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Rice: Phenotyping for drought traitsAmelia Henry
Rice Drought Phenotyping objectives:1. Large-scale screening of breeding lines2. Characterization of diversity panels for ...
1. Ensure uniformityin stress treatmentand characterize thedrought stress2. PhenotypingHigh throughput methods →detailedme...
Uniform drought stress treatment:• use level fields•separate the drought stress from flooded fields•avoid areas of high so...
Characterizing the severity of the drought stressVolumetric soil water contentwith depthtensiometerswater table tubes (pie...
Characterization of drought at partner sitesRajshahi, Bangladesh• tensiometers• soil analysis• water retention curves
Large-scale phenotyping of breeding linesTraits1. Yield• Plant height• Time to flowering• Shoot biomass/ harvest index
Aus lines 2010DS and 2011DS220+ linesStress and control• Early vigor• Canopy temp• NDVI• Yield• shoot and root biomassPhen...
Greenhouse lysimeter facilityCapacity:1200 cylindersThroughput:250 plants / day
Canopy reflectanceNormalized Difference Vegetation IndexNDVI = (NIR_reflected -Red_reflected)(NIR_reflected + Red_reflecte...
If some genotypes show better water uptake when the soil is dry, we lookfor root-related mechanismsCanopy temperature
Root sampling in the fieldThroughput: roots from about 100 soil cores sampled, washed, andscanned within 2 weeks
Detailed measurementsLeaf gas exchangeLeaf water potentialRoot hydraulic conductanceMicroscopy
Screening of advanced breeding lines by India Drought Breeding NetworkHazaribag April 26 2011 2:45 PM22.522.722.923.123.32...
IRT.Canopy TemperatureSonic sensorPlant HeightCrop Circle Multispectral SensorBiomass, Development, Nutrient, Stress Respo...
Dissection of drought tolerance mechanisms in major droughtQTL lines: Aday Sel x IR64 NILs+QTL14-1-2-10-QTL14-1-2-13
IR64-QTL14-1-2-13+QTL14-1-2-10Aday Sel NIL pairs show large differences in canopy temp under severe drought+QTL5-6-18-QTL5...
Aday Sel NIL pairs did not show large differences in root length density at depthExpt 4s Aday Sel ROS00.10.20.30.40.50.60....
Root function for water uptake: hydraulic conductanceIR64IR77298-14-1-2-10(+)IR77298-14-1-2-13(-)IR77298-5-6-18(+)IR77298-...
14-1-2-10 (+ QTL) 14-1-2-13 (- QTL)+ QTL lines had smaller root and xylem vessel diametersHypothesis: smaller xylem vessel...
Summary for rice drought phenotyping:1. Use a uniform field and characterize the type of drought stress2. Phenotyping for ...
Acknowledgements:IRRI Drought Physiology GroupGeneration Challenge ProgramGates Foundation (STRASA project)Ken McNallyArvi...
GRM 2011: Phenotyping rice for drought tolerance
GRM 2011: Phenotyping rice for drought tolerance
GRM 2011: Phenotyping rice for drought tolerance
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GRM 2011: Phenotyping rice for drought tolerance

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GRM 2011: Phenotyping rice for drought tolerance

