Effects of Rain on Palm Springs Ground Squirrel Occupancy in the Sonoran Desert

ABSTRACT Long-term monitoring programs must use informative yet cost-effective methods. Occupancy estimates that incorporate detection probabilities are used with increasing frequency to describe species status and make management recommendations. Estimating changes in the occupancy of points over time in response to management actions or environmental changes may be especially useful for management of the Palm Springs round-tailed ground squirrel (Spermophilus tereticaudus chlorus), a subspecies covered under the Coachella Valley Multiple Species Habitat Conservation Plan and Natural Community Conservation Plan. In 2002 and 2003, we estimated occupancy and detection probability of ground squirrels across lands modeled as ground squirrel habitat by the Scientific Advisory Committee for the Habitat Conservation Plan and tested a priori hypotheses about how occupancy varied among vegetation and substrate types. In the 2003 study, we asked whether these associations were affected by winter rains after the 2002 drought year. Occupancy in 2003 was estimated at 0.99 (SE = 0.01) in Western honey mesquite (Prosopis glandulosa) on dunes and hummocks, and occupancy of the remaining modeled habitat was best described by distance to mesquite, with the occupancy probability decreasing with increasing distance from mesquite on dunes or hummocks. The best-supported model in 2002 described the distribution of ground squirrels as a function of only vegetation and substrate type. However, the best-supported models in 2003 suggested that distance to mesquite was a component of the occupancy of non-mesquite vegetation. Mesquite seems to provide high-quality habitat that can support ground squirrels at high occupancy probabilities that may breed successfully every year. In contrast, other vegetation types provide low-quality habitat that can only support ground squirrels at low occupancy probabilities that may only breed occasionally. Mesquite could be an essential refugium during drought years, and the 4 best-supported models in 2003 suggest that restoration of mesquite beginning near currently occupied mesquite patches could be critical for maintaining ground squirrel populations on the preserves.     

Basin-Scale Surveys of Stream-Associated Amphibians in Intensively Managed Forests

Abstract: Conservation and management of native species on landscapes managed for intensive wood production represents an ongoing challenge to forest managers. Previous research suggests that impacts of forest practices on stream-associated amphibians (SAA; giant [Dicamptodon spp.], torrent [Rhyacotriton spp.], and plethodontid [Plethodon spp.] salamanders and coastal tailed frogs [Ascaphus truei]) in Oregon and Washington, USA, vary spatially and temporally as a result of biotic and abiotic factors, some of which can be influenced by management treatments. Although individual harvest units can encompass multiple stream reaches and entire second-order basins, nearly all published research studies used stream reaches of various lengths as sample units. To address this discrepancy between research and operational scales, we sampled first-, second-, and third-order streams in 70 randomly selected third-order basins in Oregon and Washington in 2007 and 2008 to estimate detection and occupancy parameters for SAA and to develop basin-level density estimates for different species and genera. We estimated occupancy probabilities of 0.99 (95% CL = 0.96–1.00) for torrent and giant salamanders, 0.93 (95% CL = 0.76–0.92) for Dunn's salamanders (Plethodon dunni), and 0.60 (95% CL = 0.46–0.72) for tailed frogs. Our estimates can be compared with estimates for unmanaged third-order basins in Oregon and Washington to provide a relative measure of potential impacts of forest management on these taxa. In addition, our estimates provide baseline information with which to assess potential effects of future environmental changes on the 4 genera.     

