COEVOL Multi-Scale Coevolution

Living systems are highly integrated, with a multitude of levels of organization, from molecular and intra-cellular scales to ecosystems. Complex organisms are themselves consortia of macro- and micro-organisms, which work together with their host to build the individual. Yet, each of these organisms can function and evolve in the short term according to its own logic, possibly in conflict with other higher or lower levels, or with other time scales. The once common idea among evolutionists that natural selection results in organisms perfectly adapted to their environment is now severely undermined. Not only because, as the Red Queen explains to Alice, one has to run relentlessly to keep its place in a changing environment, or because past evolutionary history and chance constrain the possibilities of present adaptation, but also because different levels of selection have interests that are generally difficult to reconcile.

Multi-scale coevolution resets classical questions in evolutionary biology

One example, of particular interest is the question of the source of heritable variations. The phenotype of organisms in a population is influenced not only by variations in their nuclear and mitochondrial genomes, the dynamics of which is the object of population genetics, but also more and more patently by the consortium of microbes and genetic elements that constitute its microbiome and virome. The hologenome designates this complex assembly of genetic materials, which obey different rules of transmission and different evolutionary strategies. The ability of symbionts to manipulate host phenotypes or to interfere with each other influences the evolutionary dynamics of all players in ways that are yet poorly understood. In addition, new questions arise, such as the importance of co-adaptation in these systems and their consequences in maintaining cohesive biological systems.

Symbiosis: a response to and a source of divergent selection

Using a variety of approaches combining experimental evolution, genomic, functional, phenotypic and behavioral data, we aim to test whether symbiosis facilitates diversification and to characterize the underlying microevolutionary processes.

Ecological networks of horizontal gene transfer

We develop original methods to detect gene transfer and we investigate the factors that influence the routes of gene transfers among microbes but also among insects.

The interplay between symbiosis, infection and immunity and its evolutionary consequences

We try to understand the intimate interaction of hosts with pathogens, symbionts and transposable elements and how it affects the extended phenotype of the host.

Transgenerational inheritance and environment changes

We try to decipher the molecular mechanisms that underlie rapid adaptation to environment and to test for transgenerational inheritance of fitness traits.

Intragenomic conflicts and demography

We are developing models to test whether changes in the demography of the host affect the dynamics of transposable elements.

The determinism of phenotypic convergence

We study the genomic basis of convergent phenotypic evolution in particular in the case of animals and plants adaptation to increasing temperature and decreasing water.

Reconciling the tree of life

We develop phylogenetic methods for “reconciling” gene/species or host/symbiont histories and use these methods to explore the bulk of extinct or undescribed species and the history of association of symbiotic microbes with their hosts.

Integrating methods

The methods we use to tackle the questions raised by multi-scale co-evolution extend from theory, modelling and simulation to big data analysis, lab (notably on insects), and to a lesser extent, field activities.

Implication of research, responsibility of researchers and citizen sciences

From our research (some of which have immediate consequences in health, agriculture and ecology) and our concerns about the responsibility of scientists in society, we are committed to promote an “implicative” research. The implicative position means that we try to work on the link between science and society, not only through a one-way communication, applying or explaining our science, but also favoring early discussions on research projects, that may influence our research directions.

Publications

Display of 691 to 720 publications on 749 in total

From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-Proteobacteria

Emmanuelle Lerat, Vincent Daubin, Nancy Moran

PLoS Biology . 1 ( 1 ) : 101-109

DOI: 10.1371/journal.pbio.0000019

2003

Journal article

see the publication

The source of laterally transferred genes in bacterial genomes

Vincent Daubin, E. Lerat, G. Perrière

Genome Biology . 4 : R57.1-R57.12

2003

Journal article

see the publication

Variation of the genome size estimate with environmental conditions in Drosophila melanogaster

C. Nardon, M. Weiss, Cristina Vieira, C. Biémont

Cytometry - Part A . 55A : 43-49

2003

Journal article

see the publication

Infectious behavior in a parasitoid

Julien Varaldi, P. Fouillet, M. Ravallec, M. Lopez-Ferber, M. Boulétreau, Frédéric Fleury

Science . 302 ( 5652 ) : 1930

DOI: 10.1126/science.1088798

2003

Journal article

see the publication

Between- and within-host species selection on cytoplasmic incompatibility-inducing Wolbachia in haplodiploids

F. Vavre, P. Fouillet, Frédéric Fleury

Evolution - International Journal of Organic Evolution . 57 : 421-427

2003

Journal article

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On the mechanism of Wolbachia-induced cytoplasmic incompatibility: confronting the models with the facts

D. Poinsot, S. Charlat, H. Mercot

BioEssays . 25 : 259-265

2003

Journal article

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Phylogenetics and the cohesion of bacterial genomes

