-7035.
8) Uchiyama T. and Miyazaki K. (2009) Functional metagenomics for enzyme discovery: challenges to efficient screening. Curr Opin Biotechnol 20(6):616-622.
9) Miyazaki K., Sato M., and Tsukuda M. (2017) PCR primer design for 16S rRNAs for experimental horizontal gene transfer test in Escherichia coli. Front. Bioeng. Biotechnol. 5:14. doi: 10.3389/fbioe.2017.00014
10) Kitahara K. and Miyazaki K. (2013) Revisiting bacterial phylogeny: Natural and experimental evidence for horizontal gene transfer of 16S rRNA. Mob Genet Elements 3(1):e24210.
11) Kitahara K., Yasutake Y., and Miyazaki K. (2012) Mutational robustness of 16S ribosomal RNA, shown by experimental horizontal gene transfer in Escherichia coli. Proc Natl Acad Sci USA 109(47):19220-19225.
12) Arnold F.H., Wintrode P.L., Miyazaki K., and Gershenson A. (2001) How enzymes adapt: lessons from directed evolution. Trends Biochem Sci 26(2)100-106.
13) Wintrode P.L., Miyazaki K., and Arnold F.H. (2000) Cold adaptation of a mesophilic subtilisin-like protease by directed evolution. J Biol Chem 275(41):31635-31640.
14) Miyazaki K., Wintrode P.L., Grayling R.A., Rubingh D.N., and Arnold F.H. (2000) Directed evolution study of temperature adaptation in a psychrophilic enzyme. J Mol Biol 297(4):1015-1026.
15) Miyazaki K. and Arnold F.H. (1999) Exploring nonnatural evolutionary pathways by saturation mutagenesis: rapid improvement of protein function. J Mol Evol 49(6):716-720.
16) Tsukuda M. and Miyazaki K. (2013) Directed evolution study unveiling key sequence factors that affect translation efficiency in Escherichia coli. J Biosci Bioeng 116(5):540-545.
17) Yaoi K., Kondo H., Hiyoshi A., Noro N., Sugimoto H., Tsuda S., Mitsuishi Y., and Miyazaki K. (2007) Structure basis for the exo-mode of action in GH74 oligoxyloglucan reducing end-specific cellobiohydrolase. J Mol Biol 370(1):53-62.
18) Tsukuda M., Nakashima N., and Miyazaki K. (2015) Counterselection method based on conditional silencing of antitoxin genes in Escherichia coli. J Biosci Bioeng 120(5):591-595.
19) Miyazaki K. (2015) Molecular engineering of a PheS counterselection marker for improved operating efficiency in Escherichia coli. Biotechniques 58(2):86-88.
20) Miyazaki K. (2010) Lethal ccdB gene-based zero-background vector for construction of shotgun libraries. J Biosci Bioeng 110(3):372-373.
21) Miyazaki K. and Takenouchi M. (2002) Creating random mutagenesis libraries using megaprimer PCR of whole plasmid. Biotechniques 33(5):1033-1034, 1036-1038.
22) Miyazaki K. (2002) Random DNA fragmentation with endonuclease V: application to DNA shuffling. Nucleic Acids Res 30(24):e139.
Other Activities
Applied and Environmental Microbiology Editorial Board
Japan Society for Bioscience, Biotechnology, and Agrochemistry
The Society for Biotechnology, Japan
Japanese Society for Cell Synthesis Research
Japanese Society for Extremophiles
Future Plan
Messages to Students