tli 2012: chickpea research progress

Objective 4- CHICKPEA

5 Activities

Activity 1: Utilise genetic diversity to develop breeding and MAGIC populations (Harnessing diversity)

Activity 2: Develop genomic resources for enhancing MABC

and MARS activities (Genomic resources) Activity 3: Employ MABC and MARS activities to improve

superior lines (Drought tolerance breeding) Activity 4: Strengthen capacity of NARS partners

(Capacity building) Activity 5: Management and storage of data (Managing data)

Milestones: 1. 8 Parental genotypes for generating pre-breeding populations and MAGIC populations identified Milestone completed 2. At least 2 pre-breeding populations (F2) generated

3. Phenotyping of pre-breeding populations completed and at least 10 pre-

breeding lines identified for TLII (Milestone for year 4)

4. 500 MAGIC lines made available for trait mapping and identification of superior lines for drought tolerance (Milestone for year 3)

5. Phenotyping data for drought-related traits made available on selected sets of at least 200 MAGIC lines for utilization in breeding and marker/gene discovery for drought tolerance (Milestone for year 4)

Activity 1: Harnessing Diversity

44 Pre-breeding populations were generated at ICRISAT, Kenya and Ethiopia

1200 F4 progenies from 8 parental lines from 28 2-ways, 14 4-ways and 7 8-ways crosses

Progress under Activity 1

17 Pre-breeding populations @ ICRISAT, Patancheru

Cross Female parent Male parent Remarks

ICCX-080093 ICC 4958 ICCV 92944 F5 seed harvested from 103 single plants

ICCX-080165 ICC 14199 CRIL 2-17 F4 seed harvested

ICCX-070097 ICCV 04512 ICCV 10 F4 population grown in Aschochyta nurseries ICCX-070100 ICCV 05530 ICCV 10

ICCX-080176 ICCX-070187 ICC 12475 F4 seed harvested

ICCX-080180 ICCX-070189 ICC 12475 F4 seed harvested from 39 single plants

ICCX-070119 ICCV 10 JAKI 9218 F6 seed harvested from 19 progenies

ICCX-060029 JG 11 ICC 4958 F6 seed harvested from 45 progenies

Cross Female parent Male parent Remarks

ICCX-070164 ICC 12475 ICC 1431 F6 seed harvested from 4 progenies

ICCX-060037 ICCV 04112 ICCV 10 F7 seed harvested from 15 progenies and 1 line evaluated in preliminary yield trail

ICCX-060046 ICCV 10 ICC 9942 F7 seed harvested from 15 progenies and 1 line evaluated in preliminary yield trail

ICCX-060133 KAK 2 ICC 4958 3 F6 progeny bulks harvested

ICCX-060134 ICCV 92318 ICC 4958 4 F6 progeny bulks harvested

ICCX-070024 ICCX-050037-F2-P3 ICC 4958 2 F6 progeny bulks harvested

ICCX-070025 ICCX-050037-F2-P35 ICC 4958 7 F6 progenies harvested

ICCX-060025 ICCV 10 ICCV 95334 3 lines in PYTS

ICCX-060037 ICCV 04112 ICCV 10 6 F7 progenies harvested

17 Pre-breeding populations @ ICRISAT, Patancheru

Summary of pre-breeding populations Crosses in F4 : 4 Crosses in F5 : 1 Crosses in F6 : 9 Crosses in F7 : 3

20 Pre-breeding populations @ ICRISAT, Nairobi

Cross detail Remarks

ICCRIL 03-0135 × ICCRIL 04-0239

5 F2 single plants seed available for evaluation as F3

ICCRIL 04-0239 × ICCV 4958 2 F2 single plants seed available

ICCV 4958 × ICCV 15333 5 F2 single plants seed available


ICCRIL 04-0239 × ICCV 03-0135

3 F2 single plants seed available

ICCV 15333 × ICCRIL 04-0239


ICCRIL 03-0135 × ICCV 15333 9 F2 single plants seed available

ICCV 960183-69 × ICCV 506 14 F2 single plants seed available

ICCV 960183-69 × ICCV 583311



ICCV 4958 × ICCRIL 03-0135 2 F2 single plants seed available

20 Pre-breeding populations @ ICRISAT, Nairobi-con’t

Cross Remarks

ICCV 583311 × ICCV 506

16 F2 single plants seed available for evaluation

ICCV 4958 × ICCRIL 03-0135


ICCV 1052 × ICCRIL 04-0239


ICCV 1052 × ICCV 4958


ICCV 1052 × ICCV 15333


ICCRIL 03-0135 × ICCV 4958


ICCV 4958 × ICCRIL 04-0239


ICCV 506 × ICCV 583311


ICCV 1052 × ICCRIL 03-0135


ICCRIL 04-0239 × ICCV 15333


Seed from 20 F2 crosses harvested

Three F2 crosses (ICCV 92944 × ICC 4958, ICCV 92944 x ICCV 97105 ICCV 00305 x ICCV 00108) have been harvested,