  1. 1. Rice: Phenotyping for drought traitsAmelia Henry
  2. 2. Rice Drought Phenotyping objectives:1. Large-scale screening of breeding lines2. Characterization of diversity panels for associationmapping3. Dissection of drought tolerance mechanisms in majordrought QTL lines
  3. 3. 1. Ensure uniformityin stress treatmentand characterize thedrought stress2. PhenotypingHigh throughput methods →detailedmethodsSequence for drought phenotyping
  4. 4. Uniform drought stress treatment:• use level fields•separate the drought stress from flooded fields•avoid areas of high soil variabilitySoil mapping based on apparent electrical conductivity
  5. 5. Characterizing the severity of the drought stressVolumetric soil water contentwith depthtensiometerswater table tubes (piezometers)• rainfall• water table depth• soil moisture status
  6. 6. Characterization of drought at partner sitesRajshahi, Bangladesh• tensiometers• soil analysis• water retention curves
  7. 7. Large-scale phenotyping of breeding linesTraits1. Yield• Plant height• Time to flowering• Shoot biomass/ harvest index
  8. 8. Aus lines 2010DS and 2011DS220+ linesStress and control• Early vigor• Canopy temp• NDVI• Yield• shoot and root biomassPhenotyping of association panels
  9. 9. Greenhouse lysimeter facilityCapacity:1200 cylindersThroughput:250 plants / day
  10. 10. Canopy reflectanceNormalized Difference Vegetation IndexNDVI = (NIR_reflected -Red_reflected)(NIR_reflected + Red_reflected)Soil-Adjusted Vegetation IndexSAVI = 1.5 * (NIR_reflected - Red_reflected)(NIR_reflected + Red_reflected * 0.5)
  11. 11. If some genotypes show better water uptake when the soil is dry, we lookfor root-related mechanismsCanopy temperature
  12. 12. Root sampling in the fieldThroughput: roots from about 100 soil cores sampled, washed, andscanned within 2 weeks
  13. 13. Detailed measurementsLeaf gas exchangeLeaf water potentialRoot hydraulic conductanceMicroscopy
  14. 14. Screening of advanced breeding lines by India Drought Breeding NetworkHazaribag April 26 2011 2:45 PM22.522.722.923.123.323.523.7IR83376-B-B-130-3IR74371-54-1-1IR83377-B-B-48-3IR83380-B-B-124-3IR83387-B-B-110-1IR83383-B-B-141-2IR83388-B-B-108-3IR83387-B-B-27-4IR83383-B-B-141-4IR64IR74371-70-1-1CanopyTemp(C)
  15. 15. IRT.Canopy TemperatureSonic sensorPlant HeightCrop Circle Multispectral SensorBiomass, Development, Nutrient, Stress ResponseNDVI, PRI, RI, TCARI, OSAVI, WDVI...24 m boomRTK GPS Auto Steer+/- 2 cm accuracyCR1000 data logger & AM16 multiplexorSensor control and data processingPAR/Pyranometer T/RHAmbient MonitoringFixed IRTPlant RefUnplantedCheckReferenceCrop Circle– 3 band multispectral sensor with dedicated loggerPlant IRT and sonic Ht data processing on CS loggerAmbient PAR, SW, T/RH, and soil T on CS loggerReference plots to monitor temporal variabilityCheck plots to monitor spatial variabilityUnplanted plots to monitor soil background8 – 16 plot systemExample 1 m wide plotslinearconicalSensor MeasurementField of ViewSpectraIIRT/sonicAmbientPAR, SW, and T/RH SensorIRTSoil RefOn our wish list:Mobile field-basedphenotypingplatform
  16. 16. Dissection of drought tolerance mechanisms in major droughtQTL lines: Aday Sel x IR64 NILs+QTL14-1-2-10-QTL14-1-2-13
  17. 17. IR64-QTL14-1-2-13+QTL14-1-2-10Aday Sel NIL pairs show large differences in canopy temp under severe drought+QTL5-6-18-QTL5-6-11Aday Sel
  18. 18. Aday Sel NIL pairs did not show large differences in root length density at depthExpt 4s Aday Sel ROS00.10.20.30.40.50.60.70.80.9IR 64 IR77298-14-1-2-10IR77298-14-1-2-13IR 77298-5-6-18 IR77298-5-6-11RLD(cmcm-3)30-45 cm45-60 cm+ QTL - QTL + QTL - QTL
  19. 19. Root function for water uptake: hydraulic conductanceIR64IR77298-14-1-2-10(+)IR77298-14-1-2-13(-)IR77298-5-6-18(+)IR77298-5-6-11(-)logSapfluxat500kPa(m3s-1)1e-121e-111e-101e-9well-watered controldry-down from field capacitydry-down from 75% field capacityLower Lpr in + QTL linesfrom Aday Sel x IR64
  20. 20. 14-1-2-10 (+ QTL) 14-1-2-13 (- QTL)+ QTL lines had smaller root and xylem vessel diametersHypothesis: smaller xylem vessel diameters in +QTL lines result in decreasedxylem cavitation under severe stress
  21. 21. Summary for rice drought phenotyping:1. Use a uniform field and characterize the type of drought stress2. Phenotyping for drought breeding: focus on yield3. Phenotyping for physiology: start at high throughput (NDVI andcanopy temp) More detailed methods
  22. 22. Acknowledgements:IRRI Drought Physiology GroupGeneration Challenge ProgramGates Foundation (STRASA project)Ken McNallyArvind Kumar

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