Human behaviour as a long-term ecological driver of non-human evolution

Understanding human-commensalism through an ecological and evolutionary framework

Human-commensalism has been intuitively characterised as an interspecific interaction whereby non-human individuals benefit from tight associations with anthropogenic environments. However, a clear definition of human-commensalism, rooted within an ecological and evolutionary framework, has yet to be proposed. Here, we define human-commensalism as a population-level dependence on anthropogenic resources, associated with genetic differentiation from the ancestral, non-commensal form. Such a definition helps us to understand the origins of human-commensalism and the pace and form of adaptation to anthropogenic niches, and may enable the prediction of future evolution in an increasingly human-modified world. Our discussion encourages greater consideration of the spatial and temporal complexity in anthropogenic niches, promoting a nuanced consideration of human-commensal populations when formulating research questions.

Genomic signatures of adaptation in native lizards exposed to human-introduced fire ants

Understanding the process of genetic adaptation in response to human-mediated ecological change will help elucidate the eco-evolutionary impacts of human activity. In the 1930s red imported fire ants (Solenopsis invicta) were accidently introduced to the Southeastern USA, where today they are both venomous predators and toxic prey to native eastern fence lizards (Sceloporus undulatus). Here, we investigate potential lizard adaptation to invasive fire ants by generating whole-genome sequences from 420 lizards across three populations: one with long exposure to fire ants, and two unexposed populations. Signatures of positive selection exclusive to the exposed population overlap immune system, growth factor pathway, and morphological development genes. Among invaded lizards, longer limbs (used to remove stinging ants) are associated with increased survival. We identify alleles associated with longer limbs that are highly differentiated from the unexposed populations, a pattern counter to the pre-invasion latitudinal cline for limb lengths based on museum specimens. While we cannot rule out other environmental differences between populations driving these patterns, these results do constitute plausible genetic adaptations in lizards invaded by fire ants.

Proximity to humans is associated with antimicrobial-resistant enteric pathogens in wild bird microbiomes

Humans are radically altering global ecology, and one of the most apparent human-induced effects is urbanization, where high-density human habitats disrupt long-established ecotones. Changes to these transitional areas between organisms, especially enhanced contact among humans and wild animals, provide new opportunities for the spread of zoonotic pathogens. This poses a serious threat to global public health, but little is known about how habitat disruption impacts cross-species pathogen spread. Here, we investigated variation in the zoonotic enteric pathogen Campylobacter jejuni. The ubiquity of C. jejuni in wild bird gut microbiomes makes it an ideal organism for understanding how host behavior and ecology influence pathogen transition and spread. We analyzed 700 C. jejuni isolate genomes from 30 bird species in eight countries using a scalable generalized linear model approach. Comparing multiple behavioral and ecological traits showed that proximity to human habitation promotes lineage diversity and is associated with antimicrobial-resistant (AMR) strains in natural populations. Specifically, wild birds from urban areas harbored up to three times more C. jejuni genotypes and AMR genes. This study provides novel methodology and much-needed quantitative evidence linking urbanization to gene pool spread and zoonoses.

Human behaviors driving disease emergence

Interactions between humans, animals, and the environment facilitate zoonotic spillover-the transmission of pathogens from animals to humans. Narratives that cast modern humans as exogenous and disruptive forces that encroach upon "natural" disease systems limit our understanding of human drivers of disease. This review leverages theory from evolutionary anthropology that situates humans as functional components of disease ecologies, to argue that human adaptive strategies to resource acquisition shape predictable patterns of high-risk human-animal interactions, (2) humans construct ecological processes that facilitate spillover, and (3) contemporary patterns of epidemiological risk are emergent properties of interactions between human foraging ecology and niche construction. In turn, disease ecology serves as an important vehicle to link what some cast as opposing bodies of theory in human ecology. Disease control measures should consider human drivers of disease as rational, adaptive, and dynamic and capitalize on our capacity to influence ecological processes to mitigate risk.

Face masks in action: Birds show reduced fear responses to people wearing face masks during the COVID-19 pandemic in three Asian countries

The 2019 zoonotic pandemic (COVID-19), has led to a massive global lockdown that provides a good opportunity to study how wildlife responds to changes in human activity. Wearing a mask after the COVID-19 outbreak was widely used to prevent the spread of the causative pathogen. It has been shown that tree sparrows (Passer montanus) at two sites in south China exhibit reduced fear responses to people with face masks after a period of heavy exposure to them, whereas European studies showed the opposite, with no changes in the behaviour of the birds towards mask wearers in either rural or urban areas. To further study this, from October 2021 to January 2022, we conducted a flight initiation distance (FID) survey in Pakistan, Bangladesh, and Xi'an, China for a variety of field bird species by comparing the FID for researchers wearing masks to that for researchers not wearing masks to assess whether wearing masks in public places caused birds to adjust their flight response. Results from the three Asian countries showed that after a period of sustained contact with people wearing masks, in both rural and urban areas, birds were significantly more adapted to them and had a shorter FID to people wearing masks. We suggest that the rapid habituation of birds to people wearing masks with a reduced fear response could have some fitness advantage, allowing them to adapt rapidly to the new environmental conditions induced by COVID-19.

Social-ecological niche construction for sustainability: understanding destructive processes and exploring regenerative potentials

Through the exponential expansion of human activities, humanity has become the driving force of global environmental change. The consequent global sustainability crisis has been described as a result of a uniquely human form of adaptability and niche construction. In this paper, we introduce the concept of social-ecological niche construction focusing on biophysical interactions and outcomes. We use it to address destructive processes and to discuss potential regenerative ones as ways to overcome them. From a niche construction point of view, the increasing disconnections between human activities and environmental feedbacks appear as a success story in the history of human-nature coevolution because they enable humans to expand activities virtually without being limited by environmental constraints. However, it is still poorly understood how suppressed environmental feedbacks affect future generations and other species, or which lock-ins and self-destructive dynamics may unfold in the long-term. This is crucial as the observed escape from natural selection requires growing energy input and represents a temporal deferral rather than an actual liberation from material limitations. Relying on our proposal, we conclude that, instead of further taming nature, there is need to explore the potential of how to tame socio-metabolic growth and impact in niche construction processes. This article is part of the theme issue 'Evolution and sustainability: gathering the strands for an Anthropocene synthesis'.