Will be advanced to F3 by Aug 2012

Two F3 crosses (ICCV 8261 x ICCV97105, ICCV 4958 x ICCV 97105) have been harvested

Will be advanced to F4 by Aug 2012

5 Pre-breeding populations @ EU, Kenya

2 Pre-breeding populations @ EIAR, Ethiopia

Two crosses, ICC 4958 × Habru, ICC 4958 × Ejere were made in 2009

At present these are in F3 generation through bulk advance

Single plant selection will be adopted

With in each population based on flower color 8 sub-population (2 from Habaru cross and 6 from Ejere) are being handled

In each sub population more than 10,000 seeds are harvested for next advance

For MAGIC populations

Parental line Remarks

ICC 4958 Drought tolerant genotype found promising in Ethiopia, Kenya and India; drought tolerant parent of two mapping populations

ICCV 10 Widely adapted drought tolerant cultivar found promising in India and Kenya

JAKI 9218 Farmer-preferred cultivar in central and southern India

JG 11 Farmer-preferred cultivar in southern India and also performing well in Kenya

JG 130 Farmer-preferred cultivars from central India

JG 16 Farmer-preferred cultivar in northern and central India

ICCV 97105 Farmer-preferred elite line identified in Kenya and Tanzania

ICCV 00108 Farmer-preferred elite line identified in Tanzania

Eight well performing elite chickpea lines (TLI & TLII)

8 parents: A) ICC 4958, B) JAKI 9218, C) JG 130, D) ICCV 00108, E) ICCV 97105, F) ICCV 10, G) JG 11, H) JG 16

28 2-ways Oct 09 – Feb 10 Field

F1s raised and selfed in green house Mar 11- Jun 11

Current status of MAGIC populations

SSD method

SSD method

14 4-ways Jun 10- Sep 10 Green house

7 8-ways Oct 10-Feb 11 Field

F2s raised and selfed in green house Jun 11- Sep 11

1200 F3 progenies raised in field Oct 11- Feb 12

1200 F4 progenies raised in field Feb 12- May 12

Sharing the early generation of MAGIC lines

2-way crosses

These populations already shared with 4 NARS partners in India (IIPR-Kanpur, JNKVV-Jabalpur, RAKCA-Sehore, RARS-Nandyal) and will be sent to NARS partners in Ethiopia and Kenya during March 2012

8-way crosses

F4 populations to be shared during 2012-13

Milestones: 6. At least 768 informative SNPs for cultivated germplasm compiled 7. High-throughput and cost-effective SNP genotyping platform for at

least 768 SNPs made available 8. At least 5 candidate genomic regions identified for developing local

physical maps 9. Integrated QTL and physical map made available for selected 5

genomic regions 10. Sequence data for selected BAC contigs for 5 genomic regions

generated (Milestone for year 3) 11. 4 Additional markers from each of selected 5 QTL regions generated (Milestone for year 4)

Activity 2: Genomic resources

Efforts were initiated to develop genome-wide physical map for chickpea

Milestone completed

Milestone completed

Integrated QTL and physical maps developed for selected regions

LG1

LG2

LG3 LG4 LG5 LG6 LG7

LG8

Marker Loci: 1,291 Coverage: 845.56 cM

Comprehensive genetic map

Cost-effective SNP assays Illumina/Solexa 1G sequencing

Allele specific sequencing

Legume COSs

KASPar assays designed for 2,468 SNPs

2,005 KASPar assays validated (625 CKAMs mapped)

ADT score calculation

PIC value

96-plex OPAs for

BeadXpress system

ADT score >0.5 High PIC value

Homozygote

KASPar assays

Veracode assays for BeadXpress

Homozygote

Heterozygote

KASPar assays integrated in transcript map

Markers mapped : 1328 Map distance : 788.6cM Average number of markers/LG : 166 Average inter-marker distance : 0.59cM

