Habitat mediates coevolved but not novel species interactions

Ongoing recovery of native predators has the potential to alter species interactions, with community and ecosystem wide implications. We estimated the co-occurrence of three species of conservation and management interest from a multi-species citizen science camera trap survey. We demonstrate fundamental differences in novel and coevolved predator–prey interactions that are mediated by habitat. Specifically, we demonstrate that anthropogenic habitat modification had no influence on the expansion of the recovering native pine marten in Ireland, nor does it affect the predator's suppressive influence on an invasive prey species, the grey squirrel. By contrast, the direction of the interaction between the pine marten and a native prey species, the red squirrel, is dependent on habitat. Pine martens had a positive influence on red squirrel occurrence at a landscape scale, especially in native broadleaf woodlands. However, in areas dominated by non-native conifer plantations, the pine marten reduced red squirrel occurrence. These findings suggest that following the recovery of a native predator, the benefits of competitive release are spatially structured and habitat-specific. The potential for past and future landscape modification to alter established interactions between predators and prey has global implications in the context of the ongoing recovery of predator populations in human-modified landscapes.

Blue and green food webs respond differently to elevation and land use

While aquatic (blue) and terrestrial (green) food webs are parts of the same landscape, it remains unclear whether they respond similarly to shared environmental gradients. We use empirical community data from hundreds of sites across Switzerland, and show that blue and green food webs have different structural and ecological properties along elevation as a temperature proxy, and among various land-use types. Specifically, in green food webs, their modular structure increases with elevation and the overlap of consumers' diet niche decreases, while the opposite pattern is observed in blue food webs. Such differences between blue and green food webs are particularly pronounced in farmland-dominated habitats, indicating that anthropogenic habitat modification moderates the climatic effects on food webs but differently in blue versus green systems. These findings indicate general structural differences between blue and green food webs and suggest their potential divergent future alterations through land use or climatic changes.

Life in This World and For the Life of the World: Natural Science and the Social Ethos of the Orthodox Church

For the Life of the World: Toward a Social Ethos of the Orthodox Church (FLOW) is an admirable and important document, not least because it affirms natural scientific insights as valuable resources for Christian theology and social teaching. Given the current Ecumenical Patriarch's extensive engagement with environmental concerns, this affirmation is especially apposite. However, I do not believe FLOW fully recognizes the implications of such insights for its conception of God's creation or its social ethos. In particular, FLOW maintains that scarcity, competition, violence, and death are distortions of God's creation due to human sin and that human beings are commissioned and capacitated by God to strive to overcome them. By contrast, I contend that contemporary scientific understandings of planetary forces and ecological processes—and indeed Christian scripture—give Christians cause to consider scarcity, competition, violence, and death aspects of God's creation. I further claim that striving to overcome scarcity, competition, violence, and death would be environmentally disastrous and spiritually deleterious since it would domesticate the rapidly disappearing wilderness that biblical wisdom literature depicts as delighting and glorifying God. Happily, allowing natural scientific insights to inform Orthodox conceptions of God's creation in this way would render FLOW's injunction that human beings redress the environmental implications of their sin an imperative to reduce and remedy pollution and to minimize and restore anthropogenic habitat degradation and destruction, thereby fostering the ecological sustainability Orthodoxy champions and the respect for wilderness Christians have multiple reasons to commend. Although this abandons FLOW's aspiration that human beings wholly civilize God's creation, such respect for wilderness does not imply acquiescence to human deprivation and distress, for just as it is inappropriate to impose cultural values on all of nature, it is wrong to regard all natural dynamics culturally normative. Similarly, attributing scarcity, competition, violence, and death to God's creation rather than its sin need not undermine Christian hopes for freedom from these and all other maladies, for Christians await not only God's salvation from sin and its effects but God's new creation too. Thus, in addition to honing Orthodoxy's social ethos, heeding FLOW's embrace of natural scientific insights as constructive theological resources foregrounds a commonly neglected dimension of Christians' traditional depiction of the divine economy.

Turtle Nest-Site Choice, Anthropogenic Challenges, and Evolutionary Potential for Adaptation

