High-resolution mapping of wheat chromosome arm 5AS - PowerPoint Presentation

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High-resolution mapping of wheat chromosome arm 5AS - PPT Presentation

harbouring the Fusarium head blight resistance QTL Qfhsifa5A Christian Wagner 1 Petra Schwarz 1 Maria Buerstmayr 1 Barbara Steiner 1 Klaus Brugger 1 Lisa Blazek 1 Delfina Barabaschi ID: 928536

radiation map mapping 5as map radiation 5as mapping introduction ifa plants deletions centromere results conclusion panel qfhs method aim

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Slide1

High-resolution mapping of wheat chromosome arm 5AS

harbouring the Fusarium head blight resistance QTL Qfhs.ifa-5A

Christian Wagner

1, Petra Schwarz1, Maria Buerstmayr1, Barbara Steiner1, Klaus Brugger1, Lisa Blazek1, Delfina Barabaschi2, Andrea Volante2, Giampiero Vale2, Luigi Cativelli2, Hermann Buerstmayr1

1 BOKU-University of Natural Resources and Life Sciences Vienna, Department IFA-Tulln, Institute for Biotechnology in Plant Production, Konrad Lorenz Str. 20, A-3430 Tulln, Austria, 2 Council for Agricultural Research and Economics CREA , Genomics Research Centre, Via S. Protaso 302, 29017 Fiorenzuola d'Arda, Italy

Universität für Bodenkultur WienDepartment IFA-Tulln

Slide2

Major disease caused by

Fusarium

species

Yield and quality lossesMycotoxin contaminationMany resistance QTL mapped in wheatQfhs.ifa-5A (Buerstmayr et al. 2002, 2003)Major Type 1 FHB resistance QTLCentromeric region of chromosome 5AS

Fusarium Head blight and Qfhs.ifa-5AConclusion

MethodAimDiscussionResultsIntroduction

Slide3

0.7

9.7

9.8

10.0

10.1

10.2

10.3

10.4

10.5

10.6

10.7

11.0

11.4

12.2

18.3

0.9

- 9 bins

> 75% of 5AS

Linkage Mapping of

Qfhs.ifa-5A

Problems:

Centromeric position of

Qfhs.ifa-5A

Recombination

coldspot

NI-RIL population

NIL1 x NIL2

(

Qfhs.ifa-5A

) (susceptible)

3650 F

plants

70 recombinant

lines

Conclusion

Method

Aim

Discussion

Results

Introduction

Slide4

http://www.biochemj.org/content/471/1/1

https://www.jic.ac.uk/staff/graham-moore/Wheat_meiosis.htmWheat Genome

Radiation induce double

stranded breaksrandomly and evenly distributed

recombination independentWheat tolerate large deletionshexaploid, 42 chromosmesviable in vivo plantsAim: increase map-resolution of 5AS via radiation mappingcreate deletion-mutants also for phenotyping

Radiation Hybrid mapping (Kumar et al. 2014)Conclusion MethodAimDiscussionResults

Introduction

Slide5

mapping and

phenotyping

deletion mutations

for mapping only

Header

Chinese Spring

=RS

1 or 2

selfing

generations

homozygous deletions

RS-NIL3 panel

Radiation

Selfing

RH-CS panel

Radiation Hybrid

5B5B5B5D5D

only one

hemizygous

♂

5B5D

♀

5B5B5D

CS fresh pollen

irradiation

100

Gray

haploid cell

CS-N5AT5B

emasculated

haploid cell

5A5A

5B5B5D5D

=RS

NIL3 – Qfhs.ifa-5A

seeds

irradiation

diploid cells 240-350

Gray

Seibersdorf

Department of

Plant Sciences

Conclusion

Method

Aim

Discussion

Results

Introduction

Slide6

Prescreening plants for deletions with >15 markers

Plants with deletions on 5AS:

Genotyped with 102 5AS

specific markersRS-NIL3 panelSeed irradiation5157 plants screened80 informative plants

1.85% deletionsRH-CS panelPollen irradiation276 plants screened40 informative plants18% deletions

Deletion ScreeningConclusion MethodAimDiscussionResults

Introduction

Slide7

Distributions of Deletions on 5AS

telomere, distal

proximal, centromere

RS-NIL3 panelRH-CS panel

Radiation Selfing

→ mostly small, intestitial deletions

Radiation Hybrid

→ mostly big, telomeric

deletions

Conclusion

Method

Aim

Discussion

Results

Introduction

= Deletion

marker order

Slide8

RSH-consensus map

Cartha

Gène (De Givry et al., 2005)Genetic and radiation hybrid mappingCan merge populations

All data used for consensus map80 of RS-NIL3 panel40 of RH-CS panel = 120 in total102 5AS specific marker

http://www7.inra.fr/mia/T/CarthaGene/marker pattern: presence-absenceDeletion map:centi-Ray positions Conclusion MethodAimDiscussion

