SolCAP Solanaceae Coordinated Agricultural Project

1. SolCAP Solanaceae Coordinated Agricultural Project Potato What is SolCAP? US: $3.2 billion product value on 461,000 ha (1.1 million acres) Tomato Most highly valued processing vegetable in the US. US: $2 billion product value. The SolCAP project links together people from public institutions, private institutions and industries who are dedicated to the improvement of the Solanaceae crops: potato and tomato.  Through innovative research, education and training the SolCAP project will focus on providing significant benefits to both the consumer and the environment. The SolCAP project is supported by the National Research Initiative Plant Genome Program of USDA’s Cooperative State Research , Education and Extension Service. SolCAP project inception date: October 2008 The United States is one of the world's leading producers of tomatoes, second only to China. Potato varieties are bred specifically for table stock or processing (chip, frozen dehydrated products) markets. Tomato varieties are bred specifically for the requirements of either the fresh or the processing markets. SolCAP Project Participants Lead Institution: Michigan State University Education In Solanaceae There is a Major Gap Between Genomic Information and Breeding SolCAP SNP Analysis From the existing sequence databases, we have identified 7,700 potato and 5,200 tomato sequences with candidate SNP’s; these are being further validated using computational approaches • Develop distance learning for graduate student courses in marker assisted breeding • Workshops for breeders, staff, and graduate students in bioinformatics, marker theory and practice. • Potato Breeder Workshops • Tomato Breeder Workshops • Tomato and potato breeding are based upon phenotypes, not genotypes, • even though they are being sequenced • Sol Genomics Network (SGN) database is not being utilized by breeders • Similar genomes, few examples of orthologous gene discovery • Marker assisted breeding (MAB) is not generally practiced due to: • -limited genetic diversity • -lack of genetic markers linked to traits of interest • cDNA Libraries for sequencing of potato and tomato using the Illumina • Genomic Analyzer • Genotype germplasm panels  of 480 and mapping populations with Illumina, Luminex or Infinium • ·    75% of the SNP’s assayed will be random throughout the genome • ·    25% of the SNP’s assayed will be targeted to high value traits New York Cornell University Walter De Jong Lukas Mueller Maryland USDA/ARS Beltsville Kathleen Haynes Oregon Oregon State University Alexandra Stone M. Isabel Vales Cedar Lake Research and Consulting Michael Coe Idaho USDA/ARS University of Idaho Richard Novy California UC Davis Allen Van Deynze Roger ChetelatCampbells’ R&D Nankui Tong Minnesota University of Minnesota Christian Thill Wisconsin USDA/ARS University of Wisconsin Shelly Jansky Michigan Michigan State University David Douches Robin Buell Kelly Zarka Ohio Ohio State University David Francis Deborah Lewis West Virginia West Virginia State University Barbara Liedl North Carolina North Carolina State University Craig Yencho Florida University of Florida Jay Scott SolCAPeXtension Component SolCAP Focus • Traits • Carbohydrate, Sugar content , Vitamin content • Germplasm • Elite germplasm, Breeder driven, Appropriate out groups • Tools • Fund existing facilities to SNP genotype germplasm panels • Flexible funding • Genotyping additional populations for validation or additional traits • marker conversion • Data mining and management • SGN, SolCAP websites • Extension • eXtension; partner with other CAPs • Education • Curriculum development; breeder workshops, graduate course • Provide leadership to bring all CAPs into the CoP • CoP will collaboratively generate outreach materials that will be published on the public eXtension.org site for continuing education. • SolCAP databases developed at SGN and the MSU central SolCAP website will be linked to eXtension information and vice-versa. High Value Traits Targeted Create a web community to foster cross-disciplinary and cross–commodity networking and collaboration within the Community of Practice (CoP). Carbohydrate Sugar Content Vitamin Content SGN TOOLBOX • Breeders, geneticists, and bio-informaticians will work to create integrated genomic and phenotypic databases that serve the entire potato and tomato breeding and genetics community http://www.sgn.cornell.edu Visit us at http://solcap.msu.edu E-mail us at solcap.msu.edu This project is supported by the National Research Initiative Plant Genome Program of USDA’s Cooperative State Research , Education and Extension Service