Skip to main content
PLOS One logoLink to PLOS One
. 2022 Nov 29;17(11):e0276448. doi: 10.1371/journal.pone.0276448

Coexistence or conflict: Black bear habitat use along an urban-wildland gradient

Joanna Klees van Bommel 1,*, Catherine Sun 1, Adam T Ford 2, Melissa Todd 3, A Cole Burton 1,4
Editor: Bogdan Cristescu5
PMCID: PMC9707782  PMID: 36445857

Abstract

The urban-wildland interface is expanding and increasing the risk of human-wildlife conflict. Some wildlife species adapt to or avoid living near people, while others select for anthropogenic resources and are thus more prone to conflict. To promote human-wildlife coexistence, wildlife and land managers need to understand how conflict relates to habitat and resource use in the urban-wildland interface. We investigated black bear (Ursus americanus) habitat use across a gradient of human disturbance in a North American hotspot of human-black bear conflict. We used camera traps to monitor bear activity from July 2018 to July 2019, and compared bear habitat use to environmental and anthropogenic variables and spatiotemporal probabilities of conflict. Bears predominantly used areas of high vegetation productivity and increased their nocturnality near people. Still, bears used more high-conflict areas in summer and autumn, specifically rural lands with ripe crops. Our results suggest that bears are generally modifying their behaviours in the urban-wildland interface through spatial and temporal avoidance of humans, which may facilitate coexistence. However, conflict still occurs, especially in autumn when hyperphagia and peak crop availability attract bears to abundant rural food resources. To improve conflict mitigation practices, we recommend targeting seasonal rural attractants with pre-emptive fruit picking, bear-proof compost containment, and other forms of behavioural deterrence. By combining camera-trap monitoring of a large carnivore along an anthropogenic gradient with conflict mapping, we provide a framework for evidence-based improvements in human-wildlife coexistence.

Introduction

The urban-wildland interface, where human development borders natural habitat, is increasing with an expanding human footprint [1, 2]. This has important consequences for wildlife; some animals are displaced by habitat loss due to direct and adjacent human development, while others are able to adjust their behaviours to use human areas [3]. For instance, some species have been found to reduce movement [4] and increase nocturnal activity [5] when using areas dominated by people. These behavioural changes may function to reduce direct contact with diurnal human activity [6]. For example, tigers (Panthera tigris) and grizzly bears (Ursus arctos) have been shown to shift to nocturnal behaviour near people to minimize the risk of conflict and mortality [6, 7]. Such behavioural changes that decrease negative interactions may lead to coexistence, where humans and wildlife share landscapes with sustainable risks of death, injury, or significant cost to either party [8].

For human communities adjacent to natural (hereafter “wild”) habitats, it is important to know whether local wildlife are adjusting to a range of human influences in a manner that can promote coexistence. Behavioural changes to avoid direct conflict may actually increase indirect conflicts due to attempts by animals to access calorie-rich human food attractants (e.g., accessing garbage, fruit, or crops at night when interaction with people is less likely). For example, increased nocturnality of cougars (Puma concolor) in human-dominated landscapes has been shown to increase their movement and caloric expenditure, and ultimately their potential to pursue anthropogenic attractants such as livestock [9]. Consequently, behavioural changes such as increased nocturnality could lead to either coexistence or conflict depending on context and conditions at the urban-wildlife interface.

Anthropogenic food attractants are a common source of human-wildlife conflict [1]. Attractants like garbage can appear beneficial as they are predictable, consistent, and spatially aggregated sources of possibly high-caloric food, thus requiring less foraging effort [10]. For potentially dangerous animals like large carnivores, their use of such attractants can provoke management responses that typically involve relocating or destroying the animal [11, 12]. Higher mortality in areas of greater conflict compared to wild areas with low or no conflict creates an ecological trap, whereby an animal selects the area based on its resources but experiences unexpectedly high mortality and lowered fitness [13]. These ecological traps function as population sinks which have negative impacts on long-term population persistence [14], and may become more common as the urban-wildland interface increases.

Coexistence with carnivores in the expanding urban-wildlife interface requires human mitigation to reduce wildlife visitation rates and mortality risks associated with human-dominated areas. Strategies include protecting anthropogenic food attractants or creating a hostile environment to signal the mortality risks to wildlife in human-dominated areas. For instance, if securing livestock indoors is not possible, setting up an electric fence to deter carnivores can reduce conflict [15]. Such actions may promote behavioural changes in carnivores to reduce conflict or maintain behaviours consistent with coexistence. Understanding the effectiveness of mitigation efforts and whether new strategies are needed requires knowledge about how carnivores use habitats and resources within the urban-wildland interface, and how that relates to the probability of conflict.

