Understanding decision making in a food-caching predator using hidden Markov models

Financial support was provided by the People’s Trust for Endangered Species (PTES), Zoologische Gesellschaft für Arten- und Populationsschutz (ZGAP), Quagga Conservation Fund and IdeaWild.Background Tackling behavioural questions often requires identifying points in space and time where animals make decisions and linking these to environmental variables. State-space modeling is useful for analysing movement trajectories, particularly with hidden Markov models (HMM). Yet importantly, the ontogeny of underlying (unobservable) behavioural states revealed by the HMMs has rarely been verified in the field. Methods Using hidden Markov models of individual movement from animal location, biotelemetry, and environmental data, we explored multistate behaviour and the effect of associated intrinsic and extrinsic drivers across life stages. We also decomposed the activity budgets of different movement states at two general and caching phases. The latter - defined as the period following a kill which likely involves the caching of uneaten prey - was subsequently confirmed by field inspections. We applied this method to GPS relocation data of a caching predator, Persian leopard Panthera pardus saxicolor in northeastern Iran. Results Multistate modeling provided strong evidence for an effect of life stage on the behavioural states and their associated time budget. Although environmental covariates (ambient temperature and diel period) and ecological outcomes (predation) affected behavioural states in non-resident leopards, the response in resident leopards was not clear, except that temporal patterns were consistent with a crepuscular and nocturnal movement pattern. Resident leopards adopt an energetically more costly mobile behaviour for most of their time while non-residents shift their behavioural states from high energetic expenditure states to energetically less costly encamped behaviour for most of their time, which is likely to be a risk avoidance strategy against conspecifics or humans. Conclusions This study demonstrates that plasticity in predator behaviour depending on life stage may tackle a trade-off between successful predation and avoiding the risks associated with conspecifics, human presence and maintaining home range. Range residency in territorial predators is energetically demanding and can outweigh the predator’s response to intrinsic and extrinsic variables such as thermoregulation or foraging needs. Our approach provides an insight into spatial behavior and decision making of leopards, and other large felids in rugged landscapes through the application of the HMMs in movement ecology.Publisher PDFPeer reviewe

Spatio-temporal ecology of sympatric felids on Borneo. Evidence for resource partitioning?

Niche differentiation, the partitioning of resources along one or more axes of a species’ niche hyper-volume, is widely recognised as an important mechanism for sympatric species to reduce interspecific competition and predation risk, and thus facilitate co-existence. Resource partitioning may be facilitated by behavioural differentiation along three main niche dimensions: habitat, food and time. In this study, we investigate the extent to which these mechanisms can explain the coexistence of an assemblage of five sympatric felids in Borneo. Using multi-scale logistic regression, we show that Bornean felids exhibit differences in both their broad and fine-scale habitat use. We calculate temporal activity patterns and overlap between these species, and present evidence for temporal separation within this felid guild. Lastly, we conducted an all-subsets logistic regression to predict the occurrence of each felid species as a function of the co-occurrence of a large number of other species and showed that Bornean felids co-occurred with a range of other species, some of which could be candidate prey. Our study reveals apparent resource partitioning within the Bornean felid assemblage, operating along all three niche dimension axes. These results provide new insights into the ecology of these species and the broader community in which they live and also provide important information for conservation planning for this guild of predators

Predicting connectivity, population size and genetic diversity of Sunda clouded leopards across Sabah, Borneo

Context The Sunda clouded leopard is vulnerable to forest loss and fragmentation. Conservation of this species requires spatially explicit evaluations of the effects of landscape patterns on genetic diversity, population size and landscape connectivity. Objectives We sought to develop predictions of Sunda clouded leopard population density, genetic diversity and population connectivity across the state of Sabah, Malaysian Borneo. We also wished to quantify the differences in connectivity metrics from an empirically optimized model of landscape resistance with one based on expert opinion. Methods We investigated connectivity metrics for Sunda clouded leopards across Sabah, based on an empirically optimised, movement based model, and an expert-opinion derived model. We used simulation modelling to predict and compare the patterns and causes of differences in the local neighbourhood population density, distribution, and genetic diversity across the two different resistance maps, at two dispersal distances. Results The empirical model produced higher estimates of population size, population density, genetic diversity and overall connectivity than the expert-opinion model. The overall pattern of predicted connectivity was similar between models. Both models identified a large patch of core habitat with high predicted connectivity in Sabah’s central forest region, and agreed on the location and extent of the main isolated habitat fragments. Conclusions We identified clear relationships between landscape composition and configuration and predicted distribution, density, genetic diversity and connectivity of Sunda clouded leopard populations. Core areas are comprised of large and unfragmented forest blocks, and areas of reduced forest cover comprise barriers among patches of predicted remaining habitat

The potential and shortcomings of mitochondrial DNA analysis for cheetah conservation management

There are only about 7,100 adolescent and adult cheetahs (Acinonyx jubatus) remaining in the wild. With the majority occurring outside protected areas, their numbers are rapidly declining. Evidence-based conservation measures are essential for the survival of this species. Genetic data is routinely used to inform conservation strategies, e.g., by establishing conservation units (CU). A commonly used marker in conservation genetics is mitochondrial DNA (mtDNA). Here, we investigated the cheetah’s phylogeography using a large-scale mtDNA data set to refine subspecies distributions and better assign individuals to CUs. Our dataset mostly consisted of historic samples to cover the cheetah’s whole range as the species has been extinct in most of its former distribution. While our genetic data largely agree with geography-based subspecies assignments, several geographic regions show conflicting mtDNA signals. Our analyses support previous findings that evolutionary forces such as incomplete lineage sorting or mitochondrial capture likely confound the mitochondrial phylogeography of this species, especially in East and, to some extent, in Northeast Africa. We caution that subspecies assignments solely based on mtDNA should be treated carefully and argue for an additional standardized nuclear single nucleotide polymorphism (SNP) marker set for subspecies identification and monitoring. However, the detection of the A. j. soemmeringii specific haplogroup by a newly designed Amplification-Refractory Mutation System (ARMS) can already provide support for conservation measures.info:eu-repo/semantics/publishedVersio