Hiremath et al. 2012 Plant Biotech Jour

Towards genome-wide physical map

Clones CAH library CAE library Old library

Total

1st 2nd 1st 2nd 1st 2nd

Clones

targeted

29,664 5,376 29,568 5,376 337 773 71,094

(12X )

Clones with usable data

28,492 5,160 28,272 5,240 319 765 68, 248

Clones in FPC 18,285 3,502 22,571 3,926 319 765 49,368

Old library, 1st instance are the clones from which BES-SSR were developed Old library, 2nd instance are the RGH hybridizing clones

Fingerprinting statistics of different BAC-libraries

Collaboration: NIPGR, India and UC-Davis, USA

Clone statistics in contigs:

Total no. clones in 1,174 contigs 46,112

Range of clone in contigs 2 to 3,007

Average no. of clones in each contig 39.27

Genome coverage 8X

Genome represented 615 Mb

Band statistics in clones:

Total no. of bands in clones 318,971

Average no. of bands in clones 271.69

Range of bands in clones 34 to 2,268

Minimum tiling path (MTP):

Total no. of contigs 1,174

No of clones in MTP 4,290

Statistics of physical map Collaboration: NIPGR, India and UC-Davis, USA

Total number of BES-SSR markers integrated 259

Markers hitting singletons 25

Markers hitting contigs 234

Total number of contigs hit by markers 177

Anchoring physical map with chickpea genetic maps

131

38

6

1

1

Contigs hit by single marker

Contigs hit by 2 markers




Root trait QTL contribute >36% PV

Thudi et al. 2011, PLoS ONE

LG-04

LG-04

Clone ID Contig

(No of clones ;Size in Mb)

CAH1015M17

Ctg198 (33, 4.29)

BAC-contig close to drought related root trait QTL

30.7

cM

16.5

cM

LG-02

Iruela et al. 2007

R2 = 20 %

Ctg14 (40, 5.2)

CAH1041C17 Ctg1390 (2, 0.26)

CAH1041C17 Ctg1390 (2, 0.26)

CAH1034D19

Clone ID Contig (No. of clones; Size in Mb)

Thudi et al. 2011, PLoS ONE

LG-02

BAC-contigs covering genomic region for AB-QTL

LG-02

Udupa and Baum et al. 2003

ar3

ar1, ar2a

Milestones: 12. Phenotyping data collected and appropriate phenotyping methodology(ies) selected based

on detailed analysis of phenotyping data Appropriate phenotyping methodologies selected 13. At least 5 candidate markers for drought tolerance identified (Milestone for year 3) 14. At least 6 farmer-preferred varieties and donor genotypes identified Milestone completed 15. MABC programme being run by each NARS partner from Ethiopia and Kenya MABC program is being run by NARS partners in Ethiopia and Kenya 16. MABC products from Phase I evaluated by each NARS partner (Milestone for year 3) 17. At least 20 homozygous plants from BC3F2 progenies (MABC) of Phase II selected (Milestone for year 3) 18. 3 cycles of recombination completed for MARS (Milestone for year 3) 19. 2-4 farmer-preferred cultivars developed through MABC, and at least 10 superior lines

improved for drought tolerance for SSA and Asia through MARS (Milestone for year 4) 20. At lest 2 breeding populations of TLII genotyped for drought and FW-resistance markers

(Milestone for year 4) 25. A proposal to leverage funding for chickpea drought tolerance molecular breeding in South

Asia approved by the Indian Government for a period of 3-4 years (200K/year)

Activity 3: Drought tolerance

breeding

Milestone completed

ICC 4958 × ICC 1882 ICC 283 × ICC 8261 Reference set

Trait Reps Year Location Reps Year Location Reps Year Location

Root traits 3 2005, 2007

Patancheru 3 2006, 2008

Patancheru 3 2007, 2008, 2009

Patancheru

Yield and HI related traits

1 2005, 2006, 2007

Patancheru 1 2005, 2006, 2007

Patancheru 2 2008, 2009

EIAR Eger Uni IIPR

Yield and HI related traits rainfed and irrigated conditions

2 2008 2009

Patancheru Nandyal Sehore Patancheru Nandyal, Durgapura, Hiryeur

2 2010 Patancheru Nandyal, Durgapura

- - -

Transpiration efficiency (δ13C) in rainfed and irrigated conditions

2 2008 2009

Patancheru Nandyal Sehore Patancheru Nandyal, Durgapura, Hiryeur

2 2010 Patancheru Nandyal, Durgapura

3 2008 2009

Patancheru Patancheru

Data analysis completed

Analysis of phenotyping data for drought tolerance

(Milestone 12)

