Indonesia- Bustamam

- Utut

IRRI- Vera Cruz

- Leung- Brar

CSU- Leach

KARI- Gethi

Cornell- Nelson- Smith

NCSU- Balint-Kurti

Rice Maize

Generation Challenge Program

Project #8Update 2007

Dissection, characterization and utilization of disease QTL

Synthesis maps (Complementary) mechanisms Insight on MDR

Understanding the trait

Germplasm panel: resistance sources

Stress resistant varieties

(Actionable) insightsre: breeding populations

Improving the trait

dQTLdiscovery dQTL genes

Dissecting the trait

dQTL vs.expressiondQTL NILs

PublishedNILs;

Histopathology Diversity panel;RS populations

Mapping populations

Disease panelAssociation panel

Diallel

Selection from diallel

Selection from AB-QTL populations

(poster 3.25)

Linkage mapping Selection mappingAB-QTL mappingMutant analysis

Multiple strategies

(poster 2.9)

Deletion analysisQTL dissection

Assocation mappingNAM

Array studies

GR6458GR6489GR6603GR6686

GR7534

GR6728GR6989

Chip-analysis of loss-of-resistance mutants

J. Leach, G. Diaz, and M. Bruce, CSU

spl1

LOC_Os01g27150 LOC_Os03g56800

LOC_Os04g54240

IR64

IR64

IR64

GR

6686

GR

6603

GR

6603

GR

7534

GR

6728

GR

6686

LOC_Os01g64720G

R66

03

GR

6686

GR

6728

GR

7534

IR64

LOC_Os01g67720

GR

6603

GR

6686

GR

6728

GR

6989

IR64

GR

7534

Allelic series of deletion mutants

Gene model position on chromosome 12

Rat

io o

f sig

nific

ant p

robe

s in

pro

be s

et

Mutant line

All mutants show spl1 phenotype.

Two had been confirmed as allelic by complementation tests

OXLP cluster

Oxalate oxidase (germin-like protein)

R2 = 0.7039P = <0.001

0.0

0.5

1.0

1.5

2.0

0 2 4 6 8Rice blast disease ratingR

elat

ive

expr

essi

on T

0/W

T

Rice blast disease rating

More More silencingsilencing

Carillo and Vera Cruz, IRRI

RNAi

Manosalva and Leach, CSU

Increased silencing of Chr. 8 OsGLPgenes in T0 rice correlates with increased disease

u1228 m0371

Chromosome 4

p072u1008b1434

nc135

u1669 u1509 b1126u2281

p096 b1265u2054u1142

u1451u1896 u2027

u2038b1189u1808

u2041m0321u2285

u1313u1999 u1101

b589b1890

0.0 50 100 150 200 250 300 350 400 450 500 550 600 650 700

Chromosome 1

Chromosome 2

p96100u2246 u2363

b1017b1338

m0111

u1756u1261

u2248p109642

b1018 m0401b1831b1036b1138u1080u2372b1329

u1042 b1662 b1940b1520u1252

p101049u1696

AY111236

0.0 50 100 150 200 250 300 350 400 450 500 550 600 650 700

Chromosome 3

u2118u2256

p104127u1886b1325b1523u1057

u2258u2369

p099u2000u2158b2047

u2261 u2264u1773

b1456b1904u1920u2376

u1266b1449

b1047u2266 u2269

u2270u2271

dupssr17

b1605 u1825 m0251b1108u1273u2276

dupssr33b1182b1496

u1062u1594u1136

0.0 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800

Chromosome 5

u1308 u1496 u1781 b105b1046 u1447 u1355

b1287b1208

m0081 u1853 u1722 p101u2216

p048b2305

b118 AY105910u2307

0.0 50 100 150 200 250 300 350 400 450 500 550 600 650

Chromosome 10

p041u1293u1291 u1152

u2034

u1337p059

u1863u1866

p050u1995b1526u1077

u1115 u1506 b1028 u1084b1360

b1185

50 100 150 200 250 300 350 400 4500.0

b1065

Chromosome 8

u1414 b1194 u1913 b1834 b1863 u1457 b1176 b666 b1782 b1031 dupssr14 b1056 b1131

0.0 50 100 150 200 250 300 350 400 450 500 550 600

Chromosome 6

b1043 b426b1371

u1083u1572

AY111964

m0241 b1732u1859

p299852 b1740 b1521

b1538

nc009u2324

0.0 50 100 150 200 250 300 350 400 450 500

Chromosome 7

b1367b2132 u1159 b1094 u1983 b1022

b1808b1305

b1070b1805 b1666 b2259 b1407 p051

0.0 50 100 150 200 250 300 350 400 450 500 550 600

Chromosome 98000.0 50 100 150 200 250 300 350 400 450 500 550-39.0 700 750600 650