The Anthropocene condition: evolving through social-ecological transformations

Anthropogenic planetary disruptions, from climate change to biodiversity loss, are unprecedented challenges for human societies. Some societies, social groups, cultural practices, technologies and institutions are already disintegrating or disappearing as a result. However, this coupling of socially produced environmental challenges with disruptive social changes-the Anthropocene condition-is not new. From food-producing hunter-gatherers, to farmers, to urban industrial food systems, the current planetary entanglement has its roots in millennia of evolving and accumulating sociocultural capabilities for shaping the cultured environments that our societies have always lived in (sociocultural niche construction). When these transformative capabilities to shape environments are coupled with sociocultural adaptations enabling societies to more effectively shape and live in transformed environments, the social-ecological scales and intensities of these transformations can accelerate through a positive feedback loop of 'runaway sociocultural niche construction'. Efforts to achieve a better future for both people and planet will depend on guiding this runaway evolutionary process towards better outcomes by redirecting Earth's most disruptive force of nature: the power of human aspirations. To guide this unprecedented planetary force, cultural narratives that appeal to human aspirations for a better future will be more effective than narratives of environmental crisis and overstepping natural boundaries. This article is part of the theme issue 'Evolution and sustainability: gathering the strands for an Anthropocene synthesis'.

Deer management influences perception of avian plumage in temperate deciduous forests

Many animals use visual signals to communicate; birds use colorful plumage to attract mates and repel intruders. Visual signal conspicuousness is influenced by the lighting environment, which can be altered by human-induced changes. For example, deer-management efforts can affect vegetation structure and light availability. Whether these changes alter animal communication is still unknown. We investigated the effect of deer management on forest light and the contrast of understory birds against the forest background. We modeled visual perception using: (1) an ultraviolet-sensitive (UVS) avian model and plumage parameters representative of red, yellow, and blue birds (2) species-specific turkey visual and plumage parameters, and (3) individual-specific brown-headed cowbird visual and plumage parameters. Deer management led to greater light irradiance and lowered forest background reflectance. Management increased chromatic contrasts in the UVS model, primarily in deciduous forests and low understory, and across all habitat types in turkey and cowbird models. Deer management did not affect achromatic contrasts in the UVS model, but was associated with lower contrast in mixed forests for turkeys and across habitats for cowbirds. Together, this suggests that management of deer browsing is likely to impact visual signaling for a wide range of avian species. However, we also suspect that species- and individual-specific parameters increased the resolution of models, warranting consideration in future studies. Further work should determine if differences in visual perception translate to biologically relevant consequences. Our results suggest that, at least for some species, deer browsing and anthropogenic change may impose an evolutionary driver on visual communication.

Marine conservation palaeobiology: What does the late Quaternary fossil record tell us about modern-day extinctions and biodiversity threats?

Near-time conservation palaeobiology uses palaeontological, archaeological and other geohistorical records to study the late Quaternary transition of the biosphere from its pristine past to its present-day, human-altered state. Given the scarcity of data on recent extinctions in the oceans, geohistorical records are critical for documenting human-driven extinctions and extinction threats in the marine realm. The historical perspective can provide two key insights. First, geohistorical records archive the state of pre-industrial oceans at local, regional and global scales, thus enabling the detection of recent extinctions and extirpations as well as shifts in species distribution, abundance, body size and ecosystem function. Second, we can untangle the contributions of natural and anthropogenic processes by documenting centennial-to-millennial changes in the composition and diversity of marine ecosystems before and after the onset of major human impacts. This long-term perspective identifies recently emerging patterns and processes that are unprecedented, thus allowing us to better assess human threats to marine biodiversity. Although global-scale extinctions are not well documented for brackish and marine invertebrates, geohistorical studies point to numerous extirpations, declines in ecosystem functions, increases in range fragmentation and dwindling abundance of previously widespread species, indicating that marine ecosystems are accumulating a human-driven extinction debt.

Understanding and applying biological resilience, from genes to ecosystems

The natural world is under unprecedented and accelerating pressure. Much work on understanding resilience to local and global environmental change has, so far, focussed on ecosystems. However, understanding a system's behaviour requires knowledge of its component parts and their interactions. Here we call for increased efforts to understand 'biological resilience', or the processes that enable components across biological levels, from genes to communities, to resist or recover from perturbations. Although ecologists and evolutionary biologists have the tool-boxes to examine form and function, efforts to integrate this knowledge across biological levels and take advantage of big data (e.g. ecological and genomic) are only just beginning. We argue that combining eco-evolutionary knowledge with ecosystem-level concepts of resilience will provide the mechanistic basis necessary to improve management of human, natural and agricultural ecosystems, and outline some of the challenges in achieving an understanding of biological resilience.

Experimentally simulating the evolution-to-ecology connection: Divergent predator morphologies alter natural food webs

The idea that changing environmental conditions drive adaptive evolution is a pillar of evolutionary ecology. But, the opposite-that adaptive evolution alters ecological processes-has received far less attention yet is critical for eco-evolutionary dynamics. We assessed the ecological impact of divergent values in a key adaptive trait using 16 populations of the brown anole lizard (Anolis sagrei). Mirroring natural variation, we established islands with short- or long-limbed lizards at both low and high densities. We then monitored changes in lower trophic levels, finding that on islands with a high density of short-limbed lizards, web-spider densities decreased and plants grew more via an indirect positive effect, likely through an herbivore-mediated trophic cascade. Our experiment provides strong support for evolution-to-ecology connections in nature, likely closing an otherwise well-characterized eco-evolutionary feedback loop.

Climate-driven habitat shifts of high-ranked prey species structure Late Upper Paleolithic hunting

Changing climates in the past affected both human and faunal population distributions, thereby structuring human diets, demography, and cultural evolution. Yet, separating the effects of climate-driven and human-induced changes in prey species abundances remains challenging, particularly during the Late Upper Paleolithic, a period marked by rapid climate change and marked ecosystem transformation. To disentangle the effects of climate and hunter-gatherer populations on animal prey species during the period, we synthesize disparate paleoclimate records, zooarchaeological data, and archaeological data using ecological methods and theory to test to what extent climate and anthropogenic impacts drove broad changes in human subsistence observed in the Late Upper Paleolithic zooarchaeological records. We find that the observed changes in faunal assemblages during the European Late Upper Paleolithic are consistent with climate-driven animal habitat shifts impacting the natural abundances of high-ranked prey species on the landscape rather than human-induced resource depression. The study has important implications for understanding how past climate change impacted and structured the diet and demography of human populations and can serve as a baseline for considerations of resilience and adaptation in the present.