High-quality genotyping data for 1871 markers (from 1956) -1072 DArTs, -764 SNPs (651 SNPs, 113 SNPs from 9 candidate genes) -35 SSRs

Reference set showed enormous diversity for reactions towards terminal drought

Large variations for root traits such as

root length density, root dry weight, root volume, root surface area and root/shoot area

Large range variations were also detected

for the transpiration efficiency related traits such as ∆13C, specific leaf area and the SPAD chlorophyll meter readings

Phenotyping on reference set- (i)

∆13C, SLA and SPAD chlorophyll meter readings - negatively and closely associated with the rate of partitioning

Phenotyping for the root traits and for the rate of partitioning account for a total trait based drought tolerance assessment and as a long term phenotyping strategy

Yield based phenotyping seems more appropriate and there is a need to continue to use this approach

Phenotyping on reference set- (ii)

Group I Group II

Group III

Towards GWAS analysis..

A set of 85 DArT loci, equally distributed on chickpea genome ΔK/K indicate three subpopulations in reference set

Trait No of

markers

Range of

p value

R2 (%)

Root volume 9 8.9E-4 - 1.28E-5 4 - 13

Root dry weight 13 9.8E-4 - 3.63E-6 4 - 17

Rooting depth 1 8.80E-4 4

Root surface area 10 9.4E-4 - 1.1E-5 4 - 18

R-T ratio (%) 2 6.0E-4 - 5.2E-5 4 - 12

Root length

density

10 9.5E-4 - 4.8E-5 4 - 6

MTAs for root traits

Traits No of

markers

P values R2

Days to flowering 14 9.7E-4 - 1.7E-5 4 - 23

Days to maturity 28 9.8E-4 - 2.1E-5 4 - 25

Seeds per pod 38 8.8E-4 - 1.3E-10 4 - 26

Pods/plant 57 9.5E-4 - 4.3E-7 4 - 18

100 seed weight 47 0.9E-4 - 5.6E-14 4 - 42

Yield 28 0.9E-4- 3.3E-5 2 - 15

Production 3 9.9E-4 -2.3 E-4 5 - 11

Biomass 9.6E-4 - 5.0E-8 4 - 17

Harvest index 15 9.6E-4 - 2.3E-5 4 - 9

Total dry matter

weight

18 8.9 E-4 -7.15E-7 4 - 14

13C 19 8.4E-4 - 1.72E-6 4 - 17

SPAD 1 2.70E-4 6

SLA 6 9.3E-4 - 4.3E-5 4 - 23

MTAs for phenological and yield related traits

Crosses: 3 Cultivars x 2 Donors for root traits ↓

BC1: Cultivar x F1

↓ BC1F1

BC 2:Cultivar x BC1F1

↓ BC2F1

Subjected to foreground and background selection

BC 3: Cultivar x BC2F1

As in BC2

↓ BC3F1

Selected heterozygous plants for QTL-linked markers and over 90% genome of the recurrent parent

↓ BC3F2

Select homozygous plants for QTL-linked markers ↓

Seed multiplication BC3F3 ↓

Multilocation evaluation BC3F4 lines

MABC for improving drought tolerance (TL I, Phase I)

D O N E

JG 11

JG 11 x ICC 4958

JG11

ICC 4958

Heterozygous for both alleles

Homozygous for A allele

Homozygous for B alleles

Phenotyping of MABC products in ROS

BC3F3 lines phenotyped in ROS for assessing root traits

Enhanced root length MABC products from ICC 4958

JG11

ICC 4

958

BC3F3 progenies

0.5

0.7

0.9

1.1

1.3

1.5

1.7

ICC

49

58

ICC

18

82

(2

01

0)

JG

11

ICC

X-

09

00

13

-F

2-P

17

3

ICC

X-

09

00

13

-F

2-P

24

2

ICC

X-

09

00

13

-F

2-P

18

7

ICC

X-

09

00

13

-F

2-P

15

0

ICC

X-

09

00

13

-F

2-P

10

5

Me

an

of

BC

3F

3s

Ro

ot

dry

we

igh

t (g

cyli

nd

er-

1)

