Cis-eqtl mapping for promoter variant identification in tomato
Utilize an eight-parent tomato MAGIC population to map cis-eQTL and identify promoter polymorphisms affecting gene expression. This research employs RNA-seq and functional validation to advance predictive models for gene regulation in crop improvement.
Overview
This solution leverages cis-eQTL mapping to identify promoter sequence variants that influence gene expression using an eight-parent tomato MAGIC population. With 532 recombinant inbred lines, this approach captures extensive allelic diversity, enabling the discovery of promoter polymorphisms linked to gene expression differences. The ultimate goal is to enhance crop improvement through a better understanding of gene regulation.
Technical specifications
- Multiparent Advanced Generation Inter-Cross (MAGIC) population: Utilizes eight tomato parents with de novo reference genome assemblies.
- High-resolution mapping: Parental haplotype assignments allow for precise association between promoter variants and gene expression.
- RNA-seq profiling: Generates detailed transcript profiles for eQTL discovery.
- Functional validation: Promoter haplotypes are validated using transient Nicotiana benthamiana reporter assays.
Technology readiness level
This research is currently at Technology Readiness Level 3, focusing on experimental proof-of-concept with ongoing validation using established genomic resources.
About Vineland Research and Innovation Centre
Vineland Research and Innovation Centre is an independent, not-for-profit horticultural research organization in Vineland Station, Ontario, with a team of 100+ people focused on translating science into market-ready solutions. Its integrated campus combines pre-commercial greenhouses, advanced pathology and soil/substrate labs, a prototyping hangar for robotics and sensors, dedicated sensory and food technology suites, and field-scale research farms. A research-park setting with co-located government, academic and industry tenants enables on-site collaboration, testing and demonstrations. Vineland is funded in part through the Sustainable Canadian Agricultural Partnership, with support from Agriculture and Agri-Food Canada and the Government of Ontario. Commercialization is supported via defined licensing pathways and an active intellectual property portfolio.
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