SolCAPSolanaceae Coordinated Agricultural Project 

What is SolCAP?What is SolCAP?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

EducationEducation

TomatoTomatoUS: $2 billion product value.

The United States is one of the world's leading producers of tomatoes, second only to China.

Tomato varieties are bred specifically for the requirements of either the fresh or the

processing markets.

MinnesotaUniversity of MinnesotaChristian Thill WisconsinUSDA/ARS University of Wisconsin Shelly JanskyMichiganMichigan State UniversityDavid DouchesRobin BuellKelly Zarka

OhioOhio State UniversityDavid FrancisDeborah LewisWest VirginiaWest Virginia State UniversityBarbara Liedl

Lead Institution: Michigan State University

OregonOregon State UniversityAlexandra StoneM. Isabel ValesCedar Lake Research and ConsultingMichael CoeIdahoUSDA/ARS University of IdahoRichard NovyCaliforniaUC DavisAllen Van DeynzeRoger ChetelatCampbells’ R&DNankui Tong

New YorkCornell UniversityWalter De JongLukas MuellerMarylandUSDA/ARS BeltsvilleKathleen Haynes

North CarolinaNorth Carolina State UniversityCraig YenchoFloridaUniversity of FloridaJay Scott

SolCAP Project ParticipantsSolCAP Project Participants

SolCAP FocusSolCAP Focus

TraitsTraits Carbohydrate, Sugar content , Vitamin contentGermplasmGermplasm Elite germplasm, Breeder driven, Appropriate out groupsToolsTools Fund existing facilities to SNP genotype germplasm panelsFlexible fundingFlexible funding Genotyping additional populations for validation or additional traits marker conversionData mining and managementData mining and management SGN, SolCAP websitesExtensionExtension eXtension; partner with other CAPsEducation Education Curriculum development; breeder workshops, graduate course

Visit us at http://solcap.msu.eduVisit us at http://solcap.msu.eduE-mail us at solcap.msu.eduE-mail us at solcap.msu.edu

This project is supported by the National Research Initiative Plant Genome This project is supported by the National Research Initiative Plant Genome Program of USDA’s Cooperative State Research , Education and Extension ServiceProgram of USDA’s Cooperative State Research , Education and Extension Service

High Value Traits TargetedHigh Value Traits Targeted

Sugar ContentSugar Content

CarbohydrateCarbohydrate

Vitamin ContentVitamin Content

US: $3.2 billion product value on 461,000 ha (1.1 million acres)

Most highly valued processing vegetable in the US.

Potato varieties are bred specifically for table stock or processing (chip, frozen

dehydrated products) markets.

PotatoPotato

SolCAP eXtensionSolCAP eXtensionComponentComponent

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.

Create a web community to foster cross-disciplinary and cross–commodity networking and collaboration within the Community of Practice (CoP).

In Solanaceae There is a Major GapIn Solanaceae There is a Major Gap Between Genomic Information and Breeding Between Genomic Information and Breeding

Tomato and potato breeding are based upon phenotypes, not genotypes,Tomato and potato breeding are based upon phenotypes, not genotypes, even though they are being sequencedeven though they are being sequenced

Sol Genomics Network (SGN) database is not being utilized by breedersSol Genomics Network (SGN) database is not being utilized by breeders

Similar genomes, few examples of orthologous gene discoverySimilar genomes, few examples of orthologous gene discovery

Marker assisted breeding (MAB) is not generally practiced due to:Marker assisted breeding (MAB) is not generally practiced due to: -limited genetic diversity -limited genetic diversity -lack of genetic markers linked to traits of interest-lack of genetic markers linked to traits of interest

SGN TOOLBOXSGN TOOLBOX

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

SolCAP SNP AnalysisSolCAP SNP AnalysisFrom the existing sequence databases, we have identified 7,700 From the existing sequence databases, we have identified 7,700 potato and 5,200 tomato sequences with candidate SNP’s; these potato and 5,200 tomato sequences with candidate SNP’s; these are being further validated using computational approachesare being further validated using computational approaches

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

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