PhD position in modeling the mechanical regulation of plant development and regeneration (1.0 FTE

Vacancy number: 16814

Job type: PhD positions

Contract hours min: 38

Contract hours max: 38

Location: Leiden

Applying is possible up to and including: 15 september 2026

The Faculty of Science, the Mathematical Institute and the Institute of Biology are looking for a PhD Student in Theoretical or Mathematical Biology

The opening is for a research position within the field of mathematical or theoretical biology, computational physics, applied mathematics or computational science. This PhD project is part of the Gravitation programme GreenTE (Green Tissue Engineering), a multidisciplinary consortium of 7 Dutch universities. Together, GreenTE will unravel how plants sense and respond to mechanical stimuli. These fundamental insights will be the basis to develop engineering interventions to improve plant regeneration, seed longevity and defenses against disease.

Your task will be to further develop two-dimensional and three-dimensional models of plant development, incorporating mechanical feedback loops to regulate cellular decision making and polarization. The goal will be to unravel how plant shape and size is regulated by feedback loops between the tissue and organ levels and cellular and molecular levels. The project will further develop a two-dimensional open source package for modeling plant tissues, called Virtual Leaf, which coupled a Hamiltonian description of cell wall strains and stresses and turgor pressures with sets of ordinary differential equations describing the biochemical networks regulating cellular decision making.

Models will be initiated with simulated data and 2D and 3D imaging data of plant tissues (the thale cress Arabidopsis and the aquatic fern Ceratopteris). At a later stage, the models can be extended to three dimensions using software developed concurrently by a postdoc in our team.

The successful applicant will be an integral member of the GreenTE community, which offers an open, diverse and inspiring environment to engage in multidisciplinary mechanobiology research at the intersection of biology, chemistry and physics, and is expected to participate in GreenTE events, training and collaborations.

• Develop and interpret novel two-dimensional multiscale mathematical models of mechanical regulation of plant development and regeneration in close collaboration with members of the GreenTE consortium, in particular the group of experimental plant biologist Prof.dr. Dolf Weijers at Wageningen University.
• Further develop the plant modeling package Virtual Leaf to reflect mechanical manipulation as performed in the experimental lab (https://(Use the "Apply for this Job" box below).).
• Incorporate detailed insights into the model of the mechanical properties of cell walls based on experiments and small-scale simulations developed elsewhere in the GreenTE consortium.
• Correct and improve your mathematical models in close collaboration with experimental biologists, particularly PhD students at Wageningen University who will perform mechanical interventions (e.g., stretching, squeezing or poking) of embryo development and root regeneration of the model plant Arabidopsis thaliana.
• At a later stage: extend the models to three dimensions based on Virtual Leaf3D currently under development by a postdoctoral researcher in our team
• Publication of the results in the scientific literature and writing a PhD thesis.
• Co-teaching of relevant courses and student supervision.

The Faculty of Science is a world-class faculty where staff and students work together in a dynamic international environment. It is a faculty where personal and academic development are top priorities. Our people are committed to expand fundamental knowledge by curiosity and to look beyond the borders of their own discipline; their aim is to benefit science, and to make a contribution to addressing the major societal challenges of the future.

The research carried out at the Faculty of Science is very diverse, ranging from mathematics, information science, astronomy, physics, chemistry and bio-pharmaceutical sciences to biology and environmental…