Results

Introduction

Slide9

*5AS IWGSC physical length: ~250

Mbp

RSH-consensus map

Map length: 384.4 cR

Mapped

loci: 76

Map resolution: 0.65 Mb/cR

263.8

centromere

0.0

3.1

6.3

14.4

15.9

19.0

20.5

22.0

26.6

32.7

34.1

37.0

38.5

68.0

74.5

76.1

80.9

87.3

88.8

92.0

96.7

106.4

109.6

112.7

114.2

119.0

125.4

126.9

128.5

131.5

133.0

141.1

142.6

158.3

162.7

165.5

171.8

180.3

181.9

190.4

203.7

209.3

212.9

220.1

221.8

235.1

238.6

240.3

248.9

255.5

257.1

272.7

276.2

281.8

283.6

287.3

291.0

294.7

296.6

298.4

302.1

307.8

313.3

315.1

327.2

331.0

336.8

338.8

349.5

358.3

365.1

367.3

374.6

376.9

384.4

gpg1293

cwem44c

gpg537

IWB62899

IWB4146

gpg2328

gpg2326

IWB29780

IWB68241

barc186

ldk243

IWB51518

ldk267

barc56

ldk284

gpg2162

gpg2163

gpg1438

barc117

gpg2168

gpg2038

IWB75561

jfio7

wmc150a

gwm293

gpg1440

gwm304

IWB8393

wmc150b

gpg2049

gpg2060

IWB10809

BE498768

ldk49

ldk2

gpg2233

gpg1763

gpg2092

gpg2072

gpg2126

IWB58275

ldk217

IWB33435

gpg574

gpg277

ldk218

ldk241

gpg1139

gpg1789

gpg2309

jfio4

gpg1994

gpg2250

ldk50

gpg2244

gpg2313

ldk16

ldk14

gpg2019

gpg2108

gpg1383

ldk242

gwm129

jfio2

ldk289

gpg2231

gpg2232

gpg2075

gpg2083

gpg2097

gwm415

gpg2121

gpg119

gpg35

gpg2336

gpg743

gpg1294

gpg2117

ldk113

gpg214

gpg2020

gpg2147

gpg2123

gpg2102

gpg1395

gpg2158

gpg1321

ldk215

gpg1777

gpg158

gpg2034

gpg2255

gpg2011

BE425161

gpg542

cfa2250

jfio6

gpg503

gwm443

IWB11440

gpg2

wmc654

telomere

Conclusion

Method

Aim

Discussion

Results

Introduction

Slide10

Linkage vs RSH-consensus map

NI-RIL map

3650 NI-RILs

263.8

centromere

0.0

3.1

6.3

14.4

15.9

19.0

20.5

22.0

26.6

32.7

34.1

37.0

38.5

68.0

74.5

76.1

80.9

87.3

88.8

92.0

96.7

106.4

109.6

112.7

114.2

119.0

125.4

126.9

128.5

131.5

133.0

141.1

142.6

158.3

162.7

165.5

171.8

180.3

181.9

190.4

203.7

209.3

212.9

220.1

221.8

235.1

238.6

240.3

248.9

255.5

257.1

272.7

276.2

281.8

283.6

287.3

291.0

294.7

296.6

298.4

302.1

307.8

313.3

315.1

327.2

331.0

336.8

338.8

349.5

358.3

365.1

367.3

374.6

376.9

384.4

gpg1293

cwem44c

gpg537

IWB62899

IWB4146

gpg2328

gpg2326

IWB29780

IWB68241

barc186

ldk243

IWB51518

ldk267

barc56

ldk284

gpg2162

gpg2163

gpg1438

barc117

gpg2168

gpg2038

IWB75561

jfio7

wmc150a

gwm293

gpg1440

gwm304

IWB8393

wmc150b

gpg2049

gpg2060

IWB10809

BE498768

ldk49

ldk2

gpg2233

gpg1763

gpg2092

gpg2072

gpg2126

IWB58275

ldk217

IWB33435

gpg574

gpg277

ldk218

ldk241

gpg1139

gpg1789

gpg2309

jfio4

gpg1994

gpg2250

ldk50

gpg2244

gpg2313

ldk16

ldk14

gpg2019

gpg2108

gpg1383

ldk242

gwm129

jfio2

ldk289

gpg2231

gpg2232

gpg2075

gpg2083

gpg2097

gwm415

gpg2121

gpg119

gpg35

gpg2336

gpg743

gpg1294

gpg2117

ldk113

gpg214

gpg2020

gpg2147

gpg2123

gpg2102

gpg1395

gpg2158

gpg1321

ldk215

gpg1777

gpg158

gpg2034

gpg2255

gpg2011

BE425161

gpg542

cfa2250

jfio6

gpg503

gwm443

IWB11440

gpg2

wmc654

cwem44c

6.3

wmc654

7.0

barc186

9.7

barc303

9.8

ldk267

10.0

gwm1057

10.1

barc56

10.2

barc117

wmc150a

gwm293

gwm304

10.3

ldk49

ldk2

ldk14

gwm129

gwm415

cfa2250

10.6

wmc705

10.7

barc1

11.0

barc180

11.4

wmc805

12.2

10.4

10.5

RSH- consensus map

0.9 cM

342.2

excellent resolution in centromeric region

380 fold map

improvement in

Conclusion

Method

Aim

Discussion

Results

Introduction

9 bins

66 bins

Slide11

Centi

-Ray vs IWGSC-positions on 5AS

→

Confirms mapping data – match in marker order→ Breaks independent from chromosome position

=1r=0.99Conclusion MethodAimDiscussionResultsIntroduction

Centi

-Morgan

NIL-

map

telomere

centromere

=0.55

centromere

Centi-Ray

RSH-map

telomere

centromere

Mbp IWGS

ref.sequ.V1

centromere

Slide12

Radiation

Selfing

panel:

plants with deletions in QTL interval useable also for phenotypingFurther work:Backcrossing RS plants → minimize background mutationsPhenotype these lines in fieldRadiation Mapping rules in centromeric Regions

Genetic linkage mapping → low resolution

Radiation mapping → high resolution – even in centromeric regions→ Breaks evenly distributed→ Centi-Ray positions reflect true ratio of physical positionsConclusion Method

Aim

Discussion

Results

Introduction

Slide13

Acknowledgement

3.0

16.0

5A_NILx10NI-RILsMorgane RothNoemie PratChristine UlzJohannes HeckmannNorman SchlatterLaura Hemmerling

Luigio

Cattivalli

Giampario