Linking life history to landscape for threatened species conservation in a multiuse region

Landscape-scale conservation that considers metapopulation dynamics will be essential for preventing declines of species facing multiple threats to their survival. Toward this end, we developed a novel approach that combines occurrence records, spatial-environmental data, and genetic information to model habitat, connectivity, and patterns of genetic structure and link spatial attributes to underlying ecological mechanisms. Using the threatened northern quoll (Dasyurus hallucatus) as a case study, we applied this approach to address the need for conservation decision-making tools that promote resilient metapopulations of this threatened species in the Pilbara, Western Australia, a multiuse landscape that is a hotspot for biodiversity and mining. Habitat and connectivity were predicted by different landscape characteristics. Whereas habitat suitability was overwhelmingly driven by terrain ruggedness, dispersal was facilitated by proximity to watercourses. Although there is limited evidence for major physical barriers in the Pilbara, areas with high silt and clay content (i.e., alluvial and hardpan plains) showed high resistance to dispersal. Climate subtlety shaped distributions and patterns of genetic turnover, suggesting the potential for local adaptation. By understanding these spatial-environmental associations and linking them to life-history and metapopulation dynamics, we highlight opportunities to provide targeted species management. To support this, we have created habitat, connectivity, and genetic uniqueness maps for conservation decision-making in the region. These tools have the potential to provide a more holistic approach to conservation in multiuse landscapes globally.

Resting disparity in quoll semelparity: examining the sex-linked behaviours of wild roaming northern quolls (Dasyurus hallucatus) during breeding season

Semelparity is a breeding strategy whereby an individual invests large amounts of resources into a single breeding season, leading to the death of the individual. Male northern quolls (Dasyurus hallucatus) are the largest known mammal to experience a post-breeding die-off; however, the cause of their death is unknown, dissimilar from causes in other semelparous dasyurids. To identify potential differences between male northern quolls that breed once, and females that can breed for up to four seasons, the behaviours, activity budgets, speeds and distances travelled were examined. Northern quolls were captured on Groote Eylandt off the coast of the Northern Territory, Australia, and were fitted with accelerometers. A machine learning algorithm (Self-organizing Map) was trained on more than 76 h of recorded footage of quoll behaviours and used to predict behaviours in 42 days of data from wild roaming quolls (7M : 6F). Male northern quolls were more active (male 1.27 g, s.d. = 0.41; female 1.18 g, s.d. = 0.36), spent more time walking (13.09% male: 8.93% female) and engaged in less lying/resting behaviour than female northern quolls (7.67% male: 23.65% female). Reduced resting behaviour among males could explain the post-breeding death as the deterioration in appearance reflects that reported for sleep-deprived rodents.

Impacts of invasive cane toads on an Endangered marsupial predator and its prey

Recent research has revealed that impacts of some invasive species are chronic. Invasive cane toads Rhinella marina have apparently caused rapid and severe population-level declines of the Endangered northern quoll Dasyurus hallucatus across tropical Australia; however, more targeted, quantitative impact data are needed to disentangle this from other threats such as fire regimes, disease, feral cats and dingos. Moreover, repeatable counts before, during, after and long after toad invasion are needed in order to determine if short-term impacts are chronic vs. transitory. We used game cameras to monitor 2 quoll populations and their prey over a 5 yr period spanning the invasion of the toxic cane toads in 2 gorges in northwestern Australia. We predicted severe declines in quolls with the toad invasion, and predatory release of 2 prey species of quolls, a rodent and a smaller marsupial. Quolls declined quickly upon arrival of toads, becoming undetectable in one gorge and barely detectable in the other. Identification of individuals via unique spot patterns confirmed that the declines in detection rates were due to changes in relative abundance rather than decreases in activity. Despite quoll declines we found no evidence of mesopredator release; small mammals generally declined as toads arrived. Our research confirmed rapid population-level declines of quolls, and possibly smaller mammals, associated with arrival of invasive cane toads. Importantly, our surveys provide a baseline for future surveys to determine whether these short-term impacts are chronic or transitory, and whether recovery requires assistance from managers.

