Projects per year
Abstract
A paradigm shift is needed and timely in moving plant modeling from largely isolated efforts to a connected community endeavor that can take full advantage of advances in computer science and in mechanistic understanding of plant processes. Plants in silico (Psi) envisions a digital representation of layered dynamic modules, linking from gene networks and metabolic pathways through to cellular organization, tissue, organ and whole plant development, together with resource capture and use efficiency in dynamic competitive environments. Ultimately allowing a mechanistically-rich simulation of the plant or of a community of plants in silico. The concept is to integrate models or modules from different layers of organization spanning from genome to phenome to ecosystem in a modular framework allowing the use of modules of varying mechanistic detail representing the same biological process. Developments in high-performance computing, functional knowledge of plants, the internet and open-source version controlled software make achieving the concept realistic. Open-source will enhance collaboration and move toward testing and consensus on quantitative theoretical frameworks. Importantly Psi provides a quantitative knowledge framework where the implications of a discovery at one level, e.g. single gene function or development response, can be examined at the whole plant or even crop and natural ecosystem levels.
Original language | English |
---|---|
Pages (from-to) | 1049–1057 |
Journal | Plant, Cell and Environment |
Volume | 39 |
Issue number | 5 |
Early online date | 2 Nov 2015 |
DOIs | |
Publication status | E-pub ahead of print - 2 Nov 2015 |
Keywords / Materials (for Non-textual outputs)
- plant models
- crop models
- ecosystem models
- Earth System models
- system analysis
- virtual organisms
- root architecture
- photosynthesis
- stomata
- plant molecular biology
- gene networks
- metabolic networks
Fingerprint
Dive into the research topics of 'Plants in silico: Why, why now and what? --- An integrative platform for plant systems biology research'. Together they form a unique fingerprint.Projects
- 2 Finished
-
US Partnering Award: Systems Biology of Plants and Algae, from Molecular Networks to Informatics Infrastructure.
Millar, A., Le Bihan, T. & Simpson, I.
1/06/14 → 31/05/18
Project: Research
-
Research output
- 2 Article
-
Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform
Marshall-colon, A., Long, S. P., Allen, D. K., Allen, G., Beard, D. A., Benes, B., Von Caemmerer, S., Christensen, A. J., Cox, D. J., Hart, J. C., Hirst, P. M., Kannan, K., Katz, D. S., Lynch, J. P., Millar, A. J., Panneerselvam, B., Price, N. D., Prusinkiewicz, P., Raila, D., Shekar, R. G., & 9 others , 15 May 2017, In: Frontiers in plant science. 8, 786.Research output: Contribution to journal › Article › peer-review
Open Access -
Multiscale digital Arabidopsis predicts individual organ and whole-organism growth
Chew, Y. H., Wenden, B., Flis, A., Mengin, V., Taylor, J., Davey, C. L., Tindal, C., Thomas, H., Ougham, H. J., De Reffye, P., Stitt, M., Williams, M., Muetzelfeldt, R., Halliday, K. J. & Millar, A. J., 30 Sept 2014, In: Proceedings of the National Academy of Sciences (PNAS). 111, 39, p. E4127-E4136 10 p.Research output: Contribution to journal › Article › peer-review
Activities
- 1 Contribution to the work of national or international committees and working groups
-
BioModels International Scientific Advisory Board
Andrew Millar (Member)
2016 → …Activity: Consultancy types › Contribution to the work of national or international committees and working groups