Phylogenetics and the generation of biodiversity

People involved in this research theme: Romain Bertrand, Arnaud di Franco, Hervé Philippe

Knowledge of the phylogenetic history of living organisms is a prerequisite to a full understanding of biodiversity. Phylogenetic reconstruction and dating turn out to be extremely difficult. Although the availability of genomic data partly alleviates the problem, improvement in models remains necessary. We are interested in understanding molecular evolution to develop more accurate models, applying these new methods to the resolution of the Tree of Life, and studying the relationship between phylogeny and ecological niches. We focus on the origin and evolution of eukaryotes (in particular animals and photosynthetic organisms) and analyze genomic and paleontological data in the light of the inferred phylogenies and their diversification pattern.

Eco-evolutionary dynamics, from genes to ecosystems

People involved in this research theme: Romain Bertrand, Claire de Mazancourt, Michel Loreau, Miguel Lurgi, Jose Montoya, Hervé Philippe

Ecology does not make sense except in the light of evolution; reciprocally, evolution does not make sense except in the light of ecology. The intimate feedbacks that link ecological and evolutionary dynamics operate not only over long timescales to constrain current patterns of biodiversity and ecosystem functioning, but also over shorter timescales to constrain the responses of species and ecosystems to current global environmental changes. We integrate ecology and evolution to understand the role of eco-evolutionary dynamics in the emergence of structure and organisation in complex ecosystems or ecological networks, and its role in the responses of populations and communities to environmental changes. We do this by developing new theory and phylogenetic methods and applying them to patterns across different scales of biological organisation, from genomes to hyper-diverse microbiomes.


Structure, dynamics and biogeography of ecological networks

People involved in this research theme: Nuria Galiana, Miguel Lurgi, Daniel Montoya, Jose Montoya

Ecosystems are not random additions of species. Ever since Darwin coined his metaphor of the "entangled bank”, ecologists have tried to decipher how and why species coexist in complex networks of biotic interactions. Ecological networks depict the specific arrangement of biotic interactions between species within ecosystems. They help to understand how biodiversity is organised, generated and maintained. In addition, the structure of ecological networks determines the dynamics of populations and ecosystems, and mediates a number of ecosystem processes and services. We study the relationship between the structure, dynamics and functioning of species networks belonging to different habitat types. We mostly focus on food webs, but we also study symbiotic interactions and multiple interaction types. Lately, we have become interested in changes in network structure and dynamics at biogeographical extents and in the determinants of the geographical variability of network structure. In doing so, we combine theoretical models and large dataset analyses.

Global change effects on biodiversity

People involved in this research theme: Romain Bertrand, Michel Loreau, Jose Montoya.

Anthropogenic impacts on biodiversity are many. Climate change and habitat loss and fragmentation are among the greatest threats to biodiversity and ecosystems globally. For example, under current policies, global warming is predicted to threaten one in six species with extinction during this century. We study the individual and combined impacts of these major threats to biodiversity at different levels of biological organization. We are interested on the impacts of global change on population- and community-level dynamics and stability, and on ecosystem structure and functioning. In doing so, we combine modelling, analyses of large datasets, and whole-ecosystem experimental manipulations.


Biodiversity, ecosystem functioning and ecosystem services

People involved in this research theme: Romain Bertrand, Claire de Mazancourt, Michel Loreau, Daniel Montoya.

Ecosystems generate services on which humans depend directly or indirectly, such as biomass production, water purification, erosion control, pollination, and pest and disease control. One of the main challenges of biodiversity science is to understand and predict how biodiversity changes will affect the delivery of these ecosystem services. We use dynamical models of communities and ecosystems to understand the mechanisms through which biodiversity modulates ecosystem functioning and predict its impacts on ecosystem services. We also study synergies and trade-offs between multiple ecosystem services, in particular crop production, crop pollination and biological control in agricultural landscapes.


Biodiversity and stability of ecological systems

People involved in this research theme: Jean-François Arnoldi, Matthieu Barbier, Robin Delsol, Claire de Mazancourt, Bart Haegeman, Michel Loreau, Jose Montoya, Daniel Montoya, David Shanafelt, Yuval Zelnik

One critical aspect of ecosystem functioning is its stability. Ecological stability is key to both the maintenance of biodiversity and the sustainability of human societies as fluctuations of ecosystem services often have detrimental effects. We currently focus on the development of new approaches to quantifying and understanding ecosystem stability in time and space. Stability has been defined in many different ways that have been kept separate so far. We establish connections between different stability measures, notably empirical and theoretical measures, and build a new body of theory that is relevant to empirical studies. In particular, we explore new measures of invariability, stability - area relationships, and stability across scales in metacommunities.

Habitat fragmentation and spatial dynamics of biodiversity

People involved in this research theme: Matthieu Barbier,Bart Haegeman,Michel Loreau,Jose Montoya,David Shanafelt,Yuval Zelnik

Virtually all ecological systems are embedded in spatial networks connected by myriad abiotic and biotic flows. As a result, processes that operate at one spatial scale can strongly influence patterns at other scales, leading to highly complex meta-systems (metacommunities, meta-ecosystems). Habitat destruction and fragmentation are a major driver of current biodiversity loss, especially in terrestrial ecosystems, and have important indirect effects on intact habitat fragments by altering spatial dynamics. We build mechanistic models to elucidate the fundamental mechanisms that govern biodiversity and ecosystem functioning at multiple spatial scales and predict the consequences of habitat destruction and fragmentation. In particular, we develop new theory to predict ecosystem stability across scales in metacommunities (in connection with the previous research theme) and integrate trophic complexity into meta-ecosystems.


Human-nature interactions

People involved in this research theme: Claire de Mazancourt, Kirsten Henderson, Anne-Sophie Lafuite, Michel Loreau,David Shanafelt

Human societies have major impacts on biodiversity and ecosystems, from local to global scales. In turn, they depend on biodiversity and ecosystems through a wide range of ecosystem services at multiple scales. This generates an important if poorly understood feedback loop between humans and nature. We build novel models that include this human nature feedback together with changes in human behaviour and spatial ecological dynamics to investigate the stability of coupled social-ecological systems and their ability to keep providing ecosystem services to a growing human population. Our integrative dynamical approach aims to provide new insights into the long-term sustainability of human societies and of their interactions with the rest of nature.

The CBTM is also in charge of biodiversity-related activities in the AnaEE France infrastructure project.