GRM 2011: Rice Research Initiative progress report
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  • 1. GCP-GRMSeptember 21-25, HyderabadRice Challenge Initiative&Cross cutting issuesderived from parallel Rice sessions
  • 2. Improving rice productivityin lowland ecosystemsof Burkina Faso, Mali and NigeriathroughMarker Assisted Recurrent Selectionfor drought toleranceand yield potentialNCRIRice Challenge Initiative
  • 3. Objectives• Develop drought tolerant rice cultivars, withmedium to high yields in normal years for therainfed lowland ecosystems of Sub-SaharanAfrica• Build capacity for rice breeding and introducenew tools and new breeding approaches inthe breeding programs of the target NARSand AfricaRice
  • 4. WP1- Consolidating the knowledge base• Characterization of rainfed lowland environment• Designing Ideotype for TPEWP2- Phenotyping• Drought tolerance• MARS populations,• Genetic stocksdeveloped during GCPphase 1• Yield & other traits undervarious levels ofenvironment controlWP3- Breeding• Developing breedingpopulations• Genotyping MARSpopulations• QTL analysis• Building ideo-genotypeWP4- Capacity &Community building• Developing the ricedrought breedingcommunity ofpractice for WestAfrica• Capacity building(PhD student andshort training onspecific topics)WP5- Project and information management• Data management : drought tolerance, yield & other traits• Information managementProject organisation
  • 5. Project target areasSudano-Guinean savannahOfMali, Burkina Faso & NigeriaBadeggi
  • 6. Sudanean andGuinean savannahInventory of rainfedlowlandsRegional map ofdrought profile (TPE)Selection ofrepresentative sitesIVC-DB on RLLsSatellite imagesFarmers surveySARRAH modeladapted to RLL riceNew water balancemodel for RLLsField experimentscontrasting cultivarsCrop growthmodel SARRAHSARRAH modelvalidatedIdeotypes fittingto TPEAgro-meteo DBSimulationTarget traits forbreeding for DTConsolidating the knowledge on rainfed lowlands (RLLs)Classification(Physical data)
  • 7. - Identified/selection of experimental sites- Installation of weather stations- Analysis of soil hydraulic characteristics- Establishment of Irrigation scheme & listof equipments need- Wells digging & reservoir installation- Installation of water pipelines, ....WP2-1: development of phenotyping facilities for fieldevaluation of yield potential and drought toleranceLongorola station(Mali)Bonfora station(Burkina)Badeggi station(Nigeria)
  • 8. A pilot study for the feasibility of a rainout shelter was done atAfricaRiceWP2-2: Facility for evaluation of drought toleranceunder controlled conditions• Installation of rain outshelter almost achieved• Blank test of the facilityand of secondary traitsmeasurementis expected to start in earlyOctober
  • 9. WP2-3: Methodological pre-studies forphenotyping for drought tolerance• Adjustment of field drought intensity (Ibadan)– Three intensities tested, in a trial using parentallines of MARS populations– Mild stress lead to 46% yield reduction– Varieties x stress intensity Interaction• Adjustment of methods for indirectmeasurement of drought tolerance– Cotonou, rainout shelter: under achievement– Montpellier, PhenoArch: “Queue” for access tothis precision phenotyping facility
  • 10. - Weather & soil water- Yield components- Traits for indirect selection- Morphogenetic responses- Canopy Temp / transpiration- Fluorometric diagnosisDrought tolerance(rainout shelter )220 F3:5 lines+10 check varietiesYield potential(Rainfed lowland , WS)- Weather & soil water status- Yield and yield components- Other traits of interest- Plant architecture & phenology- Leaf rolling and senescence- diseases, grain quality, …WP2.4: phenotypingDrought tolerance(Field, dry season)- Weather, soil water status-Yield & yield components- 6 experimental sitesElite donor A x Elite donor BSSDBulk..F3.F3:5
  • 11. WP2.4:phenotyping• Ongoing : first MARS pop. for yield potential ongoing– Plant material: 220 F3:5 lines of the IR64 x B6144– Sites and ecology• Burkina (Banfora): valley fringe and Valley Bottom• Mali (Longorola) : valley fringe• Nigeria (Badeggi): valley fringe & Irrigated• Nigeria (Ibadan): valley fringe & Irrigated– Experimental design and field management• Alpha lattice design with two replications with a plot size of 3m x3 rows• A complete protocol was written, translated and shared withpartners– Filed book for data collection• Crop: plant height, days to flowering, lodging , yield• Environment: weather and soil water status• Expected for early 2012 : drought tolerance– Field trials : 6 sites,– Rainout shelter trial: AfricaRice
  • 12. • Selection of parents– Six local/regional elite linesproposed by project partners– One “mega variety” (IR64), used ascommon parent• F3 populations evaluated forgeneral adaptability in 2010 WS– One F3 pop. by each NARS partner– Three F3 pop. by Africa Rice• F3:4 populations seed increasedin dry season (Ibadan)• One population selected toundergo phenotyping• Leaves of F3:4 lines collected forgenotypingWP3-1: Development of MARS populations
  • 13. 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coverage
