Tropical Legumes 1 Objective 2 Improve cowpea productivity for marginal

environments in sub-Saharan Africa

Phil Roberts Tim Close Bao Lam Huynh ndash UC Riverside Ndiaga Cisse Penda Sarr - ISRA Senegal Issa Drabo Jean-Baptiste Tignegre - INERA Burkina Faso Rogerio Chiulele Arsenio Ndeve - E Mondlane U Mozambique Ousmane Boukar Sam Ofodile Christian Fatokun - IITA Nigeria

TL1 Phase II (June 2010 ndash present)

bull Activity 1 Develop MAGIC population

bull Activity 2 Develop genomic resources in support of marker-assisted breeding

bull Activity 3 Employ MARS and MABC to develop improved breeding lines

bull Activity 4 Capacity Building

bull Activity 5 Curate and Store Phase I and II Data

G3 300 4-way x 4-way intercrosses yielding 8-way F1s Fall 2011

G2 ~330 pair crosses made Spring 2011

Activity 1 Product MAGIC population

G4 Single seed descent of F2s 2012-2013

o Most now at F6 ndash F7 seed

2-ways amp 8-ways SNP-validated 2012-2013

Activity 2 Products Genomic resources in support of marker-assisted breeding

a Improved consensus map

b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions (eg SNP selection)

c Sets of markers were selected and data produced for MARS and MABC

d QTL discovered in 3 of 5 MARS populations - ICI Mapping (IBP tool)

e Breeding values amp selection indices developed for MARS individuals for intermating ndash OptiMAS (IBP tool)

f QTL for heat tolerance and aphid resistance discovered in elite populations

2a Improved Consensus Map (v6)

bull 11 RIL populations

bull rogues removed

bull 1117 genotyped

bull 1091 mapped SNPs

bull 816 bins

bull improved order

bull clarified synteny with other legumes

Latest version (v6) available on wwwHarvESTCowpea Last published version (v4) is in Lucas et al 2011 Cowpea (Vu) and common

bean (Pv) synteny

TL1 Phase II (June 2010 ndash present)

bull Activity 1 Develop MAGIC population

bull Activity 2 Develop genomic resources in support of marker-assisted breeding

bull Activity 3 Employ MARS and MABC to develop improved breeding lines

bull Activity 4 Capacity Building

bull Activity 5 Curate and Store Phase I and II Data

G3 300 4-way x 4-way intercrosses yielding 8-way F1s Fall 2011

G2 ~330 pair crosses made Spring 2011

Activity 1 Product MAGIC population

G4 Single seed descent of F2s 2012-2013

o Most now at F6 ndash F7 seed

2-ways amp 8-ways SNP-validated 2012-2013

Activity 2 Products Genomic resources in support of marker-assisted breeding

a Improved consensus map

b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions (eg SNP selection)

c Sets of markers were selected and data produced for MARS and MABC

d QTL discovered in 3 of 5 MARS populations - ICI Mapping (IBP tool)

e Breeding values amp selection indices developed for MARS individuals for intermating ndash OptiMAS (IBP tool)

f QTL for heat tolerance and aphid resistance discovered in elite populations

2a Improved Consensus Map (v6)

bull 11 RIL populations

bull rogues removed

bull 1117 genotyped

bull 1091 mapped SNPs

bull 816 bins

bull improved order

bull clarified synteny with other legumes

Latest version (v6) available on wwwHarvESTCowpea Last published version (v4) is in Lucas et al 2011 Cowpea (Vu) and common

bean (Pv) synteny

G3 300 4-way x 4-way intercrosses yielding 8-way F1s Fall 2011

G2 ~330 pair crosses made Spring 2011

Activity 1 Product MAGIC population

G4 Single seed descent of F2s 2012-2013

o Most now at F6 ndash F7 seed

2-ways amp 8-ways SNP-validated 2012-2013

Activity 2 Products Genomic resources in support of marker-assisted breeding

a Improved consensus map

b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions (eg SNP selection)

c Sets of markers were selected and data produced for MARS and MABC

d QTL discovered in 3 of 5 MARS populations - ICI Mapping (IBP tool)

e Breeding values amp selection indices developed for MARS individuals for intermating ndash OptiMAS (IBP tool)

