Watch the video on progress in chickpea research in India, Ethiopia and Kenya at: http://www.youtube.com/watch?v=usXqP2_374A&feature=plcp

1. Objective 4- CHICKPEA

2. 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)

3. Activity 1: Harnessing Diversity
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
44 Pre-breeding populations were generated at ICRISAT, Kenya and Ethiopia
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)
1200 F4 progenies from 8 parental lines from 28 2-ways, 14 4-ways and
7 8-ways crosses
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)

4. Progress under Activity 1

5. 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
ICCX-070100 ICCV 05530 ICCV 10 Aschochyta nurseries
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

6. 17 Pre-breeding populations
@ ICRISAT, Patancheru
Cross Female parent Male parent Remarks
ICCX-070164 ICC 12475 ICC 1431 F6 seed harvested from 4
progenies
ICCX-060037
Summary of pre-breeding populations harvested from 15
ICCV 04112 ICCV 10 F7 seed
progenies and 1 line evaluated
Crosses in F4 :4 in preliminary yield trail
Crosses in 105
ICCX-060046 ICCV F : 1 ICC 9942 F7 seed harvested from 15
progenies and 1 line evaluated
Crosses in F6 :9 in preliminary yield trail
Crosses in F7
ICCX-060133 KAK 2 : 3 4958 3 F6 progeny bulks harvested
ICC
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

7. 20 Pre-breeding populations
@ ICRISAT, Nairobi
Cross detail Remarks
ICCRIL 03-0135 × 5 F2 single plants seed
ICCRIL 04-0239 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
ICCV 15333 × ICCV 4958 4 F2 single plants seed
available
ICCRIL 04-0239 × 3 F2 single plants seed
ICCV 03-0135 available
ICCV 15333 × 7 F2 single plants seed
ICCRIL 04-0239 available
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 × 1 F2 single plants seed
ICCV 583311 available
ICCV 583311 × ICCV 506 16 F2 single plants
seed available
ICCV 4958 × ICCRIL 03-0135 2 F2 single plants seed
available

8. 20 Pre-breeding populations
@ ICRISAT, Nairobi-con’t
Cross Remarks
ICCV 583311 × 16 F2 single plants seed
ICCV 506 available for evaluation
ICCV 4958 × 2 F2 single plants seed
ICCRIL 03-0135 available for evaluation
ICCV 1052 × 9 F2 single plants seed
ICCRIL 04-0239 available for evaluation
ICCV 1052 × 8 F2 single plants seed
ICCV 4958 available for evaluation
ICCV 1052 × 15 F2 single plants seed
ICCV 15333 available for evaluation
ICCRIL 03-0135 × 8 F2 single plants seed
ICCV 4958 available for evaluation
ICCV 4958 × 5 F2 single plants seed
ICCRIL 04-0239 available for evaluation
ICCV 506 × 13 F2 single plants seed
ICCV 583311 available for evaluation
ICCV 1052 × 7 F2 single plants seed
ICCRIL 03-0135 available for evaluation
Seed from 20 F2
ICCRIL 04-0239 × 3 F2 single plants seed crosses harvested
ICCV 15333 available for evaluation

9. 5 Pre-breeding populations
@ EU, Kenya
 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

10. 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

11. For MAGIC populations
Eight well performing elite chickpea lines (TLI & TLII)
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

12. Current status of MAGIC
populations
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
14 4-ways
Jun 10- Sep 10
Green house
7 8-ways
Oct 10-Feb 11
Field
F1s raised and selfed in green house Mar 11- Jun
11
F2s raised and selfed in green house Jun 11- Sep 11
SSD method
1200 F3 progenies raised in field Oct 11- Feb 12
SSD method
1200 F4 progenies raised in field Feb 12- May 12

13. Sharing the early generation
of MAGIC lines
2-way These populations
crosses 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 F4 populations to be
crosses shared during 2012-13

