dates

20-24 January 2025

Landscape genomics is an emerging research field that studies how genetic diversity distributes across space and how environmental features can modify this structure through local adaptation. In this workshop, students will learn the basics of this approach and train using state of the art methods. The course will provide an overview of the type of dataset that can be used for a landscape genomics analysis. Firstly, students will learn how to obtain environmental data from publicly available databases, how to process it with Geographic Information Systems (GIS) and how to use the latter to produce indicators able to describe the characteristics of the landscape. Next, the course will discuss the different approaches to obtain genetic data and subsequently show how to study genetic variation and population structure across space in the R environment. Students will be given an overview of the different statistical approaches to study local adaptation, and will be trained in using Sambada. The course will also cover the critical task of the interpretation and validation of the results. Finally, the workshop will consider the crucial aspects and good habits to account for when planning a landscape genomics experiment (e.g. sampling design). 

This workshop is aimed at all biologists, ecologists, geneticists, veterinarians that want to implement the landscape genomics approach in their own studies of evolutionary biology and conservation. Even though the course is not intended for a specialized audience, basic knowledge in evolutionary biology and population genetics would help. Students will learn how to use GIS, but basic computer skills are desirable (e.g. in the R environment). A basic understanding of statistics is also necessary.

The course is organized in ten learning sessions. During the first two sessions, the course will provide a contextualization of the research field. Then, students will be guided through a landscape genomics experiment with sessions that couple brief theoretical introductions with practical work.

Monday –  9 am-5 pm CET

 -          Overview of the course program

 -          Introduction on Landscape Genomics

 -          The environmental data

-          The genetic data

       -          GIS, coordinate systems, modelling modes

Tuesday –  9 am-5 pm CET

-          Environmental characterization of the samples

-          Point versus surface

-          Analysis of environmental diversity of samples

-          Vegetation indices and land surface temperature based on remote sensing data and Google Earth Engine

Wednesday – 9 am-5 pm CET

 -          Planning a Landscape Genomics Experiment

-          Sampling Design

-          Genetic ata filtering

-          Spatial genetic variation

-          Population structure

Thursday – 9 am-5 pm CET

-          Combining environmental and genetic data with samβada

-          Correction for multiple comparisons (Bonferroni, FDR)

-           Identification of markers under selection, sorting of association models obtained

-          Calculation of spatial autocorrelation and their cartography

Friday – 9 am-3 pm CET

-          Thematic mapping

-          Take home messages

-          Question time

COst overview

BB Consul (Pomorska 140, 91-404 Łódź, tel +48603176366 )

 Villa Masoneria (Tramwajowa 11, 90-132 Łódź, tel: +48723248739)