f QTL for heat tolerance and aphid resistance discovered in elite populations

2a Improved Consensus Map (v6)

bull 11 RIL populations

bull rogues removed

bull 1117 genotyped

bull 1091 mapped SNPs

bull 816 bins

bull improved order

bull clarified synteny with other legumes

Latest version (v6) available on wwwHarvESTCowpea Last published version (v4) is in Lucas et al 2011 Cowpea (Vu) and common

bean (Pv) synteny

Activity 2 Products Genomic resources in support of marker-assisted breeding

a Improved consensus map

b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions (eg SNP selection)

c Sets of markers were selected and data produced for MARS and MABC

d QTL discovered in 3 of 5 MARS populations - ICI Mapping (IBP tool)

e Breeding values amp selection indices developed for MARS individuals for intermating ndash OptiMAS (IBP tool)

f QTL for heat tolerance and aphid resistance discovered in elite populations

2a Improved Consensus Map (v6)

bull 11 RIL populations

bull rogues removed

bull 1117 genotyped

bull 1091 mapped SNPs

bull 816 bins

bull improved order

bull clarified synteny with other legumes

Latest version (v6) available on wwwHarvESTCowpea Last published version (v4) is in Lucas et al 2011 Cowpea (Vu) and common

bean (Pv) synteny

2a Improved Consensus Map (v6)

bull 11 RIL populations

bull rogues removed

bull 1117 genotyped

bull 1091 mapped SNPs

bull 816 bins

bull improved order

bull clarified synteny with other legumes

Latest version (v6) available on wwwHarvESTCowpea Last published version (v4) is in Lucas et al 2011 Cowpea (Vu) and common

bean (Pv) synteny

Genotyping ICI Mapping

OptiMAS Selection Crossing Planting

New genotyping

2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions

1 2 3

4

5 6 7

8

2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions

bull Interacted with the GCP GSS (He Delannay) GDMS (McLaren Ereful Trushar) and KBioscience (GLC) to streamline sample organization and data flow

bull Extensive use of GLC genotyping for MARS and MABC has led to improvements in standard operating procedure

ndash Established an inventory of sample collection plates at each breeder location

ndash Matched positions of samples in plates with field plot maps

ndash Increased all dialog to improve flow of leaf samples to GLC for genotyping

ndash Improved data interpretation and application to MARS amp MABC

Activity 3 Products Employ MARS amp MABC QTL Discovery

a MARS populations for Burkina Faso Mozambique Nigeria and Senegal genotyped and phenotyped

b Continued MABC to develop improved breeding lines ndash genotyping amp phenotyping

c Implemented MAB tools (OptiMAS ICI mapping) training on beta versions of Fieldbook

d QTL for heat tolerance and aphid resistance discovered in elite populations

Institution Population SNPs Current Stage

INERA Burkina Faso Suvita 2 x IT97K-499-35 164 Cycle 2 Intercross

IITA Nigeria IT84S-2246 x IT98K-1111-1 IT97K-499-35 x IT93K-503-1

102 95

Cycle 1 Intercross Terminated

EMU Mozambique CB27 x IT97K-499-35 156 Cycle 1 Intercross

ISRA Senegal IT93K-503-1 x Mouride 136 Adjusted Now F2F6

3a MARS Breeding Progress

Phenotyping Basis of MARS QTL Discovery ndash 2011 amp 2012

Nigeria - Ousmane Boukar

Mozambique ndash Rogerio Chiulele

Senegal ndash Ndiaga Cisse

Example Traits measured in 250 F23 families at two field sites

in Burkina Faso Issa Drabo

Set2 Traits 140 lines lt100 seedsline

Pobe Saria Saria Number of plants Maturity Flowering time Virus symptoms Pod weightplot Seed weightplot 100-seed weight