Black bears (Ursus americanus) often occupy urban-wildland interfaces in North America and have been found to change their natural behaviours as a result of human disturbance (including human presence and development) [10, 16]. They are a forest-adapted species with generalist diets and can alter their foraging patterns to access new food sources [10, 12, 17]. In the urban-wildland interface, omnivorous bears may select for anthropogenic over wild food sources [12], preying on livestock and consuming garbage, compost, bird feed, and fruit. The high caloric value and availability of anthropogenic food is especially attractive in the summer and autumn when bears need to store energy for hibernation, and can result in seasonal increases in human-bear conflicts [11, 18]. If such attractants remain constant and available, they can draw animals from surrounding wild areas and create a reliance on anthropogenic food, which may change bear behaviour in the urban-wildland interface. In Nevada, urban black bears are less active each day (as they satisfied their caloric needs faster), more nocturnal, and hibernate less [10]. Evidence suggests that some bears do not hibernate at all in moderate climates with continuous food sources like garbage in the winter [19].

Previous research on black bear habitat use has found that bears typically avoid people, selecting forested habitat close to edges and at low elevations, where they can access vegetation in meadows and riparian areas [20, 21]. But by preferring edges, black bears are primed to thrive in the urban-wildland interface, as rural and suburban development creates more edge habitat which may increase natural foods like berries [22] and bring in new anthropogenic food attractants. On southern Vancouver Island in British Columbia, Klees van Bommel et al. [18] found that human-black bear conflict probability increased where suburban development adjoined wild areas, and in places with intermediate human density; but in autumn, high-conflict probability expanded into rural/agricultural areas, when reports of human-bear conflict shifted from being driven primarily by garbage attractants to include fruit, compost, and other rural attractants. It is thus likely that seasonal conditions affect the attractiveness of different types of human areas for bears, as is seen with the increase of rural conflicts during summer and autumn when crops ripen. Therefore, it is important to study bear habitat use both spatially and temporally to understand the implications for conflict.

Study objectives

We aimed to understand the spatial and temporal dynamics of black bear habitat use along a gradient of human disturbance, from urban to wild, in the Capital Regional District of Vancouver Island, British Columbia (BC), Canada—a region reporting hundreds of human-black bear conflicts per year [18]. We conducted a camera trap study, and estimated habitat use by bears in urban, rural, and wild areas, as defined by human density and land use type. We measured and modelled the spatial distribution of black bear camera trap detections as a function of environmental and anthropogenic variables over a full year. To assess the relationship between habitat use and conflict, we subsequently modeled detections using previously estimated seasonal conflict probabilities from the same region [18]. Finally, we tested if bears were more active at night in human-dominated urban and rural landscapes compared to wild areas.

We tested two contrasting hypotheses to explain patterns of bear habitat use relative to reported human-bear conflict. Our “conflict hypothesis” posited that bear habitat use was driven primarily by available anthropogenic foods, such that bears would be most active in rural areas (i.e., the interface between urban and wild) where they had access to a broader spectrum of human attractants, such as garbage and bird feeders, but also unique attractants like livestock and food crops in addition to wild resources. Under this hypothesis, bears would not be expected to modify their behaviour to avoid conflict, such that habitat use would have a positive relationship with conflict probability and the degree of nocturnality would be similar in urban versus wild areas. An alternative “coexistence hypothesis” posited that bears changed their behaviour in the interface to avoid humans and thus avoid areas of high conflict probability, due to perceived costs (e.g. increased mortality risk) outweighing the potential benefits of anthropogenic resources [5, 10]. Under this hypothesis, we predicted that the areas of greatest habitat use by bears would be those with a low conflict probability, and that bears would be more nocturnal in urban and rural areas compared to wild areas.

Methods

Study area

Vancouver Island, BC, Canada, is home to black bears living at high densities near urban areas. Recent bear population estimates for Vancouver Island are not available, however high bear abundance is indicated by some of the highest average annual harvest densities across BC during the past ten years (up to 25 bears/100 km2) [23]. The municipality of Sooke, on the southern tip of Vancouver Island, has a current human census of approximately 13,000 that forms part of Victoria’s Capital Regional District (CRD) population of 383,360 [24]. Sooke is the second fastest growing of 13 municipalities in the CRD, with growth rapidly converting forest into housing developments. The forested landscape around Sooke is comprised of second growth dry coastal western hemlock forests with Douglas-fir as the leading tree species, berry-producing shrub understories, and productive salmon rivers [25]. Between 2011 and 2017, Sooke had 60% of the reported human-bear conflicts in the CRD, and more than twice the number of calls to conservation officers than other municipalities. In that same timeframe, Sooke also had the highest conflict-related mortality for black bears, accounting for 38 of the 60 bear deaths reported in the CRD [British Columbia Conservation Officer Service, unpublished data].

Camera traps

We set 54 camera traps within an 80 km2 area in and adjacent to Sooke to assess spatial and temporal variation in bear distribution and habitat use along a gradient of human disturbance from urban to wild (Fig 1). Camera traps are an established non-invasive tool for monitoring large terrestrial animals with minimal human influence on behaviour, and are effective with clear research objectives [26, 27]. Based on estimated female black bear home ranges on Vancouver Island (7.83 km2) [22], we expected the study area to include multiple overlapping home ranges, capturing a representative sample of the local bear population.

Fig 1. Map of Sooke study area and camera trap locations.

Fig 1

Location of 54 camera traps used to sample black bear habitat use as measured by camera trap detection rates in and around the municipality of Sooke on Vancouver Island, BC, Canada. Other vegetation includes shrubs, herbs, wetlands, and shorelines outside of urban or agricultural land uses.