14. Activity 2: Genomic resources
Milestones:
6. At least 768 informative SNPs for cultivated germplasm compiled
Milestone completed
7. High-throughput and cost-effective SNP genotyping platform for at
least 768 SNPs made available
Milestone completed
8. At least 5 candidate genomic regions identified for developing local
physical maps
Efforts were initiated to develop genome-wide physical map for chickpea
9. Integrated QTL and physical map made available for selected 5
genomic regions
Integrated QTL and physical maps developed for selected 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)

15. Progress under Activity 2

16. Comprehensive genetic map
LG8
LG2
LG1
Marker Loci: 1,291
Coverage: 845.56 cM LG7
LG3 LG4 LG5 LG6

17. Cost-effective Homozygote
SNP assays
Legume COSs Illumina/Solexa Allele specific Heterozygote
1G sequencing sequencing
Homozygote
KASPar assays designed
for 2,468 SNPs
2,005 KASPar assays validated KASPar assays
(625 CKAMs mapped)
ADT score
PIC value
calculation
ADT score >0.5 High PIC value
96-plex OPAs for
Veracode assays
BeadXpress system for BeadXpress

18. KASPar assays integrated
in transcript map
Markers mapped : 1328
Map distance : 788.6cM
Hiremath et al. 2012 Average number of markers/LG : 166
Plant Biotech Jour Average inter-marker distance : 0.59cM

19. Towards genome-wide
physical map
Collaboration: NIPGR, India and UC-Davis, USA
Fingerprinting statistics of different BAC-libraries
Clones CAH library CAE library Old Total
library
1st 2nd 1st 2nd 1st 2nd
Clones 29,664 5,376 29,568 5,376 337 773 71,094
targeted (12X )
Clones with 28,492 5,160 28,272 5,240 319 765 68, 248
usable data
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

20. Statistics of physical map
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

21. Anchoring physical map with
chickpea genetic maps
Total number of BES-SSR markers integrated 259
Markers hitting singletons 25
Markers hitting contigs 234
Total number of contigs hit by markers 177
Contigs hit by 5 markers 1
Contigs hit by 4 markers 1
Contigs hit by 3 markers 6
Contigs hit by 2 markers 38
Contigs hit by single marker 131

22. BAC-contig close to drought
related root trait QTL
LG-04 Clone ID Contig
Root trait QTL (No of clones ;Size in Mb)
contribute >36% PV
LG-04
CAH1015M17 Ctg198 (33, 4.29)
Thudi et al. 2011, PLoS ONE

23. BAC-contigs covering genomic
region for AB-QTL
LG-02 Clone ID Contig (No. of clones; Size in Mb)
LG-02
CAH1041C17 Ctg1390 (2, 0.26)
30.7 cM LG-02
16.5 cM
ar3
ar1,
ar2a
R2 = 20 %
CAH1041C17 Ctg1390 (2, 0.26)
Iruela et al. 2007
CAH1034D19 Ctg14 (40, 5.2)
Udupa and Baum
et al. 2003
Thudi et al. 2011, PLoS ONE

24. Activity 3:
Drought tolerance
breeding
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)
Milestone completed

25. Progress under Activity 3

26. Analysis of phenotyping data
for drought tolerance
(Milestone 12)
ICC 4958 × ICC 1882 ICC 283 × ICC 8261 Reference set
Trait Reps Year Location Reps Year Location Reps Year Location
Root traits 3 2005, Patancheru 3 2006, Patancheru 3 2007, Patancheru
2007 2008 2008,
2009
Yield and HI 1 2005, Patancheru 1 2005, Patancheru 2 2008, EIAR
related traits 2006, 2006, 2009 Eger Uni
2007 2007 IIPR
Yield and HI 2 2008 Patancheru 2 2010 Patancheru - - -
related traits Nandyal Nandyal,
rainfed and Sehore Durgapura
irrigated
conditions 2009 Patancheru
Nandyal,
Durgapura,
Hiryeur
Transpiration 2 2008 Patancheru 2 2010 Patancheru 3 2008 Patancheru
efficiency Nandyal Nandyal, 2009 Patancheru
(δ13C) in Sehore Durgapura
rainfed and High-quality genotyping data
irrigated 2009 Patancheru for 1871 markers (from 1956)
conditions Nandyal,
Durgapura, -1072 DArTs,
Hiryeur -764 SNPs (651 SNPs, 113 SNPs
from 9 candidate genes)
Data analysis completed -35 SSRs