Set1 110 lines gt=100 seedsline

0 100 200 300 400 500 600 700 800

Position in the whole genome

0

1

2

3

4

5

6

7

8

9

LO

D S

core

QTLs from ICI Mapping ndash Burkina Faso Issa Drabo

VuLG1 VuLG2 VuLG3 VuLG4 VuLG5 VuLG6 VuLG7 VuLG8 VuLG9 VuLG10 VuLG11

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions

bull Interacted with the GCP GSS (He Delannay) GDMS (McLaren Ereful Trushar) and KBioscience (GLC) to streamline sample organization and data flow

bull Extensive use of GLC genotyping for MARS and MABC has led to improvements in standard operating procedure

ndash Established an inventory of sample collection plates at each breeder location

ndash Matched positions of samples in plates with field plot maps

ndash Increased all dialog to improve flow of leaf samples to GLC for genotyping

ndash Improved data interpretation and application to MARS amp MABC

Activity 3 Products Employ MARS amp MABC QTL Discovery

a MARS populations for Burkina Faso Mozambique Nigeria and Senegal genotyped and phenotyped

b Continued MABC to develop improved breeding lines ndash genotyping amp phenotyping

c Implemented MAB tools (OptiMAS ICI mapping) training on beta versions of Fieldbook

d QTL for heat tolerance and aphid resistance discovered in elite populations

Institution Population SNPs Current Stage

INERA Burkina Faso Suvita 2 x IT97K-499-35 164 Cycle 2 Intercross

IITA Nigeria IT84S-2246 x IT98K-1111-1 IT97K-499-35 x IT93K-503-1

102 95

Cycle 1 Intercross Terminated

EMU Mozambique CB27 x IT97K-499-35 156 Cycle 1 Intercross

ISRA Senegal IT93K-503-1 x Mouride 136 Adjusted Now F2F6

3a MARS Breeding Progress

Phenotyping Basis of MARS QTL Discovery ndash 2011 amp 2012

Nigeria - Ousmane Boukar

Mozambique ndash Rogerio Chiulele

Senegal ndash Ndiaga Cisse

Example Traits measured in 250 F23 families at two field sites

in Burkina Faso Issa Drabo

Set2 Traits 140 lines lt100 seedsline

Pobe Saria Saria Number of plants Maturity Flowering time Virus symptoms Pod weightplot Seed weightplot 100-seed weight

Set1 110 lines gt=100 seedsline

0 100 200 300 400 500 600 700 800

Position in the whole genome

0

1

2

3

4

5

6

7

8

9

LO

D S

core

QTLs from ICI Mapping ndash Burkina Faso Issa Drabo

VuLG1 VuLG2 VuLG3 VuLG4 VuLG5 VuLG6 VuLG7 VuLG8 VuLG9 VuLG10 VuLG11

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Activity 3 Products Employ MARS amp MABC QTL Discovery

a MARS populations for Burkina Faso Mozambique Nigeria and Senegal genotyped and phenotyped

b Continued MABC to develop improved breeding lines ndash genotyping amp phenotyping

c Implemented MAB tools (OptiMAS ICI mapping) training on beta versions of Fieldbook

d QTL for heat tolerance and aphid resistance discovered in elite populations

Institution Population SNPs Current Stage

INERA Burkina Faso Suvita 2 x IT97K-499-35 164 Cycle 2 Intercross

IITA Nigeria IT84S-2246 x IT98K-1111-1 IT97K-499-35 x IT93K-503-1

102 95

Cycle 1 Intercross Terminated

EMU Mozambique CB27 x IT97K-499-35 156 Cycle 1 Intercross

ISRA Senegal IT93K-503-1 x Mouride 136 Adjusted Now F2F6

3a MARS Breeding Progress

Phenotyping Basis of MARS QTL Discovery ndash 2011 amp 2012

Nigeria - Ousmane Boukar

Mozambique ndash Rogerio Chiulele

Senegal ndash Ndiaga Cisse

Example Traits measured in 250 F23 families at two field sites

in Burkina Faso Issa Drabo

Set2 Traits 140 lines lt100 seedsline

Pobe Saria Saria Number of plants Maturity Flowering time Virus symptoms Pod weightplot Seed weightplot 100-seed weight

Set1 110 lines gt=100 seedsline

0 100 200 300 400 500 600 700 800

Position in the whole genome

0

1

2

3

4

5

6

7

8

9

LO

D S

core

QTLs from ICI Mapping ndash Burkina Faso Issa Drabo

VuLG1 VuLG2 VuLG3 VuLG4 VuLG5 VuLG6 VuLG7 VuLG8 VuLG9 VuLG10 VuLG11

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Institution Population SNPs Current Stage