Dietary flexibility and high predator efficacy facilitate coexistence in a novel predator interaction

Predator diet can be influenced by competition and intraguild predation, leading to resource partitioning and/or avoidance. For sympatric, endemic predators, these processes form as predator species coevolve, facilitating coexistence. However, when novel predator interactions occur, significant dietary overlap could create acute levels of competition leading to intraguild predation and population extinction, or accelerated changes in diet and/or spatial and temporal avoidance. We measured diet, intraguild predation, and spatial and temporal overlap in two predator species in a novel predator interaction: the western quoll (Dasyurus geoffroii), a small, native carnivore reintroduced to semi-arid Australia, and the domestic cat (Felis catus), a larger introduced carnivore already resident at the release site. Both species exhibited high dietary overlap and fed on mammals, reptiles, birds, and invertebrates. Cats included quolls in their diet. Quoll diet was broader (including carrion, bats, and plant material) and flexible, changing significantly with age, sex, and season. Introduced rabbit was the most common prey item recorded for both species (frequency of occurrence = 40–50%). However, quolls consumed rabbits in relation to their availability while rabbit consumption in cats was unrelated to availability suggesting a stronger dependence on rabbit prey. Quoll diet did not change over time since release and they did not spatially or temporally avoid cats. However, cats were significantly spatially associated with rabbits while quolls were not, suggesting higher predation efficacy in quolls possibly due to their smaller body size enabling them to catch rabbits inside warrens. Despite high dietary overlap and intraguild predation, the quoll’s broad and flexible diet and high predation efficacy appeared to assist in facilitating coexistence and reducing competition in this novel predator interaction. This dietary flexibility may be harnessed to improve conservation outcomes: reducing introduced rabbits in our study area could naturally reduce feral cat populations while having less impact on native quolls.

Rocky escarpment versus savanna woodlands: comparing diet and body condition as indicators of habitat quality for the endangered northern quoll (Dasyurus hallucatus)

Abstract ContextUnderstanding what constitutes high-quality habitat for threatened species is critical for conservation management planning. The endangered northern quoll (Dasyurus hallucatus) has experienced an uneven range contraction among habitat types. Once common across multiple habitats of northern mainland Australia, declining populations have now contracted to rocky escarpments. AimThe island refuge of Groote Eylandt, Northern Territory, Australia, has not experienced the declines as seen on mainland Australia. Here, northern quolls persist in both rocky escarpment and savanna woodland, which provides a rare opportunity to investigate the habitat quality of rocky escarpments and savanna woodland for the northern quoll. MethodsNorthern quolls (n=111) were trapped in both rocky escarpment (n=61) and savanna woodland (n=50) habitats before the breeding season (May). We conducted body condition assessment, scat analysis, and measured trophic niche breadth of individuals occupying each habitat type. Key resultsFemale quolls occupying rocky escarpments exhibited a lower body condition than did quolls occupying savanna woodland. Quolls from rocky escarpments consumed a significantly higher proportion of mammals and fed within a narrower dietary niche than did those occupying savanna woodland. ConclusionsQuolls had adapted to the dietary resources available within each habitat type, suggesting that the lack of quolls in savanna woodland on the mainland is due to factors other than availability of dietary resources. ImplicationsGroote Eylandt is of critical conservation significance, where high numbers of northern quolls exist in both rocky escarpment and savanna woodland habitats. For population viability on the mainland, managing threats such as feral predators and inappropriate fire regimes in savanna woodland, particularly those surrounding rocky escarpment, should be prioritised.

Spatial ecology of an endangered carnivore, the Pilbara northern quoll

Understanding the spatial requirements of a species allows one to tailor actions that can help protect species and their habitats. We investigated the spatial needs of the endangered northern quoll (Dasyurus hallucatus) in the Pilbara. We analysed field data based on GPS-telemetry or a combination of GPS and VHF telemetry for 11 northern quolls with data collected over two week periods. Using MCP and Kernel methods, we found average short-term ranges of 193ha and 115ha for males, and for the only female with reliable data the estimates were 34ha and 23ha, respectively, with Kernel-based core areas that were between five and three times smaller for males and the female, respectively. We found support for our hypothesis that ranges differ between seasons, but with a seasonal trend that was different from that expected. The ranges of males during the premating/mating season were smaller than during the pouch-young season. Our study provides the first detailed attempt to define and understand short-term movement behaviour of the Pilbara northern quoll. The information derived from our study can help to increase the accuracy of predictive outputs and better inform habitat prioritisation and conservation management of the Pilbara northern quoll population.

