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Modelling pig and poultry production
systems: computational and conceptual
challenges
M. Gilbert (& T. Van Boeckel)
Université Libre de Bruxelles
http://lubies.ulb.ac.be/Spatepi.html
T. Robinson
International Livestock Research
Institute
Livestock Human population
Spatial epidemiology &
invasion ecology
Catherine Linard
Yann Forget Jean
Artois
Clément Tisseuil
Gaëlle Nicolas
Weerapong
Thanapongtharm
Post
docs
PhD
http://lubies.ulb.ac.be/Spatepi.html
Intensified livestock production systems and
the emergence of Highly Pathogenic Avian
Influenza
Favour infections
High
density &
contacts
Genetic
similarity
Living &
health
condition
HPAI emergence mostly documented in intensive poultry
production systems
Intensified livestock production systems and
agricultural antimicrobial use
Favour infections
High
density &
contacts
Genetic
similarity
Living &
health
condition
Marginal gains due higher off-take rates do
make a difference over large volume
(but see Graham et al. 2007)
Feed
conversion
rate
matters
Fast prod.
cycles
High
inputs /
high
outputs
Higher use of antimicrobials in intensive systems
(preventive, curative, feed additive)
Global trends in livestock numbers
0
500,000,000
1,000,000,000
1,500,000,000
2,000,000,000
2,500,000,000
1961
1965
1969
1973
1977
1981
1985
1989
1993
1997
2001
2005
2009
Heads
Cattle Chicken (/10) Pork
Source: FAOSTAT (2010)
Global trends in livestock productivity
90
110
130
150
170
190
210
230
250
1961
1965
1969
1973
1977
1981
1985
1989
1993
1997
2001
2005
2009
RelativeincreaseinOutput/Input
(kgoutputshead-1year-1)
Cattle (331) Chicken (1.73) Pork (60.9)
Source: FAOSTAT (2010)
Outline
Context
• Intensification has taken place rapidly in the past
• Strong projected changes in demand will lead to further
intensification
• Changes are structured geographically
Objectives
• Better document the geographic distribution of intensive
livestock production
• Develop tools for making projections
Methods
• Mapping the global distribution of livestock
• Disaggregating in production systems
Livestock distribution:
Gridded Livestock of the World (GLW 1.0)
• General principle
• Collection of sub-national livestock
census data
• Many variables correlated to
livestock farming are mapped at high
resolution (e.g. land cover).
• Statistical models are based on high
resolution GIS predictors and
applied to downscale census values
by pixel (stratified multiple linear
regressions)
• Previous developments
• GLW 1.0 published by FAO in 2007,
mostly based on census data < 2005
(Wint & Robinson 2007)
• Global extent, 5 km resolution
Livestock distribution:
Gridded Livestock of the World (GLW 2.0)
• Recent developments
• More recent & higher resolution census data
• Spatial modelling @ 1km resolution
• Automation of the methodology in R
• Disseminated through the Livestock GeoWiki
• http://www.livestock.geo-wiki.org/
• New species division
• Cattle
• Pig
• Chicken
• Duck
• Sheep
• Goat
Robinson, T., W. Wint, T, G. Conchedda, T. P. Van
Boeckel, V. Ercoli, E. Palamara, G. Cinardi, L. D’Aietti,
& M. Gilbert (2014) Mapping the Global Distribution of
Livestock. PLoS ONE 9(5): e96084.