We deployed cameras following a stratified random design [28] to representatively allocate cameras based on the proportion of the survey area falling within each of three strata: urban (n = 11 cameras), rural (n = 19), or wild (n = 24). We aimed for >200 m between neighboring camera sites (mean = 446 m, range = 147–1467 m) to increase spatial independence [29]. Within strata, sampling distribution was randomized where possible. Due to the abundance of private land, urban and rural camera sites were selected from a candidate list of participating landowners provided by the local environmental non-governmental organization, Wild Wise Sooke. Rural sites were either within agricultural land cover or low development areas, while urban sites were in town and close to other homes. Wild sites were in forested areas with minimal disturbance from human development, consisting of 21 in Sea to Sea Regional Park and three on undeveloped T’Sou-ke Nation lands. Work was completed under a CRD Regional Parks park use permit (#15/19) and signed consent to entry forms from all private landowners and T’Sou-ke Nation. To randomize sampling locations within the main accessible block of the regional park, a 500 by 500 m grid was overlaid on park trail maps and cameras were placed in 10 random cells that contained a trail. The T’Sou-ke Nation forest sites and regional park sites on the northwest edge were only accessible by a single hiking trail, so cameras were set a minimum of 200 m apart. To avoid excessive human photos and privacy concerns, we avoided setting cameras directly on the main hiking trails in the park and T’Sou-ke Nation lands, and either targeted adjacent game and low-use human trails within the selected cell or set cameras off the main trail. Deployment occurred between July 18—August 20, 2018. To detect any seasonal variation in black bear habitat use [22], all cameras remained deployed for approximately one year, and were retrieved between July 16–19, 2019. We used a combination of three camera trap models (Reconyx PC900, Reconyx HC600, and Browning Strike Force HD Pro) randomly allocated across strata to reduce potential effects of different detectability between camera models.

We set cameras at locations to maximize the probability of detecting bears that occurred there, using local knowledge of where bears moved across urban or rural properties, or the presence of animal trails and sign. Per site, one camera was set on a tree, approximately one metre above the ground, at high sensitivity, with a one second delay between triggers (one image per trigger as bears are large enough to be captured without a sequence and this saves battery and memory card space) [30], and facing open spaces such as meadows, lawns, or trails. Black bears have shown a preference for using low-use human paths because of the ease of movement and increased shrub vegetation containing berries [22, 31]. Where possible, cameras faced an intersection of multiple animal and/or low-use human trails.

We visited camera traps every 2–3 months to download images, check functionality and replace batteries as needed. We used Timelapse Image Analyzer 2.0 [32] to classify all camera trap images of black bears. We defined independent detection events as those separated by ≥30 minutes to minimize correlation among consecutive detections as individual bears were not uniquely identifiable [27]. We counted sows with cubs as single individuals because sows determined the habitat use. We summed the number of detection events at each camera site for each month to calculate the monthly camera trap detection rate as a measure of habitat use (13 months x 54 cameras).

Habitat use modelling framework

We used zero-inflated generalized linear mixed modelling (GLMM) to model bear habitat use. Our dependent variable was habitat use as measured by the monthly, camera-level detection rate of bears (i.e, count of independent detections). We chose to directly model detection rates instead of commonly proposed occupancy models as estimates from the latter may not be reliable for species with relatively large home ranges compared to the spacing of sampling points [33]. We used a zero-inflated approach in order to accommodate the high proportion of zeros (80%) due to some cameras not detecting bears in each month or at all [34]. To control for non-independence from repeat bear detections at a site across months, we included a random intercept for camera site in all models. All models also included the number of active camera days as an offset to account for variable sampling effort (i.e. not all cameras were active for all study days). Models were run with the ‘glmmTMB’ package [35] in Program R [36]. We used the negative binomial distribution “Nbinom2” which treats the variance quadratically because all candidate models had a lower AICc compared to the “Nbinom1” distribution (where variance was treated linearly) [35].

Habitat use predictor variables

To relate bear detections to environmental and anthropogenic features associated with conflict probability, we considered a suite of camera-specific independent variables extracted from spatial datasets. We included human density, trail density, road density, elevation, and distances to agriculture and urban land cover (S1 and S2 Tables), averaged within a 150 m radius weighted buffer centred on camera locations in order to avoid overlapping buffers. These are the same predictors and buffers used in previous research to model human-black bear conflict in the CRD [18] to allow for direct comparison of their importance in explaining reported conflicts at the regional scale (CRD) versus bear habitat use at the local scale (Sooke). For variables derived from GIS raster layers with cells that extended beyond the buffer boundary, values were proportionally weighted to the cell areas within the buffer. Additionally, we used the Enhanced Vegetation Index (EVI) as a measure of vegetation productivity to indicate forage availability, rather than distance-to-forest because all camera locations were set within treed areas. We extracted EVI from MODIS 250m 16-day layers [37]. Unlike other common vegetation indices, EVI does not saturate in high biomass areas like forests, remaining sensitive to variation [38] and therefore informative across the forested sites. EVI has been used as a proxy for fruit abundance (grapes, Vitis spp.) in rural areas as ripeness peaks at the same time as greenness [39]. EVI may also serve as a proxy for season as greenness is highest in productive spring and summer months. We used a weighted average based on number of days the 16-day MODIS window had within our focal calendar month of analysis and the amount each raster cell fell into a 150m buffer around each camera site.