27. Phenotyping on
reference set- (i)
 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

28. Phenotyping on
reference set- (ii)
 ∆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

29. Towards GWAS analysis..
A set of 85 DArT loci, equally
distributed on chickpea genome
ΔK/K indicate three
subpopulations Group I Group II
in reference set
Group III

30. MTAs for
root traits
Trait No of Range of R2 (%)
markers p value
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 10 9.5E-4 - 4.8E-5 4-6
density

31. MTAs for phenological
and yield related traits
Traits No of P values R2
markers
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 18 8.9 E-4 -7.15E-7 4 - 14
weight
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

32. MABC for improving drought
tolerance (TL I, Phase I)
Crosses: 3 Cultivars x 2 Donors for root traits
↓
BC1: Cultivar x F1
↓ JG 11
BC1F1
D BC 2:Cultivar x BC1F1
JG 11 x ICC 4958
O ↓
BC2F1
N Subjected to foreground and background selection
E BC 3: Cultivar x BC2F1
As in BC2
↓
BC3F1
Selected heterozygous plants for QTL-linked markers JG11
and over 90% genome of the recurrent parent
↓ ICC 4958
BC3F2
Select homozygous plants for QTL-linked markers Heterozygous
↓ for both alleles
Seed multiplication BC3F3
↓ Homozygous
Multilocation evaluation BC3F4 lines for B alleles
Homozygous
for A allele

33. Phenotyping of MABC
products in ROS
BC3F3 lines phenotyped in ROS for
assessing root traits

34. Enhanced root length MABC
ICC 4958 products from ICC 4958
BC3F3 progenies
JG11

35. Evaluation of MABC
products (BC3F3)
1.7
Donor line Elite line MABC lines
Root dry weight (g cylinder-1)
1.5
1.3
1.1
0.9
0.7
0.5
F2-P173
F2-P242
F2-P187
F2-P150
F2-P105
BC3F3s
ICC 4958
ICC 1882
JG 11
Mean of
090013-
090013-
090013-
090013-
090013-
ICCX-
ICCX-
ICCX-
ICCX-
ICCX-
(2010)
0.50
Donor line Elite line MABC lines
0.45
0.40
RLD (cm cm-3)
0.35
0.30
0.25
0.20
(2010)
F2-P105
F2-P187
F2-P216
F2-P242
F2-P173
4958
JG 11
BC3F3s
Mean of
090013-
090013-
090013-
090013-
090013-
ICC
1882
ICCX-
ICCX-
ICCX-
ICCX-
ICCX-
ICC
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)

36. Evaluation of MABC
products (BC3F4)

37. 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

38. Evaluation of BC3F4 for
grain yield (Nandyal)

39. Evaluation of BC3F4 for
100 seed weight (Nandyal)

40. 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

41. MABC status in ICCV 95423
(Kenya)
Crop Season Recurrent Donor parent •40-seeds sowed
(October 2009) parent (RP) × (ICC 4958) •40-germinated
(ICCV 95423)
1st cross
Greenhouse
•14 seeds harvested
(April 2010) RP × F1
•6-seeds sowed,2-selected (True F1s)
1st Backcross
Greenhouse •49 seeds harvested
(July 2010)
RP × BC1F1
•42-seeds sowed,10-selected (Foreground selection)
2nd Backcross
Crop Season
•89 seeds harvested
(October 2010) RP × BC2F1
•42-seeds sowed, 6-selected (Foreground selection)
3rd Backcross
Greenhouse •250 seeds harvested
BC3F1
(April 2011) •96-seeds sowed, 37-selected (Foreground selection)
Selfing •Remaining seeds to be sowed in this crop season of 2011
Greenhouse
BC3F2 •150 seeds harvested(BC3F2)
(July 2011)
•96-seeds sowed. 7-1st selection (Foreground & background)
Selfing >90% genome recovery
Crop Season BC3F3
•Harvesting- on going
(October 2011) •Seed multiplication