doi:10.1371/journal.pone.0096084
Livestock distribution:
Gridded Livestock of the World (GLW 3.0)
• In progress…
• New machine learning algoritm (Random Forest)
• Systematic evaluation (years of CPU time in 4 months)
• 180 models for Asia chicken and Africa cattle
• Processing on ILRI cluster (parrallelized)
• Full integration of metadata
• Spatial modelling & dissemination @ 1 km & 10 km resolution
• Toward global runs instead of continental tiles
• Revision of predictor variable to include more anthropogenic
factors
Livestock distribution:
Gridded Livestock of the World (GLW 3.0)
• In progress…
• New machine learning algoritm (Random Forest)
• Systematic evaluation (years of CPU time in 4 months)
• 180 models for Asia chicken and Africa cattle
• Processing on ILRI cluster (parrallelized)
• Full integration of metadata
• Spatial modelling & dissemination @ 1 km & 10 km resolution
• Toward global runs instead of continental tiles
• Revision of predictor variable to include more anthropogenic
factors
Livestock distribution:
Gridded Livestock of the World (GLW 3.0)
RF (GLW 3.0) vs. Stratified regression (GLW 2.0)
leave-out cross validation
Livestock distribution:
Gridded Livestock of the World (GLW 3.0)
1 week /
species
GLW 2.0 GLW 3.0
16h
/species
1 month/
species
1-2 days /
species
Outline
Context
• Intensification has taken place rapidly in the past
• Strong projected changes in demand will lead to further
intensification
• Changes are structured geographically
Objectives
• Better document the geographic distribution of intensive
livestock production
• Develop tools for making projections
Methods
• Mapping the global distribution of livestock
• Disaggregating in production systems
Conceptual framework (1)
Conceptual framework (2)
Conceptual framework (3)
The % ext. chicken is predicted at
national level by the GDP model
Ext. raised chicken are distributed
equally across rural population
Intensively raised poultry is estimated
by the difference with the total
Application to chicken
Extensively raised chicken
Intensively raised chicken
Validation: chicken extensive
Van Boeckel, T., W. Thanapongtharm, T. Robinson, L. D’Aietti & M. Gilbert (2012). Predicting the distribution of intensive
poultry farming in Thailand. Agriculture, Ecosystem and Environment. Doi: 10.1016/j.agee.2011.12.019
Validation: chicken intensive
Van Boeckel, T., W. Thanapongtharm, T. Robinson, L. D’Aietti & M. Gilbert (2012). Predicting the distribution of intensive
poultry farming in Thailand. Agriculture, Ecosystem and Environment. Doi: 10.1016/j.agee.2011.12.019
Application to pigs:
extensive, semi-intensive, intensive
Application to pigs:
extensive, semi-intensive, intensive
Pigs: extensive
Pig semi-intensive
Pig intensive
Disaggregating between extensive and
intensive production systems
• Limitations
• Uncertainty in the GDP model (& other important variables ?)
• Ignore sub-national GDP variations
• Assumption of equal number of Ext. Chicken / rural population
Validation: chicken extensive
Van Boeckel, T., W. Thanapongtharm, T. Robinson, L. D’Aietti & M. Gilbert (2012). Predicting the distribution of intensive
poultry farming in Thailand. Agriculture, Ecosystem and Environment. Doi: 10.1016/j.agee.2011.12.019
Discussion (1)
People
• Number
• Weatlh
• Diet
Livestock
• Number
• Production
systems
Impact
• Amonia pollution
• GHG emissions
• EIDs
• Antimicrobial
resistance
Drivers of change in
spatial distribution
Drivers of change in
number
Demand
Discussion (2)
People
Livestock
Demography Wealth
# Consumers
Dietary
preferences
Urbanization of
consumers
Change in
stock
Change in
productivity
Urbanization
Vertical integration and
distribution of inputs
and demand
Future work (1)
Livestock
products
Change in
stock
Change in
productivity
Vertical integration and
concentration of
demand
•Methodological improvements
•Using agricultural population
•Using sub-national GDP where appropriate (e.g.
China, India)
•Forward and backward predictions
Future work (2)
2000
log GDP per capita c. $ 2.9
% extensive c. 83 %
2000
2030
2030
log GDP per capita c. $ 3.8
% extensive c. 18 %
Chicken production in
China
Future work (3)
Livestock
products
Change in
stock
Change in
productivity
Vertical integration and
concentration of
demand
•Methodological improvements
•Using agricultural population
•Using sub-national GDP where appropriate (e.g.
