How genomic changes promote adaptation and speciation in Arabidopsis relatives and in tropical trees

Evolutionary Functional Genomics / Systems Biology

Darwin proposed the first conclusive theory to explain biodiversity with two principles: adaptation by natural selection, and speciation. However, little is known about the genes responsible for biodiversity, due to the split between laboratory molecular biologists and field evolutionists. The key to synthesize biology is genomics: specifically, evolutionary genomics.

We are taking interdisciplinary approaches to study the molecular basis of biodiversity, and helps start the University Research Priority Program of Systems Biology / Functional Genomics. 

One of the advantages of using plants is the feasibility of ecological studies since they are immobile. The plants we study include a model species Arabidopsis thaliana, an allopolyploid Arabidopsis kamchatica in East Asia, a species-rich genus Cardamine, and Dipterocarpaceae in Malaysia tropical forests.

Research topics

  • Evolution of reproductive systems

  • Self-compatibility

  • Genome duplication (speciation)

  • Arabidopsis relatives

  • Tropical trees (Dipterocarpaceae)

Interdisciplinary

  • Evolutionary and ecological functional genomics (EEFG)

  • Statistical genetics

  • Ecology

  • Molecular developmental genetics

  • Systems biology

Contact Person

Prof. Dr. Kentaro Shimizu

University of Zurich
Institute of Evolutionary Biology and Environmental Studies
Website
kentaro.shimizu-at-ieu.uzh.ch
+41 (0)44 634 82 47

eligible for PLANT FELLOWS

Recent publications

  • Title: In Situ Enzyme Activity in the Dissolved and Particulate Fraction of the Fluid from Four Pitcher Plant Species of the Genus Nepenthes
    Author(s): Takeuchi, Yayoi; Salcher, Michaela M.; Ushio, Masayuki; et al.
    Source: PLOS ONE, 6 (9): SEP 16 2011
    Document type: Article (Details)
  • Plant sexual reproduction during climate change: gene function in natura studied by ecological and evolutionary systems biology
    Shimizu, Kentaro K.; Kudoh, Hiroshi; Kobayashi, Masaki J.
    ANNALS OF BOTANY, 108 (4): 777-787 SEP 2011 (Details)
  • Genome structure analysis of molluscs revealed whole genome duplication and lineage specific repeat variation
    Yoshida, Masa-aki; Ishikura, Yukiko; Moritaki, Takeya; et al.
    GENE, 483 (1-2): 63-71 SEP 1 2011 (Details)
  • Coexistence of Trichome Variation in a Natural Plant Population: A Combined Study Using Ecological and Candidate Gene Approaches
    Kawagoe, T; Shimizu, KK; Kakutani, T; et al.
    PLOS ONE 6 (7): e22184 JUL 19 2011 (Details)
  • Using knockout mutants to reveal the growth costs of defensive traits
    Zuest, Tobias; Joseph, Bindu; Shimizu, Kentaro K.; et al.
    PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 278 (1718): 2598-2603 SEP 7 2011 (Details)