Phenotypic integration in feliform carnivores: Covariation patterns and disparity in hypercarnivores versus generalists

The skeleton is a complex arrangement of anatomical structures that covary to various degrees depending on both intrinsic and extrinsic factors. Among the Feliformia, many species are characterized by predator lifestyles providing a unique opportunity to investigate the impact of highly specialized hypercarnivorous diet on phenotypic integration and shape diversity. To do so, we compared the shape of the skull, mandible, humerus, and femur of species in relation to their feeding strategies (hypercarnivorous vs. generalist species) and prey preference (predators of small vs. large prey) using three-dimensional geometric morphometric techniques. Our results highlight different degrees of morphological integration in the Feliformia depending on the functional implication of the anatomical structure, with an overall higher covariation of structures in hypercarnivorous species. The skull and the forelimb are not integrated in generalist species, whereas they are integrated in hypercarnivores. These results can potentially be explained by the different feeding strategies of these species. Contrary to our expectations, hypercarnivores display a higher disparity for the skull than generalist species. This is probably due to the fact that a specialization toward high-meat diet could be achieved through various phenotypes. Finally, humeri and femora display shape variations depending on relative prey size preference. Large species feeding on large prey tend to have robust long bones due to higher biomechanical constraints.

Skull shape of a widely distributed, endangered marsupial reveals little evidence of local adaptation between fragmented populations

The biogeographic distribution of diversity among populations of threatened mammalian species is generally investigated using population genetics. However, intraspecific phenotypic diversity is rarely assessed beyond taxonomy-focused linear measurements or qualitative descriptions. Here, we use a technique widely used in the evolutionary sciences-geometric morphometrics-to characterize shape diversity in the skull of an endangered marsupial, the northern quoll, across its 5,000 km distribution range along Northern Australia. Skull shape is a proxy for feeding, behavior, and phenotypic differentiation, allowing us to ask whether populations can be distinguished and whether patterns of variation indicate adaptability to changing environmental conditions. We analyzed skull shape in 101 individuals across four mainland populations and several islands. We assessed the contribution of population, size, sex, rainfall, temperature, and geography to skull shape variation using principal component analysis, Procrustes ANOVA, and variation partitioning analyses. The populations harbor similar amounts of broadly overlapping skull shape variation, with relatively low geographic effects. Size predicted skull shape best, coinciding with braincase size variation and differences in zygomatic arches. Size-adjusted differences in populations explained less variation with far smaller effect sizes, relating to changes in the insertion areas of masticatory muscles, as well as the upper muzzle and incisor region. Climatic and geographic variables contributed little. Strikingly, the vast majority of shape variation-76%-remained unexplained. Our results suggest a uniform intraspecific scope for shape variation, possibly due to allometric constraints or phenotypic plasticity beyond the relatively strong allometric effect. The lack of local adaptation indicates that cross-breeding between populations will not reduce local morphological skull (and probably general musculoskeletal) adaptation because none exists. However, the potential for heritable morphological variation (e.g., specialization to local diets) seems exceedingly limited. We conclude that 3D geometric morphometrics can provide a comprehensive, statistically rigorous phenomic contribution to genetic-based conservation studies.

Marsupial Gut Microbiome

The study of the gut microbiome in threatened wildlife species has enormous potential to improve conservation efforts and gain insights into host-microbe coevolution. Threatened species are often housed in captivity, and during this process undergo considerable changes to their gut microbiome. Studying the gut microbiome of captive animals therefore allows identification of dysbiosis and opportunities for improving management practices in captivity and for subsequent translocations. Manipulation of the gut microbiome through methods such as fecal transplant may offer an innovative means of restoring dysbiotic microbiomes in threatened species to provide health benefits. Finally, characterization of the gut microbiome (including the viral components, or virome) provides important baseline health information and may lead to discovery of significant microbial pathogens. Here we summarize our current understanding of microbiomes in Australian marsupial species.

Training fails to elicit behavioral change in a marsupial suffering evolutionary loss of antipredator behaviors

