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Water stress and climate change adaptation: From trait dissection to yield
1. Water stress and climate change
adaptation:
From trait dissection to yield
Vincent Vadez – Jana Kholova
Aparna Kakkera, K Siva Sakhti, M Tharanya, Susan Medina,
Srikanth Malayee, Sudhakarreddy Palakolanu, Sunita Choudhary,
Rekha Baddam, Suresh Dharani, Santosh Deshpande,
Rakesh Srivastava, Tom Hash
ICRISAT
NGGIBCI meeting – India 18-20 Feb 2015
2. Today’s presentation
Basic considerations on CC / Drought
Transpiration response to VPD
Possible mechanisms and role of aquaporin
Breeding application
Linking the pieces with crop simulation
3. Grain Yield
Grain Number Grain Size & N
Biomass RADN
TE T RUE Rint
vpd
kl LAISLNRoots k
TN LNo
A >A
APSIM Generic Crop Template, from Graeme Hammer
Yield and its determinants
Yield is not a trait
Phenotyping to focus on the building blocks
5. What is a “drought tolerant” plant?
A plant with:
• enough water to fill up grains
• no more water after grain filling
Hypotheses:
• Tap water?
• Save/manage water?
Focus on traits affecting plant water budget
6. Maximum temperature in the SAT
Hypothetic
Temperature
threshold
0
5
10
15
20
25
30
35
40
45
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
MaximumT°C
1983-HQ 1992-HQ
2001-HQ 2012-HQ
1983-ISC 1990-ISC
1998-ISC
Headquarter
Sahelian Center
T°C rarely crosses critical limits
for SAT crops
7. 0
1
2
3
4
5
6
7
8
Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec
MaximumVPD Sahelian
Center
Headquarter
Vapor pressure deficit (VPD) in the SAT
Prevalent high VPD
Effect on plant water balance
VPD
threshold
8. Region Season Temp. Response (°C) Rainfall Response (%)
Africa Min 25 50 75 Max Min 25 50 75 Max.
West Africa Annual 1.8 2.7 3.3 3.6 4.7 -9 -2 2 7 13
East Africa Annual 1.8 2.5 3.2 3.4 4.3 -3 2 7 11 25
Southern
Africa
Annual 1.9 2.9 3.4 3.7 4.8 -12 -9 -4 2 6
Asia Min 25 50 75 Max Min 25 50 75 Max.
East Asia Annual 2.3 2.8 3.3 4.1 4.9 2 4 9 14 20
Southern Asia Annual 2.0 2.7 3.3 3.6 4.7 -15 4 11 15 20
S.E. Asia Annual 1.5 2.2 2.5 3.0 3.7 -2 3 7 8 15
Introduction
IPCC report 2007
9. Introduction
A changing climate: What are we sure about?
•A steady increase in temperature (1.5-2°C to 4-5 °C)
•CO2 increase
What are we less sure about?
