COURSES

-> About this Resource
Scope *______
Map *____

-> Preliminary Courses
Contents & Objectives *__________________
Map *____
-> Botany
Contents & Objectives *__________________
Map *____
-> Axis Typology Patterns
Typology basis *___________
Pictograms *_________
Sexuality & development *___________________
Growth *______
Branching rhythms *______________
Branching delays *_____________
Branching positional *________________
Branching arrangement *__________________
Axis orientation *_____________
Architectural models *________________
-> Architectural Unit
About Arc. Models *______________
Models limitations *______________
Architectural Units *______________
Reiteration *_________
Sequence of development *___________________
Morphogenetic gradients *___________________
Physiological age *_____________
-> An Example
Wild Cherry (young) *_______________
Wild Cherry (adult) *______________
Wild Cherry (mature) *________________
Quiz *____
Case study Quiz *_____________
Supplementary resources *____________________

-> Eco-Physiology
Contents & Objectives *__________________
Map *____
-> Growth Factors
Factors affecting Growth *___________________
Endogenous Processes *_________________
Environmental Factors *_________________
Thermal Time *___________
-> Light interaction
P.A.R. *_____
Light absorption *_____________
Photosynthesis *___________
Respiration *_________
Maintenance respiration *__________________
L.U.E. Model *__________
Density effect *___________
Density effect on crop *__________________
-> Biomass
Biomass Pool *__________
Biomass Partitioning *_______________
Crop models *__________
A Crop model example *__________________
Quiz *____
Supplementary resources *___________________

-> Applied Mathematics
Contents & Objectives *__________________
Map *____
-> Probabilities
Section contents *____________
Discrete Random Variable *___________________
Expected value, Variance *___________________
Properties *________
-> Useful Laws
Bernoulli Trials *___________
Binomial Law *__________
Geometric Law *____________
Negative Binomial Law *_________________
-> Dynamic systems
Section contents *_____________
Useful functions *____________
Beta density *__________
Exercises *________
Negative Exponential *________________
Systems functions *______________
Discrete dynamic systems *___________________
Parameter Identification *__________________
Parameter estimation *________________
Supplementary Resources *____________________


-> GreenLab courses
GreenLab presentation *__________________
-> Overview
Presentation & Objectives *____________________
Map *____
Growth and components *___________________
Plant architecture *_______________
Biomass production *________________
Modelling - FSPM *______________
GreenLab principles *________________
Applications *__________
Supplementary resources *_____________________
-> Principles
Presentation & Objectives *____________________
Map *____
-> About modelling
Scientific disciplines *________________
Organs: tree components *___________________
Factors affecting growth *___________________
Model-simulation workflow *____________________
GreenLab inherits from *__________________
GreenLab positioning *_________________
The growth cycle *______________
Inside the growth cycle *___________________
Implementations *______________
Supplementary resources *____________________
-> Development
Presentation & Objectives *____________________
Map *____
Modelling Scheme *______________
Tree traversal modes *________________
-> Stochastic modelling
Principles *_______
-> Development
Growth Rhythm *____________
Damped growth *____________
Viability *______
Rhythmic axis *___________
Branching *________
Stochastic automaton *_________________
-> Organogenesis equations
Principles *_______
Organ cohorts *___________
Organ numbering *_____________
Substructure factorization *____________________
Stochastic case *____________
-> Structure construction
Construction modes *_______________
Construction basis *______________
Axis of development *________________
Stochastic reconstruction *___________________
Implicit construction *________________
Explicit construction *________________
3D construction *____________
Supplementary resources *____________________
-> Production-Expansion
Presentation & Objectives *____________________
Map *____
-> EcoPhysiology reminders
Relevant concepts *______________
Temperature *__________
Light interception *______________
Photosynthesis *___________
Biomass common pool *_________________
Density *______
-> Principals
Growth cycle *__________
Refining PbMs *___________
Organ cohorts *___________
GreenLab vs PbM & FSPM *___________________
-> GreenLab's equations
Summary *_______
Production equation *_______________
Plant demand *__________
Organ dimensions *______________
A dynamic system view *__________________
Equation terms *____________
Full Model *________
Model behaviour *______________
Supplementary resources *____________________
-> Applications
Presentation & Objectives *____________________
Map *____
-> Measurements
Agronomic traits *_____________
Mesurable/hidden param. *___________________
Fitting procedure *______________
-> Fitting structure
Principles *_______
-> Development
Simple development *_______________
Damped growth *____________
Rhythmic growth *_____________
Rhythmic growth samples *___________________
Mortality *_______
Branching *________
-> Crown analysis
Analysis principles *______________
Equations *________
Example / Exercise *_______________
-> Case study
Plant Architecture *______________
Development simulation *__________________
Introducing Biomass *_______________
Biomass partitioning *_______________
Equilibrium state *_____________
Supplementary resources *____________________

-> Tools (software)
Presentation & Objectives *_____________________
Map *____
Fitting, Stats *___________
Simulation *_________
Online tools *__________

GreenLab Course

Overview

Plant Architecture.


Plant structure

    Architectural botany

      In the 70s, botanists Francis Hallé and Roelof Oldeman extended the inflorescence structural pattern classification to tree structures.
      They created a new approach to Botany: Architectural Botany.
      Inflorescence patterns where classified according to their regular geometrical patterns.

      In architectural botany, plant structure is described according to a specific axis typology, according to axis traits:

      • the axis building mode: continuous or rhythmic
      • the position of sexuality: lateral or terminal
      • the branching occurrence pattern: immediate or delayed
      • the branching pattern into shoots
      • the direction of axis development (vertical with branches developing in a spiral / horizontally with branches developing in a plane)
      • ...


      In young trees, a different axis typology can be observed, showing different morphological stages: vigorous shoots on trunk, up to a short axis usually bearing sexuality.
      They are qualified by a physiological age (1 for the trunk, 2 for vigorous branches, 3 for branches, 4 for short axes, etc. )
      A specific axis typology may be found at several places in the plant structure.

      These different axis develop according to a specific combination, or strategy, following one of the 23 architectural model defined by the botanist community.

      Each plant species expresses its architectural model with its own specific parameters, defining its architectural unit.
      The architectural unit can be considered as a stable plant genetic development scheme.

      When the tree matures and becomes older, the plant structure duplicates its architectural unit, either fully or partially.
      This process, called reiteration, allows the building of huge complex crowns.

      In the botanical architectural approach, plant structure is not considered as static.
      Plant structure results from the dynamics of leafy shoots formation, derived from terminal and lateral buds.


    Simulating plant structure

      The architectural unit defines a basis for plant structure modelling and simulation

      Plant structure can be generated by a computer program, using a procedural approach.
      Successive development stages are obtained by applying rules to the terminal and axillary buds of the existing structure.

      Rules are defined for each physiological age, translating the botanical branching patterns, sexuality occurrences and growth modes.
      They may introduce stochastic aspects, including dormancy and viability aspects.
      Rules can be implemented by automatons, grammars or dedicated procedures.

      Plant architecture
      Plant architecture (© Liama, CASIA).

        Top: Inflorescence patterns and architectural models.
         Botanists have defined 23 architectural models to characterize a plant structure development strategy
           Leeuwenberg's model corresponds to a Symposium inflorescence pattern.
           Rauh's model is one expression of a Raceme inflorescence pattern.

        Bottom: A simulated young tree and older stages with partial and total reiteration
            Left: The young tree expresses its architectural unit
            Middle: Partial reiteration appears
            Right: Total reiterations appear, developing the crown
            The colour stands for the various physiological ages: vigorous axes in blue, branches in green, short axis bearing sexuality in red.