1. Plant Research Intl, Netherlands
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
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
Genomics
Breeding

4. Socio-economics information
The RosBREED Approach
SELECTION TARGETS
SELECTION STRATEGIES
Objectively define
Optimize
DNA information
Socio-economics information
IMPROVED CULTIVARS
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
= tech transfer to more breeders & engage other stakeholders
RosBREED

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

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

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

9. RosBREED PBA Jewel Discovery SNP genome scans
Standardized phenotypic data
RosBREED

10. Market Intermediaries
Socio-Economics Surveys (example for apple)
Breeders
Washington Producers
Michigan Producers
Market Intermediaries
LEAST important traits
MOST important traits
Packers 49.5% shippers 32% = 81.5%
% of respondents
RosBREED

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

12. Cross Assist
Find it at:
or simply on the GDR under “Breeders Toolbox”
RosBREED

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

14. New generations enriched for favourable alleles
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 cherry seedling culling alone!
RosBREED

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

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