Additional predictors captured local-scale variation in natural food occurrence and recent conflict reports. We used distance-to-freshwater as a proxy for the documented importance of riparian vegetation and fish for black bears [40]; presence/absence of salmon at camera sites near (within 150 m buffer radius) salmon-bearing water by month [Charters Creek Hatchery, unpublished data], given their importance as a seasonal food resource for bears [22]; and the number of reported conflicts within a 500 m buffer of a camera site within the study year [41]. The buffer size for the latter two additional variables were tested at 150 and 500 m as in Klees van Bommel et al. [18].

We prepared continuous predictor variables by standardizing them, and ensuring noncollinearity (r < 0.7) [42]. Standardization by subtracting the mean and dividing by 1 standard deviation allowed for direct comparison of estimated effect sizes on bear habitat use. We computed the correlation matrix using Pearson correlation. We also tested for non-independence in terms of spatial autocorrelation in the residuals from best-supported models (see below) using Moran’s I test [43].

Habitat use candidate models

We specified a set of candidate models as competing hypotheses to explain spatial and temporal variation in black bear habitat use (Table 1). We expected if our overall “conflict hypothesis” was supported, the best fit model would show selection for human-dominated areas with high values for variables associated with high conflict probability; selection for wild areas with high values for low conflict probability variables, would support our “coexistence hypothesis”. We tested four sets of candidate models to see which types of predictor variables best explained bear habitat use. The first model (“conflict”) tested if bears were selecting areas with conditions that increased conflict probability, using the same predictors as Klees van Bommel et al. [18] used to model regional-scale on human-black bear conflict in the same study area, but applied to the local camera scale, with EVI to represent forest cover and vegetation productivity as a proxy for food and cover. The second model (“anthropogenic”) tested if bears selected areas based primarily on human attractants and disturbance, by considering only anthropogenic variables and the recent conflict reports. A third model (“environmental”) tested if bears were using areas based on natural food occurrence and security cover, by considering only environmental variables, including the distance-to-freshwater and presence of salmon variables. A fourth model (“full”) was a full model with all conflict, anthropogenic and environmental predictor variables. The final model was a null model. We also included a quadratic term for human density in all candidate models with anthropogenic variables, to allow for bear selection of areas of intermediate density (i.e. rural areas), as well as an interaction between human density and trail density to test if bears used (or avoided) trails to navigate through human-dominated areas.

Table 1. Black bear habitat use candidate models.
Hypothesis Predictor Variables df Within ΔAICc Between ΔAICc AkaikeWeight
Conflict HD + HD2 + RD + EVI + DUrb + DAg + Ele + TD + TD*HD 13 0.0 0.0 0.41
HD + HD2 + RD + EVI + DUrb + DAg + Ele + TD 12 0.6 0.31
Full Model HD + HD2 + RD + EVI + DUrb + DAg + Con + DW + Sal + Ele + TD + TD*HD 16 0.0 2.7 0.44
HD + HD2 + RD + EVI + DUrb + DAg + Con + DW + Sal + Ele + TD 15 0.6 0.32
Anthropogenic HD + HD2 + RD + DUrb + DAg + Con + TD + TD*HD 12 0.0 4.7 0.48
HD + HD2 + RD + DUrb + DAg + Con + TD 11 0.7 0.34
Environmental EVI + DW + Sal + Ele 8 11.5
Null 24.1

Candidate models for black bear habitat use as measured by monthly camera trap detection rates, from 54 camera traps sampled in and around Sooke, BC, Canada from July 2018 –July 2019 using zero-inflated GLMMs. Models are grouped by candidate set, with sub-models representing variations in variables (quadratic terms or interactions) included if they are within 2 ΔAICc of the best model in the set. Evaluated predictor variables extracted from a 150 m buffer around camera locations include HD = human density, RD = road density, EVI = enhanced vegetation index, DUrb = distance-to-urban, DAg = distance-to-agriculture, Con = conflict (500 m buffer), DW = distance-to-freshwater, Sal = salmon, Ele = elevation, and TD = trail density. All models also have site as a random effect and number of active days as an offset. Df is the degrees of freedom of the model, within ΔAICc is the difference in AICc scores from the top model within a set, between ΔAICc is the difference in top models between sets, Akaike weight is the relative likelihood of a model divided by the sum of those values across all models.

We used Akaike’s Information Criterion corrected for small sample sizes (AICc) to assess statistical support among candidate models and selected the model with the lowest AICc. We also calculated the Akaike weight, which is the relative likelihood of a model divided by the sum of those values across all models [44], using “ICtab” from R package bbmle [45].