0.20

0.25

0.30

0.35

0.40

0.45

0.50

ICC

4

95

8

ICC

1

88

2

(20

10

)

JG

11

ICC

X-

09

00

13

-F

2-P

10

5

ICC

X-

09

00

13

-F

2-P

18

7

ICC

X-

09

00

13

-F

2-P

21

6

ICC

X-

09

00

13

-F

2-P

24

2

ICC

X-

09

00

13

-F

2-P

17

3

Me

an

of

BC

3F

3s

RL

D (

cm

cm

-3)

Evaluation of MABC products (BC3F3)

Vertical bars denote standard error of differences. The means were significantly different at 0.001 level and were based on 8 replicated cylinders with 2 plants in each cylinder)

Donor line Elite line

Donor line Elite line

MABC lines

MABC lines

Evaluation of MABC products (BC3F4)

Evaluation of BC3F4 lines in field conditions

Evaluated under water-stressed and unstressed conditions at multi-locations (3 locations in India and 3 locations in Africa) during 2011/12

Evaluation of BC3F4 for grain yield (Nandyal)

Evaluation of BC3F4 for 100 seed weight (Nandyal)

MABC by NARS partners

NARS partner Cross Generation Student/person involved

EIAR, Ethiopia Ejere × ICC 4958 BC2F1 Musa Jarso

EU, Kenya ICCV 97105 × ICC 4958 BC4F1 Serah Songok

ICCV 95423 × ICC 4958 BC3F3 Mosses Oyier

IIPR, India DCP92-3 × ICC 4958 BC1F1 KR Soren/ Subhojit Datta

KWR108 × ICC 4958 BC2F1 KR Soren/ Subhojit Datta

IARI, India Pusa 362 × ICC 4958 BC1F1 Shailesh Tripathi

× Donor parent

(ICC 4958)

Recurrent parent (RP) (ICCV 95423)

BC1F1

F1

BC2F1

RP

RP

RP

×

×

×

BC3F1

BC3F2

BC3F3

1st Backcross

2nd Backcross

Selfing

3rd Backcross

Selfing

•6-seeds sowed,2-selected (True F1s)

•40-seeds sowed

•42-seeds sowed,10-selected (Foreground selection)

•42-seeds sowed, 6-selected (Foreground selection)

•96-seeds sowed. 7-1st selection (Foreground & background) >90% genome recovery

•Seed multiplication

Greenhouse (July 2010)

Crop Season (October 2010)

Greenhouse (April 2011)



1st cross

•96-seeds sowed, 37-selected (Foreground selection)

•40-germinated

•14 seeds harvested




•150 seeds harvested(BC3F2)

•Harvesting- on going



•Remaining seeds to be sowed in this crop season of 2011

MABC status in ICCV 95423 (Kenya)

× Donor parent

(ICC 4958)

Recurrent parents (RPs) (ICCV 97105)

BC1F1

F1

BC2F1

RP

RP

RP

×

×

×

BC3F1

BC4F1

1st Backcross

2nd Backcross

4th Backcross

3rd Backcross

•19-seeds sowed, 16 germinated and 5 selected

40-seeds sowed

•32-seeds sowed, 27 seeds germinated

•19-selected (Foreground selection)


30 seeds planted, only six germinated, to be confirmed for true heterozygosity.

Breeding cage (Dec 2010)

Crop Season (April 2011)

Rain shelter (April 2012)

Rain shelter April 2012)

1st cross

•40 seeds sowed, 33 seeds germinated. Foreground selection to be done in April 2012 to select BC3F1

•39-germinated





Greenhouse (Jan 2010)


RP

×

RP ×

MABC status in ICCV 97105 (Kenya)

MABC status in Ejere (Ethiopia)

NARS partners practicing modern breeding

Serah Alice

Paul Robert

NARS partners practicing modern breeding

Musa Jarso marker analysis for MABC crosses

Mosses oyier marker analysis for MABC crosses

× Donor parent

(ICC 4958)

Recurrent parent (RP)

(ICCV 10)

BC1F1

F1

BC2F1

RP

RP

RP

×

×

×

BC3F1

BC3F2

BC3F3

1st Backcross

2nd Backcross

Selfing

3rd Backcross

Selfing

•3-seeds sowed,3-selected (True F1s)