Notes on the distribution and status of small carnivores in Gabon

The distribution and status of small carnivore species in Gabon have never been comprehensively assessed. We collated data from general wildlife surveys, camera-trap and transect studies and analyses of bushmeat consumption and trade, to map their country-wide occurrence and assess current exploitation levels. Records of Common Slender Mongoose Herpestes sanguineus and Cameroon Cusimanse Crossarchus platycephalus represent the first confirmation of their occurrence in Gabon. Cameroon Cusimanse was believed to extend into north-east Gabon, but the Slender Mongoose records extend its known range well outside that previously suspected. We furthermore extended the known range for Egyptian Mongoose Herpestes ichneumon. Crested Genet Genetta cristata has also been proposed to occur in Gabon but our records were not suited to evaluating this possibility given the difficulties of separation from Servaline Genet G. servalina. Most species appear to be distributed widely across the country. While several are commonly recorded in hunter catch and bushmeat markets, they form only a small proportion (3.4% and 3.1%, respectively) of all bushmeat records. However, in proximity to settlements, small carnivore exploitation, for bushmeat and use of body parts in traditional ceremonies, appears to have adverse effects on species richness and abundance

Genomic Analyses Show Extremely Perilous Conservation Status of African and Asiatic cheetahs (Acinonyx jubatus).

We live in a world characterized by biodiversity loss and global environmental change. The extinction of large carnivores can have ramifying effects on ecosystems like an uncontrolled increase in wild herbivores, which in turn can have knock-on impacts on vegetation regeneration and communities. Cheetahs (Acinonyx jubatus) serve important ecosystem functions as apex predators; yet, they are quickly heading towards an uncertain future. Threatened by habitat loss, human-wildlife conflict and illegal trafficking, there are only approximately 7100 individuals remaining in nature. We present the most comprehensive genome-wide analysis of cheetah phylogeography and conservation genomics to date, assembling samples from nearly the entire current and past species' range. We show that their phylogeography is more complex than previously thought, and that East African cheetahs (A. j. raineyi) are genetically distinct from Southern African individuals (A. j. jubatus), warranting their recognition as a distinct subspecies. We found strong genetic differentiation between all classically recognized subspecies, thus refuting earlier findings that cheetahs show only little differentiation. The strongest differentiation was observed between the Asiatic and all the African subspecies. We detected high inbreeding in the Critically Endangered Iranian (A. j. venaticus) and North-western (A. j. hecki) subspecies, and show that overall cheetahs, along with snow leopards, have the lowest genome-wide heterozygosity of all the big cats. This further emphasizes the cheetah's perilous conservation status. Our results provide novel and important information on cheetah phylogeography that can support evidence-based conservation policy decisions to help protect this species. This is especially relevant in light of ongoing and proposed translocations across subspecies boundaries, and the increasing threats of illegal trafficking

Saving the world’s terrestrial megafauna

From the late Pleistocene to the Holocene, and now the so called Anthropocene, humans have been driving an ongoing series of species declines and extinctions (Dirzo et al. 2014). Large-bodied mammals are typically at a higher risk of extinction than smaller ones (Cardillo et al. 2005). However, in some circumstances terrestrial megafauna populations have been able to recover some of their lost numbers due to strong conservation and political commitment, and human cultural changes (Chapron et al. 2014). Indeed many would be in considerably worse predicaments in the absence of conservation action (Hoffmann et al. 2015). Nevertheless, most mammalian megafauna face dramatic range contractions and population declines. In fact, 59% of the world’s largest carnivores (≥ 15 kg, n = 27) and 60% of the world’s largest herbivores (≥ 100 kg, n = 74) are classified as threatened with extinction on the International Union for the Conservation of Nature (IUCN) Red List (supplemental table S1 and S2). This situation is particularly dire in sub-Saharan Africa and Southeast Asia, home to the greatest diversity of extant megafauna (figure 1). Species at risk of extinction include some of the world’s most iconic animals—such as gorillas, rhinos, and big cats (figure 2 top row)—and, unfortunately, they are vanishing just as science is discovering their essential ecological roles (Estes et al. 2011). Here, our objectives are to raise awareness of how these megafauna are imperiled (species in supplemental table S1 and S2) and to stimulate broad interest in developing specific recommendations and concerted action to conserve them

Software-sorted geographies.

This paper explores the central role of computerized code in shaping the social and geographical politics of inequality in advanced societies. The central argument is that, while such processes are necessarily multifaceted, multiscaled, complex and ambivalent, a great variety of ‘software-sorting’ techniques is now being widely applied in efforts to try to separate privileged and marginalized groups and places across a wide range of sectors and domains. This paper’s central demonstration is that the overwhelming bulk of software-sorting applications is closely associated with broader transformations from Keynesian to neoliberal service regimes. To illustrate such processes of software-sorting, the paper analyses recent research addressing three examples of software-sorting in practice. These address physical and electronic mobility systems, online geographical information systems (GIS), and face-recognition closed circuit television (CCTV) systems covering city streets. The paper finishes by identifying theoretical, research and policy implications of the diffusion of software-sorted geographies within which computerized code continually orchestrates inequalities through technological systems embedded within urban environments