42. MABC status in ICCV 97105
(Kenya)
Greenhouse Recurrent Donor parent 40-seeds sowed
(Jan 2010) parents (RPs) × (ICC 4958) •39-germinated
(ICCV 97105)
1st cross
Greenhouse
•23 seeds harvested
(April 2010) RP × F1
•19-seeds sowed, 16 germinated and 5 selected
1st Backcross
Breeding cage RP •42 seeds harvested
BC1F1
(Dec 2010) × •32-seeds sowed, 27 seeds germinated
2nd Backcross
•19-selected (Foreground selection)
Crop Season
•37 seeds harvested
(April 2011) RP × BC2F1
•30-seeds sowed,17-selected (Foreground selection)
3rd Backcross
Rain shelter •84 seeds harvested
(April 2012)
RP × BC3F1
•40 seeds sowed, 33 seeds germinated. Foreground
4th Backcross selection to be done in April 2012 to select BC3F1
Rain shelter
April 2012) RP × BC4F1
30 seeds planted, only six germinated, to be
confirmed for true heterozygosity.

43. MABC status in Ejere
(Ethiopia)

44. NARS partners practicing
modern breeding
Serah Alice
Robert Paul

45. NARS partners practicing
modern breeding
Musa Jarso
marker analysis for MABC crosses
Mosses oyier
marker analysis for MABC
crosses

46. MABC status in ICCV 10
(Indian project)
Crop Season Recurrent Donor parent •40-seeds sowed
(October 2009) parent (RP)
(ICCV 10)
× (ICC 4958) •37-germinated
1st cross
Greenhouse
(April 2010)
RP × F1 •3-seeds harvested
•3-seeds sowed,3-selected (True F1s)
1st Backcross
Greenhouse
(July 2010)
RP × BC1F1 •69 seeds harvested
•42-seeds sowed,12-selected (Foreground selection)
2nd Backcross
Crop Season
(October 2010)
RP × BC2F1 •50 seeds harvested
•25-seeds sowed,15-selected (Foreground selection)
3rd Backcross
Greenhouse BC3F1 •250 seeds harvested
(July 2011) •96-seeds sowed,31-selected (Foreground selection)
Selfing
Greenhouse BC3F2 •150 seeds harvested
(July 2011) •96-plants,21-selected( Foreground & Background selection)
Selfing >90%genome recovery
Crop Season BC3F3 •Seed Multiplication
(October 2011)
BC3F4 Seeds available March 2012

47. MABC status @ IIPR
(Indian project)
KWR108 × ICC 4958
DCP92-3 × ICC 4958
(P1) (P2)
MARKER : TA18 F1
(Off season 2011)
F1
150bp Back
130bp
cross
BC1F1
Back BC1F1
cross
BC2F1
10-May-12 47

48. MABC status @ IARI
(Indian project)
Off-season 2011 (June-Sept/Oct) Pusa 362
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.
BC1F1 Pusa 362
5 BC1F1 heterozygotes showed presence of Pusa 362
alleles from both the parents
BC2F1s subjected to FG and BG selection.
(May/June 2012)

