Bioinformatic platform for optimizing rice stress response through CRE/CRM modification
A bioinformatic tool that identifies and modifies cis-regulatory elements in rice promoters to enhance stress tolerance. The platform uses RNA-seq data and CRISPR editing to test and optimize promoter activity for improved biotic and abiotic stress responses.
Overview
This innovative bioinformatic platform leverages RNA-seq data to identify shared cis-regulatory elements/modules (CRE/CRMs) in rice gene promoters associated with stress responses. By modifying these CRE/CRMs, either naturally or through CRISPR editing, the platform aims to enhance rice's ability to cope with biotic and abiotic stresses. This solution offers a sophisticated approach to improve crop resilience, crucial for addressing agricultural challenges in varying environmental conditions.
Technical specifications
- Bioinformatic Pipeline: Utilizes publicly available RNA-seq studies to pinpoint CRE/CRMs in co-regulated genes under stress.
- Transient Multiplex Assays: Assesses the impact of CRE/CRM modifications using fluorescent or dual-luciferase reporter systems in N. benthamiana.
- CRISPR Editing: Modifies CRE/CRMs in planta to evaluate changes in stress response traits.
- Stress Condition Testing: Evaluates promoter performance under different stress conditions like heat and disease pressure.
Technology readiness level
Currently at TRL 4, this technology has been validated through lab-scale testing with plans for further adaptation and testing across different plant species to refine its application and effectiveness.
About Colorado State University
Colorado State University is a comprehensive public land‑grant research university with an applied, partnership‑driven culture. Multiple research campuses—including the Fort Collins main campus, a public‑facing Denver site, and a foothills research complex with shared core facilities and pilot‑scale testbeds—enable companies to co‑locate, access instrumentation, and run validation studies. A statewide Extension network and proximity to the Front Range innovation corridor provide streamlined engagement with regional and national industry, while an integrated veterinary teaching hospital supports translational studies. Research is supported by competitive federal funding from agencies such as NSF, NIH, USDA, DOE, and DoD. A dedicated technology transfer office streamlines IP, contracting, and startup formation, with incubator and collaboration space for industry partners.
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