Monitoring Golden-Cheeked Warblers on Private Lands in Texas

ABSTRACT A majority of North American breeding habitat for neotropical migrants exists on private lands, requiring monitoring strategies focused on habitat in these private holdings. We outline study designs and protocols using repeated Presence-Absence surveys across a gradient of patch sizes to develop a range-wide monitoring program for the endangered golden-cheeked warbler (Dendroica chrysoparia) in Texas, USA. We surveyed 200–400 point-count locations across approximately 30 private properties annually from 2005 to 2008. We used data from our surveyed patches (n = 147) and the Ψ (occupancy), p (detection), and γ = 1 - ɛ parameterization to estimate patch dynamics and associated detection probabilities for golden-cheeked warblers. Patch size had a strong association with patch occupancy, and all patches >160 ha were predicted to be occupied. We found no evidence that large golden-cheeked warbler populations located on public lands in the vicinity of our study area influenced occupancy dynamics. We conducted simulations across a range of detection probabilities to evaluate potential sample sizes for both standard- and removal-based occupancy modeling. Simulations using parameter estimates from our analysis indicated that removal-based sampling is superior to standard sampling. Based on our results, surveying golden-cheeked warbler presence in oak-juniper (Quercus-Juniperus) patches under a removal modeling framework should be considered as one alternative for range-wide monitoring programs because patch-level monitoring would be necessary to estimate proportion of range occupied. Large contiguous patches are rare across the species’ range; hence, conservation and management of the mosaic of smaller patches within a landscape context would be required for maintaining species viability. Thus, we recommend the identification of areas where smaller, contiguous patches represent a significant portion of the available habitat within the local landscape and targeting these areas for habitat maintenance and improvement.     

Temporally robust occupancy frequency distributions in riverine metacommunities explained by local biodiversity regulation

Aim

The mechanisms determining the distribution of the number of sites species occupy, the occupancy frequency distribution (OFD), remain incompletely understood despite decades of research. To explore the dominant mechanisms responsible for the shape and temporal dynamics of empirical OFD, we develop a simple patch occupancy framework with intrinsically regulated local richness and fit the model to a highly replicated dataset describing macroinvertebrate, macrophyte and diatom occupancy.

Location

England.

Time period

Up to $30$ years between 1990 and 2020.

Major taxa studied

Macroinvertebrates, macrophytes and diatoms.

Methods

We study the OFD in a highly replicated dataset of freshwater metacommunities in England across time. We consider temporal change in species richness, composition, and in the shape of the OFD. Goodness-of-fit of the steady state of a simple patch occupancy model—which predicts a log-series OFD—to the empirical observations is assessed. Additionally, we test the capacity of the model to predict metacommunity-scale processes.

Results

Our model provides a consistently good fit to empirical OFDs. It can additionally be used to predict metacommunity-scale species turnover.

Main conclusions

Our results support the view that metacommunity structure reflects a dynamic steady state controlled by local limits to coexistence.     

Effect of pH on competition for nodule occupancy by type I and type II strains ofRhizobium leguminosarum bv.phaseoli

The effect of soil pH on the competitive abilities of twoRhizobium leuminosarum bv.phaseoli type I and one type II strains was examined in a nonsterile soil system.Phaseolus vulgaris seedlings, grown in unlimed (pH 5.2) or limed (pH 7.6) soil, were inoculated with a single-strain inoculum containing 1 × 10⁶ cells mL^–1 of one of the three test strains or with a mixed inoculum (1:1, type I vs. type II) containing the type II strain CIAT 899 plus one type I strain (TAL 182 or CIAT 895). At harvest, nodule occupants were determined. In a separate experiment, a mixed suspension (1:1, type I vs. type II) of CIAT 899 paired with either TAL 182 or CIAT 895 was used to inoculateP. vulgaris seedlings grown in sterile, limed or unlimed soil. The numbers of each strain in the rhizosphere were monitored for 10 days following inoculation. The majority of nodules (> 60%) formed on plants grown in acidic soil were occupied by CIAT 899, the type II strain. This pattern of nodule occupancy changed in limed soil. When CIAT 899 was paired with TAL 182, the type I strain formed 78% of the nodules. The number of nodules formed by CIAT 899 and CIAT 895 (56% and 44%, respectively) were not significantly different. The observed patterns of nodule occupancy were not related to the relative numbers or specific growth rates of competing strains in the host rhizosphere prior to nodulation. The results indicate that soil pH can influence which symbiotype ofR. leguminosarum bv.phaseoli will competitively nodulateP. vulgaris.     

Footprint tunnels are effective for detecting dormouse species

Glirids are arboreal rodents that are difficult to monitor due to their nocturnal activity and their relatively low density. We compared results from footprint tunnels with those from two other monitoring methods (nest boxes and nesting tubes) for three dormouse species in an occupancy framework. Footprint tunnels performed better than the other two methods for the hazel dormouse Muscardinus avellanarius and the edible dormouse Glis glis, and were the only method which detected the garden dormouse Eliomys quercinus. Our findings provide evidence to support the effectiveness of footprint tunnels in monitoring the occurrence of dormouse species in comparison with other methods.     

