Geographic gradients of deforestation and mammalian communities in a fragmented, temperate rain forest landscape

Aim We studied the temporal and spatial patterns in deforestation and community structure of mammals in a fragmented old‐growth, temperate rain forest to test the hypothesis that anthropogenic habitat conversion advances in a nonrandom manner across native landscapes, and that its effects on ecological communities are both persistent and predictable. Location The location is the Hood Canal district of Olympic National Forest, Washington, USA. Results Deforestation followed the apparently general pattern observed for deforestation of tropical rain forests and other native landscapes, advancing first along low and relatively level valleys, then to areas at higher elevations and along steeper slopes, and eventually to sites more distant from those of initial land conversion and transportation centres. Mammal surveys within this area indicated that this nonrandom advance of deforestation has created relatively steep geographical and topographic gradients in both local and landscape‐level factors and, ultimately, in the structure of mammalian communities. Conclusion The close and likely causal relationship between anthropogenic habitat loss and the ecological dynamics of mammalian communities and dependent species (e.g. spotted owls) indicates that our abilities to understand and eventually reduce the current extinction crisis may rely heavily on our understanding of, and abilities to modify, the manner in which we expand across and transform native landscapes.     

State‐space modeling reveals habitat perception of a small terrestrial mammal in a fragmented landscape

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Depauperation and divergence of plant‐specialist herbivore assemblages in a fragmented tropical landscape

1. Our understanding of the structure and spatial organisation of biological assemblages in human‐modified tropical landscapes has critical importance to improve conservation actions. Investigations on this topic have focused on local (α) diversity patterns, overlooking the changes in species turnover (β diversity) between sites, and its consequences on total (γ) diversity. 2. This study assessed the differences in α, β and γ diversities of galling insects and their host plants (saplings) in a fragmented Atlantic forest landscape in northeast Brazil. Both assemblages were recorded in 30 plots (total of 0.1 ha for each forest type) located in the interior and on the edges of a large fragment and small forest fragments (10 plots per forest type). 3. α diversity of host plants and galling insect assemblages was significantly higher in interior (reference) plots than in edge and fragment plots. Yet, both assemblages showed higher β diversity in fragment and edge plots than in reference plots – a finding potentially associated with the hyperdynamism of fragmented forests and consistent with the landscape divergence hypothesis. 4. However, biotic differentiation of host plant and galling insects was not great enough to compensate the loss of α diversity, and thus γ diversity, because most host plant and galling insect species in forest fragments were also registered in reference plots. Our findings indicate that, despite each small forest fragment being very dissimilar from each other, they have low importance for the conservation of plant assemblages and their specialized herbivores at landscape scale.     

Colonization and extinction of ant communities in a fragmented landscape

Abstract In this paper we tested the assumption that smaller and more isolated remnants receive fewer ant colonizers and lose more species. We also tested hypotheses to explain such a pattern. We sampled ants in Brazil for 3 years in 18 forest remnants and in 10 grasslands between them. We tested the influence of remnant area and isolation on colonization rate, as well as the effect of remnant area on extinction rate. We tested the correlation between remnant area and isolation to verify the landscape design. Colonization rate was not affected by remnant area or isolation. Extinction rate, however, was smaller in larger remnants. Remnant area and isolation were negatively correlated. We tested two hypotheses related to the decrease in ant species extinction rate with increased remnant area: (i) small remnants support smaller and more extinction‐prone populations; and (ii) small remnants are more often invaded by generalist species, which suffer higher extinction inside remnants. The density of ant populations significantly increased with area. Generalist species presented a lower colonization rate in larger remnants, contrary to the pattern observed in forest species. Generalist species suffered more extinction than expected inside remnants. The lack of response of colonization rate to remnant area can be explained by the differential colonization by generalist and forest species. The decrease of ant population density in smaller remnants could be related to loss of habitat quality or quantity. The higher colonization by generalist ant species in the smaller remnants could be related to landscape design, because smaller remnants are more similar to the matrix than larger ones. Our results have important implications for conservation strategies because small remnants seem to be more affected by secondary effects of fragmentation, losing more forest species and being invaded more often by generalist species. Studies that compare only species richness between remnants cannot detect such patterns in species composition.     

