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Regional Statistics Course – module 2

May 21, 2013

One-week course on genetic analysis and plant breeding

Drs. Jiankang Wang and Huihui Li, Genetic Resources Program, CIMMYT

Objectives of the workshop

Through lectures, practices and discussions, you will learn:

  • Plant breeding methodology
  • Applied quantitative genetics
  • Estimation of recombination between two linked loci
  • Construction of genetic linkage maps
  • Principles of QTL mapping and statistical comparison of diff erent mapping methods
  • Identifi cation of quantitative trait genes with additive (and dominance) effects
  • Identification of quantitative trait genes with epistasis eff ects
  • QTL by environment analysis
  • Modeling of plant breeding
  • Comparison and optimization of plant breeding strategies
  • Integration of known gene information into conventional plant breeding

Who should attend?

CIMMYT’s partners who are interested in applied quantitative genetics, linkage analysis, linkage map construction, QTL mapping, simulation and optimization of breeding strategies will benefi t from this course. Participants should be familiar with basic methods in plant genetics, plant breeding and statistics.

Computers: Each participant must bring a laptop computer that can run Microsoft Windows applications. A USB memory stick will be distributed to all participants at the beginning of the course. This contains the lecture presentations, the QTL IciMapping integrated software V3.3, QU-GENE simulation tools, exercises and answers, etc.

Tentative program

Day 1: Introduction of quantitative genetics

Genetic population and population structure, additive and dominance genetic model, mating designs and estimation of genetic variance and heritability, prediction of genetic gain, correlated selection and index selection etc.

Tentative program

Day 2: Genetic linkage analysis

in biparental genetic populations, genetic interference and mapping function, linkage map construction, handling redundant markers, integration of multiple linkage maps to generate a consensus map.

Day 3: Mapping additive (and dominance) QTL

Principle of QTL mapping, conventional Interval Mapping, Inclusive Composite Interval Mapping (ICIM) of QTLs, QTL by Environmental Interactions

Day 4: Mapping epistatic QTL and segregation distortion Loci (SDL)

Two-dimensional scanning for additive by additive interactions, two-dimensional scanning for additive by additive, additive by dominance, dominance by additive, and dominance by dominance interactions, segregation distortion loci mapping, QTL mapping with chromosome segment substitution (CSS) lines, other QTL mapping methods, QTL mapping in nested association mapping (NAM) populations, and frequently asked questions in QTL mapping studies

Day 5: Modeling and simulation of plant breeding programs

Principles of breeding simulation, defi ning genetic models in QU-GENE, defi ning breeding methods in QuLine, comparing breeding methods through simulation, and use of know genes in plant breeding