Using echolocation monitoring to model bat occupancy and inform mitigations at wind energy facilities

Fatalities of migratory bats, many of which use low frequency (<35 kHz; LowF) echolocation calls, have become a primary environmental concern associated with wind energy development. Accordingly, strategies to improve compatibility between wind energy development and conservation of bat populations are needed. We combined results of continuous echolocation and meteorological monitoring at multiple stations to model conditions that explained presence of LowF bats at a wind energy facility in southern California. We used a site occupancy approach to model nightly LowF bat presence while accounting for variation in detection probability among echolocation detectors and heights. However, we transposed the spatial and temporal axes of the conventional detection history matrix such that occupancy represented proportion of nights, rather than monitoring points, on which LowF bats were detected. Detectors at 22 m and 52 m above ground had greater detection probabilities for LowF bats than detectors at 2 m above ground. Occupancy of LowF bats was associated with lower nightly wind speeds and higher nightly temperatures, mirroring results from other wind energy facilities. Nevertheless, we found that building separate models for each season and considering solutions with multiple covariates resulted in better fitting models. We suggest that use of multiple environmental variables to predict bat presence could improve efficiency of turbine operational mitigations (e.g., changes to cut-in speeds) over those based solely on wind speed. Increased mitigation efficiencies could lead to greater use of mitigations at wind energy facilities with benefits to bat populations. © 2011 The Wildlife Society.     

Theoretical considerations for the maintenance of interspecific brood care by a Nicaraguan cichlid fish: behavioral plasticity and spatial structure

An herbivorous cichlid fish Cichlasoma (Theraps) nicaraguense has been reported to perform brood care for the fry of a piscivorous cichlid Cichlasoma (Nandopsis) dovii in a Nicaraguan lake. It was suggested that interspecific brood care (IBC) evolved to propagate C. dovii as a predator of another herbivorous fish Neetroplus nematopus, which is superior to C. nicaraguense in competition for breeding territory. However, it is still unclear how IBC is maintained in the face of cheaters that do not provide IBC. In this study, to elucidate the conditions for maintenance of IBC, we developed a spatially structured model, assuming a trade-off between reproduction and IBC (i.e., intra- and interspecific competition) and behavioral plasticity in IBC. The model predicted the following maintenance conditions: the probability of expressing (or suppressing) IBC in response to competitor invasion (or exclusion) is low, or, if the probability is high, then IBC is less effective for exclusion of competitors. Furthermore, we also predicted that IBC can be maintained without spatial structure if it is plastic behavior. Our model contributes to understanding of maintenance of IBC by providing empirically testable predictions. We discuss how this model is applicable to more general relationships, such as those in competitive or mutualistic systems.     

Temporal changes in abundance–occupancy relationships over 40 years

1. Abundance–occupancy (A–O) relationships are widely documented for many organismal groups and regions, and have been used to gain an understanding of regional population and community trends. Monitoring changes in abundance and occupancy over time may be what is required to document changes in conservation status and needs for some species, communities, or areas.
2. We hypothesize that if there is a higher proportion of declining species in one group of species compared with another (e.g., migratory species vs. permanent residents), then a consequence of that difference will be vastly different abundance–occupancy relationships. If this difference persists through time, then the resulting A–O relationships between the groups will continue to diverge.
3. For neotropical migrants, short‐distance migrants, and permanent resident birds of North America, we assess the numbers of declining species over 1969–2009. We further test for differences in the A–O relationship across these three groups, and in rates of change in abundance and occupancy separately.
4. We find significant differences in numbers of declining species across the migratory groups, a significant decline in the A–O relationship for permanent residents, a significant increase for Neotropical migrants, and a nonsignificant decline for short‐distance migrants over the 40 years. Further, abundances are not changing at different rates but occupancies are consistently greater over time for neotropical migrants versus permanent residents, likely driving the changes in A–O relationships observed.
5. In these analyses, we documented changing A–O trends for different groups of species, over a relatively long time period for ecological studies, one of only a few studies to examine A–O relationships over time. Further, we have shown that a temporally unvarying abundance–occupancy relationship is not universal, and we posit that variability in A–O relationships is due to human impacts on habitats, coupled with variation in species' abilities to respond to human impacts.