Kentaro Shimizu

Research Interests

Molecular basis of biodiversity, evolutionary and ecological genomics, evolution of mating systems, speciation by genome duplication (polyploidization), predicting evolutionary and plastic responses in changing environments

CV

Education and Professional Positions

2016 - present Director of PhD Program in Evolutionary Biology
2015 NISTEP Award (Award for nice step researchers) from the Minister of Education, Culture, Sports, Science and Technology, Japan
2015 - present Guest Professor at the Kihara Institute for Biological Research, Yokohama City University, Japan
2015 Visiting Professor at the Center for Ecological Research, Kyoto University, Japan
2015 - present Swiss representative of the Multinational Arabidopsis Steering Committee
2014 - present Faculty of 1000 (Developmental Biology)
2011 - present Associate Professor, Department of Evolutionary Biology and Environmental Studies, University of Zurich, Switzerland
2006 - 2011 Assistant Professor, Institute of Plant Biology, University of Zurich, Switzerland
2003 - 2006 Research Scholar, Department of Genetics, North Carolina State University, USA
2002 - 2003 Postdoctoral fellow, Kyoto University, Japan
1997 - 2002 Graduate studies (Ph.D.) in Biology, Kyoto University, Japan
1993 - 1997 Undergraduate studies (B.S.) in Biology, Kyoto University, Japan

Selected Publications

  • Hatakeyama M., Aluri S., Balachadran MT., Sivarajan SR., Patrignani A., Grüter S., Poveda L., Shimizu-Inatsugi R., Baeten J., Francoijs K-J., Nataraja KN., Reddy YAN., Phadnis S., Ravikumar RL., Schlapbach R., Sreeman SM., Shimizu KK. (2018). Multiple hybrid de novo genome assembly of finger millet, an orphan allotetraploid crop. DNA Research, 25(1):39-47. DOI: 10.1093/dnares/dsx036. UZH News English, UZH News German.
  • Yamasaki E., Altermatt F., Cavender-Bares J., Schuman MC., Zuppinger-Dingley D., Garonna I., Schneider FD., Guillén-Escribà C., van Moorsel SJ., Hahl T., Schmid B., Schaepman-Strub G., Schaepman ME., Shimizu KK. (2017). Genomics meets remote sensing in global change studies: monitoring and predicting phenology, evolution and biodiversity. Current Opinion in Environmental Sustainability 29, 177-186. DOI: 10.1016/j.cosust.2018.03.005
  • Briskine RV., Paape T., Shimizu-Inatsugi R., Nishiyama T., Akama S., Sese J., Shimizu KK. (2016). Genome assembly and annotation of Arabidopsis halleri, a model for heavy metal hyperaccumulation and evolutionary ecology. Molecular Ecology Notes:Epub ahead of print. DOI: 10.1111/1755-0998.12604
  • Paape T., Hatakeyama M., Shimizu-Inatsugi R., Cereghetti T., Onda Y., Kenta T., Sese J., Shimizu KK. (2016). Conserved but attenuated parental gene expression in allopolyploids: constitutive zinc hyperaccumulation in the allotetraploid Arabidopsis kamchatica. Mol Biol Evol. 2016 Jul 12. pii: msw141. DOI: 10.1093/molbev/msw141
  • Menardo F., Praz CR., Wyder S., Ben-David R., Bourras S., Matsumae H., McNally KE., Parlange F., Riba A., Roffler S., Schaefer LK., Shimizu KK., Valenti L., Zbinden H., Wicker T., Keller B. (2016). Hybridization of powdery mildew strains gives rise to pathogens on novel agricultural crop species. Nature Genetics, 48(2):201-205. DOI: 10.1038/ng.3485
  • Shimizu KK., Tsuchimatsu T. (2015). Evolution of selfing: recurrent patterns in molecular adaptation. Annual Review of Ecology, Evolution and Systematics, 46:593-622. DOI: 10.1146/annurev-ecolsys-112414-054249
  • Kubo K-I., Paape T., Hatakeyama M., Entani T., Takara A., Kajihara K., Shimizu-Inatsugi R., Shimizu KK., Takayama S. (2015). Evolution of non-self recognition through gene duplication and genetic exchange in S-RNase based self-incompatibility. Nature Plants, 1: 14005. Press release English, press release German.
  • Kobayashi MJ., Takeuchi Y., Kenta T., Kume T., Diway B., Shimizu KK. (2013). Mass flowering of the tropical tree Shorea beccariana was preceded by expression changes in flowering and drought-responsive genes. Molecular Ecology, 22(18):4767-4782. DOI: 10.1111/mec.12344. Press release English, press release German, a Perspective Articlecover picture of the issue, Faculty of 1000 Prime recommended by Prof. Christian Koerner, access the recommendation on F1000.
  • Tsuchimatsu T., Suwabe K., Shimizu-Inatsugi R., Isokawa S., Pavilidis P., Städler T., Suzuki G., Takayama S., Watanabe M., Shimizu KK. (2010). Evolution of self-compatibility in Arabidopsis by a mutation in the male specificity gene. Nature, 464, 1342-1346. DOI: 10.1038/nature08927. Press release English, press release German.
  • Aikawa S., Kobayashi MJ., Satake A., Shimizu KK., Kudoh H. (2010). Robust control of the seasonal expression of the Arabidopsis FLC gene in a fluctuating environment. Proceedings of the National Academy of Sciences, USA, 107: 11632-7. DOI: 10.1073/pnas.0914293107. Press release English, press release German.