Species‐area relationships of lemurs in a fragmented landscape in Madagascar

We used species‐area relationships (SARs) to investigate the effects of habitat loss on lemur biogeography. We measured species richness via visual surveys on line transects within 42 fragments of dry deciduous forest at the Ambanjabe field site in Ankarafantsika National Park, Madagascar. We measured human disturbance and habitat characteristics within 38 of the 42 fragments. We measured the distance between each fragment and the nearest settlement, continuous forest, and nearest neighboring fragment. We fit 10 candidate SAR models to the data using nonlinear least squares regression and compared them using Akaike's Information Criterion (AIC). To determine how habitat characteristics, as well as area, influenced species richness, we ran a hierarchical partitioning procedure to select which variables to include in generalized additive models (GAMs) and compared them using AIC. Contrary to expectations, we found that lemurs form convex SARs, without a “small island effect”, and with the power model being the most likely SAR model. Although we found that four variables (area, survey effort, and total human disturbance, and mean tree height) independently contributed greater than 10% of the variation in lemur species richness, only area was included in the most likely model. We suggest that the power model was the most likely SAR model and our inability to detect a “small island effect” are the result of Microcebus spp. being edge tolerant and capable of dispersing through matrix, scale issues in the study design, and low γ‐diversity in the landscape. However, more study is needed to determine what role human disturbance plays in influencing species richness in lemurs.     

Gap‐crossing decisions of forest birds in a fragmented landscape

Habitat loss and fragmentation are recognized as primary drivers of biodiversity loss worldwide. To understand the functional effects of habitat fragmentation on bird populations, data on movement across gaps in habitat cover are necessary, although rarely available. In this study, we used call playback to simulate a conspecific territorial intruder to entice birds to move through the landscape in a predictable and directional manner. We then quantified the probability of movement in continuous forest and across cleared gaps for two forest‐dependent species, the grey shrike‐thrush (Colluricincla harmonica) and the white‐throated treecreeper (Cormobates leucophaeus). Fifty‐four playback trials were conducted for each species across distances ranging from 25 to 480 m in continuous forest and 15–260 m across gaps in a forest‐agricultural landscape in southern Victoria, Australia. The probability of movement was significantly reduced by gaps in forest cover for both species. Shrike‐thrushes were six times more likely to move 170 m in continuous forest than to cross 170‐m gaps. The mean probability that treecreepers would cross any gap at all was less than 0.5, and they were three times less likely to move 50 m across a gap than through continuous forest. Both species displayed non‐linear responses to increasing gap distance: we identified a gap‐tolerance threshold of 85 m for the shrike‐thrush and 65 m for the treecreeper beyond which individuals were most unlikely to cross. The presence of scattered paddock trees increased functional connectivity for the shrike‐thrush, with individuals crossing up to 260 m when scattered trees were present. We conclude that gaps in habitat cover are barriers to movement, and that characteristics of the intervening matrix influence landscape permeability.     

Discordant patterns of population structure for two co‐distributed snake species across a fragmented Ontario landscape

Aim The goal of our study was to investigate the effects of a fragmented landscape on the genetic population structure of two sympatric snake species that differ in habitat preference. The eastern garter snake (Thamnophis sirtalis sirtalis) is a common, habitat generalist, whereas the endangered eastern foxsnake (Mintonius [Elaphe] gloydi) is rarer, geographically restricted, and a marsh‐specialist. We were most interested in comparing the genetic population structure of both species and identifying any natural and human‐created features of the landscape that overlap with genetic disjunctions. Location Southwestern Ontario, Canada, surveying over half of the remaining range of the eastern foxsnake. Methods We utilized DNA microsatellite markers to examine genetic population structure of both species. The number of genetically distinct clusters for each species was determined using both Bayesian spatial assignment and spatial principal component analyses (sPCA). Genetic clusters were overlaid onto a habitat map to deduce possible physiognomic barriers to gene flow. Results Spatial assignment revealed three genetic clusters for garter snakes and five for foxsnakes. Each individual garter snake had a near equal probability of membership to two or more clusters with no cluster mapping onto a discrete geographic region, indicating that garter snakes comprise a single genetic population. The identified foxsnake clusters correspond to geographically circumscribed locations on the landscape, roughly coincident with isolated patches of suitable habitat. sPCAs revealed significant global allelic structure for foxsnakes, but not for garter snakes. No significant local structure was found for either species. Main Conclusions Our results imply that foxsnakes and garter snakes are differentially impacted by the same landscape or have dramatically different effective population sizes. Unsuitable intervening habitat such as agricultural tracts and roads between existing populations of foxsnakes appears to act as barriers to gene flow, while garter snake movement appears unrestricted by these features. Our findings have important implications for the management of eastern foxsnakes.     