Habitat use vs. seasonal conflict probability

To test if black bear habitat use had a positive relationship with conflict probability, and thus test predictions from a regional model of conflict at a local scale, we also modeled camera trap detections using the predicted spatially explicit probabilities of human-black bear conflict estimated from Klees van Bommel et al. [18]. Given that black bear habitat use is expected to vary seasonally following food availability, we used seasonal conflict probability and modelled an interaction with season (spring: February-April, summer: May-July, autumn: August-October, and winter: November-January). The months covered by each season have been adjusted to allow autumn to include the period of greatest berry abundance [22] and the timing of hyperphagia. Other predictor variables included season and strata (urban, wild, and rural).

We considered a set of 8 candidate models, which included each predictor modelled individually, 4 models in which season and strata were either additive or interaction terms with seasonal conflict probability, and a final null model (Table 2). Seasons were modelled as a factor, with spring used as the intercept. All models included site as a random effect and the number of active camera days as an offset to account for variable sampling effort. Each model was run using zero-inflation and used either the “Nbinom1” and “Nbinom2” variance structure–whichever resulted in a lower AICc. We used AICc to compare all models due to small sample sizes.

Table 2. Black bear seasonal conflict probability candidate models.

Hypothesis Predictor Variables Distribution df ΔAICc
Conflict * Season Seasonal Conflict Probability + Season + Conflict Probability Seasonal*Season nb1 11 0.0
Conflict + Season Seasonal Conflict Probability + Season nb1 87 3.5
Season Season nb1 7 4.5
Conflict + Strata Seasonal Conflict Probability + Strata nb1 9 29.7
Conflict * Strata Seasonal Conflict Probability + Strata + Seasonal Conflict Probability*Strata nb1 5 31.5
Conflict Seasonal Conflict Probability nb1 6 34.4
Strata Strata nb2 4 79.5
Null nb2 83.6

Candidate models for the relationship of seasonal black bear conflict probabilities with black bear habitat use as measured by monthly camera trap detection rates, from 54 camera traps sampled in and around Sooke, BC, Canada from July 2018 –July 2019 using zero-inflated GLMMs. Evaluated predictor variables include seasonal conflict probability extracted from 150 m buffer around camera locations from Klees van Bommel et al. [18]; seasons defined as spring: February-April, summer: May-July, autumn: August-October, and winter: November-January; and strata depending on where camera traps were set: urban, rural, or wild sites. All models also have site as a random effect and number of active days as an offset. Each model was run twice, using negative binomial 1 or 2 (nb1, nb2), and the model with the lower AICc is included below. Df is the degrees of freedom of the model, ΔAICc is the difference in AICc scores from the top model.

Nocturnality

To test if Sooke black bears exhibited increased nocturnality in human areas as a potential indicator of coexistence behaviour, we compared the proportion of nocturnal bear activity between areas of high (urban and rural sites) vs. low disturbance (wild sites) [5]. We first classified all independent bear detections as either diurnal (between sunrise and sunset) or nocturnal (between sunset and sunrise), using the R package suncalc [46]. We then calculated risk ratios (RR) and associated variance for the urban and rural categories as

RR=lnXhXl
VarianceRR=1OHigh,night-1OHigh+1OLow,night-1OLow

where Xh is percent nocturnal activity (i.e., the proportion of night detections out of all detections) at high disturbance (e.g, urban or rural), X1 is percent nocturnal activity at low disturbance (e.g., wild), and O is the number of observations [5]. RR > 0 would suggest a greater degree of nocturnality in response to a greater human presence, with larger numbers representing greater nocturnality, whereas a RR < 0 would indicate lower nocturnality in response to increased human presence. We assessed support for changes in nocturnality by comparing the observed RR values to a bootstrapped distribution of RR values, which was created by randomly assigning detections into urban/rural/wild categories 1000 times and calculating RR values. We considered changes in nocturnality to be significant if the 95% confidence intervals (CIs) of observed RRs did not overlap with the 95% highest posterior density intervals (HPDIs) of the bootstrapped RR distributions. We used the “HDInterval” [47] package in R.

Results

Camera traps detected black bears in all 13 months of the survey (N = 548 independent detections over 16,546 camera trap days), averaging 42 monthly detections across all sites, with the most detections in September 2018 (n = 148) and the least in February and March of 2019 (n = 1 each; Fig 2 providing evidence that not all bears hibernate). Rural sites had the most detections (n = 368), followed by wild and urban sites with 103 and 77 detections respectively (S4 Table) [48]. While individual bears are not reliably distinguishable from camera trap images, we did photograph multiple bears of different sizes at the same sites, sows with cubs of different sizes taken around the same date, and multiple photos taken close in time at different sites that were unlikely to be the same bear.

Fig 2. Graph of monthly black bear detection rate.

Fig 2

Monthly black bear detection rate from 54 camera traps sampled July 2018–2019 in Sooke, BC, Canada grouped seasonally. The detection rate accounts for time when camera traps were not active, with rate = (number of detections / number of active camera days) * number of days in the month. Seasons are spring: February-April, summer: May-July, autumn: August-October, and winter: November-January.