INERA Burkina Faso Suvita 2 x IT97K-499-35 164 Cycle 2 Intercross

IITA Nigeria IT84S-2246 x IT98K-1111-1 IT97K-499-35 x IT93K-503-1

102 95

Cycle 1 Intercross Terminated

EMU Mozambique CB27 x IT97K-499-35 156 Cycle 1 Intercross

ISRA Senegal IT93K-503-1 x Mouride 136 Adjusted Now F2F6

3a MARS Breeding Progress

Phenotyping Basis of MARS QTL Discovery ndash 2011 amp 2012

Nigeria - Ousmane Boukar

Mozambique ndash Rogerio Chiulele

Senegal ndash Ndiaga Cisse

Example Traits measured in 250 F23 families at two field sites

in Burkina Faso Issa Drabo

Set2 Traits 140 lines lt100 seedsline

Pobe Saria Saria Number of plants Maturity Flowering time Virus symptoms Pod weightplot Seed weightplot 100-seed weight

Set1 110 lines gt=100 seedsline

0 100 200 300 400 500 600 700 800

Position in the whole genome

0

1

2

3

4

5

6

7

8

9

LO

D S

core

QTLs from ICI Mapping ndash Burkina Faso Issa Drabo

VuLG1 VuLG2 VuLG3 VuLG4 VuLG5 VuLG6 VuLG7 VuLG8 VuLG9 VuLG10 VuLG11

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Phenotyping Basis of MARS QTL Discovery ndash 2011 amp 2012

Nigeria - Ousmane Boukar

Mozambique ndash Rogerio Chiulele

Senegal ndash Ndiaga Cisse

Example Traits measured in 250 F23 families at two field sites

in Burkina Faso Issa Drabo

Set2 Traits 140 lines lt100 seedsline

Pobe Saria Saria Number of plants Maturity Flowering time Virus symptoms Pod weightplot Seed weightplot 100-seed weight

Set1 110 lines gt=100 seedsline

0 100 200 300 400 500 600 700 800

Position in the whole genome

0

1

2

3

4

5

6

7

8

9

LO

D S

core

QTLs from ICI Mapping ndash Burkina Faso Issa Drabo

VuLG1 VuLG2 VuLG3 VuLG4 VuLG5 VuLG6 VuLG7 VuLG8 VuLG9 VuLG10 VuLG11

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Example Traits measured in 250 F23 families at two field sites

in Burkina Faso Issa Drabo

Set2 Traits 140 lines lt100 seedsline

Pobe Saria Saria Number of plants Maturity Flowering time Virus symptoms Pod weightplot Seed weightplot 100-seed weight

Set1 110 lines gt=100 seedsline

0 100 200 300 400 500 600 700 800

Position in the whole genome

0

1

2

3

4

5

6

7

8

9

LO

D S

core

QTLs from ICI Mapping ndash Burkina Faso Issa Drabo

VuLG1 VuLG2 VuLG3 VuLG4 VuLG5 VuLG6 VuLG7 VuLG8 VuLG9 VuLG10 VuLG11

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

0 100 200 300 400 500 600 700 800

Position in the whole genome

0

1

2

3

4

5

6

7

8

9

LO

D S

core

QTLs from ICI Mapping ndash Burkina Faso Issa Drabo

VuLG1 VuLG2 VuLG3 VuLG4 VuLG5 VuLG6 VuLG7 VuLG8 VuLG9 VuLG10 VuLG11

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Selected best families using OptiMAS

StrigaYLD-4 YLD-6 YLD-8 GDW-3 GDW-11 Rsg 3

243 083 100 050 050 100 100 100 Yes71 083 100 100 050 100 050 100 Yes281 079 100 050 098 050 100 073 Yes51 075 100 050 100 100 050 050 Yes190 075 050 100 098 050 100 050 Yes154 071 050 100 100 050 050 073 Yes112 042 100 050 050 050 000 000 No235 042 050 000 050 050 050 050 No251 042 050 000 050 050 050 050 No199 019 062 000 000 000 050 000 No285 017 000 000 050 000 000 050 No99 017 000 000 000 000 000 100 No

SelectedF23 family

Molecular score

Yield QTLs Kernel-size QTLs

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Frequency of favorable alleles at different selection steps (on average and for each QTL)

