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

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

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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 Amy Iezzoni (PD) Jim Hancock Dechun Wang CholaniWeebadde WSU Cameron Peace Dorrie Main Kate Evans Karina Gallardo Vicki McCracken Nnadozie Oraguzie Former WSU Raymond Jussaume 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. Acknowledgements This project is supported by the Specialty Crop Research Initiative of USDA’s National Institute of Food and Agriculture

  3. 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)

  4. Discovering a QTL A major milestone or a stepping-stone into practical marker-assisted breeding? Cholani Weebadde • 25 July 2013 • ASHS, Palm Desert, CA

  5. Outline of Presentation • How does QTL discovery inform MAB? • The RosBREED MAB pipeline - a strategy to put DNA knowledge into practical application • Workshop presentations RosBREED

  6. How does QTL discovery inform Marker-Assisted Breeding (MAB)?

  7. What is Marker-Assisted Breeding? Use of DNA information to support breeding decisions Which wild germplasm to use? Which traits to target? Which parents & combinations to create? Which seedlings to progress? Which selections to trial? WA2 Which advanced selections to commercialize?

  8. What published QTLs look like • A bump on the chromosome • What does it tell the breeder??? Nothing much really! Just that there may be a gene in the “bump region” of the chromosome that is associated with the trait

  9. Known QTLs and their application • Hundreds of published QTLs are currently available for Rosaceae crops • Of these, only a few were being used for MAB

  10. RosBREEDhasbridgedthischasm 100s of QTLs published Marker- assisted breeding Breeding Genomics Programs Research RosBREED is dedicated to putting DNA knowledge into practical application to increase the efficiency of rosaceous crop breeding Genomics Resources More efficient development of new cultivars

  11. RosBREED Mission Statement We will develop and apply marker-assisted breeding, based on improved knowledge of industry value and consumer preferences, to accelerate and increase the efficiency of rosaceous cultivar release and successful cultivar adoption Amy Iezzoni, Michigan State Univ. Cameron Peace, Wash. State Univ. 4 yrs $7.2M federal $7.2M matching This project is supported by the Specialty Crop Research Initiative of USDA’s National Institute of Food and Agriculture RosBREED

  12. Demonstration Breeders & Breeding Trainees

  13. How we bridged the Chasm…. The RosBREED MAB Pipeline: a strategy to put DNA knowledge into practical application….

  14. Jewels in the genome analogy An individual’s genome is the full complement of genetic information that it inherited from its parents. Within this vast repertoire of genetic information, individual’s genes are being discovered that control critical production and fruit quality traits. Jewels = valuable genetic discoveries ready for breeding application = marker-locus-trait associations validated in a breeding program Find Polish Put into application in breeding

  15. Lots of Shiny Rocks! So What?!! www.rocktumbler.com …to find the “jewels”! Each breeder needs to appraise for themselves all these “gemstones”… …to decide which ones are worth polishing…

  16. Socio-Economics Surveys (example for apple) Breeders Washington Producers Michigan Producers Market Intermediaries LEAST important traits MOST important traits So that resources for development of genetic tests (polishing the shiny rocks) can be directed to traits with the highest importance to stakeholders…. % of respondents RosBREED

  17. RosBREED MAB Pipeline • Integrate DNA information with conventional breeding, systematically (8-stage MAB Pipeline)

  18. “Jewels in the Genome” Available Now!

  19. Information on the jewels on eXtension “RosBREED Jewels are now featured in eXtension”

  20. Workshop presentations

  21. RosBREED success stories: QTL and QTL allele validation in Cherry, Apple and Peach Known QTLs QTL priorities DNA testing services Breeding markers Simple validation Amy Iezzoni – Cherry SujeetVerma – Apple KsenijaGasic - Peach Allele effects& distributions Crossing schemes Application in breeding Seedling selection schemes Trial MASS

  22. Marker-Assisted Breeding for Apple: Experiences from University of Minnesota and Washington State University QTL priorities Known QTLs DNA testing services Breeding markers Simple validation Allele effects& distributions Crossing schemes Application in breeding Seedling selection schemes Trial MASS Jim Luby RosBREED Breeding Team Lead

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