Patterns of habitat use by black bears in Sooke were best explained by the “conflict model”, which included anthropogenic and environmental variables that explained broader patterns of conflict in the CRD (Akaike weight: 0.41; Table 1, full model set S3 Table). However, the direction of effects did not fully match the predictions of either our “conflict” or “coexistence” hypotheses. Bears were more active in areas with greater EVI and higher vegetation productivity (0.34 ± 0.13, p < 0.01; 95% confidence intervals do not overlap zero, Fig 3), which was low-conflict parks and crown land forest in winter and spring, but high-conflict rural areas in summer and autumn (S1 Fig). We failed to detect an effect of human density (effect size: -2.37 ± 1.85 standard error, p = 0.20; quadratic term: -0.49 ± 0.25, p = 0.05), road density (-0.22 ± 0.24, p = 0.34), elevation (-0.52 ± 0.27, p = 0.06), distance-to-urban (0.17 ± 0.21, p = 0.41) and -agriculture (-0.12 ± 0.30, p = 0.68), or trail density (-2.31 ± 1.24, p = 0.06). While the “conflict model” was > 2 ΔAICc from the next hypothesis model set (the full model), a version within the “conflict model” set that did not include the interaction between trail and human density was only 0.6 ΔAICc away, suggesting this interaction did not add much to the explanatory power of the top model (-3.54 ± 2.25, p = 0.12). There was no evidence of spatial autocorrelation in the model residuals (Moran I = -0.052, p-value = 0.999).

Fig 3. Black bear habitat use model results.

Fig 3

Estimated effects of human and environmental variables on black bear habitat use as measured by camera trap detection rate in Sooke, BC, Canada. Variables are human, road, and trail density (including a quadratic variable for human density and interaction between human and trail density), distance-to-agriculture and -urban, enhanced vegetation index, elevation, and camera trap active days. Coefficients from best-supported zero-inflated negative binomial generalized linear mixed model of monthly detections from 54 camera traps sampled July 2018–2019 illustrated as mean and 95% confidence intervals. Predictor variables have been standardized to a mean of zero and standard deviation of one to allow for direct comparison.

Bear habitat use in the seasonal conflict probability model set was best explained by the model with an interaction between seasonal conflict probability and season (Table 2). Monthly bear detection rates (Fig 2) were significantly higher in summer (effect size: 1.37 ± 0.52 standard error, S.E., p < 0.01) and autumn (1.12 ± 0.47, p = 0.02) compared to spring, while winter detections were similar to spring (-0.27 ± 0.52, p = 0.60; Fig 4). Bear detections were generally lower in areas with increasing conflict probability (-0.22 ± 0.11, p = 0.05), but less so in summer (0.18 ± 0.10, p = 0.09) and winter (0.22 ± 0.11, p = 0.04) compared to spring due to the interaction between conflict probability and season. By contrast, detections of bears in autumn were higher in areas with higher conflict probability (0.22 ± 0.11, p = 0.04; Figs 4 and 5).

Fig 4. Black bear seasonal conflict probability model results.

Fig 4

Estimated effects of seasonal conflict probability and season on black bear habitat use as measured by camera trap detection rate in Sooke, BC, Canada. Coefficients from best-supported zero-inflated negative binomial generalized linear mixed model of monthly detections from 54 camera traps sampled July 2018–2019 illustrated as mean and 95% confidence intervals. Seasons are spring: February-April, summer: May-July, autumn: August-October, and winter: November-January. Predictor variables have been standardized to a mean of zero and standard deviation of one to allow for direct comparison.

Fig 5. Graph of black bear detections by season vs. probability of conflict.

Fig 5

Plot of relationship between monthly black bear camera trap detections and the interaction between seasonal conflict probability and season (spring: February-April, summer: May-July, autumn: August-October, and winter: November-January) represented by mean and 95% confidence intervals.

Consistent with the prediction of our “coexistence hypothesis”, the risk ratios for nocturnal activity in urban versus wild areas (RRurban = 0.84; 95% CI: 0.42–1.26) and rural versus wild areas (RRrural = 0.74; 95% CI: 0.37–1.12) were both positive and did not overlap the bootstrapped 95% HPDIs (urban: -0.36–0.32; rural: -0.21–0.27); Fig 6, S4 Table), suggesting greater nocturnality in areas of higher human disturbance. Small sample sizes prevented estimation of season-specific risk ratios.

Fig 6. Graph of observed black bear nocturnal activity in urban and rural areas vs. expected.

Fig 6

Expected null distribution versus observed risk ratios for black bears nocturnality from urban and rural camera trap sites relative to wild sites. The risk ratio (RR) compares nighttime activity for bears detected in areas of high human disturbance (Xh, urban = blue, rural = yellow) with those in low disturbance (Xl, wild) areas using the equation Risk Ratio = ln(Xh/Xl), where 0 would mean no difference. Expected distribution was calculated using 1000 bootstrap iterations from data. Horizontal lines show the 95% Highest Posterior Density Intervals for the expected (null) distribution (solid lines) and 95% confidence intervals for the observed values (dashed lines).

Discussion

Our results suggest that black bears in Sooke change their behaviours in response to human presence. The municipality of Sooke has the highest reported rates of human-bear conflict and conflict-related bear mortality on Vancouver Island, which is already known for having one of the highest rates of human-bear interactions in North America [49]. Therefore, the Sooke area represents an opportunity to investigate whether bears are changing their behaviours in response to humans in ways that either facilitate coexistence or result in conflict with people. Our results showed that the conflict model best fit the camera detection data, with vegetative condition significantly influencing bear habitat use. Furthermore, the relationship between camera trap detections and previously modelled probabilities of conflict shows that bears are shifting their habitat use spatially by season and increasing their nocturnal activity in human spaces.