49. Marker-assisted recurrent
selection (MARS)
Parent 1 × Parent 2 JG 11 × ICC 04112 JG 130 × ICC 05107
Population development
F1 Indian TLI
F2 Single seed descent project Phase II
282 F3 progenies
F3 Genotyping 70 marker 92 markers
F3:4 282 progenies
F3:5
QTL detection
Multilocation phenotyping Kenya, Ethiopia and India
Recombination
10 plants/family (A-H), 6 sets of 8 families/cross Rainfed and irrigated environments
1st Recombination cycle A B C D E F G H (2010-11)
2nd Recombination cycle F1 F1 F1 F1
3rd Recombination cycle F1 F1 QTL analysis completed
F1
Population development
F2 OptiMAS
MARS lines for
F3
F3:4
recombination cycles
selected
Multilocation phenotyping

50. Phenotyping of MARS population
in Kenya & Ethiopia
Ethiopia
Kenya

51. MARS lines selected
(JG 130 × ICCV 05107)
Patancheru (weighted)
3000
2500
Seed Yield (kg/ha)
2000
1500
1000 IR
500
RF
0
Selected Lines
Patancheru (un-weighted)
3000
2500
Seed Yield (kg/ha)
2000
1500
1000 IR
500
RF
0
Selected Lines
Also selected for HI, biomass

52. MARS lines selected
(JG 130 × ICCV 05107)
Kenya (weighted)
3000
2500
Seed Yield (kg/ha)
2000
1500
1000 LR
500
SR
0
Selected Lines
Kenya (un-weighted)
3000
2500
Seed Yield (kg/ha)
2000
1500
1000 LR
500
SR
0
Selected Lines
Also selected for HI, biomass

53. MARS lines selected
(JG 11 × ICCV 04112)
Also for Biomass, HI

54. MARS lines selected
(JG 11 × ICCV 04112)
Also for Biomass, HI

55. Activity 4: Capacity building
Milestones:
21. One modern breeding workshop organized for TLI and
TLII breeders (Milestone for year 2)
Milestone completed- 16 scientists (12 from five countries of
Africa and 4 from four countries from Asia) trained in 4 week long
workshop
22. 4 MSc and 2 PhD students trained in chickpea
genomics and breeding activities (Milestone for year 4)
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).

56. 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)

57. 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

58. 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

59. Many thanks to
all contributors
• 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

60. VI International Conference on Legume Genetics and Genomics
(VI ICLGG)
Hyderabad Marriott Hotel & Convention Center, Hyderabad, India
October 2-7, 2012 Featured Speakers:
David Bertioli, Catholic Uni, Brazil
Doug Cook, UC-Davis, USA
Martin Crespi, ISV-CNRS, France
Conference Topics: Jeff Doyle, Cornell Uni, USA
Peter Gresshoff, Queensland Uni, Australia
• Next generation genomics Valérie Geffroy, Paris Uni-Sud, France
CLL Gowda, ICRISAT, India
• Nutrition Georgina Hernández, UNAM, Mexico
T J Higgins, CSIRO, Australia
• Development Sachiko Isobe, KDRI, Japan
• Evolution and Diversity Scott Jackson, Purdue Uni, USA
Eva Kondorosi, IPG-Szeged, Hungary
• Symbiosis Günter Kahl, FrankfurtUni, Germany
Suk-Ha Lee, Seoul National Uni, Korea
• Abiotic Stress Da Luo, Sun Yat Sen Uni, China
Greg May, NCGR, USA
• Pathogenesis and disease Henry Nguyen, Missouri Uni, USA
resistance N Nadarajan, IIPR, India
Giles Oldroyd, JIC, UK
• Translational genomics Karam Singh, CSIRO/UWA, Australia
• Genomics-assisted breeding Richard Thompson, INRA-Dijon, France
Ana Torres, IFAPA, Spain
• Harnessing germplasm resources Michael Udvardi, Noble Foundation, USA
Carroll Vance, Minnesotta Uni, USA
Bert Vandenberg, Saskatchewan Uni, Canada
… and many more !
www.icrisat.org/gt-bt/VI-ICLGG/Homepage.htm
ICLGG2012@gmail.com; r.k.varshney@cgiar.org