•Rainfall quantity and variability
•Extreme temperature events
11. Climate
scenario
Mean
seasonal
temperature
(OC)
Time to
maturity (d)
%
reduction
Crop yield
(kg/ha)
%
reduction
from
Current
Current 19.6 133 - 1736 -
Current +
1OC
20.6 124 6.5 1612 7.1
Current +
2OC
21.6 117 12.0 1503 13.4
Current +
3OC
22.6 111 15.9 1406 19.0
Current +
4OC
23.6 108 18.7 1322 23.8
Current +
5OC
24.6 105 20.5 1238 28.7
From John Dimes - ICRISAT
Effect on yield in pigeonpea
Crop cycle dynamics vs water use
Shorter cycle lower yield
12. 0.0
0.5
1.0
1.5
2.0
2.5
3.0
3.5
4.0
0 1 2 3 4
WU(kgplant-1week-1)
Weeks after panicle emergence
ICMH01029
ICMH01040
ICMH01046
PRLT2/89-33
Vadez et al 2013 – Plant Soil
H77/833-2
ICMH02042
Terminal drought
sensitive
Terminal drought
tolerant
Tolerant: less WU at vegetative stage,
more for reproduction & grain filling
Water extraction pattern (WS) in pearl millet
Flowering
13. R² = 0.7108
0
4
8
12
16
20
0.0 0.5 1.0 1.5 2.0 2.5 3.0 3.5
GrainYield(gplant-1)
R² = 0.552
0
4
8
12
16
20
0.0 0.5 1.0 1.5 2.0 2.5 3.0 3.5
GrainYield(gplant-1)
Late stress
Early stress
Water uptake in week 3 after booting
Higher yield from higher post-anthesis water use
14. 0
1
2
3
4
5
6
7
8
9
10
21 28 35 42 49 56 63 70 77 84 91 98
Waterused(kgpl-1)
Days after sowing
Water extraction at key times
Less water extraction
at vegetative stage,
more for grain filling
Zaman-Allah et al 2011
See Borrell et al 2014
See Vadez et al 2013
Sensitive
Tolerant
Trait dissection
Vegetative Reprod/ Grain fill
Conductance
Canopy area
15. Lysimetric facility at ICRISAT
Morphology Functionality
Shift in how we look at roots
Kinetics of water uptake
2800 “small” PVC / 1600
“large” PVC
Limitations / Challenges:
• Capacity/automation (load cells)
• 3-D in-situ
Strengths:
• Water use efficiency
• Water extraction at key times
16. Variation for water use efficiency
• Huge genetic variation
• Variants used in breeding
FunctionalitySorghum
Pearl millet
17. Today’s presentation
Basic considerations on CC / Drought
Transpiration response to VPD
Possible mechanisms and role of aquaporin
Breeding application
Linking the pieces with crop simulation
21. Staygreen ILs (Stg3 – Stg B) are VPD-sensitive
0.0000
0.0020
0.0040
0.0060
0.0080
0.0100
0.0120
9 11 13 15 17
Transpiration(gcm-2h-1)
Time of the day (h)
stg1
stg3
stg4
stgB
R16
B35
Recurrent R16
Stg3
StgB
Transpiration response to VPD in Sorghum
1 - Introgression lines
22. S35 background
Transpiration response to high VPD
In staygreen introgression lines
ILs do not differ from recurrent S35
for the Tr sensitivity to VPD
0.000
0.002
0.004
0.006
0.008
0.010
0.012
10.00 11.30 13.00 14.30
Transpirationrate(gcm-2h-1)
Time of the day
stg1
stg3
stg4
stgB
stgB
S35
B35
Recurrent S35
Stg3
StgB
23. 0.0
0.5
1.0
1.5
2.0
2.5
3.0
3.5
500 1000 1500 2000 2500 3000 3500
Staygreenscore
Water uptake at three weeks after panicle
emergence
Unfilled Profile R2 = 0.76**
Filled Profile R2 = 0.79**
24. Vapor Pressure Deficit (VPD, in kPa)
Transpirationrate(gcm-2h-1)
0.0 2.0 4.0
0.0
1.0
A – Insensitive to VPD – High rate at low VPD
B – Sensitive to VPD – High rate at low VPD
C – Sensitive to VPD – Low rate at low VPD
D – Insensitive to VPD – Low rate at low/high VPD
Main types of Tr response to VPD
Water use
difference
Leaf conductance differences = water
Vadez et al 2013 – FPB in press
26. 2.0
3.0
4.0
5.0
6.0
7.0
152 Germplasm tested
TE
10 lowest TE are all VPD-Insensitive
10 highest TE are all VPD-sensitive
High TE lines limit transpiration at high VPD
Why are VPD-sensitive sorghum so interesting?
27. 4 replications
RH & T hourly recording
Weighing:
7-11am = low VPD
11am-15pm = high VPD
8” pots re-saturated every day
soil evaporation minimized with plastic beads
How to phenotype at large scale?