Trophic plasticity,environmental gradients and food‐web structure of tropical pond communities

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Effects of a short fire‐return interval on resources and assemblage structure of birds in a tropical savanna

Fire frequency is a key land management issue, particularly in tropical savannas where fire is widely used and fire recurrence times are often short. We used an extended Before‐After‐Control‐Impact design to examine the impacts of repeated wet‐season burning for weed control on bird assemblages in a tropical savanna in north Queensland, Australia. Experimentally replicated fire treatments (unburnt, singularly bunt, twice burnt), in two habitats (riparian and adjacent open woodland), were surveyed over 3 years (1 year before the second burn, 1 year post the second burn, 2 years post the second burn) to examine responses of birds to a rapid recurrence of fire. Following the second burn, species richness and overall bird abundance were lower in the twice‐burnt sites than either the unburnt or singularly burnt sites. Feeding group composition varied across year of survey, but within each year, feeding guilds grouped according to fire treatment. In particular, abundance of frugivores and insectivores was lower in twice‐burnt sites, probably because of the decline of a native shrub that produces fleshy fruits, Carissa ovata. Although broader climatic variability may ultimately determine overall bird assemblages, our results show that a short fire‐return interval will substantially influence bird responses at a local scale. Considering that fire is frequently used as a land management tool, our results emphasize the importance of determining appropriate fire‐free intervals.     

Population genetics of the olive‐winged bulbul (Pycnonotus plumosus) in a tropical urban‐fragmented landscape

With increasing urbanization, urban‐fragmented landscapes are becoming more and more prevalent worldwide. Such fragmentation may lead to small, isolated populations that face great threats from genetic factors that affect even avian species with high dispersal propensities. Yet few studies have investigated the population genetics of species living within urban‐fragmented landscapes in the Old World tropics, in spite of the high levels of deforestation and fragmentation within this region. We investigated the evolutionary history and population genetics of the olive‐winged bulbul (Pycnonotus plumosus) in Singapore, a highly urbanized island which retains <5% of its original forest cover in fragments. Combining our own collected and sequenced samples with those from the literature, we conducted phylogenetic and population genetic analyses. We revealed high genetic diversity, evidence for population expansion, and potential presence of pronounced gene flow across the population in Singapore. This suggests increased chances of long‐term persistence for the olive‐winged bulbul and the ecosystem services it provides within this landscape.     

The behavioural ecology and population dynamics of a cryptic ground‐dwelling mammal in an urban Australian landscape

Urbanization results in widespread habitat loss and fragmentation and generally has a negative impact upon native wildlife, in particular ground‐dwelling mammals. The northern brown bandicoot (Isoodon macrourus; Marsupialia: Peramelidae) is one of relatively few native Australian ground‐dwelling mammals that is able to survive within urbanized landscapes. As a consequence of extensive clearing and urban development within the city of Brisbane, bandicoots are now restricted to the mostly small (<10 ha) bushland fragments scattered across the city landscape. Our study examined the behavioural ecology of northern brown bandicoots within habitat fragments located on a major creek‐line, using mark‐recapture population monitoring and radio telemetry. Bandicoots at monitored sites were found to occur at high densities (typically one individual ha^?1), although one‐third of the populations were transient. Radio tracking revealed that bandicoots had relatively small home ranges (mean 1.5 ± 0.2 ha) comprised largely of bushland/grassland with dense, often weed‐infested ground cover. Bandicoots sheltered by day in these densely covered areas and also spent most time foraging there at night, although they occasionally ventured small distances to forage in adjacent maintained parklands and residential lawns. We suggest that introduced tall grasses and other weeds contribute to high habitat quality within riparian habitat fragments and facilitate the persistence of high density populations, comprised of individuals with small home ranges. The generalized dietary and habitat requirements of northern brown bandicoots, as well as a high reproductive output, undoubtedly facilitate the survival of the species in urban habitat fragments. Further research is required on other native mammal species in urbanized landscapes to gain a greater understanding of how best to conserve wildlife in these heavily modified environments.     