Oviparous animals, such as turtles, lay eggs whose success or demise depends on environmental conditions that influence offspring phenotype (morphology, physiology, and in many reptiles, also sex determination), growth, and survival, while in the nest and post-hatching. Consequently, because turtles display little parental care, maternal provisioning of the eggs and female nesting behavior are under strong selection. But the consequences of when and where nests are laid are affected by anthropogenic habitat disturbances that alter suitable nesting areas, expose eggs to contaminants in the wild, and modify the thermal and hydric environment experienced by developing embryos, thus impacting hatchling survival and the sexual fate of taxa with temperature-dependent sex determination (TSD) and genotypic sex determination (GSD). Indeed, global and local environmental change influences air, water, and soil temperature and moisture, which impact basking behavior, egg development, and conditions within the nest, potentially rendering current nesting strategies maladaptive as offspring mortality increases and TSD sex ratios become drastically skewed. Endocrine disruptors can sex reverse TSD and GSD embryos alike. Adapting to these challenges depends on genetic variation, and little to no heritability has been detected for nest-site behavior. However, modest heritability in threshold temperature (above and below which females or males develop in TSD taxa, respectively) exists in the wild, as well as interpopulation differences in the reaction norm of sex ratio to temperature, and potentially also in the expression of gene regulators of sexual development. If this variation reflects additive genetic components, some adaptation might be expected, provided that the pace of environmental change does not exceed the rate of evolution. Research remains urgently needed to fill current gaps in our understanding of the ecology and evolution of nest-site choice and its adaptive potential, integrating across multiple levels of organization.

The gut microbiome as an indicator of habitat disturbance in a Critically Endangered lemur

Background Habitat disturbance affects the biology and health of animals globally. Understanding the factors that contribute to the differential responses of animals to habitat disturbance is critical for conservation. The gut microbiota represents a potential pathway through which host responses to habitat disturbance might be mediated. However, a lack of quantitative environmental data in many gut microbiome (GM) studies of wild animals limits our ability to pinpoint mechanisms through which habitat disturbance affects the GM. Here, we examine the impact of anthropogenic habitat disturbance on the diet and GM of the Critically Endangered black-and-white ruffed lemur (Varecia variegata editorum). We collected fecal samples and behavioral data from Varecia occupying habitats qualitatively categorized as primary forest, moderately disturbed forest, and heavily disturbed forest. Results Varecia diet and GM composition differed substantially across sites. Dietary richness predicted GM richness across sites, and overall GM composition was strongly correlated to diet composition. Additionally, the consumption of three specific food items positively correlated to the relative abundances of five microbial strains and one microbial genus across sites. However, diet did not explain all of the GM variation in our dataset, and differences in the GM were detected that were not correlated with diet, as measured. Conclusions Our data suggest that diet is an important influence on the Varecia GM across habitats and thus could be leveraged in novel conservation efforts in the future. However, other factors such as contact with humans should also be accounted for. Overall, we demonstrate that quantitative data describing host habitats must be paired with GM data to better target the specific mechanisms through which environmental change affects the GM.

Investigating the effect of habitat modification on chronic stress in deer mice: a preliminary study

Anthropogenic habitat modification can lead to chronic stress in wildlife. This can result in immunosuppression and higher disease prevalence. Chronically stressed individuals typically have elevated baseline GCs and decreased body condition. GCs are called FGMs when excreted in feces and can be used to noninvasively evaluate stress in free-ranging wildlife. In the deer mouse (Peromyscus maniculatus)–SNV system, SNV prevalence is higher in deer mice at peridomestic settings, which are human-modified habitats. This is problematic because SNV causes a fatal disease in humans, and thus the higher SNV prevalence may lead to higher risk of infection for humans. In our study, we hypothesized that SNV prevalence would be higher in deer mice at human-modified habitats due to chronic stress. To test our hypothesis, we compared two stress measures (i.e., baseline FGMs and body condition scores) in deer mice from one peridomestic and one sylvan grid over 2 months. Captured deer mice were tagged, weighed, sexed and sampled for feces and blood and were evaluated for reproductive status and body condition before release. Blood samples were analysed for SNV antibodies, and fecal samples were evaluated for FGMs. We found higher deer mouse numbers at the sylvan grid. There were no differences in baseline FGM levels between peridomestic and sylvan populations. However, peridomestic deer mice had overall lower body condition. Given the low SNV prevalence across both grids, we were unable to examine potential correlations between SNV prevalence and chronic stress. Regardless, we conclude that deer mice at human-modified habitats may not be chronically stressed, which may suggest that higher SNV prevalence at peridomestic settings may not be the result of chronic stress. Although we did find that peridomestic deer mice had lower body condition, this may not have been related to chronic stress because there were no differences in baseline FGMs. Longer studies with more site replication are needed to validate and expand on our findings. Our preliminary study adds to the existing body of knowledge that examines relationships between stress physiology and disease prevalence in human-modified environments.

