A whole-genome alignment of 240 phylogenetically diverse species of eutherian mammal-including 131 previously uncharacterized species-from the Zoonomia Project provides data that support biological discovery, medical research and conservation. The Zoonomia Project is investigating the genomics of shared and specialized traits in eutherian mammals. Here we provide genome assemblies for 131 species, of which all but 9 are previously uncharacterized, and describe a whole-genome alignment of 240 species of considerable phylogenetic diversity, comprising representatives from more than 80% of mammalian families. We find that regions of reduced genetic diversity are more abundant in species at a high risk of extinction, discern signals of evolutionary selection at high resolution and provide insights from individual reference genomes. By prioritizing phylogenetic diversity and making data available quickly and without restriction, the Zoonomia Project aims to support biological discovery, medical research and the conservation of biodiversity.

Individual-based models, 'IBMs', describe naturally the dynamics of interacting organisms or social or financial agents. They are considered too complex for mathematical analysis, but computer simulations of them cannot give the general insights required. Here, we resolve this problem with a general mathematical framework for IBMs containing interactions of an unlimited level of complexity, and derive equations that reliably approximate the effects of space and stochasticity. We provide software, specified in an accessible and intuitive graphical way, so any researcher can obtain analytical and simulation results for any particular IBM without algebraic manipulation. We illustrate the framework with examples from movement ecology, conservation biology, and evolutionary ecology. This framework will provide unprecedented insights into a hitherto intractable panoply of complex models across many scientific fields.

Birdsong has long connected humans to nature. Historical reconstructions using bird monitoring and song recordings collected by citizen scientists reveal that the soundscape of birdsong in North America and Europe is both quieter and less varied, mirroring declines in bird diversity and abundance. Natural sounds, and bird song in particular, play a key role in building and maintaining our connection with nature, but widespread declines in bird populations mean that the acoustic properties of natural soundscapes may be changing. Using data-driven reconstructions of soundscapes in lieu of historical recordings, here we quantify changes in soundscape characteristics at more than 200,000 sites across North America and Europe. We integrate citizen science bird monitoring data with recordings of individual species to reveal a pervasive loss of acoustic diversity and intensity of soundscapes across both continents over the past 25 years, driven by changes in species richness and abundance. These results suggest that one of the fundamental pathways through which humans engage with nature is in chronic decline, with potentially widespread implications for human health and well-being.

Persistent poaching fuelled by demand for elephant ivory and rhino horn continues to threaten these species. Despite international trade restrictions operating since the 1970s, limiting poaching has remained a substantial challenge over the last decade. The poaching economy of such storable goods is driven by a combination of persistent consumer demand and market speculation, and enabled by weak governance, lack of adequate resources for species protection, and alienation of local people who pay the costs of living alongside these species. We argue that restricting the legal supply of such wildlife products has created ideal conditions for the poaching economy - `poachernomics' - to thrive. Strategies that move toward empowering local communities with stronger property rights over wildlife and delivering more benefits to them, including via carefully regulated legal trade, are underused elements in the current fight against the onslaught of the international illegal wildlife trade.

Context. Micro-physical processes on interstellar dust surfaces are tightly connected to dust properties (i.e. dust composition, size, and shape) and play a key role in numerous phenomena in the interstellar medium (ISM). The large disparity in physical conditions (i.e. density and gas temperature) in the ISM triggers an evolution of dust properties. The analysis of how dust evolves with the physical conditions is a stepping stone towards a more thorough understanding of interstellar dust.Aims. We highlight dust evolution in the Horsehead nebula photon-dominated region.Methods. We used Spitzer/IRAC (3.6, 4.5, 5.8 and 8 mu m) and Spitzer/MIPS (24 mu m) together with Herschel/PACS (70 and 160 mu m) and Herschel/SPIRE (250, 350 and 500 mu m) to map the spatial distribution of dust in the Horsehead nebula over the entire emission spectral range. We modelled dust emission and scattering using the THEMIS interstellar dust model together with the 3D radiative transfer code SOC.Results. We find that the nano-grain dust-to-gas ratio in the irradiated outer part of the Horsehead is 6-10 times lower than in the diffuse ISM. The minimum size of these grains is 2-2.25 times larger than in the diffuse ISM, and the power-law exponent of their size distribution is 1.1-1.4 times lower than in the diffuse ISM. In the denser part of the Horsehead nebula, it is necessary to use evolved grains (i.e. aggregates, with or without an ice mantle).Conclusions. It is not possible to explain the observations using grains from the diffuse medium. We therefore propose the following scenario to explain our results. In the outer part of the Horsehead nebula, all the nano-grain have not yet had time to re-form completely through photo-fragmentation of aggregates and the smallest of the nano-grain that are sensitive to the radiation field are photo-destroyed. In the inner part of the Horsehead nebula, grains most likely consist of multi-compositional mantled aggregates.

The spatial arrangement of habitat patches in a metapopulation and the dispersal connections among them influence metapopulation persistence. Metapopulation persistence emerges from a dynamic process, namely the serial extinctions and recolonizations of local habitat patches, while measures of persistence are typically based solely on structural properties of the spatial network (e.g., spatial distance between sites). Persistence estimators based on static properties may be unable to capture the dynamic nature of persistence. Understanding the shape of the distribution of extinction times is a central goal in population ecology. Here, we examine the goodness of fit of the power law to patch persistence time distributions using data on a foundational metapopulation system-the Glanville fritillary butterfly in the angstrom land islands. Further, we address the relationship between structural measures of metapopulation persistence (i.e., metapopulation capacity) and our temporal distributional fits to patch persistence times based on a power law. Patch persistence time distributions were well fit by a power law for the majority of semi-independent networks. Power law fits to persistence time distributions were related to metapopulation capacity, linking structural and temporal measures of metapopulation persistence. Several environmental variables and measures of network topology were correlated with both measures of metapopulation persistence, though correlations tended to be stronger for the structural measure of metapopulation persistence (i.e., metapopulation capacity). Together, our findings suggest that persistence time distributions are useful dynamic properties of metapopulations, and provide evidence of a relationship between metapopulation structure and metapopulation dynamics.