Integrating traditional ecological knowledge into US public land management: Knowledge gaps and research priorities

Traditional Ecological Knowledge (TEK) is an understanding of natural systems acquired through long-term human interactions with particular landscapes. Traditional knowledge systems complement western scientific disciplines by providing a holistic assessment of ecosystem dynamics and extending the time horizon of ecological observations. Integration of TEK into land management is a key priority of numerous groups, including the United Nations and US public land management agencies; however, TEK principles have rarely been enshrined in national-level US policy or planning. We review over 20 years of TEK literature to describe key applications of TEK to ecological understanding, conservation, restoration and land management generally. By identifying knowledge gaps, we highlight research avenues to support the integration of TEK into US public land management, in order to enhance conservation approaches and participation of historically underrepresented groups, particularly American Indian Tribes, in the stewardship of ancestral lands critical to the practice of living cultural traditions.

A systematic review of the effects of silvopastoral system on thermal environment and dairy cows' behavioral and physiological responses

Does the silvopastoral system (SPS) promote a satisfactory thermal environment for dairy cows to perform their natural behaviors and perform a suitable thermoregulatory function? To answer this, peer-reviewed articles, written in English and evaluating the effects of silvopastoral systems on thermal environment, dairy cows' behavior, and physiology were used in this systematic review; additionally, a bibliometric approach was performed. Web of Science and Google Scholar were used to compile the literature. The resulting articles (1448) underwent a 4-step appraisal process and resulted in 19 articles that fitted our inclusion criteria. Microclimate variables and thermal comfort indicators were the most researched topics (discussed in 89% of studies); 47% of studies addressed cattle behavior and 36% physiological responses. Our review highlights different benefits of silvopastoral systems for grazing dairy cows. For example, the SPS provides a more comfortable thermal environment than treeless pasture, which increases feeding behaviors; furthermore, dairy cows in SPS show lower drinking events, surface temperature, and respiratory rate than cows raised in treeless pasture. However, for nine of the variables related to cows' behavior (e.g., resting, rumination) and physiology responses (e.g., internal temperature), the results of the studies were unclear. Furthermore, behaviors associated with lying down (e.g., idling and rumination) and milk production in SPS were explored only in six and two studies, respectively. These findings provide consistent evidence that the silvopastoral systems are beneficial to thermal comfort of dairy cows; nonetheless, the effect on cows' behavioral and physiological responses is still scarce and unclear.

Brood parasitism risk drives birds to breed near humans

Urbanization is transforming ecosystems at a global scale and at an increasing rate,^1,2 and its profound consequences for wildlife have been well documented.^3,4,5,6 Understanding how animals thrive in the urban environment and how this environment affects (co-)evolutionary processes remains an important challenge.⁷ Urban environments can provide resources such as food or nest sites (e.g., cavities)^10,8,9 and also reduce exposure to predators.^11,12 For some species, urban environments may also affect susceptibility to brood parasitism,^13,14 but this has never been tested experimentally. Here, we use a combination of field observations and experimental manipulations to show that Daurian redstarts, Phoenicurus auroreus, a common host of the common cuckoo, Cuculus canorus, nest in proximity to humans to avoid brood parasitism. First, redstarts were more likely to be parasitized with increasing distance to the nearest building. Second, redstarts adjusted their nesting location in response to a seasonally predictable change in the risk of brood parasitism. Third, experimentally simulating the presence of cuckoos during a period when they are naturally absent increased the likelihood that redstarts nested indoors or closer to human settlements. These findings suggest that redstarts actively choose to place their nest in the vicinity of a human residence as a defense against cuckoos. Our study exemplifies how animals take advantage of the urban environment by using it as a novel line of defense against detrimental interspecific interactions.

Assessing the aesthetic attractivity of European butterflies: A web-based survey protocol

Aesthetic attractivity stands as an underestimated yet fundamental feature of species in conservation biology, significantly driving disproportionate protection efforts towards charismatic species. Despite the evidence, few attempts sought to precisely quantify the impact of aesthetic attractivity in defining priority of species for conservation actions (e.g. inclusion in International Union for Conservation of Nature red lists and protection lists). This study protocol describes the setting of an online test (available from April 2022 to April 2023 at www.unveiling.eu) designed to i) quantify the aesthetic attractivity to humans of the 496 European butterfly species and ii) identify which features (both in the perceived animal and in the perceiver) influence the aesthetic attractivity of a given butterfly species. The test is divided in 5 sections (personal data, ranking, single morphological features, emotional engagement, dispositional variables) aimed at profiling the relation each participant has with the species examined. In the long-term, evaluating butterflies' aesthetic attractivity could facilitate the critical assessment of current conservation strategies, such as the process of selection of flag and umbrella species by research institutions, environmental associations and Non Governative Organizations. This is expected to provide the much-needed evidence to set up unbiased biodiversity conservation strategies and counteract the selective anthropogenic pressure which favours the extinction of unattractive species, being no or less protected compared to charismatic species.

Fish vulnerability to capture by trapping is modulated by individual parasite density

Commercial fishery harvest is a powerful evolutionary agent, but we know little about whether environmental stressors affect harvest-associated selection. We test how parasite infection relates to trapping vulnerability through selective processes underlying capture. We used fish naturally infected with parasites, including trematodes causing black spots under fish skin. We first assessed how individual parasite density related to standard metabolic rate (SMR), maximum metabolic rate (MMR) and absolute aerobic scope (AAS)-then used laboratory fishing simulations to test how capture vulnerability was related to parasite density. We further explored group-trapping dynamics using experimental shoals containing varying proportions of infected fish (groups of six with either 0, 2, 4 or 6 infected individuals). At the individual level, we found a positive relationship between parasite presence and SMR, but not MMR or AAS. While we saw no relationship between individual metabolic capacity and vulnerability to trapping, we found the length of time fish spent in traps increased with increasing parasite density, a predictor of trapping-related capture probability. At the group level, the number of infected individuals in a shoal did not affect overall group trapping vulnerability. Our results suggest that parasite infection has some capacity to shift individual vulnerability patterns in fisheries, and potentially influence the evolutionary outcomes of fisheries-induced evolution.