•40-seeds sowed



•96-plants,21-selected( Foreground & Background selection) >90%genome recovery

•Seed Multiplication






1st cross


•3-seeds harvested

•37-germinated







BC3F4 Seeds available March 2012

MABC status in ICCV 10 (Indian project)

10-May-12 47

F1

BC1F1

(Off season 2011)

Back cross

DCP92-3 ICC 4958 ×

F1

BC2F1

KWR108 (P1)

ICC 4958 (P2)

×

BC1F1

MARKER : TA18

150bp 130bp

Back cross

MABC status @ IIPR (Indian project)

Off-season 2011 (June-Sept/Oct) The true F1s harvested from main season were sown in pots in GH along with parents

Hybridity of the F1s was checked using marker TAA170 and 5 heterozygotes were selected for making backcrosses.

BC1F1 seeds (8) were sown in field in Nov 2011 along with recurrent parent (Pusa 362) for backcrossing

Rabi 2011-12 FG selection for the linked polymorphic markers was done with TAA170, ICCM0249 and GA24.

5 BC1F1 heterozygotes showed presence of alleles from both the parents

BC2F1s subjected to FG and BG selection. (May/June 2012)

BC1F1 Pusa 362

Pusa 362

MABC status @ IARI (Indian project)

Pusa 362

Pop

ula

tion

dev

elop

men

t R

ecom

bin

ati

on

P

op

ula

tion

dev

elop

men

t

1st Recombination cycle

2nd Recombination cycle

3rd Recombination cycle

Multilocation phenotyping

Genotyping

Parent 1 × Parent 2

F1

F2

F3

F3:4

F3:5

Single seed descent

282 F3 progenies

282 progenies

Multilocation phenotyping

A B C D E F G H

F1 F1 F1 F1

F1 F1

F1

F2

F3

F3:4

10 plants/family (A-H), 6 sets of 8 families/cross

QTL detection

JG 11 × ICC 04112 JG 130 × ICC 05107

Kenya, Ethiopia and India Rainfed and irrigated environments (2010-11)

70 marker 92 markers

QTL analysis completed

Marker-assisted recurrent selection (MARS)

MARS lines for recombination cycles selected

OptiMAS

Indian project

TLI Phase II

files%5CJG11%20Selected%20plants%5CMARS-jg11_Traits_Patancheru_32_ABHI_TLI.xlsx


Phenotyping of MARS population in Kenya & Ethiopia

Kenya

Ethiopia

MARS lines selected (JG 130 × ICCV 05107)

0

500

1000

1500

2000

2500

3000

Seed Y

ield (kg/

ha)

Selected Lines

Patancheru (weighted)

IR

RF

0

500

1000

1500

2000

2500

3000

Seed Y

ield (kg/

ha)

Selected Lines

Patancheru (un-weighted)

IR

RF

Also selected for HI, biomass

files%5CJG130%20selected%20plants%5CICRISAT%5CFinal%20table%20for%20JG130_ICRISAT_IR_RF_Weighted%20and%20no%20weighted.xlsx


0

500

1000

1500

2000

2500

3000

Seed Y

ield (kg/

ha)

Selected Lines

Kenya (un-weighted)

LR

SR

0

500

1000

1500

2000

2500

3000

Seed Y

ield

(kg/

ha)

Selected Lines

Kenya (weighted)

LR

SR

Also selected for HI, biomass

files%5CJG130%20selected%20plants%5CKenya%5CFinal%20table%20for%20JG130_Kenya_LR&SR_Weighted%20and%20no%20weighted.xlsx


Also for Biomass, HI


Milestones: 21. One modern breeding workshop organized for TLI and

TLII breeders (Milestone for year 2) 22. 4 MSc and 2 PhD students trained in chickpea

genomics and breeding activities (Milestone for year 4)

Activity 4: Capacity building

Milestone completed- 16 scientists (12 from five countries of Africa and 4 from four countries from Asia) trained in 4 week long workshop

PhD students Ms Serah Songok (Egerton University), Mr Musa Jarso (Addis Ababa University), Ms Alice Koskie (West Africa Centre for Crop Improvement) Mr Kebede Teshome (Haramaya University) MSc students Mr Abebe Sori (Haramaya University), Mr Moses Oyier (Egerton University), Mr Getachew Tilahun (Addis Ababa University).