u1279 b1724u1867u2393

b1810b1583u2335u1596

u1430

b244 p061u1107u2398u1120u1078

u1231u2095u2343u2371

b1191u1366

b619b128

u1982 u1277

NC250 Introgression likely derived from B37

NC250 Introgression likely derived from

Nigerian Composite ARb

NC250 Introgression in both NC292 and NC330

NC250 Introgression in NC292

NC250 Introgression in NC330

Unknown no SSR data

Unknown bands present in NC292 and NC330 not present in

B73 or NC250

Unknown bands present NC330 not present in B73 or NC250, NC292

has B73 bandMajor SLB QTL positions B73/NC250A F2:3 population

umc1704

umc1532umc2011bnlg1917

u1636 dupssr19

b2228

u1177b149

0.0 50

a31 b1429u1160 b1484

b1866b652

u2227

b2086u1297

u1988u1254u1035 u1122

u1661u1358b1556

b1025u1128

p037u1848

m0041

u2047u1298

u1431b1671b1347

u1500p2654

54

u1553u1129u1118 b2123

u1725u2244

100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 950 1000 1050 1100

u2053 u1576

b594IDP1471IDP4016

500

BBCC

GG

FFEE

DD

II

JJ

HH

AA

Introgression C

Introgression F

Introgression G

Introgression J

B73

NC292Introgression B

Introgression D

Zwonitzer and Balint-Kurti

Increase in rate of lesion development

0.07

0.075

0.08

0.085

0.09

0.095

B73 Het SEL*

Incu

batio

n Pe

riod

-1Antagonistic reactions for NLB and rust resistance

0

10

20

30

40

50

60

B73 Het SEL*

DLA

Decrease in rust severity

R

S

R

S

Selected allele

NLB

p < 0.001

Rust

p = 0.01

J.A. Poland and R.J. Nelson, Cornell

Chung and Nelson

Incidence of E. turcicum growing into thexylem on different maize genotypes

(7 days after inoculation)

0

20

40

60

80

100

CML52 Tx303 B73 TBBC3_42

Maize genotype

% o

f inf

ectio

n si

tes

hyphae in the xylem

0

10

20

30

40

50

60

70

80

90

100

110

IF

Ki3

M16

2W 20 60 25 11C

ML6

920

1C

ML3

22B

73 128

173 78 17 121 9

127

119

Ky2

1 48 42 81M

37W 26

CM

L322

-Inoc 192

194

185

137

Tx30

3 79 90 615

4 66 50 166 19 68

CM

L322

-Moc

kO

h7B

Line

Infe

ctio

n Fr

eque

ncy

(%)

Maize + drought = aflatoxicosis

Mideros and Nelson, Cornell

Resistance to infection by Aspergillus flavus

Chr 2 Chr 3 Chr 5 Chr 7

Panicle weight Leaf blast Lesion number

Diseased leaf areaHarvest index Height

Grain filling

Mapping of QTLs for resistance to blast and drought tolerance in rice

Vandana / Moroberekan derivatives; IRRI & India

Datasets and lines:Advanced rice genotypes with drought and blast resistance

Moroberekan / Vandana(India-IRRI)

Oryzica llanos 5 / Way Rarem(Indonesia / IRRI)

Genetics + breedingParent 1&2 CML

312CML 384

TZMi 102

TZMi 711

TZMi 712

CML 204

CML 373

CML 312 Self

CML 384 Self

TZMi 102 Self

TZMi 711 Self

TZMi 712 Self

CML 204 Self

CML 373 Self

Moderate x Moderate

CML 312 x TZMi 712

• Diallel study of GLS resistance

• F2:3 and BC4F4 lines pending

• Promising hybrids identified

Gene(s)

QDR-QTL

QTL Dissection

NILs

Nested Association

Mapping

Associationmapping

RIL populations

Selection mapping

Targeted HIF extraction

Introgressionlibraries

Deletion mutants

Varieties

Affymetrixdata on

deletion mutants

5 SLB datasets4 GLS datasets 3 NLB datasets

2 SLB datasets2 NLB datasets2 smut datasets

(collab with Buckler / Holland)

Materials, marker data and

pheno data