Variations in Avian Species and Functional Diversity in Different Habitat Types in a Vulnerable Savannah Ecosystem in Ghana

Most research on avian functional diversity in the tropics is focused on forest and agroecosystems, leaving a gap in knowledge about the effects of habitat types on functional diversity in savannah landscapes. Savanna ecosystems are fragile and are under threat of anthropogenic destruction, particularly in developing Sub-Saharan Africa and could be eliminated in the face of the ever-increasing human population exacerbated by the changing climate. This study investigated the influence of the three major habitat types (grassland, riparian forest, woodland) on bird species and functional diversity in the Mole National Park (MNP) in Ghana. We used the line transect method to survey birds along 39 transects, each 1 km in length, and collected data on environmental variables along the same transects. Data from these surveys was used to estimate species and functional diversity indicators. We found significant variations in species and functional diversity measures between the three habitat types in the MNP. These variations were significantly influenced by species abundance and environmental covariates. Diversity measures were particularly higher in the riparian forest habitats compared to the woodland and grassland, with the latter being the least diverse habitat both functionally and species wise. The results of this study suggest that the avifauna assemblages in MNP are largely influenced by the riparian forest and are important for ecosystem function and stability. We recommend management efforts to intensify the protection of such vital habitats of the Mole National Park from illegal human activities, especially the rising removal and export of rosewoods (Dalbergia nigra) around the park. Further research on the avian community composition and structure in the MNP is recommended.

Anthropogenic habitat modification alters calling phenology of frogs

Anthropogenic habitat modification significantly challenges biodiversity. With its intensification, understanding species' capacity to adapt is critical for conservation planning. However, little is known about whether and how different species are responding, particularly among frogs. We used a continental-scale citizen science dataset of >226,000 audio recordings of 42 Australian frog species to investigate how calling-a proxy for breeding-phenology varied along an anthropogenic modification gradient. Calling started earlier and breeding seasons lengthened with increasing modification intensity. Breeding seasons averaged 22.9 ± 8.25 days (standard error) longer in the most modified compared to the least modified regions, suggesting that frog breeding activity was sensitive to habitat modification. We also examined whether calls varied along a modification gradient by analysing the temporal and spectral properties of advertisement calls from a subset of 441 audio recordings of three broadly distributed frog species. There was no appreciable effect of anthropogenic habitat modification on any of the measured call variables, although there was high variability. With continued habitat modification, species may shift towards earlier and longer breeding seasons, with largely unknown ecological consequences in terms of proximate and ultimate fitness.

The country toad and the city toad: comparing morphology of invasive cane toads (Rhinella marina) from rural and urban environments

Urbanization is a principal driver of global biodiversity loss. Although many studies have examined the impacts of urbanization on biodiversity, we are only beginning to study urbanization as an evolutionary force. Urban environments are hotspots for invasive species, but most previous studies have focused on phenotypic changes in native species responding to urbanization. Quantifying the phenotypic responses of invasive species to urbanization may help reveal mechanisms promoting invasion. There are, however, few studies investigating the phenotypic response of invasive species to urbanization. We compared morphological traits of invasive cane toads (Rhinella marina) between urban and rural areas in three cities in north-eastern Australia using generalized linear mixed models. We found that the parotoid glands, which are the major anti-predator defence of toads were smaller in urban than in rural populations. The tibiofibula length of males in urban populations was longer than those in rural populations, but females showed opposite trends, suggesting potential effects of urbanization on sexual dimorphism. These results demonstrate that urbanization drives morphological changes in invasive toads, suggesting they may adapt to urban environments rapidly.

A global horizon scan for urban evolutionary ecology

Research on the evolutionary ecology of urban areas reveals how human-induced evolutionary changes affect biodiversity and essential ecosystem services. In a rapidly urbanizing world imposing many selective pressures, a time-sensitive goal is to identify the emergent issues and research priorities that affect the ecology and evolution of species within cities. Here, we report the results of a horizon scan of research questions in urban evolutionary ecology submitted by 100 interdisciplinary scholars. We identified 30 top questions organized into six themes that highlight priorities for future research. These research questions will require methodological advances and interdisciplinary collaborations, with continued revision as the field of urban evolutionary ecology expands with the rapid growth of cities.

Meeting a threat of the Anthropocene: Taste avoidance of metal ions by Drosophila

The Anthropocene Epoch poses a critical challenge for organisms: they must cope with new threats at a rapid rate. These threats include toxic chemical compounds released into the environment by human activities. Here, we examine elevated concentrations of heavy metal ions as an example of anthropogenic stressors. We find that the fruit fly Drosophila avoids nine metal ions when present at elevated concentrations that the flies experienced rarely, if ever, until the Anthropocene. We characterize the avoidance of feeding and egg laying on metal ions, and we identify receptors, neurons, and taste organs that contribute to this avoidance. Different subsets of taste receptors, including members of both Ir (Ionotropic receptor) and Gr (Gustatory receptor) families contribute to the avoidance of different metal ions. We find that metal ions activate certain bitter-sensing neurons and inhibit sugar-sensing neurons. Some behavioral responses are mediated largely through neurons of the pharynx. Feeding avoidance remains stable over 10 generations of exposure to copper and zinc ions. Some responses to metal ions are conserved across diverse dipteran species, including the mosquito Aedes albopictus. Our results suggest mechanisms that may be essential to insects as they face challenges from environmental changes in the Anthropocene.