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Activity 3b Employ MABC to develop improved breeding lines

bull 11 populations in progress (2 Jean-BaptisteIssa 2 Rogerio 1 Ndiaga 3 Boukar 3 UCR)

bull Identified all polymorphic markers from SNP database

bull Selected trait markers and background markers at 2 cM intervals

bull Genotypedphenotyped different generations BC1F1 BC1F2 BC1F6 BC2F1 BC2F4 BC3F4

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Activity 3b Employ MABC to develop improved breeding lines

Program Cross Main Donor Traits

INERA MoussaIT93K-693-2Moussa KVX745-11PKVX414-22KVX745-11P

Striga Striga Seed Size

IITA IT93K-452-1IT97K-499-35IT93K-452-1 IT89KD-288IT97K-499-35IT89KD-288 SuVita 2IT97K-499-35SuVita 2

Striga Striga Drought Striga

EMU CB27IT85F-3139IT85F-3139 CB27INIA-41CB27

Grain Quality Nematode Drought

ISRA MelakhIT97K-499-39Melakh Striga

UCR CB27IT97K-556-6CB27 CB46IT97K-556-6CB46 CB50IT97K-556-6CB50

Aphid Aphid Aphid

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Genetic map and trait-linked markers 1_0972

1_1278

1_09501_01291_00551_0100

1_1088

1_0647

1_08761_0034

1_1177

1_04491_15261_00721_12751_00851_07821_13761_07491_03081_05401_13571_07751_00631_03331_07901_11511_01301_07341_01501_08371_11111_14681_0319

Aphid1_09281_13441_04151_02801_06301_15341_00591_03121_05321_14041_07261_03831_03961_0640

1_1424

1_07251_02381_0645

1_08171_0365

1_06251_02561_06141_07841_0855

1_03441_04401_11561_04351_14201_1193

1_00751_00121_1152

1_0748

1_0320

1_0811

Drought

LG11_11291_13641_01841_02031_02681_0657

1_1371

1_02951_1067

1_0113

1_1523

1_12581_00211_07921_00891_14691_08441_0277

Yield1_06981_08291_04921_02531_03371_01641_01691_13721_10861_00611_04531_02841_14061_11391_05251_05851_10611_10481_15051_09341_02191_02641_07161_10591_1096

Heat1_01701_05341_11581_09931_00621_02151_06871_14491_11661_11811_04811_06931_11401_11491_02081_09941_14311_07211_13921_11571_05951_07411_04821_07911_14901_10331_01441_03281_02401_09851_00411_14701_15351_12301_11081_02111_06701_06741_02291_00091_13521_06331_06521_06951_11541_04301_14471_06581_13991_10391_01951_01511_07531_06791_05121_01151_02851_04981_11151_12341_05511_08851_07731_06941_12351_14321_01031_02371_12621_13781_03171_10631_01601_07091_14561_13791_05131_08151_10211_10931_14811_01381_06111_15271_06421_14951_02971_04991_08491_10061_11051_04051_08341_04891_05991_0445

LG21_07641_00711_01831_04581_06831_00801_04831_04471_01461_0147

Mac1_07241_10371_13511_07791_01851_00701_02041_06671_09371_12061_05911_02321_00571_09421_11951_00311_02441_05461_04291_15121_10721_14551_10561_1416

Staygreen1_02171_11171_04591_05091_04241_14831_00871_01041_03481_12401_04651_00171_04751_01161_05711_11451_04431_13961_00201_00681_01331_01541_13491_06361_10241_01781_07611_13501_15251_05111_07131_10231_12221_0788

Nematode1_12931_12241_07581_10221_14271_00861_12861_00641_12051_13581_05451_13481_02991_06861_11711_09821_01451_12771_11221_07401_02431_10051_01631_01761_14391_02471_09711_13001_09591_09681_06541_04001_09531_04441_10271_01391_02071_13691_09381_06041_08311_10751_11091_10851_10871_03521_02651_09841_03801_1162

1_05941_03881_11341_03451_07181_14521_09641_03311_10151_15131_04041_09001_02091_07691_15221_0812

Biomass1_0491

1_08201_07721_10791_08931_03811_01941_10581_11061_06191_12921_11211_0707

Heat1_02011_06181_04641_15001_01971_12311_01211_01361_00931_07761_12411_09901_03731_10281_05691_09211_06811_06011_14121_12871_09511_01021_08821_02361_08781_05931_11161_01051_10471_03031_03011_06561_13751_06261_09891_0234