Attempts to reintroduce threatened species from ex situ populations (zoos or predator-free sanctuaries) regularly fail because of predation. When removed from their natural predators, animals may lose their ability to recognize predators and thus fail to adopt appropriate antipredator behaviors. Recently, northern quolls (Dasyurus hallucatus; Dasyuromorpha: Dasyuridae) conserved on a predator-free “island ark” for 13 generations were found to have no recognition of dingoes, a natural predator with which they had coevolved on mainland Australia for about 8,000 years. A subsequent reintroduction attempt using quolls acquired from this island ark failed due to predation by dingoes. In this study, we tested whether instrumental conditioning could be used to improve predator recognition in captive quolls sourced from a predator-free “island ark.” We used a previously successful scent-recognition assay (a giving-up density experiment) to compare predator-scent recognition of captive-born island animals before and after antipredator training. Our training was delivered by pairing live predators (dingo and domestic dog) with an electrified cage floor in repeat trials such that, when the predators were present, foraging animals would receive a shock. Our training methodology did not result in any discernible change in the ability of quolls to recognize and avoid dingo scent after training. We conclude either that our particular training method was ineffective (though ethically permissible); or that because these quolls appear unable to recognize natural predators, predator recognition may be extremely difficult to impart in a captive setting given ethical constraints. Our results point to the difficulty of reinstating lost behaviors, and to the value of maintaining antipredator behaviors in conservation populations before they are lost.

Vegetation structure and ground cover attributes describe the occurrence of a newly discovered carnivorous marsupial on the Tweed Shield Volcano caldera, the endangered black-tailed dusky antechinus (Antechinus arktos)

The black-tailed dusky antechinus (Antechinus arktos) is a recently discovered, endangered, carnivorous marsupial mammal endemic to the Tweed Shield Volcano caldera, straddling the border between Queensland and New South Wales in eastern Australia. The species' preference for cool, high-altitude habitats makes it particularly vulnerable to a shifting climate as these habitats recede. Aside from basic breeding and dietary patterns, the species' ecology is largely unknown. Understanding fine-scale habitat attributes preferred by this endangered mammal is critical to employ successful conservation management. Here, we assess vegetation attributes of known habitats over three sites at Springbrook and Border Ranges National Parks, including detailed structure data and broad floristic assessment. Floristic compositional assessment of the high-altitude cloud rainforest indicated broad similarities. However, only 22% of plant species were shared between all sites indicating a high level of local endemism. This suggests a diverse assemblage of vegetation across A. arktos habitats. Habitat characteristics were related to capture records of A. arktos to determine potential fine-scale structural habitat requirements. Percentage of rock cover and leaf litter were the strongest predictors of A. arktos captures across survey sites, suggesting a need for foraging substrate and cover. Habitat characteristics described here will inform predictive species distribution models of this federally endangered species and are applicable to other mammal conservation programs.

Demography and spatial requirements of the endangered northern quoll on Groote Eylandt

Abstract ContextAustralia has experienced the highest number of mammal extinctions of any continent over the past two centuries. Understanding the demography and spatial requirements of populations before declines occur is fundamental to confirm species trajectory, elucidate causes of decline and develop effective management strategies. AimsWe evaluated the demography and spatial requirements of a northern quoll, Dasyurus hallucatus, population on Groote Eylandt, Northern Territory. Groote Eylandt is considered a refuge for the species because key threatening processes are absent or limited; cane toads and introduced ungulates are absent, feral cats are infrequently detected and the fire regime is benign compared with mainland Northern Territory. MethodsWe conducted a 4-year capture–mark–recapture study to monitor growth, reproduction and survival of northern quolls within a 128-ha area, and we evaluated spatial requirements by attaching GPS units to both sexes. To assess the status of the Groote Eylandt population, we compared the demographics with existing data from mainland populations. Key resultsThe average density of northern quolls was 0.33ha−1. However, there was a 58% decline in female density, primarily between 2012 and 2013, corresponding with a decrease in female body mass. Females survived and bred in up to 3 years and adult survival rates did not vary among years, suggesting that juvenile recruitment drives population fluctuations. Male quolls were semelparous, with die-off occurring in the months following breeding. The median female and male home ranges were 15.7ha and 128.6ha respectively, and male ranges increased significantly during breeding, with 1616ha being the largest recorded. ConclusionsThe northern quoll population on Groote Eylandt had a higher density, female survival and reproductive success than has been previously recorded on the mainland. However, a marked decline was recorded corresponding with a decrease in female mass, indicating below-average rainfall as the likely cause. ImplicationsGroote Eylandt remains a refuge for the endangered northern quoll. However, even in the absence of key threatening processes, the population has declined markedly, highlighting the impact of environmental fluctuations. Maintaining the ecological integrity of Groote Eylandt is imperative for population recovery, and managing threats on the mainland over appropriate spatial scales is necessary to increase population resilience.