Animal Coloration in the Anthropocene

Natural habitats are increasingly affected by anthropogenically driven environmental changes resulting from habitat destruction, chemical and light pollution, and climate change. Organisms inhabiting such habitats are faced with novel disturbances that can alter their modes of signaling. Coloration is one such sensory modality whose production, perception and function is being affected by human-induced disturbances. Animals that acquire pigment derivatives through diet are adversely impacted by the introduction of chemical pollutants into their environments as well as by general loss of natural habitat due to urbanization or logging leading to declines in pigment sources. Those species that do manage to produce color-based signals and displays may face disruptions to their signaling medium in the form of light pollution and turbidity. Furthermore, forest fragmentation and the resulting breaks in canopy cover can expose animals to predation due to the influx of light into previously dark environments. Global climate warming has been decreasing snow cover in arctic regions, causing birds and mammals that undergo seasonal molts to appear conspicuous against a snowless background. Ectotherms that rely on color for thermoregulation are under pressure to change their appearances. Rapid changes in habitat type through severe fire events or coral bleaching also challenge animals to match their backgrounds. Through this review, we aim to describe the wide-ranging impacts of anthropogenic environmental changes on visual ecology and suggest directions for the use of coloration both as an indicator of ecological change and as a tool for conservation.

Darwin's small and medium ground finches might have taste preferences, but not for human foods

Urbanization is rapidly changing ecological niches. On the inhabited Galapagos Islands, Darwin's finches consume human-introduced foods preferentially; however, it remains unclear why. Here, we presented pastry with flavour profiles typical of human foods (oily, salty and sweet) to small ground finches (Geospiza fuliginosa) and medium ground finches (Geospiza fortis) to test if latent taste preferences might drive the selection of human foods. If human food flavours were consumed more than a neutral or bitter control only at sites with human foods, then we predicted tastes were acquired after urbanization; however, if no site differences were found then this would indicate latent taste preferences. Contrary to both predictions, we found little evidence that human food flavours were preferred compared with control flavours at any site. Instead, finches showed a weak aversion to oily foods, but only at remote (no human foods present) sites. This was further supported by behavioural responses, with beak-wiping occurring more often at remote sites after finches tasted flavours associated with human foods. Our results suggest, therefore, that while Darwin's finches regularly exposed to human foods might have acquired a tolerance to human food flavours, latent taste preferences are unlikely to have played a major role in their dietary response to increased urbanization.

The pace of modern life, revisited

Wild populations must continuously respond to environmental changes or they risk extinction. Those responses can be measured as phenotypic rates of change, which can allow us to predict contemporary adaptive responses, some of which are evolutionary. About two decades ago, a database of phenotypic rates of change in wild populations was compiled. Since then, researchers have used (and expanded) this database to examine phenotypic responses to specific types of human disturbance. Here, we update the database by adding 5675 new estimates of phenotypic change. Using this newer version of the data base, now containing 7338 estimates of phenotypic change, we revisit the conclusions of four published articles. We then synthesize the expanded database to compare rates of change across different types of human disturbance. Analyses of this expanded database suggest that: (i) a small absolute difference in rates of change exists between human disturbed and natural populations, (ii) harvesting by humans results in higher rates of change than other types of disturbance, (iii) introduced populations have increased rates of change, and (iv) body size does not increase through time. Thus, findings from earlier analyses have largely held-up in analyses of our new database that encompass a much larger breadth of species, traits, and human disturbances. Lastly, we use new analyses to explore how various types of human disturbances affect rates of phenotypic change, and we call for this database to serve as a steppingstone for further analyses to understand patterns of contemporary phenotypic change.

Civil War Is Associated with Longer Escape Distances among Sri Lankan Birds

AbstractWar influences wildlife in a variety of ways but may influence their escape responses to approaching threats, including humans, because of its effect on human populations and behavior and landscape change. We collected 1,400 flight initiation distances (FIDs) from 157 bird species in the dry zone of Sri Lanka, where civil war raged for 26 years, ending in 2009. Accounting for factors known to influence FIDs (phylogeny, starting distance of approaches, body mass, prevailing human density, group size, and location), we found that birds have longer FIDs in the part of the dry zone that experienced civil war. Larger birds-often preferred by human hunters-showed greater increases in FID in the war zone, consistent with the idea that war was associated with greater hunting pressure and that larger birds experienced longer-lasting trauma or had more plastic escape behavior than smaller species. While the mechanisms linking the war and avian escape responses remain ambiguous, wars evidently leave legacies that extend to behavioral responses in birds.

Evolutionary Dynamics of Treatment-Induced Resistance in Cancer Informs Understanding of Rapid Evolution in Natural Systems

Rapid evolution is ubiquitous in nature. We briefly review some of this quite broadly, particularly in the context of response to anthropogenic disturbances. Nowhere is this more evident, replicated and accessible to study than in cancer. Curiously cancer has been late - relative to fisheries, antibiotic resistance, pest management and evolution in human dominated landscapes - in recognizing the need for evolutionarily informed management strategies. The speed of evolution matters. Here, we employ game-theoretic modeling to compare time to progression with continuous maximum tolerable dose to that of adaptive therapy where treatment is discontinued when the population of cancer cells gets below half of its initial size and re-administered when the cancer cells recover, forming cycles with and without treatment. We show that the success of adaptive therapy relative to continuous maximum tolerable dose therapy is much higher if the population of cancer cells is defined by two cell types (sensitive vs. resistant in a polymorphic population). Additionally, the relative increase in time to progression increases with the speed of evolution. These results hold with and without a cost of resistance in cancer cells. On the other hand, treatment-induced resistance can be modeled as a quantitative trait in a monomorphic population of cancer cells. In that case, when evolution is rapid, there is no advantage to adaptive therapy. Initial responses to therapy are blunted by the cancer cells evolving too quickly. Our study emphasizes how cancer provides a unique system for studying rapid evolutionary changes within tumor ecosystems in response to human interventions; and allows us to contrast and compare this system to other human managed or dominated systems in nature.

An evolutionary conserved olfactory receptor for foodborne and semiochemical alkylpyrazines

Molecular recognition is a fundamental principle in biological systems. The olfactory detection of both food and predators via ecological relevant odorant cues are abilities of eminent evolutionary significance for many species. Pyrazines are such volatile cues, some of which act as both human-centered key food odorants (KFOs) and semiochemicals. A pyrazine-selective odorant receptor has been elusive. Here we screened 2,3,5-trimethylpyrazine, a KFO and semiochemical, and 2,5-dihydro-2,4,5-trimethylthiazoline, an innate fear-associated non-KFO, against 616 human odorant receptor variants, in a cell-based luminescence assay. OR5K1 emerged as sole responding receptor. Tested against a comprehensive collection of 178 KFOs, we newly identified 18 pyrazines and (2R/2S)-4-methoxy-2,5-dimethylfuran-3(2H)-one as agonists. Notably, OR5K1 orthologs in mouse and domesticated species displayed a human-like, potency-ranked activation pattern of pyrazines, suggesting a domestication-led co-evolution of OR5K1 and its orthologs. In summary, OR5K1 is a specialized olfactory receptor across mammals for the detection of pyrazine-based key food odors and semiochemicals.

