- HAL publications
MOSAIC Research team
MOrphogenesis Simulation and Analysis In siliCo
- Leader : Christophe Godin
- Type : team
- Research center(s) : Grenoble
- Field : Digital Health, Biology and Earth
- Theme : Computational Biology
- Inria teams are typically groups of researchers working on the definition of a common project, and objectives, with the goal to arrive at the creation of a project-team. Such project-teams may include other partners (universities or research institutions)
Plants are branching living organisms that develop throughout their lifetimes. Organs are created by small embryogenetic regions at the tip of each axis, called apical meristems. In the project Virtual Plants, we are interested in studying plant apical meristem functioning and development. We believe that a detailed analysis at different temporal and spatial scales of apical meristem processes, based on advanced mathematical and computational methods and tools, will lead us to get a deeper and better understanding of plant development. In particular, we intend to exploit the new data that come from developmental biology and genetics to build up new models of plant development that integrate genetic and hormonal mechanisms.
This study is performed from two complementary perspectives:
- Axis 1: Analysis of structures produced by meristems. At a macroscopic level, we develop an extensive methodology to analyze the structures produced by meristems. This can be seen as a methodology that aims to solve an inverse problem in which one tries to infer meristem functioning from the complex structures they produce. This analysis is carried out at different spatial and temporal scales. Here, we develop methods in domains such as stochastic modeling (Markovian models, renewal processes), fractal analysis, graph theory (multiscale graphs, tree comparison).
- Axis 2: Meristem functioning aand development. At a more microscopic level, we intend to exploit the recent spectacular scientific and technological progresses in developmental biology in order to understand how physiological and genetic processes control meristem growth at cell and tissue scale. For this we build detailed 3D models of meristem using 3D geometrical modeling, partial differential equations, dynamic systems with dynamic structures, mechanical models of tissues, transport models at cellular scale, gene networks
All these tools are integrated in a common software platform V-Plants that is available to all the partners of Virtual Plants. At a national and international level, we coordinate the development of an open software platform OpenAlea for plant modelling (based on V-Plants).
International and industrial relations
- LABRI (U. Bordeaux), IBISC(U. Evry), UMR PIAF (INRA), UMR DAP (INRA, ENSAM), UMR LEPSE (INRA), UMR DIAPC (IRD), PHIV (CIRAD), LIRMM (Montpellier), ENS-Lyon, INRIA (project-teams Asclepios, Evasion).
- ACI Project Arborescences (LABRI Bordeaux, U. Claude-Bernard Lyon, UMR DAP, U. Joseph-Fourier Grenoble)
- ANR project NatSim (IRIT Toulouse, INRIA-Futur, INRIA Rhône-Alpes)
- ANR project CarpVirtuel (ENS-Lyon)
- ATP project Meristème (CIRAD, INRA, INRIA-Sophia Antipolis-Méditerranée)
- U. Calgary (Canada), U. Queensland (Bresban, Australy), Norwich Center (UK) HortResearch (New Zealand), U. Kasetsart (Bangkok, Thailand), U. Bel Abes (Algeria).
- Marie-Curie Research Training Network SY-STEM: modelling of the apical meristem development in Arabidopsis.
- ANR-BCSRC Flower Models: modelling flower development and its control by genes.
Research teams of the same theme :
- ABS - Algorithms, Biology, Structure
- BEAGLE - Artificial Evolution and Computational Biology
- BIGS - Biology, genetics and statistics
- BONSAI - Bioinformatics and Sequence Analysis
- CAPSID - Computational Algorithms for Protein Structures and Interactions
- DYLISS - Dynamics, Logics and Inference for biological Systems and Sequences
- ERABLE - European Research team in Algorithms and Biology, formaL and Experimental
- GENSCALE - Scalable, Optimized and Parallel Algorithms for Genomics
- IBIS - Modeling, simulation, measurement, and control of bacterial regulatory networks
- LIFEWARE - Computational systems biology and optimization
- MORPHEME - Morphologie et Images
- PLEIADE - from patterns to models in computational biodiversity and biotechnology
- SERPICO - Space-timE RePresentation, Imaging and cellular dynamics of molecular COmplexes
- TAPDANCE - Theory and Practice of Nanoscale Computing Engines