Untangling food‐web structure in an ephemeral ecosystem

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Adaptive divergence along environmental gradients in a climate‐change‐sensitive mammal

In the face of predicted climate change, a broader understanding of biotic responses to varying environments has become increasingly important within the context of biodiversity conservation. Local adaptation is one potential option, yet remarkably few studies have harnessed genomic tools to evaluate the efficacy of this response within natural populations. Here, we show evidence of selection driving divergence of a climate‐change‐sensitive mammal, the American pika (Ochotona princeps), distributed along elevation gradients at its northern range margin in the Coast Mountains of British Columbia (BC), Canada. We employed amplified‐fragment‐length‐polymorphism‐based genomic scans to conduct genomewide searches for candidate loci among populations inhabiting varying environments from sea level to 1500 m. Using several independent approaches to outlier locus detection, we identified 68 candidate loci putatively under selection (out of a total 1509 screened), 15 of which displayed significant associations with environmental variables including annual precipitation and maximum summer temperature. These candidate loci may represent important targets for predicting pika responses to climate change and informing novel approaches to wildlife conservation in a changing world.     

Remote sensing‐based landscape indicators for the evaluation of threatened‐bird habitats in a tropical forest

Avian species persistence in a forest patch is strongly related to the degree of isolation and size of a forest patch and the vegetation structure within a patch and its matrix are important predictors of bird habitat suitability. A combination of space‐borne optical (Landsat), ALOS‐PALSAR (radar), and airborne Light Detection and Ranging (LiDAR) data was used for assessing variation in forest structure across forest patches that had undergone different levels of forest degradation in a logged forest—agricultural landscape in Southern Laos. The efficacy of different remote sensing (RS) data sources in distinguishing forest patches that had different seizes, configurations, and vegetation structure was examined. These data were found to be sensitive to the varying levels of degradation of the different patch categories. Additionally, the role of local scale forest structure variables (characterized using the different RS data and patch area) and landscape variables (characterized by distance from different forest patches) in influencing habitat preferences of International Union for Conservation of Nature (IUCN) Red listed birds found in the study area was examined. A machine learning algorithm, MaxEnt, was used in conjunction with these data and field collected geographical locations of the avian species to identify the factors influencing habitat preference of the different bird species and their suitable habitats. Results show that distance from different forest patches played a more important role in influencing habitat suitability for the different avian species than local scale factors related to vegetation structure and health. In addition to distance from forest patches, LiDAR‐derived forest structure and Landsat‐derived spectral variables were important determinants of avian habitat preference. The models derived using MaxEnt were used to create an overall habitat suitability map (HSM) which mapped the most suitable habitat patches for sustaining all the avian species. This work also provides insight that retention of forest patches, including degraded and isolated forest patches in addition to large contiguous forest patches, can facilitate bird species retention within tropical agricultural landscapes. It also demonstrates the effective use of RS data in distinguishing between forests that have undergone varying levels of degradation and identifying the habitat preferences of different bird species. Practical conservation management planning endeavors can use such data for both landscape scale monitoring and habitat mapping.     

Detecting the effects of environmental change above the species level with beetles in a fragmented tropical rainforest landscape