Habitat loss is one of the key drivers of the ongoing decline of biodiversity. However, ecologists still argue about how fragmentation of habitat (independent of habitat loss) affects species richness. The recently proposed habitat amount hypothesis posits that species richness only depends on the total amount of habitat in a local landscape. In contrast, empirical studies report contrasting patterns: some find positive and others negative effects of fragmentation per se on species richness. To explain this apparent disparity, we devise a stochastic, spatially explicit model of competitive species communities in heterogeneous habitats. The model shows that habitat loss and fragmentation have complex effects on species diversity in competitive communities. When the total amount of habitat is large, fragmentation per se tends to increase species diversity, but if the total amount of habitat is small, the situation is reversed: fragmentation per se decreases species diversity.

A dramatic insect decline has been documented on the grasslands and forests of European or North American mainland. Yet, other parts of the world and other ecosystems remain much less studied with unknown patterns. Using a unique time-series dataset, we investigate recent trends on abundance and richness of arthropods sampled in Azorean native forest over 6 years (2013-2018). We test the hypothesis that biodiversity erosion drivers are changing the diversity and relative species abundance structure (species abundance distribution, SAD) of endemics, native non-endemics and exotic species over time. We also examine temporal trends in abundance for each individual species. In contrast with mainland studies, we observed no decline in overall arthropod diversity, but a clear increase in the diversity of exotic arthropods and some evidence of a tendency for decreasing abundance for some endemic species. We also document stronger species turnover for exotic species, but no specific changes in the SAD. We argue that many changes, particularly in unique systems such as islands, will be noticed not at the richness but mostly at compositional level. Special attention should be given to exotic species which are known to be one of the major drivers of biodiversity erosion on islands.

In biodiversity conservation, habitat corridors are assumed to increase landscape-level connectivity and to enhance the viability of otherwise isolated populations. While the role of corridors is supported by empirical evidence, studies have typically been conducted at small spatial scales. Here, we assess the quality and the functionality of a large 95-km long forest corridor connecting two large national parks (416 and 311 km(2)) in the southeastern escarpment of Madagascar. We analyze the occurrence of 300 species in 5 taxonomic groups in the parks and in the corridor, and combine high-resolution forest cover data with a simulation model to examine various scenarios of corridor destruction. At present, the corridor contains essentially the same communities as the national parks, reflecting its breadth which on average matches that of the parks. In the simulation model, we consider three types of dispersers: passive dispersers, which settle randomly around the source population; active dispersers, which settle only in favorable habitat; and gap-avoiding active dispersers, which avoid dispersing across non-habitat. Our results suggest that long-distance passive dispersers are most sensitive to ongoing degradation of the corridor, because increasing numbers of propagules are lost outside the forest habitat. For a wide range of dispersal parameters, the national parks are large enough to sustain stable populations until the corridor becomes severely broken, which will happen around 2065 if the current rate of forest loss continues. A significant decrease in gene flow along the corridor is expected after 2040, and this will exacerbate the adverse consequences of isolation. Our results demonstrate that simulation studies assessing the role of habitat corridors should pay close attention to the mode of dispersal and the effects of regional stochasticity.

Global terrestrial biodiversity hotspots (GBH) represent areas featuring exceptional concentrations of endemism and habitat loss in the world. Unfortunately, geospatial data of natural habitats of the GBHs are often outdated, imprecise, and coarse, and need updating for improved management and protection actions. Recent developments in satellite image availability, combined with enhanced machine learning algorithms and computing capacity, enable cost-efficient updating of geospatial information of these already severely fragmented habitats. This study aimed to develop a more accurate method for mapping closed canopy evergreen natural forest (CCEF) of the Eastern Arc Mountains (EAM) ecoregion in Tanzania and Kenya, and to update the knowledge on its spatial extent, level of fragmentation, and conservation status. We tested 1023 model possibilities stemming from a combination of Sentinel-1 (S1) and Sentinel-2 (S2) satellite imagery, spatial texture of S1 and S2, seasonality derived from Landsat-8 time series, and topographic information, using random forest modelling approach. We compared the best CCEF model with existing spatial forest products from the EAM through independent accuracy assessment. Finally, the CCEF model was used to estimate the fragmentation and conservation coverage of the EAM. The CCEF model has moderate accuracy measured in True Skill Statistic (0.57), and it clearly outperforms other similar products from the region. Based on this model, there are about 296,000 ha of Eastern Arc Forests (EAF) left. Furthermore, acknowledging small forest fragments (1-10 ha) implies that the EAFs are more fragmented than previously considered. Currently, the official protection of EAFs is disproportionally targeting well-studied mountain blocks, while less known areas and small fragments are underrepresented in the protected area network. Thus, the generated CCEF model should be used to design updates and more informed and detailed conservation allocation plans to balance this situation. The results highlight that spatial texture of S2, seasonality, and topography are the most important variables describing the EAFs, while spatial texture of S1 increases the model performance slightly. All in all, our work demonstrates that recent developments in Earth observation allows significant enhancements in mapping, which should be utilized in areas with outstanding biodiversity values for better forest and conservation planning.