Publication

Spatial Areas of Genotype Probability (SPAG): predicting the spatial distribution of adaptive genetic variants under future climatic conditions

Publications associées (51)

Rapid identification and interpretation of gene‐environment associations using the new R.SamBada landscape genomics pipeline

Stéphane Joost, Oliver Michele Selmoni, Estelle Rochat, Sylvie Stucki, Kevin Leempoel, Elia Vajana

Samβada is a genome‐environment association (GEA) software, designed to search for signatures of local adaptation. However, pre‐ and post‐processing of data can be labour‐intensive, preventing wider uptake of the method. We have now developed R.SamBada, an ...

2019

Life-history trade-offs and limitations associated with phenotypic adaptation under future ocean warming and elevated salinity

Emma Mary Gibbin, Félix Christen

Little is known about the life-history trade-offs and limitations, and the physiological mechanisms that are associated with phenotypic adaptation to future ocean conditions. To address this knowledge gap, we investigated the within-and trans-generation li ...

ROYAL SOC2019

Computational and Statistical analyses of Molecular Evolution and Demography using Large-scale Sequencing Data

Adamantia Kapopoulou

Evolution can be described as the change of allele frequencies over time. Four forces - mutation, migration, genetic drift, and selection, drive this change. The aim of my thesis was to accurately estimate and differentiate the parameters governing each of ...

EPFL2018

High performance computation of landscape genomic models including local indicators of spatial association

Stéphane Joost, Sylvie Stucki, Pierre Taberlet

With the increasing availability of both molecular and topo-climatic data, the main challenges facing landscape genomics — i.e. the combination of landscape ecology with population genomics — include processing large numbers of models and distinguishing be ...

Wiley-Blackwell2017

Experimental evolution of slowed cognitive aging in Drosophila melanogaster

Brian Dennis Hollis

Reproductive output and cognitive performance decline in parallel during aging, but it is unknown whether this reflects a shared genetic architecture or merely the declining force of natural selection acting independently on both traits. We used experiment ...

2017

The ultimate and proximate mechanisms driving the evolution of long tails in forest deer mice

Susanne Petra Pfeifer

Understanding both the role of selection in driving phenotypic change and its underlying genetic basis remain major challenges in evolutionary biology. Here, we use modern tools to revisit a classic system of local adaptation in the North American deer mou ...

Wiley2017

Evaluating the Impact of Functional Genetic Variation on HIV-1 Control

Jacques Fellay, Istvan Bartha

Previous genetic association studies of human immunodeficiency virus-1 (HIV-1) progression have focused on common human genetic variation ascertained through genome-wide genotyping. ...

Oxford Univ Press Inc2017

Spatial Areas of Genotype Probability of Cattle Genomic Variants Involved in the Resistance to East Coast Fever: A Tool to Predict Future Disease-Vulnerable Geographical Regions

Stéphane Joost, Estelle Rochat, Elia Vajana

East Coast Fever (ECF) is a livestock disease caused by Theileria parva, a protozoan transmitted by the vector tick Rhipicephalus appendiculatus. This disease causes high mortality in cattle populations of Central and Eastern Africa, especially in exotic b ...

2016

An Approximate Markov Model for the Wright-Fisher Diffusion and Its Application to Time Series Data

Jeffrey David Jensen, Anna Ferrer Admetlla

The joint and accurate inference of selection and demography from genetic data is considered a particularly challenging question in population genetics, since both process may lead to very similar patterns of genetic diversity. However, additional informat ...

Genetics Society America2016

TEMPLE: analysing population genetic variation at transcription factor binding sites

Stefan Jean Laurent, Maria Litovchenko

Genetic variation occurring at the level of regulatory sequences can affect phenotypes and fitness in natural populations. This variation can be analysed in a population genetic framework to study how genetic drift and selection affect the evolution of the ...

Wiley-Blackwell2016

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