Genetic association studies

Aims

Understand the need of preserving the genetic variability  To know the objectives of germplasm banks Understand basic population genetic concepts to measure genetic diversity  Be familiar with multivariate methods to classify genotypes using molecular markers Reinforce Quantitative Genetics theory  Understand the basis of Quantitative Trait Locus (QTL) analysis To know the most common QTL mapping methods To provide a general view of the answers obtained by QTL analysis experiments. To introduce the advance backcross-QTL strategy to introgress genetic variability from wild species into elite germplasm.  To give a view of the future applications of Quantitative Genetics and QTL analysis in Genomics research.  

Prerequisites

Basic statistics (means, ANOVA, regression)            
 Genetics (DNA, chromosome, gene, Mendel law, locus, alleles, heterozygosity)            
 Basic molecular biology (PCR, gene expression)            
 Plant biology            
 Molecular markers (The most common molecular marker types)
 
 
  

Learning Outcomes

·         Students will be able to design a project to analyse genetic variability, choosing the appropriate markers and multivariate analysis method depending on the tools that they may have available. ·          Students will have skills to manage some multivariate softwares for genotype classification. ·         Students will learn how interpret the output of multivariate methods. ·         Students will have knowledge of the importance of the genetic variability included in wild species and how to manage it. ·         Students will be able to design QTL mapping experiments. ·         Students will have expertise in the management of QTL software ·         Students will be familiar with the possibilities of QTL mapping methodologies in plant breeding and genomics.  ·         Students will be able to design marker assisted selection programs to develop introgresión lines.    

Syllabus

- Basic statistics concepts - Brief history of agriculture,Genetic Resources and Germplasm Banks.             - Population Genetics and genetic diversity analysis.             - Multivariate Analysis I. Introduction. Classification methods             - Multivariate Analysis II. Ordination methods             - Introduction to Quantitative Genetics             - Introduction to QTL analysis.             - Design of QTL detection experiments. Interpretation of the results             - Questions and answer provided by QTL analysis. Review of published results:             - Genomic libraries of introgression lines for QTL analysis             - QTL cloning and introduction to Genetical Genomics - SNP and Diversity analysis with TASSEL and CurlyWhirly - QTL analysis with QTLcartographer  

Content Delivery

- The main material will be powerpoint presentations - For each subject, the next sequence will be followed             1- A brief introduction to remind or strength the basic concepts/methologies needed to understand the subject             2- Explanation of the statistical/genetic theory             3- Case studies to apply the methodology             4- Focus on the interpretation of the results             5- Computer practice  

Coursework And Assignment Details

·         Written exam with three types of questions 1- Multiple choices. The student will have to choose the right answer from 4 different options. Every right choice will sum 1 point. These questions will represent 65% of total grade. 2- Short questions. The student will have to define with his own words some of the concepts explained during the course. Each question will sum up to 2 points. These questions will represent 15% of total grade. 3- Problems. The student will have to analyze some data and interpret the results. Each question will sum up to 4 points. These questions will represent 25% of total grade.