Vincent Daubin, Nancy Moran, Howard Ochman

Science . 301 ( 5634 ) : 829-832

DOI: 10.1126/science.1086568

2003

Journal article

see the publication

On a modular domination game

S. Gravier, M. Mhalla, Eric Tannier

Theoretical Computer Science . 306 : 291-303

2003

Journal article

see the publication

H. Rafalimanana, L. Kaiser, Jean-Marie Delpuech

Pest Management Science . 58 : 321-328

2002

Journal article

see the publication

Infection polymorphism and cytoplasmic incompatibility in Hymenoptera-Wolbachia associations

F. Vavre, Frédéric Fleury, Julien Varaldi, P. Fouillet, M. Boulétreau

Heredity . 88 : 361-365

2002

Journal article

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Phylogeny of six African Leptopilina species (Hymenoptera : Cynipoidea Figitidae) parasitoids of Drosophila spp. with descriptions of three new species

R. Allemand, C. Lemaitre, F. Frey, M. Boulétreau, F. Vavre, G. Nordlander...

Annales de la Société Entomologique de France . 38 : 319-332

2002

Journal article

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True parthenogenesis induction or successful feminization?

S. Charlat, H. Merçot

Trends in Genetics . 18 : 70-71

2002

Journal article

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A phylogenomic approach to bacterial phylogeny: evidence of a core of genes sharing a common history

Vincent Daubin, Manolo Gouy, G. Perrière

Genome Research . 12 : 1080-1090

DOI: 10.1101/gr.187002

2002

Journal article

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Evolution of genome size in Drosophila. is the invader`s genome being invaded by transposable elements?

Cristina Vieira, C. Nardon, C. Arpin, D. Lepetit, C. Biémont

Molecular Biology and Evolution . 19 : 1154-1161

2002

Journal article

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Evolution de l’incompatibilité cytoplasmique associée à la bactérie Wolbachia

Sylvain Charlat

2002

Thesis

see the publication

Evolution of Wolbachia-induced cytoplasmic incompatibility in Drosophila simulans and D. sechellia

S. Charlat, A. Nirgianaki, K. Bourtzis, H. Mercot

Evolution - International Journal of Organic Evolution . 56 : 1735-42

2002

Journal article

see the publication

S. Charlat, H. Merçot

Trends in Genetics . 17 : 440-1

2001

Journal article

see the publication

COEVOL Multi-Scale Coevolution

Evolutionary Genetics of Interactions Group

The Cocoon Group

Multi-scale coevolution resets classical questions in evolutionary biology

Integrating methods

Implication of research, responsibility of researchers and citizen sciences

Publications

From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-Proteobacteria

The source of laterally transferred genes in bacterial genomes

Variation of the genome size estimate with environmental conditions in Drosophila melanogaster

Infectious behavior in a parasitoid

Between- and within-host species selection on cytoplasmic incompatibility-inducing Wolbachia in haplodiploids

On the mechanism of Wolbachia-induced cytoplasmic incompatibility: confronting the models with the facts

Phylogenetics and the cohesion of bacterial genomes

On a modular domination game

Worldwide distribution of transposable element copy number in natural populations of Drosophila simulans

WORLDWIDE DISTRIBUTION OF TRANSPOSABLE ELEMENT COPY NUMBER IN NATURAL POPULATIONS OF DROSOPHILA SIMULANS

Stimulating effects of the insecticide chlorpyrifos on host searching and infestation efficacy of a parasitoid wasp.

Stimulating effects of the insecticide chlorpyrifos on host searching and infestation efficacy of a parasitoid wasp

Infection polymorphism and cytoplasmic incompatibility in Hymenoptera-Wolbachia associations

Phylogeny of six African Leptopilina species (Hymenoptera : Cynipoidea Figitidae) parasitoids of Drosophila spp. with descriptions of three new species

True parthenogenesis induction or successful feminization?

A phylogenomic approach to bacterial phylogeny: evidence of a core of genes sharing a common history

Evolution of genome size in Drosophila. is the invader`s genome being invaded by transposable elements?

Evolution de l’incompatibilité cytoplasmique associée à la bactérie Wolbachia

Evolution of Wolbachia-induced cytoplasmic incompatibility in Drosophila simulans and D. sechellia

Phylogénie et évolution des génomes procaryotes

Partial compensation of the sublethal effect of deltamethrin on the sex pheromonal communication of Trichogramma brassicae

Modification by the Insecticide Chlorpyrifos of the Behavioral Response to Kairomones of a Parasitoid Wasp Leptopilina boulardi.

Removing symbiotic Wolbachia bacteria specifically inhibits oogenesis in a parasitic wasp

Within-species diversity of Wolbachia-induced cytoplasmic incompatibility in haplodiploid insects

Did Wolbachia cross the border?

On the mod resc model and the evolution of Wolbachia compatibility types

Wolbachia-induced cytoplasmic incompatibility

Transposable elements and genome evolution of invasive species: the case of Drosophila

Removing the symbiotic bacteria Wolbachia inhibits oogenesis in a parasitic wasp.

Cytoplasmic incompatibility and maternal-haploid