Occupancy

About: Occupancy is a research topic. Over the lifetime, 2757 publications have been published within this topic receiving 68288 citations.

Estimating Trend in Occupancy for the Southern Sierra Fisher Martes pennanti Population

Abstract: Carnivores are important elements of biodiversity, not only because of their role in transferring energy and nutrients, but also because they influence the structure of the communities where they occur. The fisher Martes pennanti is amammalian carnivore that is associated with late-successional mixed forests in the Sierra Nevada in California, and is vulnerable to the effects of forest management. As a candidate for endangered species status, it is important to monitor its population to determine whether actions to conserve it are successful. We implemented a monitoring program to estimate change in occupancy of fishers across a 12,240-km2 area in the southern Sierra Nevada. Sample units were about 4 km apart, consisting of six enclosed, baited track-plate stations, and aligned with the national Forest Inventory and Analysis grid. We report here the results of 8 y (2002–2009) of sampling of a core set of 223 sample units. We model the combined effects of probability of detection and occupancy to estimate occupancy, persistence rates, and trend in occupancy. In combined models, we evaluated four forms of detection probability (1-group and 2-group both constant and varying by year) and nine forms of probability of occupancy (differing primarily by how occupancy and persistence vary among years). The bestfitting model assumed constant probability of occupancy, constant persistence, and two detection groups (AIC weight = 0.707). This fit the data best for the entire study area as well as two of the three distinct geographic zones therein. The one zone with a trend parameter found no significant difference from zero for that parameter. This suggests that, over the 8-y period, that there was no trend or statistically significant variations in occupancy. The overall probability of occupancy, adjusted to account for uncertain detection, was 0.367 (SE = 0.033) and estimates were lowest in the southeastern zone (0.261) and highest in the southwestern zone (0.583). Constant and positive persistence values suggested that sample units rarely changed status from occupied to unoccupied or vice versa. The small population of fishers in the southern Sierra (probably ,250 individuals) does not appear to be decreasing. However, given the habitat degradation that has occurred in forests of the region, we favor continued monitoring to determine whether fisher occupancy increases as land managers implement measures to restore conditions favorable to fishers.

Differential response of bird functional traits to post-fire salvage logging in a boreal forest ecosystem

Abstract: The concept of functional trait-environment relationship posits that species in a local community should possess similar traits that match the selective environment. The present study examines species trait-habitat (using Fourth-corner and RLQ analyses) and habitat occupancy patterns (logistic regression models) of bird assemblages in boreal forest stands following disturbances by forest fire and salvage logging. The stands differed in the amount and composition of residual tree retention, salvage- and aquatic-edges, degree of burn severity (all measured at 100 and 500 m buffers), as well as landscape-level variables such as distance to previously burned forests. Tests of trait-habitat relationships showed that canopy-nesters and bark- and foliage- insectivores required high levels of residual trees of low burn severity, with the feeding guilds showing affinity for different stand composition. In contrast, ground-nesters and omnivores thrived in salvaged areas and associated edges. In addition, cavity-nesting and ground-foragers were associated with severely burned stands. The species’ habitat occupancy patterns were commensurate with trait requirements, which also appeared to be scale-dependent. For example, some fire-associated species had high occupancy probability in severely burned stands at small-scale (100 m buffer), which was consistent with their cavity-nesting trait. This pattern, however, was not evident at large-scale, where their feeding requirement (bark-insectivores) for low-severity burns dominated. Our study suggests that trait-habitat relationships can provide critical information to the complex ways species’ relate to key habitat factors following natural and anthropogenic disturbances.

Spatial replicates as an alternative to temporal replicates for occupancy modelling when surveys are based on linear features of the landscape

Abstract: 1- Occupancy estimates can inform biodiversity managers about the distribution of elusive species, such as the Pyrenean desman Galemys pyrenaicus, a small semi-aquatic mammal that lives along streams. Occupancy models rely on replication within a sampling site and provide estimates of the probability of detection. However, we still do not know how occupancy and detection estimates obtained from spatial vs. temporal replications differ or the appropriateness of using one or the other when cost and logistics make one approach prohibitive. Recently, the Markovian occupancy model has been developed to analyse adjacent spatial replicates and to test for spatial dependence between them. This model has already been applied to large and highly mobile mammals using trails, but never tested for any species with linear home ranges. 2- We compared detection and occupancy estimates obtained from both temporal and spatial sampling designs that were subsequently organized into four data configurations (sites with both spatial and temporal replicates, adjacent spatial replicates only, temporal replicates only at the segment and site scales). From that, five occupancy models with different assumptions (the standard occupancy model, the standard multiscale model, the multiscale model with Markovian process for detection, the Markovian detection model and the Markovian occupancy model) were used. We also assessed which occupancy model was the most appropriate for each data configuration to determine whether it is necessary to incorporate correlation into models. 3 - We found that the estimated detection probabilities were relatively high (≥0·58) and similar when the same model was applied to each data configuration. 4 - Spatial replication weakly underestimated occupancy. But when using this design, the Markovian occupancy model was the most supported and minimized the underestimation of occupancy, highlighting a spatial dependence between adjacent replicates. 5 - Synthesis and applications. We show that a survey based on adjacent spatial replicates for a mammal living along linear features of the landscape is a good compromise between cost and occupancy estimates, while using the Markovian occupancy model to estimate detection and occupancy. Our finding may have wider applications for the monitoring of species especially when temporal replicates are difficult or unrealistic. Spatial design, for surveys based on sign detection, could thus be applied for species with linear home ranges or when surveys are constrained by linear habitats.