  • 14. WP4: Rice drought molecular biology andbreeding community of practice for West Africa• Participation to workshops- GCP-IBP, Data analysis, Spain- Management of agricultural researchstations- GCP-IBP, Data Management, Ibadan,- GCP-IBP, QTL detection & breedingstrategy course, Wageningen• Training organized at AfricaRice for 3technicians (Nigeria, Mali & Burkina)– Labs techniques applications to plantbreeding,– hybridization and field data recording• Drought phenotyping workshop• Recruitment of PhD student• Information & technology exchangebetween and within NARS
  • 15. WP5: Project and information management• Data management– Establishment of nomenclature and standards forgermplasm and traits– Entering germplasm list (parental lines, F1, F2 &F3) in the data base– Field books created and transmitted to partnersfor data recording• Information management– http://www.africarice.org/rice-challenge/
  • 16. Cross cutting issues and links withother projectsderived from parallel Rice sessions
  • 17. Data management and data sharing• Dada management– Rice_CI is pioneering the development of a “local” (Africa) ricedatabase, under IPB format, compatible with IRIS developed,implemented and curetted by IRRI.– Rice_CI will help NARS partners to develop their own “local” database,compatible with the one of AfaricaRice.– Field book and hand-held should include possibility of hand writing• Data sharing– developing local database for major players and Communities ofpractices– Mekong region, India, African NARS for projects outside Rice_CI• Ontology tools– Some 220 traits are already documented by IRRI team– System ready for receiving new traits– It is time to test the system with users : Rice_CI, other volunteers
  • 18. New genetic stocks, MAGICs• Asia: Combodia (CARDI), Indonesia (CRR-Java) Vistnam (CRRI), Philippines (PhilRice)• Africa: Senegal (AfricaRice), Tanzania (Dakawa Research Centre)• Open for new volunteer partners
  • 19. • Rice NAM population– IR64 as common parent– 20 indica & japonica donors• Current status– 10 crosses: F7-RIL– 10+ crosses: F4-RIL• Issues : population of about 4000lines– How to phenotype?• GRiSP phenotyping platforms &network• Extraction of representative panel– How to genotype?• Low density sequence basedgenotyping• Genotype inference– How to connect with breedingactivities?• One by one phenotypingNew genetic stock, NAM
  • 20. • Several association panels available– sativa panel (Cornell Univ.)• 413 accessions• 44000 SNP available & soon 1M_SNP– Group specific panels (Cirad, IRRI,...)• 200-250 accessions for each panel (indica,temp. japonica, trop. japonica, Aus)• Large amount of phenotypic data , includingdrought tolerance, accumulate• Waiting for the 1M_SNP chip• Issues– Complementarily between associationpanels and other genetic stocks– How to connect with breeding activity ?New genetic stocks, association panels
  • 21. Phenotyping• Phenotyping root system– Several phenotyping methodologies now available for rice– Still some need for confirming relationship with fieldbehaviour & with yield advantage under drought– Infrared thermography a synthetic measurement of rootdevelopment and water-uptake ?– Euroot: “delineate a root system ideotype in terms ofarchitecture, H20, N & P uptake and signalling processes,including beneficial interactions with micro-organisms”• Drought phenotyping facilities: several facilities(including rainout shelters) developed or underdevelopment in Asia (India, Mekong region) and Africa• Time for harmonising drought phenotyping protocols
  • 22. Breeding for drought tolerance• QTLs with large effects– Effect of QTLs, first detected in Vandana x Way Rarem,confirmed– QTLs transferred in other elite background– Issue• Evaluation in Africa• Integration into the MARS process of Rice_CI• MARS– IRRI team has developed 2 MARS populations– First QTL analysis & recombination cycle in 2011 WS– Issue : sharing the experience with Rice_Ci partners
  • 23. GIS for identification of drought prone area• Mekong region experience– 7 sites identified in each of the 3 countries– 10 lines evaluated across the 7x3 sites• GIS for establishing drought profile– Mekong region experience– International databases on drought profiles– Issue: how to take advantage of existingexperiences to accelerate the implementation ofWP1 in Rice_CI
  • 24. Communities of practice• What would motivate you to be activecontributing member of your CoP?– Knowledge sharing– Same problem and sense of urgency to make impact– Helping the community• What might motivate others to become activelyinvolved?– Getting assistance• What will be the important component of yourCoP?– Having a leader– Giving & sharing things
  • 25. • Mekong region CoP success –story– Catalyser: leadership & Rockefeller Foundation financialsupport– Driving force: molecular breeding– Asset: sharing the same culture and the “love” of rice !• IRRI-India experience– Catalyser : IRRI leadership– Driving force : development of drought tolerant rice varieties• Africa Cop– Expression of interest– But barriers: language (French/English), access to web– Driving force: to be identifiedCommunities of practice