Our results suggest, however, that bear responses to conditions in the urban-wildland interface are not consistent year-round and do not support simple interpretations of conflict versus coexistence. Increased nocturnality in urban and rural spaces compared to wild areas and preference for vegetatively productive habitats (high EVI) suggest coexistence for much of the year, but increased use of high-conflict rural areas still occurs in autumn. This is similar to observations of seasonal shifts in natural diets before hyperphagia, where bears select swamp habitat with an abundance of berries, grasses, and willows [50]. We suggest that autumn conflict reflects the bears’ hyperphagia to prepare for winter denning, coupled with the peak availability (ripeness) of anthropogenic crops, led to riskier bear behaviour.

Spatially, bears used habitats with higher EVI, suggesting they were selecting coniferous forest for shelter and natural foods in winter and spring [20, 21]. This could be a result of bears avoiding people as predicted by our “coexistence hypothesis”, which may thereby minimize conflicts. While, our model results did not find a significant effect of human density on habitat use, previous studies in the North Cascades in Washington (USA), and Michigan (USA), found that black bears avoided people based on metrics of developed lands and roads [20, 51]. Interestingly, road density and distances to urban and agricultural areas were also not significant predictors in our study, while edge habitats (i.e., those close to disturbed areas) have been found to be selected by bears in the Cascade Mountains, USA [21]. The lack of a similar effect in our study may have resulted from the 150 m buffer size we extracted our variables at, or suggest that bears in Sooke select habitat based on food availability and avoidance of direct human encounters rather than general landscape condition. Future research should further evaluate the importance of avoiding direct human encounters relative to responding to habitat changes such as landscape disturbance and supplemental human food resources for bears in Sooke.

Bear activity was significantly more nocturnal in urban and rural areas than at wild sites, further suggesting they were avoiding direct interactions with humans and possibly facilitating human-wildlife coexistence [5]. However, nocturnal activity could increase a bear’s ability to access food attractants like garbage, compost, or livestock, which may be less guarded by people at night. This is supported by research from Colorado which found that bears became more nocturnal in years of poor natural food availability, as they used areas of higher human density to access anthropogenic food sources [52]. Furthermore, nighttime activity in bears has been found to peak in spring, when food is scarce, and in autumn, when energetic requirements are high, further suggesting that increased nocturnality is an adjustment to facilitate access to human resources [53]. Therefore, despite the change to nocturnal behaviour, conflicts could still be detrimental to bear fitness if they cause property damage property that results in reactive management of conflict bears.

Overall, bear avoidance of humans in the Sooke study area fosters coexistence in the urban-wildland interface for most of the year, with notable exceptions in the late summer and fall when a combination of hyperphagia and increased availability of high-quality anthropogenic food resources likely increase bear tolerance of human presence and attract bears into rural conflict. Consistent with our “conflict hypothesis” bears avoided high conflict areas less in summer (May-July) and even used them more in autumn (August-October). At these times of year, high conflict areas are largely human-dominated rural areas, which have the broadest spectrum of anthropogenic food attractants available. If our assumption that higher EVI indicates forage availability and crop ripeness is correct, as has been shown in other studies [12, 38, 39], Sooke bears may be selecting for crops, orchards, and berries along forest edges that provide important, abundant, and aggregated foods during hyperphagia. Fruit especially has been found to be selected over natural and other anthropogenic attractants by black bears in Nevada [12] and grizzly bears in Canada [13]. Bears may then be drawn into human areas as they are attracted to fruits and crops coming into season. Indeed, the conflict probability model showed that bear detections increased in autumn despite increasing conflict probability. Therefore, bear habitat use appears to reflect a spatiotemporal shift made to balance increased caloric needs with risk of conflict.

We do note that our second set of models comparing habitat use to seasonal conflict probability did not propagate the uncertainty from the models used to estimate the conflict probabilities. Future research could further integrate reports of human-black bear conflict with camera trap surveys to more accurately predict and target where and when conflicts may happen, as in Fidino et al. [54]. Conflict reports themselves are a sample of all the conflict that occurs, and thus contain error as some conflict goes unreported. However, community demographics have been found to have limited influence on the chance of reporting conflicts, and conflicts relating to safety or property damage (which encompasses many human-black bear conflicts) are more likely to be reported [18]. We therefore assumed that sampling of conflicts across Sooke was not systematically biased.

Current mitigation efforts may not be enough to promote coexistence by reducing attractants or increasing bears’ perceived risk of human areas. While the spike of rural conflicts in autumn may result from fruit and other rural attractants, garbage conflicts are the focus of current mitigation priorities because they are the most common type of human-bear conflict year-round in Sooke [55]. We recommend that conflict mitigation strategies in Sooke should extend beyond urban and rural garbage management to include managing autumn attractants, such as by picking fruit in a timely manner and keeping attractants such as compost or crops within electric fences or other bear proof containers.