Abstract.  1. Invertebrate data identified to coarse groupings according to taxonomy or ecology are easier to obtain than species-level data. However, it is unclear if such data are suitable for detecting environmental change.
2. We compared the performance of four types of data (species, family, trophic group, and body size) to quantify the responses of beetle assemblages with three types of environmental change on the Atherton Tableland in north-eastern Queensland, Australia. Clearing of rainforest creates two levels of environmental change: first the extreme, forest loss, and second, the more subtle change associated with forest fragmentation. A strong rainfall gradient across the study landscape also influences the biota, imposing a third type of environmental change, independent of rainforest modification.
3. Almost 20 000 beetles were sampled from six replicate sites in each of pasture, small rainforest remnants, and both the edges and interiors of large rainforest remnants.
4. All four types of data showed significant multivariate differences in assemblage composition between pasture and rainforest sites. Species-level data in multivariate analyses showed an effect of fragmentation on small remnants and also showed variation which corresponded with the spatial aridity gradient across sites. Both of these patterns were only weakly evident or were non-existent at the level of family, trophic group, or body size class. No level of taxonomic resolution gave consistently stronger results when univariate tests were applied to individual component taxa.
5. We conclude that data above the species level may not have the sensitivity required to detect more subtle forms of environmental change.     

The predictive accuracy of population viability analysis: a test using data from two small mammal species in a fragmented landscape

This study examines the predictive accuracy of the population viability analysis package, ALEX (Analysis of the Likelihood of EXtinction). ALEX was used to predict the probability of patch occupancy for two species of small native Australian mammals (Antechinus agilis and Rattus fuscipes) among 13 patches of suitable habitat in a matrix of plantation pines (Pinus radiata). The study was retrospective, running each simulation from 1900 until 1997, and the model parameterised without knowledge of the 1997 observed field data of patch occupancy. Predictions were made over eight scenarios for each species, allowing for variation in the amount of dispersal between patches, level of environmental stochasticity, and size of habitat patches. Predicted occupancies were compared to the 1997 field data of patch occupancy using logistic regression, testing H _random, that there was no relationship between observed and predicted occupancy, and H _perfect, that there was a perfect, 1:1 relationship between observed and predicted occupancies. Rejection of H _random and failure to reject H _perfect was taken as a good match between observed and predicted occupancies. Such a match was found for one scenario with R. fuscipes, and no scenarios with A. agilis. In general, patch occupancy was underestimated, with field surveys finding that 9 of the 13 patches were occupied by R. fuscipes and 10 by A. agilis. Nonetheless, PVA predictions were in the right direction, whereby patches predicted to have a high probability of occupancy were generally occupied, and vice versa. A post hoc search over additional scenarios found few scenarios with a better match than the original eight. The results of this study support the notion that PVA is best thought of as a relative, rather than absolute predictor of the consequences of management actions in threatened populations.     

Influence of fire history on small mammal distributions: insights from a 100‐year post‐fire chronosequence

Aim Fire affects the structure and dynamics of ecosystems world‐wide, over long time periods (decades and centuries) and at large spatial scales (landscapes and regions). A pressing challenge for ecologists is to develop models that explain and predict faunal responses to fire at broad temporal and spatial scales. We used a 105‐year post‐fire chronosequence to investigate small mammal responses to fire across an extensive area of ‘tree mallee’ (i.e. vegetation characterized by small multi‐stemmed eucalypts). Location The Murray Mallee region (104,000 km²) of semi‐arid Australia. Methods First, we surveyed small mammals at 260 sites and explored the fire responses of four species using nonlinear regression models. Second, we assessed the predictive accuracy of models using cross‐validation and by testing with independent data. Third, we examined our results in relation to an influential model of animal succession, the habitat accommodation model. Results Two of four study species showed a clear response to fire history. The distribution of the Mallee Ningaui Ningaui yvonneae, a carnivorous marsupial, was strongly associated with mature vegetation characterized by its cover of hummock grass. The occurrence of breeding females was predicted to increase up to 40–105 years post‐fire, highlighting the extensive time periods over which small mammal populations may be affected by fire. Evaluation of models for N. yvonneae demonstrated that accurate predictions of species occurrence can be made from fire history and vegetation data, across large geographical areas. The introduced House Mouse Mus domesticus was the only species positively associated with recently burnt vegetation. Main conclusions Understanding the impact of fire over long time periods will benefit ecological and conservation management. In this example, tracts of long‐unburnt mallee vegetation were identified as important habitat for a fire‐sensitive native mammal. Small mammal responses to fire can be predicted accurately at broad spatial scales; however, a conceptual model of post‐fire change in community structure developed in temperate Australia is not, on its own, sufficient for small mammals in semi‐arid systems.