Activity 5: Managing data

Milestones: 23. At least 8 datasets comprising marker sequence data,

marker genotyping data, mapping data and phenotyping data obtained in Phase I curated in appropriate databases

12 Datasets were curated on to IChIS, CMap, GDMS and local databases

24. At least 10 datasets comprising marker genotyping and/or phenotyping data on reference collection, mapping populations, MAGIC populations, MABC and MARS populations obtained in Phase II curated in appropriate databases (Milestone for year 4)

Links between TLI and TLII

Drought tolerant MAGIC lines will be very useful for the TLII community

Access to a larger number of informative SSR and SNP markers associated with drought tolerance

Better phenotyping methodologies selected can be transferred to TLII for use in breeding programmes

MABC products being transferred to TLII

Cost-effective SSR, DArT and SNP genotyping platform for fingerprinting TLII breeding lines

Take home message….

44 pre-breeding populations and 1200 F4 MAGIC progenies developed

Cost-effective KASPar/ Veracode assays developed, SNPs integrated in genetic map and published open access articles; efforts are underway to link QTLs to physical map

Phenotyping data analysis completed and GWAS study initiated

BC3F4 lines from Phase I evaluated under multi-location trials and several MABC programme being run by NARS partners and MARS cycles are underway; PhD and MSc students undertaking molecular breeding work

Several datasets from Phase I already curated

• ICRISAT, Patancheru,India: Pooran Gaur, Krishnamurthy L Mahendar Thudi, Trushar Shah, SivaKumar, A Rathore, Rachit Saxena, Prasad Peteti, Manish Roorkiwal, Pavana Hiremath

• ICRISAT, Nairobi, Kenya: NVPR Ganga Rao, Said Silim

• EIAR, Addis Ababa, Ethiopia: Asnake Fikre, Musa Jarso

• �Egerton University, Kenya: Paul Kimurto, Richard Mulwa, Serah Songok, Mosses Oyier

• IIPR, India: N Nadarajan, S Datta, KR Soren

• IARI, India: Shailesh Tripathi, Ch Bharadwaj

• UC-Davis, USA: Mingcheng Luo and Doug Cook

• NIPGR, India: Sabhyata Bhatia, AK Tyagi

Many thanks to all contributors

VI International Conference on Legume Genetics and Genomics

(VI ICLGG) Hyderabad Marriott Hotel & Convention Center, Hyderabad, India

October 2-7, 2012

www.icrisat.org/gt-bt/VI-ICLGG/Homepage.htm

[email protected]; [email protected]

Conference Topics:

• Next generation genomics

• Nutrition

• Development

• Evolution and Diversity

• Symbiosis

• Abiotic Stress

• Pathogenesis and disease

resistance

• Translational genomics

• Genomics-assisted breeding

• Harnessing germplasm resources

Featured Speakers: David Bertioli, Catholic Uni, Brazil

Doug Cook, UC-Davis, USA

Martin Crespi, ISV-CNRS, France

Jeff Doyle, Cornell Uni, USA

Peter Gresshoff, Queensland Uni, Australia

Valérie Geffroy, Paris Uni-Sud, France

CLL Gowda, ICRISAT, India

Georgina Hernández, UNAM, Mexico

T J Higgins, CSIRO, Australia

Sachiko Isobe, KDRI, Japan

Scott Jackson, Purdue Uni, USA

Eva Kondorosi, IPG-Szeged, Hungary

Günter Kahl, FrankfurtUni, Germany

Suk-Ha Lee, Seoul National Uni, Korea

Da Luo, Sun Yat Sen Uni, China

Greg May, NCGR, USA

Henry Nguyen, Missouri Uni, USA

N Nadarajan, IIPR, India

Giles Oldroyd, JIC, UK

Karam Singh, CSIRO/UWA, Australia

Richard Thompson, INRA-Dijon, France

Ana Torres, IFAPA, Spain

Michael Udvardi, Noble Foundation, USA

Carroll Vance, Minnesotta Uni, USA

Bert Vandenberg, Saskatchewan Uni, Canada

… and many more !

tli 2012: chickpea research progress

Technology

f2 single plants seediccv

f2 single plants seediccril

iccv f

f2 crossesiccv

single plantsiccx

f2p35 icc

pre breeding lines

iccv 10f7 seed progenies