Species' traits drive amphibian tolerance to anthropogenic habitat modification

Anthropogenic habitat modification is accelerating, threatening the world's biodiversity. Understanding species' responses to anthropogenic modification is vital for halting species' declines. However, this information is lacking for globally threatened amphibians, informed primarily by small community-level studies. We integrated >126,000 verified citizen science observations of frogs, with a global continuous measure of anthropogenic habitat modification for a continental scale analysis of the effects of habitat modification on frogs. We derived a modification tolerance index-accounting for anthropogenic stressors such as human habitation, agriculture, transport and energy production-for 87 species (36% of all Australian frog species). We used this index to quantify and rank each species' tolerance of anthropogenic habitat modification, then compiled traits of all the frog species and assessed how well these equipped species to tolerate modified habitats. Most of Australia's frog species examined were adversely affected by habitat modification. Habitat specialists and species with large geographic range sizes were the least tolerant of habitat modification. Call dominant frequency, body size, clutch type and calling position (i.e. from vegetation) were also related to tolerance of habitat modification. There is an urgent need for improved consideration of anthropogenic impacts and improved conservation measures to ensure the long-term persistence of frog populations, particularly focused on specialists and species identified as intolerant of modified habitats.

People have shaped most of terrestrial nature for at least 12,000 years

The current biodiversity crisis is often depicted as a struggle to preserve untouched habitats. Here, we combine global maps of human populations and land use over the past 12,000 y with current biodiversity data to show that nearly three quarters of terrestrial nature has long been shaped by diverse histories of human habitation and use by Indigenous and traditional peoples. With rare exceptions, current biodiversity losses are caused not by human conversion or degradation of untouched ecosystems, but rather by the appropriation, colonization, and intensification of use in lands inhabited and used by prior societies. Global land use history confirms that empowering the environmental stewardship of Indigenous peoples and local communities will be critical to conserving biodiversity across the planet.

Archaeological and paleoecological evidence shows that by 10,000 BCE, all human societies employed varying degrees of ecologically transformative land use practices, including burning, hunting, species propagation, domestication, cultivation, and others that have left long-term legacies across the terrestrial biosphere. Yet, a lingering paradigm among natural scientists, conservationists, and policymakers is that human transformation of terrestrial nature is mostly recent and inherently destructive. Here, we use the most up-to-date, spatially explicit global reconstruction of historical human populations and land use to show that this paradigm is likely wrong. Even 12,000 y ago, nearly three quarters of Earth’s land was inhabited and therefore shaped by human societies, including more than 95% of temperate and 90% of tropical woodlands. Lands now characterized as “natural,” “intact,” and “wild” generally exhibit long histories of use, as do protected areas and Indigenous lands, and current global patterns of vertebrate species richness and key biodiversity areas are more strongly associated with past patterns of land use than with present ones in regional landscapes now characterized as natural. The current biodiversity crisis can seldom be explained by the loss of uninhabited wildlands, resulting instead from the appropriation, colonization, and intensifying use of the biodiverse cultural landscapes long shaped and sustained by prior societies. Recognizing this deep cultural connection with biodiversity will therefore be essential to resolve the crisis.

Aggressiveness-related behavioural types in the pearly razorfish

Behavioural types (i.e., personalities or temperament) are defined as among individual differences in behavioural traits that are consistent over time and ecological contexts. Behavioural types are widespread in nature and play a relevant role in many ecological and evolutionary processes. In this work, we studied for the first time the consistency of individual aggressiveness in the pearly razorfish, Xyrichtys novacula, using a mirror test: a classic method to define aggressive behavioural types. The experiments were carried out in semi-natural behavioural arenas and monitored through a novel Raspberry Pi-based recording system. The experimental set up allowed us to obtain repeated measures of individual aggressivity scores during four consecutive days. The decomposition of the phenotypic variance revealed a significant repeatability score (R) of 0.57 [0.44-0.60], suggesting high predictability of individual behavioural variation and the existence of different behavioural types. Aggressive behavioural types emerged irrespective of body size, sex and the internal condition of the individual. Razorfishes are a ubiquitous group of fish species that occupy sedimentary habitats in most shallow waters of temperate and tropical seas. These species are known for forming strong social structures and playing a relevant role in ecosystem functioning. Therefore, our work provides novel insight into an individual behavioural component that may play a role in poorly known ecological and evolutionary processes occurring in this species.

Modern, archaeological, and paleontological DNA analysis of a human-harvested marine gastropod (Strombus pugilis) from Caribbean Panama

Although protocols exist for the recovery of ancient DNA from land snail and marine bivalve shells, marine conch shells have yet to be studied from a paleogenomic perspective. We first present reference assemblies for both a 623.7 Mbp nuclear genome and a 15.4 kbp mitochondrial genome for Strombus pugilis, the West Indian fighting conch. We next detail a method to extract and sequence DNA from conch shells and apply it to conch from Bocas del Toro, Panama across three time periods: recently-eaten and discarded (n = 3), Late Holocene (984-1258 before present [BP]) archaeological midden (n = 5), and mid-Holocene (5711-7187 BP) paleontological fossil coral reef (n = 5). These results are compared to control DNA extracted from live-caught tissue and fresh shells (n = 5). Using high-throughput sequencing, we were able to obtain S. pugilis nuclear sequence reads from shells across all age periods: up to 92.5 thousand filtered reads per sample in live-caught shell material, 4.57 thousand for modern discarded shells, 12.1 thousand reads for archaeological shells, and 114 reads in paleontological shells. We confirmed authenticity of the ancient DNA recovered from the archaeological and paleontological shells based on 5.7× higher average frequency of deamination-driven misincorporations and 15% shorter average read lengths compared to the modern shells. Reads also mapped to the S. pugilis mitochondrial genome for all but the paleontological shells, with consistent ratios of mitochondrial to nuclear mapped reads across sample types. Our methods can be applied to diverse archaeological sites to facilitate reconstructions of the long-term impacts of human behaviour on mollusc evolutionary biology.