Vegetation and Environmental Changes on Contaminated Soil Formed on Waste from an Historic Zn-Pb Ore-Washing Plant

Post-mining waste from Zn-Pb ore exploitation undergoes processes of spontaneous succession and changes in soil chemical composition. The Zakawie area was industrially transformed by historical mining activity, ore enrichment, and the metallurgical processing of Zn-Pb ore. The subject of the study was to analyse the rate of vegetation succession (from 1999 to 2019), soil chemistry, and the relationships between them in an anthropogenic habitat with high concentrations of potentially toxic metals. Ecological and geochemical studies were carried out in an area contaminated with waste from a disused Zn-Pb ore-washing plant. Between 1999 and 2019, the transformation of grassland and meadow vegetation into scrub and forest–grassland communities was observed. This transformation led to a decrease in the area of Molinietum caeruleae meadow (from 25.8% in 1999 to 10.7% in 2019), whose place was taken by Prunus spinosa and Rhamnus cathartica. The community of xerothermic limestone grasslands completely disappeared, being replaced in favour of the Diantho-Armerietum and Prunus spinosa community. In this period, the share of lifeforms of plants and species composition (46 and 60, respectively) also changed. The Shannon and Simpson biodiversity index reached high values in the second investigation period, and it was 0.893 and 0.86, respectively. The anthrosols had a high content of Zn—85,360 mg kg−1, Pb—28,300 mg kg−1, Cd—340 mg kg−1, and As—1200 mg kg−1. Carbonates, clay minerals, and fe-oxides are predominant in the mineral composition of the rhizosphere; the metal-bearing phases are stable; and hardly soluble minerals include smithsonite, cerussite, monheimite, hemimorphite, and oxides of Fe and Fe-Mn. Mineralisation/crust processes formed on the epidermis, and their influences on root development were found. Scanning electron microscopy and energy-dispersive X-ray spectroscopy studies on rhizosphere soil components provide information on the type of minerals and their susceptibility to heavy metals release. The identification of some biotic and mineral structures in rhizospheres can be an interesting source of information on pedogenic processes identified in back-scattered electron images.

Virome in Fecal Samples From Wild Giant Pandas (Ailuropoda Melanoleuca)

The giant panda (Ailuropoda melanoleuca) is one of the most endangered mammals in the world; anthropogenic habitat loss and poaching still threaten the survival of wild pandas. Viral infection has become one of the potential threats to the health of these animals, but the available information related to these infections is still limited. In order to detect possible vertebrate viruses, the virome in the fecal samples of seven wild giant pandas from Qinling Mountains was investigated by using the method of viral metagenomics. From the fecal virome of wild giant pandas, we determined six nearly complete genomes belonging to the order Picornavirales, two of which may be qualified as a novel virus family or genus. In addition, four complete genomes belonging to the Genomoviridae family were also fully characterized. This virological investigation has increased our understanding of the gut viral community in giant pandas. Whether these viruses detected in fecal samples can really infect giant panda needs further research.

Quantifying the scale of genetic diversity extinction in the Anthropocene

More species than ever before are at risk of extinction due to anthropogenic habitat loss and climate change. But even species that are not threatened have seen reductions in their populations and geographic ranges, likely impacting their genetic diversity. Although preserving genetic diversity is a key conservation target to maintain the adaptability of species, we lack predictive tools and global estimates of genetic diversity loss across ecosystems. By bridging biodiversity and population genetics theories, we introduce the first mathematical framework to understand the loss of naturally occurring DNA mutations within a species--what we call genetic diversity extinction. Analyzing genome-wide variation data of 10,126 geo-tagged individuals from 19 plant and animal species, we show that genome-wide diversity follows a power law with geographic area, which can predict genetic diversity decay in simulated spatial extinctions. Given pre-21st century values of ecosystem transformations, we estimate that over 10% of genetic diversity may be extinct, already surpassing the United Nations targets for genetic preservation. These estimated losses could rapidly increase with advancing climate change and habitat destruction, highlighting the need for new forecasting tools that assist in the rapid implementation of policies to protect genetic resources.

Rapid evolutionary divergence of a songbird population following recent colonization of an anthropogenic habitat

Colonization of a novel environment by a few individuals can lead to rapid evolutionary change, yet evidence of the relative contributions of neutral and selective factors in promoting divergence during the early stages of colonization remain scarce. We explore the role of neutral and selective forces in the divergence of a unique urban population of the dark-eyed junco (Junco hyemalis), which became established on the campus of the University of California at San Diego (UCSD) in the early 1980s. Previous studies based on microsatellite loci documented significant genetic differentiation of the urban population as well as divergence in phenotypic traits relative to nearby montane populations, yet the geographic origin of the colonization and the factors involved remained uncertain. Our genome-wide SNP dataset confirmed the marked genetic differentiation of the UCSD population, and we identified the coastal subspecies pinosus from central California as its sister group instead of the neighboring mountain population. Demographic inference recovered a separation from pinosus as recent as 20 to 32 generations ago after a strong bottleneck, suggesting a role for drift in genetic differentiation. However, we also found significant associations between habitat variables and genome-wide variants linked to functional genes, some of which have been reported as potentially adaptive in birds inhabiting modified environments. These results suggest that the interplay between founder events and selection may result in rapid shifts in neutral and adaptive loci across the genome, and reveal the UCSD junco population as a case of contemporary evolutionary divergence in an anthropogenic environment.