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Ralstonia solanacearum, the causal agent of a lethal bacterial wilt plant disease, infects an unusually wide range of hosts. These hosts can further be split into plants where R. solanacearum is known to cause disease (original hosts) and those where this bacterium can grow asymptomatically (distant hosts). Moreover, this pathogen is able to adapt to many plants as supported by field observations reporting emergence of strains with enlarged pathogenic properties. To investigate the genetic bases of host adaptation, we conducted evolution experiments by serial passages of a single clone of the pathogen on three original and two distant hosts over 300 bacterial generations and then analyzed the whole-genome of nine evolved clones.

Collections of specimens held by natural history museums are invaluable material for biodiversity inventory and evolutionary studies, with specimens accumulated over 300 years readily available for sampling. Unfortunately, most museum specimens yield low-quality DNA. Recent advances in sequencing technologies, so called next-generation sequencing, are revolutionizing phylogenetic investigations at a deep level.

Understanding climate-induced range shifts is crucial for biodiversity conservation. However, no general consensus has so far emerged about the mechanisms involved and the role of phylogeny in shaping species responses has been poorly explored. Here, we investigate whether species traits and their underlying phylogenetic constraints explain altitudinal shifts at the trailing and leading edges of stream fish species ranges. We demonstrate that these shifts are related to dissimilar mechanisms: whereas range retractions show some support for phylogenetic clustering due to a high level of conservatism in thermal safety margins, range expansions are underpinned by both evolutionarily conserved and labile traits, notably trophic position and life-history strategy, hence decreasing the strength of phylogenetic signal. Therefore, while climate change brings many difficulties in establishing a general understanding of species vulnerability, these findings emphasize how combining trait-based approaches in light of the species evolutionary history may offer new opportunities in facing conservation challenges.

The past two decades have seen great progress in understanding the mechanisms of ecosystem stability in local ecological systems. There is, however, an urgent need to extend existing knowledge to larger spatial scales to match the scale of management and conservation. Here, we develop a general theoretical framework to study the stability and variability of ecosystems at multiple scales. Analogously to the partitioning of biodiversity, we propose the concepts of alpha, beta and gamma variability.

Horizontal gene transfer has an extraordinary impact on microbe evolution and diversification, by allowing exploration of new niches such as higher organisms. This is the case for rhizobia, a group of phylogenetically diverse bacteria that form a nitrogen-fixing symbiotic relationship with most leguminous plants. While these arose through horizontal transfer of symbiotic plasmids, this in itself is usually unproductive, and full expression of the acquired traits needs subsequent remodeling of the genome to ensure the ecological success of the transfer. Here we uncover a mechanism that accelerates the evolution of a soil bacterium into a legume symbiont. This project was funded by TULIP LabEx "innovative project".

The most threatened mammal group on Earth, Madagascar’s five endemic lemur families (lemurs are found nowhere else), represent more than 20% of the world’s primate species and 30% of family-level diversity.

Rhizobium-induced root nodules are specialized organs for symbiotic nitrogen fixation. Indeterminate-type nodules are formed from an apical meristem and exhibit a spatial zonation which corresponds to successive developmental stages. To get a dynamic and integrated view of plant and bacterial gene expression associated with nodule development, we used a sensitive and comprehensive approach based upon oriented high-depth RNA sequencing coupled to laser microdissection of nodule regions.

Heritability (i.e. the heredity of differences) is a central parameter of evolutionary sciences, as evolution by natural selection or drift can only occur in traits that are heritable. However, in many circumstances, heritability estimates are subject to two potentially interacting pitfalls: the spatial and the regression to the mean (RTM) fallacies. The spatial fallacy occurs when the set of potential movement options differs among individuals according to where individuals depart.

The evolution of senescence (the physiological decline of organisms with age) poses an apparent paradox because it represents a failure of natural selection to increase the survival and reproductive performance of organisms. The paradox can be resolved if natural selection becomes less effective with age, because the death of post-reproductive individuals should have diminished effects on Darwinian fitness. A substantial body of empirical work is consistent with this prediction for animals, which transmit their genes to progeny via an immortal germline. However, such evidence is still lacking in plants, which lack a germline and whose reproduction is diffuse and modular across the soma. Here, we provide experimental evidence for a genetic basis of senescence in the short-lived perennial plant Silene latifolia. Our pedigree-based analysis revealed a marked increase with age in the additive genetic variance of traits closely associated with fitness. This result thus extends to plants the quantitative genetic support for the evolutionary theory of senescence.

The root parasite Aphanomyces euteiches is the main pathogen of pea in Europe and is also an important limiting factor of alfalfa production in USA. Since no chemical control is available against A. euteiches, genetic programs to improve crop resistance is the best hope to prevent the spread of this disease.