Socio-eco-evolutionary dynamics in cities

Cities are uniquely complex systems regulated by interactions and feedbacks between nature and human society. Characteristics of human society-including culture, economics, technology and politics-underlie social patterns and activity, creating a heterogeneous environment that can influence and be influenced by both ecological and evolutionary processes. Increasing research on urban ecology and evolutionary biology has coincided with growing interest in eco-evolutionary dynamics, which encompasses the interactions and reciprocal feedbacks between evolution and ecology. Research on both urban evolutionary biology and eco-evolutionary dynamics frequently focuses on contemporary evolution of species that have potentially substantial ecological-and even social-significance. Still, little work fully integrates urban evolutionary biology and eco-evolutionary dynamics, and rarely do researchers in either of these fields fully consider the role of human social patterns and processes. Because cities are fundamentally regulated by human activities, are inherently interconnected and are frequently undergoing social and economic transformation, they represent an opportunity for ecologists and evolutionary biologists to study urban "socio-eco-evolutionary dynamics." Through this new framework, we encourage researchers of urban ecology and evolution to fully integrate human social drivers and feedbacks to increase understanding and conservation of ecosystems, their functions and their contributions to people within and outside cities.

The evolutionary consequences of human-wildlife conflict in cities

Human-wildlife interactions, including human-wildlife conflict, are increasingly common as expanding urbanization worldwide creates more opportunities for people to encounter wildlife. Wildlife-vehicle collisions, zoonotic disease transmission, property damage, and physical attacks to people or their pets have negative consequences for both people and wildlife, underscoring the need for comprehensive strategies that mitigate and prevent conflict altogether. Management techniques often aim to deter, relocate, or remove individual organisms, all of which may present a significant selective force in both urban and nonurban systems. Management-induced selection may significantly affect the adaptive or nonadaptive evolutionary processes of urban populations, yet few studies explicate the links among conflict, wildlife management, and urban evolution. Moreover, the intensity of conflict management can vary considerably by taxon, public perception, policy, religious and cultural beliefs, and geographic region, which underscores the complexity of developing flexible tools to reduce conflict. Here, we present a cross-disciplinary perspective that integrates human-wildlife conflict, wildlife management, and urban evolution to address how social-ecological processes drive wildlife adaptation in cities. We emphasize that variance in implemented management actions shapes the strength and rate of phenotypic and evolutionary change. We also consider how specific management strategies either promote genetic or plastic changes, and how leveraging those biological inferences could help optimize management actions while minimizing conflict. Investigating human-wildlife conflict as an evolutionary phenomenon may provide insights into how conflict arises and how management plays a critical role in shaping urban wildlife phenotypes.

The emergence and intensification of early hunter-gatherer niche construction

Hunter-gatherers, especially Pleistocene examples, are not well-represented in archeological studies of niche construction. However, as the role of humans in shaping environments over long time scales becomes increasingly apparent, it is critical to develop archeological proxies and testable hypotheses about early hunter-gatherer impacts. Modern foragers engage in niche constructive behaviors aimed at maintaining or increasing the productivity of their environments, and these may have had significant ecological consequences over later human evolution. In some cases, they may also represent behaviors unique to modern Homo sapiens. Archeological and paleoenvironmental data show that African hunter-gatherers were niche constructors in diverse environments, which have legacies in how ecosystems function today. These can be conceptualized as behaviorally mediated trophic cascades, and tested using archeological and paleoenvironmental proxies. Thus, large-scale niche construction behavior is possible to identify at deeper time scales, and may be key to understanding the emergence of modern humans.

Interacting forces of predation and fishing affect species' maturation size

Fishing is a strong selective force and is supposed to select for earlier maturation at smaller body size. However, the extent to which fishing-induced evolution is shaping ecosystems remains debated. This is in part because it is challenging to disentangle fishing from other selective forces (e.g., size-structured predation and cannibalism) in complex ecosystems undergoing rapid change.Changes in maturation size from fishing and predation have previously been explored with multi-species physiologically structured models but assumed separation of ecological and evolutionary timescales. To assess the eco-evolutionary impact of fishing and predation at the same timescale, we developed a stochastic physiologically size-structured food-web model, where new phenotypes are introduced randomly through time enabling dynamic simulation of species' relative maturation sizes under different types of selection pressures.Using the model, we carried out a fully factorial in silico experiment to assess how maturation size would change in the absence and presence of both fishing and predation (including cannibalism). We carried out ten replicate stochastic simulations exposed to all combinations of fishing and predation in a model community of nine interacting fish species ranging in their maximum sizes from 10 g to 100 kg. We visualized and statistically analyzed the results using linear models.The effects of fishing on maturation size depended on whether or not predation was enabled and differed substantially across species. Fishing consistently reduced the maturation sizes of two largest species whether or not predation was enabled and this decrease was seen even at low fishing intensities (F = 0.2 per year). In contrast, the maturation sizes of the three smallest species evolved to become smaller through time but this happened regardless of the levels of predation or fishing. For the four medium-size species, the effect of fishing was highly variable with more species showing significant and larger fishing effects in the presence of predation.Ultimately our results suggest that the interactive effects of predation and fishing can have marked effects on species' maturation sizes, but that, at least for the largest species, predation does not counterbalance the evolutionary effect of fishing. Our model also produced relative maturation sizes that are broadly consistent with empirical estimates for many fish species.

