Effective field-based high-throughput phenotyping is key for future breeding advances

Organisation

5 reasons to attend this course

Learn about different platforms, sensors and carriers used for plant phenotyping.
Determine suitable experimental designs and perform analysis using mixed models.
Study the potential of integrating secondary plant traits in genetic models for predicting yield.
Acquire practical experience in applying statistical methods through the analysis of case studies and hands-on exercises.
Meet first-line international experts in this field and share professional experiences and concerns with them.

Lecturers

Janine Anderegg, ETH Zürich (Switzerland)
Javier Betrán, Bayer, Toulouse (France)
Daniela Bustos, Wageningen UR (The Netherlands)
Jens Hartung, Univ. Hohenheim, Stuttgart (Germany)
Andreas Hund, ETH Zürich (Switzerland)
Lukas Kronenberg, ETH Zürich (Switzerland)
Emilie Millet, Wageningen UR (The Netherlands)
Hans-Peter Piepho, University of Hohenheim, Stuttgart (Germany)
Lukas Roth, ETH Zürich (Switzerland)
Fred van Eeuwijk, Wageningen UR (The Netherlands)

20 hours in-class training

15 hours of practical work and case studies

Leading international experts

Course in English

Programme

  • 1. Prediction, Prescription, Precision and Plant Phenotyping
  • 2. Introduction to phenomics
    • 2.1. Indoor platforms
    • 2.2. Field phenomics including sensors and carriers
    • 2.3. Data processing pipeline for crop phenomics
    • 2.4. The European Plant Phenotyping Network and EMPHASIS
  • 3. Choosing the design for field and platform experiments
    • 3.1. Fully replicated experiments
    • 3.2. Partially replicated experiments
    • 3.3. Design of multi-environment trials
    • 3.4. Practical work
  • 4. Data collection and handling
    • 4.1. Introduction to feature extraction
    • 4.2. Case study and practical work on date-time formats and relational data tables
  • 5. Mixed models analysis of extracted features
    • 5.1. Single experiment
    • 5.2. Multiple experiment
    • 5.3. Analysis of time series
    • 5.4. Case studies and practical work
      • 5.4.1. Correcting for spatial variation and temporal modelling
      • 5.4.2. Rerandomization in platforms
  • 6. Statistical and machine learning techniques for feature extraction
    • 6.1. Dimension reduction and cluster analysis
    • 6.2. Penalized regression, classification and regression trees
    • 6.3. Deep learning
    • 6.4. Case study and practical work on feature extraction from hyperspectral canopy reflectance data using indices and multivariate analyses
  • 7. Environmental data for modelling phenomic data
    • 7.1. Recording of environmental variates for plant phenotyping experiments
    • 7.2. Construction of environmental indexes
    • 7.3. Case study and practical work on modelling growth and developmental processes using environmental covariates
  • 8. Integration of environmental, genomic and phenomic data
    • 8.1. QTL and association mapping
    • 8.2. Genomic prediction
    • 8.3. Use of crop growth modelling

Train at an outstanding international institution

Registration

If you wish to participate in the course, apply online at the following address: www.admission.iamz.ciheam.org

This course is designed for 25 professionals with a university degree and with a background in plant breeding and biology who want a wider and integrated perspective in statistical data analysis and interpretation relevant to contemporary plant phenomics and genomics. Working knowledge on experimental design, analysis of variance and regression is required. Basic knowledge of R is expected. Familiarity with quantitative genetic theory and QTL mapping is also desirable.

English will be the working language of the course.

The course will be held at IAMZ-CIHEAM in Zaragoza from 20-24 January 2020, in morning and afternoon sessions.
Application deadlines:

  • 30 October 2019 - The deadline may be extended for candidates not requiring a visa and not applying for a grant if there are free places available.
  • Apply here: www.admission.iamz.ciheam.org

Registration fees for the course amount to 500 euro. This sum covers tuition fees only.
Candidates from CIHEAM member countries (Albania, Algeria, Egypt, France, Greece, Italy, Lebanon, Malta, Morocco, Portugal, Spain, Tunisia and Turkey) may apply for scholarships covering registration fees and full board accommodation.
Candidates from other countries who require financial support should apply directly to other national or international institutions.

It is compulsory for participants to have medical insurance valid for Spain. Proof of insurance cover must be given at the beginning of the course. Those who so wish may participate in a collective insurance policy taken out by the Organisation, upon payment of the stipulated sum.

Mediterranean Agronomic Institute of Zaragoza

Av. MontaƱana 1005, 50059 Zaragoza, Spain

www.iamz.ciheam.org

iamz@iamz.ciheam.org

+34 976716000

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