China, India)
•Forward and backward predictions
•GDP data & projections (national / sub-national)
•Spatial concentrations (peri-urban, access to
port, founder effect)
Future work (4)
People
• Number
• Weatlh
• Diet
Livestock
• Number
• Production
systems
Impact
• Amonia pollution
• GHG emissions
• EIDs
• Antimicrobial
resistance

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Modelling pig and poultry production systems: computational and conceptual challenges

  • 1. Modelling pig and poultry production systems: computational and conceptual challenges M. Gilbert (& T. Van Boeckel) Université Libre de Bruxelles http://lubies.ulb.ac.be/Spatepi.html T. Robinson International Livestock Research Institute
  • 2. Livestock Human population Spatial epidemiology & invasion ecology Catherine Linard Yann Forget Jean Artois Clément Tisseuil Gaëlle Nicolas Weerapong Thanapongtharm Post docs PhD http://lubies.ulb.ac.be/Spatepi.html
  • 3. Intensified livestock production systems and the emergence of Highly Pathogenic Avian Influenza Favour infections High density & contacts Genetic similarity Living & health condition HPAI emergence mostly documented in intensive poultry production systems
  • 4. Intensified livestock production systems and agricultural antimicrobial use Favour infections High density & contacts Genetic similarity Living & health condition Marginal gains due higher off-take rates do make a difference over large volume (but see Graham et al. 2007) Feed conversion rate matters Fast prod. cycles High inputs / high outputs Higher use of antimicrobials in intensive systems (preventive, curative, feed additive)
  • 5. Global trends in livestock numbers 0 500,000,000 1,000,000,000 1,500,000,000 2,000,000,000 2,500,000,000 1961 1965 1969 1973 1977 1981 1985 1989 1993 1997 2001 2005 2009 Heads Cattle Chicken (/10) Pork Source: FAOSTAT (2010)
  • 6. Global trends in livestock productivity 90 110 130 150 170 190 210 230 250 1961 1965 1969 1973 1977 1981 1985 1989 1993 1997 2001 2005 2009 RelativeincreaseinOutput/Input (kgoutputshead-1year-1) Cattle (331) Chicken (1.73) Pork (60.9) Source: FAOSTAT (2010)
  • 7. Outline Context • Intensification has taken place rapidly in the past • Strong projected changes in demand will lead to further intensification • Changes are structured geographically Objectives • Better document the geographic distribution of intensive livestock production • Develop tools for making projections Methods • Mapping the global distribution of livestock • Disaggregating in production systems
  • 8. Livestock distribution: Gridded Livestock of the World (GLW 1.0) • General principle • Collection of sub-national livestock census data • Many variables correlated to livestock farming are mapped at high resolution (e.g. land cover). • Statistical models are based on high resolution GIS predictors and applied to downscale census values by pixel (stratified multiple linear regressions) • Previous developments • GLW 1.0 published by FAO in 2007, mostly based on census data < 2005 (Wint & Robinson 2007) • Global extent, 5 km resolution
  • 9. Livestock distribution: Gridded Livestock of the World (GLW 2.0) • Recent developments • More recent & higher resolution census data • Spatial modelling @ 1km resolution • Automation of the methodology in R • Disseminated through the Livestock GeoWiki • http://www.livestock.geo-wiki.org/ • New species division • Cattle • Pig • Chicken • Duck • Sheep • Goat Robinson, T., W. Wint, T, G. Conchedda, T. P. Van Boeckel, V. Ercoli, E. Palamara, G. Cinardi, L. D’Aietti, & M. Gilbert (2014) Mapping the Global Distribution of Livestock. PLoS ONE 9(5): e96084. doi:10.1371/journal.pone.0096084
  • 10. Livestock distribution: Gridded Livestock of the World (GLW 3.0) • In progress… • New machine learning algoritm (Random Forest) • Systematic evaluation (years of CPU time in 4 months) • 180 models for Asia chicken and Africa cattle • Processing on ILRI cluster (parrallelized) • Full integration of metadata • Spatial modelling & dissemination @ 1 km & 10 km resolution • Toward global runs instead of continental tiles • Revision of predictor variable to include more anthropogenic factors