Microclimate and pasture area preferences by dairy cows under high biodiversity silvopastoral system in Southern Brazil

The aim of this study was to evaluate the influence of microclimate on dairy cows' behaviors and their preferences for different pasture areas under high biodiversity silvopastoral system (SPSnuclei) in a subtropical climate. We surveyed three different pasture areas under SPSnuclei: shaded area around the nuclei (SAN), unshaded area around the nuclei (UAN), and all-day sunny area distant from the nuclei (SDN). In each area, the microclimatic variables were measured-air temperature (°C), relative humidity (%), illuminance (lux), wind speed (m/s), and soil surface temperature (°C). In addition, the diurnal behaviors of 39 Jersey dairy cows were evaluated. Grazing, standing rest, lying rest, standing rumination, and lying rumination were registered by scans every 10 min; drinking water was observed continuously. Microclimate differed (p < 0.05) among the SPSnuclei areas. Areas around the nuclei provided better conditions of air temperature (SAN, 31.05 °C; UAN, 31.92 °C; SDN, 33.39 °C), illuminance (SAN, 5665 lx; UAN, 61,065 lx; SDN, 75,380 lx), and soil surface temperature (SAN, 27.35 °C; UAN, 32.38 °C; SDN, 35.87 °C). The frequency of use of each SPSnuclei area by dairy cows was different (p < 0.01); the highest frequencies of the grazing (SAN, 12.6%; UAN, 4.8%; SDN, 11.1%), rumination (SAN, 21.7%; UAN, 3.1%; SDN, 1.9%), and rest (SAN, 35.6%; UAN, 5.4%; SDN, 3.7%) were registered in the areas around the nuclei. The microclimate of the high biodiversity silvopastoral system leads the animals to perform grazing, ruminating, and resting preferentially on the areas around the nuclei even with no shade.

The soil in our microbial DNA informs about environmental interfaces across host and subsistence modalities

In this study, I use microbiome datasets from global soil samples and diverse hosts to learn whether soil microbial taxa are found in host microbiomes, and whether these observations fit the narrative that environmental interaction influences human microbiomes. A major motivation for conducting host-associated microbiome research is to contribute towards understanding how the environment may influence host physiology. The microbial molecular network is considered a key vector by which environmental traits may be transmitted to the host. Research on human evolution seeks evidence that can inform about the living experiences of human ancestors. This objective is substantially enhanced by recent work on ancient biomolecules from preserved microbial tissues, such as dental calculus, faecal sediments and whole coprolites. A challenge yet is to distinguish authentic biomolecules from environmental contaminants deposited contemporaneously, primarily from soil. However, we do not have sound expectations about the soil microbial elements arriving to host-associated microbiomes in a modern context. One assumption in human microbiome research is that proximity to the natural environment should affect biodiversity or impart genetic elements. I present evidence supporting the assumption that environmental soil taxa are found among host-associated gut taxa, which can recapitulate the surrounding host habitat ecotype. Soil taxa found in gut microbiomes relate to a set of universal 'core' taxa for all soil ecotypes, demonstrating that widespread host organisms may experience a consistent pattern of external environmental cues, perhaps critical for development. Observed differentiation of soil feature diversity, abundance and composition among human communities, great apes and invertebrate hosts also indicates that lifestyle patterns are inferable from an environmental signal that is retrievable from gut microbiome amplicon data. This article is part of the theme issue 'Insights into health and disease from ancient biomolecules'.

Stoichiometric consequences of size-selective mortality: An experimental test using the Japanese medaka (Oryzias latipes)

The determinants of intraspecific stoichiometric variation remain difficult to elucidate due to their multiple origins (e.g. genetic vs. environmental) and potential interactive effects. We evaluated whether two size-selected lines of medaka (Oryzias latipes) with contrasted life-history strategies (small- and large-breeder lines with slow growth and early maturity vs. fast growth and late maturity) differed in their organismal stoichiometry (percentage and ratios of carbon [C], nitrogen [N] and phosphorus [P]) in a mesocosm experiment. We also tested how size-selection interacted with environmental conditions (i.e. two levels of fish density and light intensity), body condition and sex. Results showed that large-breeder fish were significantly N-enriched compared to small-breeders, while the two size-selected lines did not differ in body P composition. Size-selection interacted with density - high density only affected small-breeders leading to decreasing %C and C: N - and with sex - large-breeder females had higher %C and C:N values than large-breeder males. Finally, C:P and N:P ratios increased with body condition due to decreasing %P. Overall, our results show that the ecological consequences of size-selective mortality extend to organismal stoichiometry and may, from there, change nutrient cycling and ecosystem functioning.

How human behavior can impact the evolution of genetically-mediated behavior in wild non-human species

Humans intensely modify the ecosystems we inhabit. Many of the impacts that this behavior can have on other species also sharing these spaces are obvious. A prime example is the devastating current extinction crisis. Yet some populations of non-human, non-domesticated species survive or even appear to thrive in heavily disturbed or human-built habitats. Theoretically, this apparent paradox could be facilitated partly by the evolution of genetically-mediated trait adaptations to the impacts of human behavior. At the least, persistence in strongly modified habitats would provide requisite selection pressures for this process to potentially occur in the future. In fact, we have a growing number of well-characterized examples of morphological trait adaptations to human behavior. However, our knowledge of genetically-mediated behavioral adaptations in similar contexts is less well developed. In this review I set up and discuss several evolutionary scenarios by which human behavior might have impacted the evolution of genetically mediated behavior in non-human, non-domestic species and highlight several approaches that could be used in future studies of this process.

Anthropogenic pressures negatively impact genomic diversity of the vulnerable seagrass Zostera capensis

Zostera capensis is a keystone species providing essential ecosystem services to southern African coastal systems. Like most seagrasses globally, Z. capensis is declining and under threat from anthropogenic pressures, and indicators of seagrass health and resilience may be of interest in preventing further declines. As intraspecific diversity is an important component of resilience, we used a pooled RADseq approach to generate genome-wide measures of variation across the entire South African distribution of Z. capensis. Using nucleotide diversity, heterozygosity and allelic richness we tested for associations with fine-scale anthropogenic pressure data compiled by the South African National Biodiversity Assessment using generalised linear models. Increased fishing effort, habitat loss, sand mining and a change in estuary flow dynamics were found to play an important role in decreasing nucleotide diversity and expected heterozygosity, most likely due to the loss of less resilient genotypes as a result of direct physical damage or indirect consequences. As the building block for adaptation, nucleotide diversity is particularly important for resilience. Because of this, as well as the fact that nucleotide diversity displayed the most distinct difference between the west and east coast, and responded most strongly to anthropogenic pressures, we suggest that this may be a useful measure for monitoring genetic or genomic variation. As genomic diversity influences resilience and resistance to disturbances, the remaining diversity in South African seagrass beds urgently needs to be conserved through restoration efforts and careful management of pressures.