Albinism in Dasyurus species – a collation of historical and modern records

A new record of an albino marsupial, the northern quoll (Dasyurus hallucatus), is described and placed in the context of 10 records since 1874 from all four Australian quoll species. Of the 10 previous records, one was D. hallucatus, seven are likely to be D. viverrinus, one D. maculatus and one unknown. The recent record comprises the live capture of a healthy adult female northern quoll from the Pilbara region of Western Australia. Despite the rarity and likely deleterious nature of the albino condition, this animal appeared to be in good health, carrying eight pouch young, and was released at location of capture following tissue sampling for DNA analysis.

Demography of the northern quoll (Dasyurus hallucatus) in the most arid part of its range

The northern quoll (Dasyurus hallucatus) is a carnivorous marsupial that has suffered severe population declines over the last 50 years and is now listed as Endangered. The Pilbara region of Western Australia is a semi-arid area that represents an extreme of the northern quoll’s range. The overall objective of this study was to assess population characteristics of northern quolls at two rocky sites in the Pilbara, focusing on body condition, reproductive timing, population size, and sex-specific survival. We interpret these in the context of variation in habitat quality and the harsh climate. We found that reproduction occurred later in the year than in populations at more mesic locations where quolls have been previously studied, although their life history and demography were otherwise similar to that in other parts of their range. Contrary to our expectations, post-mating mortality of males was not complete. Population sizes differed between sites, suggesting that these rocky habitats varied in habitat quality. We suggest that local population size estimates can guide decisions on the relative importance of sites to ensure the long-term conservation of the species, given impacts of mining and the imminent invasion of introduced cane toads (Rhinella marina).

Northern quoll persistence is most sensitive to survivorship of juveniles

Context Projecting the population trajectory of endangered species using models requires conservation practitioners to evaluate how variations in life history parameters may change a population’s viability. This is particularly important for species that occur as fragmented populations and whose densities are naturally low. Simulations may be used to identify conservation actions that have a higher likelihood of reducing a species’ extinction risk. Aims The aim was to apply population viability models to the northern quoll (Dasyurus hallucatus) under alternative scenarios. Methods The current (baseline) northern quoll demographic trajectories were evaluated using field-collected data derived from monitoring programs. The impact of alternative scenarios of mortality (for example, due to increased predation by introduced predators) and population supplementation (either from populations elsewhere or from captive breeding) on the viability of a northern quoll population was then determined. Key results Under current conditions, individual Pilbara populations of northern quoll are projected to persist for over 20 years. However, these populations are sensitive to extinction events. Population growth rate and local extinction risk were most sensitive to changes in juvenile mortality as low as 5% per annum. Increased mortality of the juvenile age cohort above current levels resulted in a projected decline in population size of 22–54%, with a moderate-to-high chance (20–96%) of local extinction within 20 years. Supplementing the population produced a moderate increase in quoll persistence over this time period. Conclusions Populations of northern quolls in the Pilbara, and potentially elsewhere in their range, are highly sensitive to even small perturbations in juvenile mortality rates. The continued persistence of quoll populations in fragmented refuges is characteristic of a species that functions as a dynamic metapopulation in the face of high environmental perturbations. Implications Increased juvenile mortality above current levels – for example through the spread of cane toads or invasion of feral cats – may have serious implications for the persistence of the current network of northern quoll populations and other mammals that exhibit population fragmentation in arid environments. Estimates of survival rates for the juvenile cohort of quolls would improve diagnosis of a species’ population dynamics as well as inform practitioners of key life-history sensitivities.

Functional plasticity in vertebrate scavenger assemblages in the presence of introduced competitors

Introduced species may suppress or enhance ecological functions, or they may have neutral effects in ecosystems where they replace or complement native species. Few studies, however, have explicitly tested for these trajectories, and for the effect these might have for native species. In this study, we experimentally test the trajectory and scale of change in the function of 'carrion removal' at different carrion loads along ocean beaches in Eastern Australia that have different numbers of introduced red foxes (Vulpes vulpes) and several species of native raptors. We hypothesized that the 'positive' effect of foxes on carrion removal would be greatest at high carrion loads, because competition for resources between native and introduced species is lower. Scavenger abundance, fox occurrences, and carrion consumption by these species differed widely between locations and times. Despite distinct spatial differences in the structure of vertebrate scavenger assemblages, total carrion consumption was not significantly different between locations at any carrion load. This lack of variation in functional rates indicates potential functional plasticity in the scavenger assemblage and possible functional accommodation of red foxes. Neutral fox effects on ecological functions or the ecosystem more broadly are, however, very unlikely to extend beyond carrion consumption.