28. Capacity: 4,800 plots
Throughput: 2,400 plots/hour
Traits: LA, Height, Leaf angle, …
LeasyScan at ICRISAT
Leaf canopy area and conductance
29. Canopy Scanning
+ plant transpiration
= live water budget
Leaf canopy conductance
Load Cells
30. Capacity: 4,800 plots
Throughput: 2,400 plots/hour
Traits: LA, Height, Leaf angle, …
LeasyScan at ICRISAT
Leaf canopy area and conductance
31. Leaf area
See Chapuis et al 2012
From Welcker et al 2014
Leafarea
Water
use
Leaf canopy area
Trait dissection
Possible
Field applications
Wind + Light
TºC + RH %
From Deery et al 2014
Lidar scanning
Leaf area response to
environmental conditions
Leafelongationrate
Atmospheric drought
Soil drought
33. Today’s presentation
Basic considerations on CC / Drought
Transpiration response to VPD
Possible mechanisms and role of aquaporin
Breeding application
Linking the pieces with crop simulation
40. VPD-insensitive
VPD-sensitive
Any difference in aquaporin expression
In sorghum contrasting for VPD response??
0.000
0.002
0.004
0.006
0.008
0.010
0.012
0.014
0.016
0.018
0.62 1.05 1.58 2.01 2.43 3.05 3.45
Transpiration(gpl-1cm-2)
VPD (kPa)
41. 0
2
4
6
8
10
12
14
16
18
Low TE High TE
HighVPD/LowVPD PIP1;1
PIP1;2
PIP1;3
PIP1;4
PIP2;1
PIP2;2
PIP2;4
PIP2;5
PIP2;6
PIP2;7
PIP2;8
PIP2;9
PIP2;10
PIP relative expression (High VPD/Low VPD)
VPD – insensitive line
increases expression of PIP2
PIP2;6
PIP2;9
PIP2;7
VPD-Insensitive VPD-Sensitive
42. Today’s presentation
Basic considerations on CC / Drought
Transpiration response to VPD
Possible mechanisms and role of aquaporin
Breeding application
Linking the pieces with crop simulation
46. Effects of human settlement activities on millet growth in the Sahel (micro-variability)
Aerial photograph showing residual effects of changes in soil productivity due to farmers' settlement activities. Numbers indicate the
years during which the settlement of the farmers remained at a particular site. The picture was taken 75 days after sowing from an
altitude of about 300 m above ground. Hardpans (indicated by lacking plant growth) within the boundaries of former settlement areas
are the result of clay applications to the foundations of the five houses belonging to the one extended family. Note that the increases in
millet growth in former settlement areas lasted four to five years. Buerkert et al. 1996. Plant and Soil 180, 29-38.
47. 0
1
2
3
4
5
6
7
8
9
10
21 28 35 42 49 56 63 70 77 84 91 98
Waterused(kgpl-1)
Days after sowing
Water extraction at key times
Less water extraction
at vegetative stage,
more for grain filling
Zaman-Allah et al 2011
See Borrell et al 2014
See Vadez et al 2013
From Deery et al 2014
See Prashar et al 2013
Sensitive
Tolerant
Trait dissection Possible
Field applications
Early vigor (RGB / NDVI)
Infra Red imaging
Canopy T°C
Staygreen
Vegetative Reprod/ Grain fill
Conductance
Canopy area
48. Terminal drought
sensitive
Terminal drought
tolerant
0.005
0.01
0.015
0.02
0.025
0.03
0.035
0.04
0.045
0.50 1.00 1.50 2.00 2.50 3.00 3.50
Evaporative demand (VPD)
H77/2 833-2
PRLT-2/89-33
Canopyconductance
Modulate conductance
Decrease TR at high VPD
Leaf canopy response to VPD
Water saving
Canopy TºC
Link to root anatomical
differences
Trait dissection
Possible
Field applications
Infra Red imaging
From Araus and Cairns 2014
From Burton et al 2012
Root anatomy
49. Leafarea
Thermal time
A – Fast early LA
B – Slow early LA
C – Fast early LA / small max LA
D – Slow early LA / small max LA
Traits:
Leaf area development dynamics
Speed of
development /
size of canopy
= water
So far no in-vivo way to measure
50. Today’s presentation
Basic considerations on CC / Drought
Transpiration response to VPD
Possible mechanisms and role of aquaporin
Breeding application
Linking the pieces with crop simulation
51. average yield
0
200
400
600
800
1000
1200
vegetative pre-flowering post-flowering post-flowering
relieved
mild stress
weighedyield(kg/ha)
vegetative
pre-flowering
post-flowering
post-flowering relieved
mild stress
4. Adaptive
traits enhancing
crop production
& resilience in
given
environmental characterization
1. Well-defined area of interest
Kholová et al. 2013
3. Impact on
the
crop
production
7%
18%
18%17%40%
PHASE I
major stress patterns
0
0.2
0.4
0.6
0.8
1
0 100 200 300 400 500 600 700 800 900 1000 1100 1200 1300 1400 1500 1600
thermal time (
o
Day)