  • 11. Livestock distribution: Gridded Livestock of the World (GLW 3.0) • In progress… • New machine learning algoritm (Random Forest) • Systematic evaluation (years of CPU time in 4 months) • 180 models for Asia chicken and Africa cattle • Processing on ILRI cluster (parrallelized) • Full integration of metadata • Spatial modelling & dissemination @ 1 km & 10 km resolution • Toward global runs instead of continental tiles • Revision of predictor variable to include more anthropogenic factors
  • 12. Livestock distribution: Gridded Livestock of the World (GLW 3.0) RF (GLW 3.0) vs. Stratified regression (GLW 2.0) leave-out cross validation
  • 13. Livestock distribution: Gridded Livestock of the World (GLW 3.0) 1 week / species GLW 2.0 GLW 3.0 16h /species 1 month/ species 1-2 days / species
  • 14. Outline Context • Intensification has taken place rapidly in the past • Strong projected changes in demand will lead to further intensification • Changes are structured geographically Objectives • Better document the geographic distribution of intensive livestock production • Develop tools for making projections Methods • Mapping the global distribution of livestock • Disaggregating in production systems
  • 17. Conceptual framework (3) The % ext. chicken is predicted at national level by the GDP model Ext. raised chicken are distributed equally across rural population Intensively raised poultry is estimated by the difference with the total
  • 21. Validation: chicken extensive Van Boeckel, T., W. Thanapongtharm, T. Robinson, L. D’Aietti & M. Gilbert (2012). Predicting the distribution of intensive poultry farming in Thailand. Agriculture, Ecosystem and Environment. Doi: 10.1016/j.agee.2011.12.019
  • 22. Validation: chicken intensive Van Boeckel, T., W. Thanapongtharm, T. Robinson, L. D’Aietti & M. Gilbert (2012). Predicting the distribution of intensive poultry farming in Thailand. Agriculture, Ecosystem and Environment. Doi: 10.1016/j.agee.2011.12.019
  • 23. Application to pigs: extensive, semi-intensive, intensive
  • 24. Application to pigs: extensive, semi-intensive, intensive
  • 28. Disaggregating between extensive and intensive production systems • Limitations • Uncertainty in the GDP model (& other important variables ?) • Ignore sub-national GDP variations • Assumption of equal number of Ext. Chicken / rural population
  • 29. Validation: chicken extensive Van Boeckel, T., W. Thanapongtharm, T. Robinson, L. D’Aietti & M. Gilbert (2012). Predicting the distribution of intensive poultry farming in Thailand. Agriculture, Ecosystem and Environment. Doi: 10.1016/j.agee.2011.12.019
  • 30. Discussion (1) People • Number • Weatlh • Diet Livestock • Number • Production systems Impact • Amonia pollution • GHG emissions • EIDs • Antimicrobial resistance
  • 31. Drivers of change in spatial distribution Drivers of change in number Demand Discussion (2) People Livestock Demography Wealth # Consumers Dietary preferences Urbanization of consumers Change in stock Change in productivity Urbanization Vertical integration and distribution of inputs and demand
  • 32. Future work (1) Livestock products Change in stock Change in productivity Vertical integration and concentration of demand •Methodological improvements •Using agricultural population •Using sub-national GDP where appropriate (e.g. China, India) •Forward and backward predictions
  • 33. Future work (2) 2000 log GDP per capita c. $ 2.9 % extensive c. 83 % 2000 2030 2030 log GDP per capita c. $ 3.8 % extensive c. 18 % Chicken production in China
  • 34. Future work (3) Livestock products Change in stock Change in productivity Vertical integration and concentration of demand •Methodological improvements •Using agricultural population •Using sub-national GDP where appropriate (e.g. China, India) •Forward and backward predictions •GDP data & projections (national / sub-national) •Spatial concentrations (peri-urban, access to port, founder effect)
  • 35. Future work (4) People • Number • Weatlh • Diet Livestock • Number • Production systems Impact • Amonia pollution • GHG emissions • EIDs • Antimicrobial resistance