An integrated cell atlas of the lung in health and disease.

Single-cell technologies have transformed our understanding of human tissues. Yet, studies typically capture only a limited number of donors and disagree on cell type definitions. Integrating many single-cell datasets can address these limitations of individual studies and capture the variability present in the population.

Coral reef structural complexity provides important coastal protection from waves under rising sea levels.

Coral reefs are diverse ecosystems that support millions of people worldwide by providing coastal protection from waves. Climate change and human impacts are leading to degraded coral reefs and to rising sea levels, posing concerns for the protection of tropical coastal regions in the near future. We use a wave dissipation model calibrated with empirical wave data to calculate the future increase of back-reef wave height.

Mapping social-ecological vulnerability to inform local decision making.

An overarching challenge of natural resource management and biodiversity conservation is that relationships between people and nature are difficult to integrate into tools that can effectively guide decision making. Social-ecological vulnerability offers a valuable framework for identifying and understanding important social-ecological linkages, and the implications of dependencies and other feedback loops in the system. Unfortunately, its implementation at local scales has hitherto been limited due at least in part to the lack of operational tools for spatial representation of social-ecological vulnerability.

Combining participatory and socioeconomic approaches to map fishing effort in small-scale fisheries.

Mapping the spatial allocation of fishing effort while including key stakeholders in the decision making process is essential for effective fisheries management but is difficult to implement in complex small-scale fisheries that are diffuse, informal and multifaceted. Here we present a standardized but flexible approach that combines participatory mapping approaches (fishers' spatial preference for fishing grounds, or fishing suitability) with socioeconomic approaches (spatial extrapolation of social surrogates, or fishing capacity) to generate a comprehensive map of predicted fishing effort. Using a real world case study, in Moorea, French Polynesia, we showed that high predicted fishing effort is not simply located in front of, or close to, main fishing villages with high dependence on marine resources; it also occurs where resource dependency is moderate and generally in near-shore areas and reef passages.

Simulating social-ecological systems: the Island Digital Ecosystem Avatars (IDEA) consortium.

Systems biology promises to revolutionize medicine, yet human wellbeing is also inherently linked to healthy societies and environments (sustainability). The IDEA Consortium is a systems ecology open science initiative to conduct the basic scientific research needed to build use-oriented simulations (avatars) of entire social-ecological systems. Islands are the most scientifically tractable places for these studies and we begin with one of the best known: Moorea, French Polynesia.

Predicting species diversity of benthic communities within turbid nearshore using full-waveform bathymetric LiDAR and machine learners.

Epi-macrobenthic species richness, abundance and composition are linked with type, assemblage and structural complexity of seabed habitat within coastal ecosystems. However, the evaluation of these habitats is highly hindered by limitations related to both waterborne surveys (slow acquisition, shallow water and low reactivity) and water clarity (turbid for most coastal areas). Substratum type/diversity and bathymetric features were elucidated using a supervised method applied to airborne bathymetric LiDAR waveforms over Saint-Siméon-Bonaventure's nearshore area (Gulf of Saint-Lawrence, Québec, Canada).