S/D
vegetative
pre-flowering
post-flowering
post-flowering relieved
mild
2. Environmental patterns
52. Adaptive traits???
Grain Yield
Grain Number Grain Size & N
Biomass RADN
TE T RUE Rint
vpd
kl LAISLNRoot
s
k
TN LNo
A >A
Crop production
Component traits
contributing to
drought adaptation
Kholová et al. 2014 (FPB
Traits related to water utilization
53. “EFFICIENT WATER MANAGEMENT”
• enough water to fill up grains
• no more water after grain filling
• water is turned to biomass with max. efficiency
•Save water
•Tap water
• Increase WUE
Crop
production
Traits related to water utilization
MODELLING:
predicting traits’ value in given agr
54. S35 (senescent
background)
7001- stgB - small leaves,
H2O extr.
6008 – stgA - gr.
dynamics, tillering
6026 – stg2 - large
leaves
Material: senescent parental lines &stay-green ILs
Grain Yield
Grain
Number
Grain Size
& N
Biomass RADN
TE T RU
E
Rint
vpd
kl LA
I
SL
N
Ro
o
t
s
k
TN LNo
A >A R16 (senescent
background)
K359w -stgB&3 – high
TE, gr. dyn.
K648 - stg4 – short
phyllochron
ct of QTL depends on genetic backgroun
(stg B!) Vadez et al. 2011
59. Characterizing drought
dynamics - based on S/D
ratio simulation and
clustering
Type 3 intermittent stress
Type 2 pre-flowering stress
Type 1 flowering stress
Type 4 post-flowering stress
2 How to characterize
60. major stress patterns
0
0.2
0.4
0.6
0.8
1
0 100 200 300 400 500 600 700 800 900 1000 1100 1200 1300 1400 1500 1600
thermal time (o
D)
S/D
vegetative
pre-flowering
post-flowering
post-flowering relieved
mild
3. Which traits
confer advantage
in the most frequent
environment?
