- Environmental stress is a key challenge to the productivity of crop plants
- Abiotic and Biotic stresses will function via core response networks
- These will be embellished with stress specific pathways
- Transcriptional change will represent a fundamental component of these response
- Responses to developmental (senescence), abiotic (drought, high light) and biotic (pathogen) stresses will be used to reveal common stress response genes
- Time-course experiments have been carried out and high resolution microarrays produced to enable mathematical modelling, using both network inference (top down) and bottom up (traditional) approaches.
- Differentially expressed genes are clustered based on their expression profile and variational bayesian state space modelling (VBSSM) used to infer genetic interactions.
- Identified key regulatory genes are validated using knock-out and overexpresser experiments
- Promotor analyses are being used to identify regulatory regions for transcription factor binding
- Preliminary knowledge capture and literature data mining
- High resolution time course experiments
- Coarse Grain Model Development
- Middle-out coarse grain network validation
- Local iteration and pathway building
- Associated theoretical developments
Arabidopsis infected with Botrytis cinerea. Photos taken every 4hrs over 48hr period