msu amy iezzoni (pd) jim hancock dechun wang cholani weebadde wsu cameron peace dorrie main

MSUAmy Iezzoni (PD)

Jim HancockDechun Wang

Cholani Weebadde

WSUCameron Peace

Dorrie MainKate Evans

Karina Gallardo Vicki McCracken

Nnadozie OraguzieFormer WSU

Raymond JussaumeMykel Taylor

CornellSusan Brown

Kenong Xu

Clemson Ksenija Gasic

Gregory Reighard

Texas A&MDave Byrne

Univ. of CA-DavisTom Gradziel

Carlos Crisosto

Univ. of New Hamp.Tom Davis

Univ. of MinnesotaJim Luby

Chengyan Yue

Oregon State Univ.Alexandra Stone

Plant Research Intl, Netherlands

Eric van de WegMarco Bink

USDA-ARSNahla Bassil

Gennaro FazioChad Finn

Univ. of ArkansasJohn Clark

Acknowledgements

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

Plant Research International, NetherlandsEast Malling Research, UKCRA-FRU, Rome, ItalyIASMA, Trento, ItalyINRA (Bordeaux, Avignon, Angers), France

Andres Bello University, Chile Plant & Food Research, New Zealand

ARC, South Africa

RosBREED participant

location

International Collaborators

+ 2 Scientific Advisory Panel members (Spain, New Zealand)

Discovering a QTL A major milestone or a stepping-stone into

practical marker-assisted breeding?

Cholani Weebadde

25 July 2013ASHS, Palm Desert, CA

Outline of Presentation

RosBREED

How does QTL discovery inform MAB?

The RosBREED MAB pipeline - a strategy to put DNA knowledge into practical application

Workshop presentations

How does QTL discovery inform Marker-Assisted Breeding

(MAB)?

WA2

Which wild germplasm to use?

Which traits to target? Which parents & combinations to create?

Which seedlings to progress?

Which selections to trial?

Which advanced selections to commercialize?

What is Marker-Assisted Breeding? Use of DNA information to support breeding decisions

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

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

RosBREED has bridged this chasm

Genomics Resources

Marker- assisted breeding

100s of QTLs

published

More efficient development of new

cultivars

RosBREED is dedicated to putting DNA knowledge into practical application to increase the efficiency of rosaceous crop breeding

RosBREED

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

4 yrs$7.2M federal$7.2M matching

Amy Iezzoni, Michigan State Univ.Cameron Peace, Wash. State Univ.

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

Demonstration Breeders

&

Breeding Trainees

The RosBREED MAB Pipeline: a strategy to put DNA knowledge into practical

application….

How we bridged the Chasm….

Find

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.

Put into application in breeding

Jewels= valuable genetic discoveries ready for breeding application= marker-locus-trait associations validated in a breeding program

Polish

Jewels in the genome analogy

Lots of Shiny Rocks! So What?!!

Each breeder needs to appraise for themselves all these “gemstones”…

…to decide which onesare worth polishing…

www.

rock

tum

bler

.com

…to find the “jewels”!

RosBREEDAroma

PhytonutrientShape

TartnessJuiciness

SizeOther fruit quality attributes

Storage lifeDisease resistance

No storage disordersExternal appearance

Sugar/acid balanceSweetness/soluble solids

Shelf life at retailFruit firmnessExterior colorFruit crispness

Fruit flavor

0 20 40 60 80 100

2

2

27

9676

1543

33

5

13

335

2610

23

54

777

7

2341

Socio-Economics Surveys (example for apple)

Breeders Market Intermediaries

Michigan Producers

Washington Producers

% of respondents

MOST

important

traits

LEAST

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….

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

RosBREED MAB Pipeline

“Jewels in the Genome” Available Now!

Information on the jewels on eXtension

“RosBREED Jewels are now featured in eXtension”

Workshop presentations

Known QTLs

Application in breeding

Breeding markersDNA te

sting

serv

icesQTL

prior

ities

Cross

ing

sche

mes

Trial

MASS

Simple validation

Allele effects& distributions

Seedli

ng

selec

tion

sche

mes

RosBREED success stories: QTL and QTL allele validation in Cherry, Apple and Peach

1. Amy Iezzoni – Cherry

2. Sujeet Verma – Apple

3. Ksenija Gasic - Peach

Known QTLs

Application in breeding

Breeding markersDNA te

sting

serv

icesQTL

prior

ities

Cross

ing

sche

mes

Trial

MASS

Simple validation

Allele effects& distributions

Seedli

ng

selec

tion

sche

mes

Marker-Assisted Breeding for Apple: Experiences from University of Minnesota and

Washington State University

Jim LubyRosBREED Breeding Team Lead