2. Environmental pattern
Sorghum growing area
61. grain yield gain (low TR)
-300
-200
-100
0
100
200
300
400
0 500 1000 1500 2000 2500 3000 3500
original yield (kg/ha)
yieldgain(kg/ha)
1 postflowering
2 flowering
3 postflowering-relieved
4 no stress
5 preflowering
Original yield (kg ha-1)
0
Yield increase (kg/ha) with transpiration
sensitivity to high VPD: Rabi sorghum
Yieldincrease
62. -1 0 +33
Crop modelling used to predict trait effects
15-30% yield increase at high latitudes
% yield increase with transpiration
sensitivity to high VPD: Peanut
63. The VPD response lead to higher TE
It is itself related to differences in AQP gene
expression
Major yield increase possible across crops
Breeding (donors identified)
Harness genetics – Phenotyping (new platform)
In Summary…
64. Thank you
Collaborators:
F. Chaumont (Univ. Louvain)
G. Hammer / A. Borrell / G McLean /
E van Oosterom (Univ. Queensland)
B Sine / N Belko / Ndiaga Cisse (CERAAS)
C Messina (Pioneer)
Donors:
B&MG Foundation
GCP
ACIAR
DFID
ICRISAT
Technicians / Data analyst:
Srikanth Malayee
Rekha Badham
M Anjaiah
N Pentaiah
Students:
M Tharanya
S Sakthi
T Rajini
Colleagues:
KK Sharma / T Shah / F Hamidou
HD Upadhyaya / R Srivastava / Bhasker Raj
SP Deshpande / PM Gaur
65. More, Better, Faster, Cheaper: practical needs for
improving the rate of genetic gain
Advances in below and above-ground
phenotyping
Vincent Vadez & Team
ICRISAT
Global Goods – Bill & Melinda Gates Foundation
29 Oct 2014
66. Crop simulation of trait effect on yield
See Sinclair et al 2010
See Cooper et al 2014
Grain yield (g m-2)
Traits targeted
to specific zones
Chose test
locations
67. 0
10
20
30
393 108
Fold-increase
Genotypes
Aquaporin gene
expression
PIP2;6
PIP2;7
PIP2;9
PIP1;2
PIP1;3
PIP1;4
Trait variability
Genomics
(Genetics)
See Cooper et al 2014
Multi-location
testing
Crop Simulation
(Validation)
Linking-up the pieces
Trait dissection
Field phenotyping
See Lynch et al 2014
See Granier et al 2014 See Cobb et al 2013
0.005
0.01
0.015
0.02
0.025
0.03
0.035
0.04
0.045
0.50 1.00 1.50 2.00 2.50 3.00 3.50
Evaporative demand (VPD)
Canopyconductance
Thank you
68. RESEARCH APPLICATION
Development of BCNAM pop
(best stay-green donors X best rabi ge
Predicted value of adaptive traits
TRAIT = $ per ha
HT- PHENOTYPING
Environmental
characterization
& trait identification
Ideotypes suiting the targe
with viable management opt
69. Lysimetric evaluation
Transpiration in pots
0.000
0.004
0.008
0.012
0.016
0.020
0.62 1.05 1.58 2.01 2.43 3.05 3.45
Transpiration
(gcm-2h-1)
VPD
Low TE
High TE
0
1
2
3
4
5
6
7
Low TE High TE
TE
grain yield gain (low TR)
-300
-200
-100
0
100
200
300
400
0 500 1000 1500 2000 2500 3000 3500
original yield (kg/ha)
yieldgain(kg/ha)
1 postflowering
2 flowering
3 postflowering-relieved
4 no stress
5 preflowering
Original yield (kg ha-1)
0
AQP gene expression
Modeling of Tr restriction
effect on yield
70. Expansion of modelling
(Best generated grid-data&Future
climatic projections&whole India
modelling (with various crops))
Expansion of the concept to WCA
(Madina)
Sorghum physiology researc
@ICRISAT(AusSoRGM 2014)
Vincent Vade
Jana Kholová
& TEAM
71. • ICRISAT is a non-profit, non-political, International Agricultural
Research Institute
• Established in 1972, operating with an annual budget of US$ 83
million (2013)
• Member of the Consultative Group on International Agricultural
Research (CGIAR)
• Our mandate crops: Sorghum, Pearl millet, Pigeon pea, Chick
pea & Groundnut
• A prosperous, food-secure and resilient
dryland tropics
Our Vision
• To reduce poverty, hunger, malnutrition and
environmental degradation in dryland tropics
Our Mission
72. V. Vadez – C.Tom Hash – Rattan Yadav – T. Nepolean – J. Kholová –
HS Talwar-G. Hammer – E. vanOosterom - A. Borrell – G. McLean –
A. Doherty - T.R. Sinclair – I.M. Rao – S. Beebe – J. Ehlers –
Mainassara Zaman A. – F. Hamidou – P.M. Gaur – E. Monyo – B.
Ntare – J. Devi-Mura – S. Choudhary ……
Our approach brings together
physiologists, breeders & modelers
Thank you
Mission
To reduce poverty, hunger,
malnutrition and environmental
degradation in the dryland tropics