Mac1_12511_01991_09461_01801_10731_12991_10651_11441_01431_04361_01751_06551_0539

LG31_03641_0052

Yield1_00541_08541_01881_03421_04561_08031_09731_10321_11471_05041_03821_11481_03971_09691_03141_03211_09761_06731_06721_08901_01901_05721_05021_13601_14991_05801_11381_10341_01551_00821_07561_14451_08471_07741_12211_12421_00271_01531_12611_05351_10921_06461_08741_08261_06921_04031_0106

1_06781_1209

1_01171_0128

1_13161_0157

1_00381_09101_10131_0992

1_00831_04171_0349

1_03981_08561_0543

1_0699

1_08041_0275

1_03041_02001_07461_01221_02671_04071_05081_08751_11461_13191_1191

LG41_10031_00451_0684

Yield1_03091_11321_04421_13661_1232

1_0605

1_00951_03351_08061_02921_07891_02711_05071_0979

1_1001

1_04781_0624

1_01731_0819

1_0452

1_0557

1_1492

1_01911_02731_0510

1_06621_0986

1_00301_0872

1_0800

1_00401_03621_08771_04191_05781_13591_09261_02421_08391_14191_01191_12531_12431_1095

1_02511_03461_06771_15331_02051_00811_02251_03991_01271_13221_00321_01931_02871_11281_01201_09451_06611_08661_02261_00371_08791_09241_05481_04951_09981_05881_03791_00991_08891_09351_05791_02311_03871_09741_14011_01651_00041_09231_11721_00781_11651_15071_03741_11301_0733

LG51_0962

1_03231_06911_03071_01721_01741_13331_13681_03001_06351_06901_07511_09081_09271_13311_15301_00241_08231_14031_00661_15151_12261_10971_04321_00741_07321_03321_04851_00841_08251_10821_04541_02161_03691_09191_14961_01861_06881_06751_0939

1_02241_08711_13431_09111_08301_06601_13811_08951_10771_13631_08971_08601_14841_11071_07041_05441_14431_01481_02901_10201_07011_00261_10901_0538

1_07941_01241_12441_1080

1_07601_1194

Heat1_13671_04371_12981_00151_06641_09431_00181_10121_0706

1_06391_0975

1_10421_05221_0880

1_01231_05411_10431_00101_03471_0765

1_00141_07361_12711_05421_0326

1_0514

1_09331_04261_03671_01711_14861_15081_06501_12731_0947

1_1007

LG6Heat1_0881

1_15211_02611_07631_14181_10141_00061_12661_14461_0719

1_01981_11411_1302

1_07111_15361_05291_04391_02781_07231_01261_0047

Yield1_06311_12151_10261_03851_06591_15101_1414

Drought1_05611_05641_0644

Staygreen1_14821_01681_00231_03841_09061_09121_14721_07551_0196

Aphid1_07081_06631_10571_04771_10351_06481_06961_09171_02281_06411_02701_08841_11861_06211_03921_10601_00191_04691_06321_08831_13151_08641_11131_02941_05761_05591_08241_00561_03051_09441_12491_14651_00391_02481_00161_1135

LG71_0519

1_13411_0842

1_08581_0298

1_0022

1_13701_0302

1_05581_13621_03941_08131_1008

1_04511_0771

1_0567

1_01411_04101_07621_01311_03511_09181_11851_13611_08071_11681_11231_06651_12841_00441_05241_06491_07971_02551_12601_10991_00761_06431_11011_08011_08921_05301_04381_0616

1_1218

1_0353

1_0838

1_0306

1_1374

1_09571_05861_05661_0832

1_1199

1_01871_0250

1_12521_0375

1_1246

1_0750

1_0241

1_09671_00581_15291_11981_04021_13931_11691_01671_02331_0324

LG81_02131_12021_10161_11671_00881_06681_0720

1_07121_1347

Nematode1_04871_09491_09651_12081_02461_08671_07951_08571_03771_03891_09991_12361_07281_00971_06511_09871_04481_02211_11591_06341_10381_00511_01011_01121_00901_03381_00011_14911_00351_05001_11921_12911_00481_03711_02661_00251_04801_05651_1217

