Équipe : SMILE - Stochastic Models for the Inference of Life Evolution
Responsable : Amaury Lambert
Laboratoire : UMR 7241 Centre interdisciplinaire de Recherche en Biologie (Collège de France)
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Descriptif :
The SMILE group has a world-renowned expertise of stochastic models and inference methods in population genetics (mutation, recombination, genetic drift, selection), ecology (competition, predation, infection) and phylogenetics (speciation, extinction, horizontal gene transfer). Probabilistic models can be used to infer evolutionary processes from the knowledge of contemporary genotypes and phenotypes. Typically, phylogenetic trees can be reconstructed by estimating the divergence times between present-day taxa from the comparison of their DNA sequences. The phylogeny carries the footprint of the process that has shaped it and can thus ideally serve to estimate, depending on the scale : speciation and extinction rates (macro-evolution scale), past demographic dynamics (population genetics scale) or epidemic processes (microbial evolution scale). Recently, the four permanent members of the group (Amaury Lambert, PR Sorbonne U (PI); Guillaume Achaz, PR Université de Paris; Emmanuel Schertzer, MC HDR Sorbonne U; François Blanquart, CR CNRS) have focused on four main collaborating projects : - Genomics of species diversification : Understanding the interplay between gene trees and species trees inherited from the diversification process. - Somatic evolution : Applying population genetic methods to evolutionary processes in the soma (antibody maturation, cancer). - Redcode of Life: Quantifying species extinction risk from genomic data. - Evolution of resistance and virulence of bacterial pathogens: Predicting epidemiological and evolutionary dynamics of E. coli.
The SMILE group has a world-renowned expertise of stochastic models and inference methods in population genetics (mutation, recombination, genetic drift, selection), ecology (competition, predation, infection) and phylogenetics (speciation, extinction, horizontal gene transfer). Probabilistic models can be used to infer evolutionary processes from the knowledge of contemporary genotypes and phenotypes. Typically, phylogenetic trees can be reconstructed by estimating the divergence times between present-day taxa from the comparison of their DNA sequences. The phylogeny carries the footprint of the process that has shaped it and can thus ideally serve to estimate, depending on the scale : speciation and extinction rates (macro-evolution scale), past demographic dynamics (population genetics scale) or epidemic processes (microbial evolution scale). Recently, the four permanent members of the group (Amaury Lambert, PR Sorbonne U (PI); Guillaume Achaz, PR Université de Paris; Emmanuel Schertzer, MC HDR Sorbonne U; François Blanquart, CR CNRS) have focused on four main collaborating projects : - Genomics of species diversification : Understanding the interplay between gene trees and species trees inherited from the diversification process. - Somatic evolution : Applying population genetic methods to evolutionary processes in the soma (antibody maturation, cancer). - Redcode of Life: Quantifying species extinction risk from genomic data. - Evolution of resistance and virulence of bacterial pathogens: Predicting epidemiological and evolutionary dynamics of E. coli.
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