The Cool Season Food Legume Database: An Integrated Resource for Basic, Translational and Applied Research Dorrie Main, Chun-Huai Cheng, Stephen Ficklin,

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Presentation transcript:

The Cool Season Food Legume Database: An Integrated Resource for Basic, Translational and Applied Research Dorrie Main, Chun-Huai Cheng, Stephen Ficklin, Marwa Sanad, Sook Jung, Taein Lee, Ping Zheng, Clarice Coyne, Rebecca McGee and Keithanne Mockaitis

Outline Introduction Data and function overview Future development Acknowledgements

What is the CSFL Genome Database? A pulse database focusing on providing centralized access to tools and data to enable basic, translational and applied research in pea, chickpea and lentil. Built using the open-source, user-friendly, Tripal database infrastructure used by several other databases. Collaborative module development and data exchange with LIS and KnowPulse

www.coolseasonfoodlegume.org

Species Pages

Data Overview

Trait/Marker Data and Tools Collecting all publicly available trait (MLT/QTL) and marker data for pea, chickpea and lentil Add associated markers Assign plant ontology to traits QTL search site available Marker search site available Obtain associated map data and more detailed marker information from authors

Search Traits

Trait Search Results

QTL Details Page

Search Markers

Search Markers

Search Markers

Search Markers

Search Markers

Marker Search Results Will also add map position and germplasm

Marker Details Page Will also add more data where it is available, genetic map, location on genome(s)

Sequence Search

Sequence Search Results

Search Details Page

Genome Viewer: GBrowse

Future Developments - 2014 Submit an NRSP for core development of Tripal and database support for 24 crops Adding a gene search site Generating a pea unigene v3 Adding genomic/genetic data for fava bean Continue to add genomic/genetic data for pea, chickpea and lentil Start to create a breeders toolbox

Acknowledgements Mainlab Bioinformatics Team USDA Grain Legumes Team USDA Plant Introduction Team WSU Department of Horticulture Legume Information System University of Saskatchewan Pulse Crop Research Group USDA Specialty Crop Research Program grants for tfGDR and RosBREED (2009-2013)