1_01791_0259

1_1408

1_0421

1_00081_04731_02351_13821_14601_01581_01371_11881_04311_07521_03581_02141_02541_1467

1_0425

1_02571_12551_0474

1_13371_02761_0958

1_07031_09481_10691_1045

LG91_03561_10891_14091_14071_09771_11201_1118

1_11891_02881_04931_0036

1_0401

1_10811_12541_03301_15091_14781_1225

1_01111_11261_0109

1_00021_03291_10171_14021_00771_07801_1098

1_0341

1_04161_10491_15201_09811_08651_10761_14441_10251_05871_0628

Yield1_00501_0598

Drought1_05011_10181_08331_0739

Staygreen1_00651_07541_05371_09301_02811_05541_13561_14531_03541_04571_00531_02491_07301_09521_10621_01611_10411_00031_04061_05831_14301_09601_00071_12811_0060

1_1263

1_04201_08511_03681_04461_02301_02821_06821_01421_08611_10941_14341_01071_06171_08621_0239

LG101_0940

1_08861_07021_1052

1_0603

1_0905

1_0134

1_05311_08051_08941_1164

1_0125

Nematode1_04141_13901_09701_0961

1_0028

1_0802

1_11241_00331_12231_07221_03391_05631_12371_13881_08181_09961_00431_00961_01101_05501_12141_13981_06001_05741_02121_08591_09541_13451_13271_04861_09661_03111_11031_09321_04941_02741_06371_09551_10041_00131_06081_14401_11371_05621_06661_05061_11971_0322

1_0547

1_0629

1_0606

1_0069

1_1377

1_04221_08161_1180

1_0553

1_0787

1_1417

LG110

5

10

15

20

25

30

35

40

45

50

55

60

65

70

75

80

85

90

95

100

105

3 Products QTL identified for multiple traits

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

CB27 (tolerant) x IT82E-18 (sensitive)

Tolerant RIL Sensitive RIL

3d Heat tolerance QTL identified in elite RILs

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

CB27 (sensitive) x IT97K-556-6 (resistant)

S R

3d Aphid resistance QTL identified in elite RILs

S

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Activity 4 Products Capacity Building

Two PhD students bull Senegal (Penda Sarr ndash enrolled 2011 at Anta Diop Chiekh

University Dakar Senegal)

bull Mozambique (Arsenio Ndeve ndash enrolled Winter 2012 at UCR)

bull Jointly supported by GCP and USAID CRSP bull MABC and MARS breeding

PhD students at WACCI bull Burkina Faso (Joseph Batieno) ndash MABC project

supported by GCP Capacity Building funds bull Ken Fafa ndash using KBio SNPs for cowpea seed size

MSc students at E Mondlane U Mozambique bull Mentoring in plant breeding with Rogerio Chiulele

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage

Activity 5 Products Data Curation amp Storage

bull TL-1 datasets ndash Provided genotype datasets to GCP curators (Trushar)

bull 1536-SNP Illumina platform bull ~650 germplasm accessions bull Includes almost all MARS and MABC parents

ndash Organized phenotype datasets UCR in collaboration with Sam Ofodile at IITA

bull uniform naming conventions file structure error detection bull 34 cowpea phenotyping datasets standardized at UCR (I

Flores) and sent to IITA (S Ofodile)

ndash Added historical pedigrees of IITA lines amp pedigrees of TL-1 materials to IITAGCP database

• Slide Number 1
• TL1 Phase II (June 2010 ndash present)
• Activity 1 Product MAGIC population
• Activity 2 Products Genomic resources in support of marker-assisted breeding
• Slide Number 5
• Slide Number 6
• 2b Refined the GCP cowpea genotyping workflow and supported GSS-client interactions
• Activity 3 Products Employ MARS amp MABC QTL Discovery
• Slide Number 9
• Slide Number 10
• Example Traits measured in 250 F23 families at two field sites in Burkina Faso Issa Drabo
• QTLs from ICI Mapping ndash Burkina Faso Issa Drabo
• Slide Number 13
• Slide Number 14
• Slide Number 15
• Slide Number 16
• Genetic map and trait-linked markers
• 3d Heat tolerance QTL identified in elite RILs
• CB27 (sensitive) x IT97K-556-6 (resistant)
• Activity 4 Products Capacity Building
• Activity 5 Products Data Curation amp Storage