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MSU Amy Iezzoni (PD) Jim Hancock Dechun Wang Cholani Weebadde WSU Cameron Peace Dorrie Main Kate Evans Karina Gallard

Cornell Susan Brown Kenong Xu Clemson Ksenija Gasic Gregory Reighard Texas A&M Dave Byrne Univ. of CA-Davis Tom Gradziel Carlos Crisosto Univ. of New Hamp . Tom Davis. MSU Amy Iezzoni (PD) Jim Hancock Dechun Wang Cholani Weebadde WSU Cameron Peace Dorrie Main Kate Evans

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MSU Amy Iezzoni (PD) Jim Hancock Dechun Wang Cholani Weebadde WSU Cameron Peace Dorrie Main Kate Evans Karina Gallard

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  1. Cornell Susan Brown KenongXu Clemson KsenijaGasic Gregory Reighard Texas A&M Dave Byrne Univ. of CA-Davis Tom Gradziel Carlos Crisosto Univ. of New Hamp. Tom Davis MSU AmyIezzoni (PD) Jim Hancock Dechun Wang CholaniWeebadde WSU Cameron Peace Dorrie Main Kate Evans Karina Gallardo Raymond Jussaume Vicki McCracken Nnadozie Oraguzie Mykel Taylor Univ. of Arkansas John Clark USDA-ARS Nahla Bassil Gennaro Fazio Chad Finn Univ. of Minnesota Jim Luby Chengyan Yue Oregon State Univ. Alexandra Stone Plant Research Intl, Netherlands Eric van de Weg Marco Bink

  2. International Collaborators Plant Research International, Netherlands East Malling Research, UK CRA-FRU, Rome, Italy IASMA, Trento, Italy INRA (Bordeaux, Avignon, Angers), France Andres Bello University, Chile Plant & Food Research, New Zealand ARC, South Africa RosBREED participant location + 2 Scientific Advisory Panel members (Spain, New Zealand)

  3. Bridging the Chasm! RosBREED RosBREED Breeding Genomics

  4. The RosBREED Approach Socio-economics information Objectively define SELECTION TARGETS IMPROVED CULTIVARS Optimize SELECTION STRATEGIES DNA information RosBREED

  5. RosBREED’s “Work Packages” (5 Objs) • Enhance new cultivar adoption, enlarge market potential, increase consumption • = socio-economics knowledge of trait values 2) Establish sustainable infrastructure for MAB in Rosaceae = genome scanning capability, new QTLs (“jewels”) 3) Integrate socio-econ and genomics resources into breeding = pedigree-based breeding information management system 4) Conduct MAB in demo breeding programs, fruit quality focus = MAB implementation 5) Enhance sustainability of cultivar development = techtransfertomorebreeders & engageotherstakeholders RosBREED

  6. “Jewels in the Genome” - discovering, polishing, applying QTL discovery(looks promising...) MAB Pipelining(polishing...) Breeding(assembling into masterpieces) RosBREED

  7. SNP Genome Scans Cherry array success Illumina Infinium® arrays: Peach: 9K Apple: 8K Cherry: 6K Peach & Cherry genome scan strategy “SNP chip” Example use: peach mapping Apple genome scan strategy SNP genotyping Genotype obtained for screened sweet cherry germplasm SNP failed RosBREED

  8. Reference Germplasm Minnesota BP Set(n=160) CROP REFERENCE SET n=480 BREEDING PEDIGREE SETS Any breeder’s additional data Washington BP Set(n=160) New York BP Set(n=160) RosBREED

  9. Jewel Discovery SNPgenome scans PBA Standardized phenotypic data RosBREED

  10. Socio-Economics Surveys (example for apple) Breeders Washington Producers Michigan Producers Market Intermediaries LEAST important traits MOST important traits % of respondents RosBREED

  11. Pedigree-Based Breeding Information Management System for MAB “Reference Germplasm Databases” * * * * “Marker-Locus-Trait Association Warehouse” “Cross Assist” * “Selection Target Identifier” * * “Technology Portfolio” * “Genome Database Resources” “Seedling Select”

  12. Cross Assist Find it at: www.rosaceae.org/bt_cross_planning_tool/ca_front_page or simply on the GDR under “Breeders Toolbox” RosBREED

  13. Databasing RosBREED Information:The GDR • uploading data • downloading data • analyses • reports/descriptions RosBREED

  14. MAB Successes So Far • Two Jewels in routine use • WSU apple & sweet cherry breeding programs Cross Assist MAPS New generations enriched for favourable alleles Seedling Select MASS • est. $80K saved from 2011 cherry seedling culling alone! RosBREED

  15. Future Funding... RB 2009 FB 2010 • crops? • traits? • approaches? • resources? • partners? 2011 2012 2013 2014 2015 2016 2017 2018 2019 2020 2021 2022 RosBREED

  16. Acknowledgements This project is supported by the Specialty Crop Research Initiative of USDA’s National Institute of Food and Agriculture

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