Publications associées à Crowd Patches: Populating Large-Scale Virtual Environments for Real-Time Applications

Impact of population size on early adaptation in rugged fitness landscapes

Anne-Florence Raphaëlle Bitbol, Richard Marie Servajean

Owing to stochastic fluctuations arising from finite population size, known as genetic drift, the ability of a population to explore a rugged fitness landscape depends on its size. In the weak mutation regime, while the mean steady-state fitness increases ...

ROYAL SOC2023

Hydrodynamic flow and concentration gradients in the gut enhance neutral bacterial diversity

Anne-Florence Raphaëlle Bitbol

The gut microbiota features important genetic diversity, and the specific spatial features of the gut may shape evolution within this environment. We investigate the fixation probability of neutral bacterial mutants within a minimal model of the gut that i ...

National Academy of Sciences2022

The SNP-Based Profiling of Montecristo Feral Goat Populations Reveals a History of Isolation, Bottlenecks, and the Effects of Management

Elia Vajana

The Montecristo wild goat is an endangered feral population that has been on the homonymous island in the Tuscan Archipelago since ancient times. The origins of Montecristo goats are still debated, with authors dating their introduction either back to Neol ...

MDPI2022

Stabilization of cultural innovations depends on population density: Testing an epidemiological model of cultural evolution against a global dataset of rock art sites and climate-based estimates of ancient population densities

John Richard Walker, Francesco Casalegno, Taylor Howard Newton

Demographic models of human cultural evolution have high explanatory potential but weak empirical support. Here we use a global dataset of rock art sites and climate and genetics-based estimates of ancient population densities to test a new model based on ...

2021

Mycobacterium leprae diversity and population dynamics in medieval Europe from novel ancient genomes

Stewart Cole, Philippe Busso, Charlotte Avanzi

Background Hansen's disease (leprosy), widespread in medieval Europe, is today mainly prevalent in tropical and subtropical regions with around 200,000 new cases reported annually. Despite its long history and appearance in historical records, its origins ...

BMC2021

Experimental assessment of traffic density estimation at link and network level with sparse data

Nikolaos Geroliminis, Anna Takayasu

This paper investigates the accuracy of mean density estimation from direct sensing at link and network levels. Different calculation methods are compared depending on sensor type, probe vehicles or loop detectors, and availability to quantify the magnitud ...

TAYLOR & FRANCIS LTD2022

Limits on amplifiers of natural selection under death-Birth updating

Andreas Pavlogiannis

The fixation probability of a single mutant invading a population of residents is among the most widely-studied quantities in evolutionary dynamics. Amplifiers of natural selection are population structures that increase the fixation probability of advanta ...

2020

Adapt or Perish: Evolutionary Rescue in a Gradually Deteriorating Environment

Loïc Marrec, Anne-Florence Raphaëlle Bitbol

We investigate the evolutionary rescue of a microbial population in a gradually deteriorating environment, through a combination of analytical calculations and stochastic simulations. We consider a population destined for extinction in the absence of mutan ...

2020

The population genetics of crypsis in vertebrates: recent insights from mice, hares, and lizards

Jeffrey David Jensen, Kristen Kay Irwin, Stefan Jean Laurent, Susanne Petra Pfeifer

By combining well-established population genetic theory with high-throughput sequencing data from natural populations, major strides have recently been made in understanding how, why, and when vertebrate populations evolve crypsis. Here, we focus on backgr ...

NATURE PUBLISHING GROUP2020

Seascape Genomics of the Sugar Kelp Saccharina latissima along the North Eastern Atlantic Latitudinal Gradient

Stéphane Mauger, Chloé Christiane Laurence Jollivet

Temperature is one of the most important range-limiting factors for many seaweeds. Driven by the recent climatic changes, rapid northward shifts of species' distribution ranges can potentially modify the phylogeographic signature of Last Glacial Maximum. W ...

MDPI2020

Effects of altered river network connectivity on the distribution of Salmo trutta: Insights from a metapopulation model

Andrea Rinaldo, Enrico Bertuzzo, Luca Carraro, Alexia Maria Gonzalez Ferreras

Network connectivity is a key feature of rivers that affects patterns and processes in lotic ecosystems. Few studies have considered how changes in river reach connectivity might affect ecosystem attributes at a whole river network scale. The use of popula ...

WILEY2019

Mitochondrial haplotypes affect metabolic phenotypes in the Drosophila Genetic Reference Panel

Adamantia Kapopoulou, Bart Deplancke, Johan Auwerx, Roel Paulus Josephus Bevers, Virginie Sandra Braman, Maria Litovchenko, Brian Dennis Hollis

The nature and extent of mitochondrial DNA variation in a population and how it affects traits is poorly understood. Here we resequence the mitochondrial genomes of 169 Drosophila Genetic Reference Panel lines, identifying 231 variants that stratify along ...

2019

Population structure determines the tradeoff between fixation probability and fixation time

Andreas Pavlogiannis

The rate of biological evolution depends on the fixation probability and on the fixation time of new mutants. Intensive research has focused on identifying population structures that augment the fixation probability of advantageous mutants. But these ampli ...

Springer2019

Historical dynamics of ecosystem services and land management policies in Switzerland

Jérôme Chenal, Stéphanie Aline Hasler, Rémi Jaligot, Martí Bosch Padrós

Ecosystem services (ES) are dynamic over space and time. Understanding and quantifying spatio-temporal trade-offs and synergies among multiples ES, as well identifying the drivers of change provides an opportunity to make the link between ecosystems, polic ...

2019

Fréchet means and Procrustes analysis in Wasserstein space

Victor Panaretos, Yoav Zemel

We consider two statistical problems at the intersection of functional and non-Euclidean data analysis: the determination of a Fréchet mean in the Wasserstein space of multivariate distributions; and the optimal registration of deformed random measures and ...

2019

Seasonal variability of groundwater level effects on the growth of Carex cinerascens in lake wetlands

Alexandre Buttler, Luca Bragazza, Pierre Rémi Mariotte, Wenjuan Feng, Mathieu Raymond Santonja

Groundwater level is crucial for wetland plant growth and reproduction, but the extent of its effect on plant growth can vary along with changed precipitation and temperature at different seasons. In this context, we investigated the effect of two groundwa ...

2020

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

Detecting overlapping spatial clusters of high sugar-sweetened beverage intake and high body mass index in a general population: a cross-sectional study

Stéphane Joost, Beatrice Bacchilega, David Nicolas De Ridder, Idris Guessous

Background: Evidence suggests that sugar-sweetened beverage (SSB) intake frequency is positively associated with the risk of obesity and diabetes. We aimed to identify populations and areas in high need for interventions to reduce SSB consumption using a f ...

2018

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

Stéphane Joost, Sylvie Stucki, Pierre Taberlet, Solange Catherine Gaillard

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

Two sides of the same coin: A population genetics perspective on lethal mutagenesis and mutational meltdown

Jeffrey David Jensen, Claudia Bank, Nicky Louise Ormond, Sebastian Matuszewski

The extinction of RNA virus populations upon application of a mutagenic drug is frequently referred to as evidence for the existence of an error threshold, above which the population cannot sustain the mutational load. To explain the extinction process aft ...

Oxford Univ Press2017