In addition to mitigation, land managers should also prioritize conserving or restoring natural food sources. Black bears have been found to use human food attractants more when there was a natural food shortage, and then revert back in subsequent years as natural foods recovered [52]. Protecting natural resources may gain importance as climate change affects the range, abundance, and timing of foods like berries [56] and salmon [57].

Our study provides a foundation for future research on human-bear interactions in this and similar hotspots of conflict. Useful next steps would be to estimate bear densities in the urban-wildland interface [58], and monitor trends over time in comparison to wild regions. Furthermore, to determine if Sooke is an ecological trap for bears, tracking individual movements could determine if bears are drawn to urban spaces from wilder areas, and whether conflict-related deaths are affecting the broader population, or if a few “problem” individuals are responsible for the majority of conflicts [13]. If bears are attracted to urban areas, determining the sexes of those individuals would be important as females of reproductive age have a greater impact on population demography. In general, male black bears have been found to use more developed areas and thus be involved in more conflict [12, 16], however in poor natural food years, females may select areas of higher development than males [59]. Extending the sampling period of the current design while adding finer scale data on anthropogenic and natural bear foods–particularly salmon and berries–could also provide information on how dependent these bear conflict behaviours are on natural food availability, and whether natural or anthropogenic foods are supporting bears who do not stay in dens over winter.

Coexistence, as defined by Carter and Linnell [8], occurs when humans and wildlife share landscapes without unsustainable risk of death, injury, or significant cost to either party. As the urban-wildland interface expands, coexistence will require both humans and wildlife to adapt to avoid conflict. The current combination of black bear use of low-conflict, forested habitats for most of the year, and their increased nocturnal behaviour in areas of higher human density, represents behavioural plasticity via spatial and temporal avoidance of humans, thereby reducing the chance of dangerous conflicts and contributing to human-bear coexistence [6]. However, bear use of urban areas and their attraction to rural areas in summer and autumn suggest that bears are not entirely avoiding risks associated with food-related conflicts. As long as seasonal rural conflicts continue, bears may be targeted for lethal mitigation or become food-conditioned and desensitized to humans, and thus be at risk of escalating dangerous conflicts. Thus, coexistence with bears and other large carnivores necessitates some human tolerance of conflict risk, with an aim of reducing that risk to an acceptable level through mitigation strategies and practices [8]. Mitigations will vary by species and socio-ecological context; our study shows how research can determine the patterns of space use by wildlife in human-dominated areas and relate them to conflict outcomes to generate context-specific management recommendations.

Supporting information

S1 Table. Black bear habitat use predictor variables.

Predictor variables used to model black bear habitat use in Sooke, Vancouver Island, Canada, between 2018–2019. Variables all derived within 150 m radius buffers around camera trap locations unless otherwise noted. Weighted buffers reduce the contribution of raster layer cells not fully within the circular buffer by the percent excluded.

(DOCX)

S2 Table. Mean values of black bear habitat use predictor variables.

Mean values of predictor variables by strata used to model black bear habitat use in Sooke, Vancouver Island, Canada, between 2018–2019.

(DOCX)

S3 Table. Complete set of black bear habitat use candidate models.

All candidate for black bear habitat use as measured by monthly camera trap detection rates, from 54 camera traps sampled in and around Sooke, BC, Canada from July 2018 –July 2019 using zero-inflated GLMMs. Evaluated predictor variables extracted from a 150m buffer around camera locations include HD = human density, RD = road density, EVI = enhanced vegetation index, DUrb = distance-to-urban, DAg = distance-to-agriculture, Con = conflict (500 m buffer), DW = distance-to-freshwater, Sal = salmon, Ele = elevation, and TD = trail density. All models also have site as a random effect and number of active days as an offset. Df is the degrees of freedom of the model, within ΔAICc is the difference in AICc scores from the top model within a set, between ΔAICc is the difference in top models between sets, Akaike weight is the relative likelihood of a model divided by the sum of those values across all models.

(DOCX)

S4 Table. Count of day vs. night black bear detections.

Number of independent black bear detections in the day versus night at urban, rural, and wild camera trap sites (n = 548).

(DOCX)

S1 Fig. Graph of average monthly Enhanced Vegetation Index in urban, rural, and wild areas.

Enhanced Vegetation Index (EVI) averaged within sampling strata (urban, rural, or wild) across 54 camera-trap sites in Sooke, BC, Canada sampled from July 2018–2019.

(TIF)

Acknowledgments

We thank Peter Arcese and Garth Mowat for feedback on earlier drafts, Wild Wise Sooke for assistance finding land owners to work with, T’Sou-ke Nation for insight and allowing us to set cameras on their land, the District of Sooke for access to GIS data, and Mike Badry and the British Columbia Conservation Officer Service for access to their conflict reporting data. We thank Todd Golumbia, Joanna Burgar, Jacqui Sunderland-Groves, Erin Tattersall, Aisha Uduman, Alexia Constantinou, Taylor Justason, Meghna Bandyopadhyay, and Paige Monteiro for field assistance, and Emily Siemens, Lauren Kasper, Zach Brunton, Avril Hann, Micaela Anguita, HyunGu Kang and Isla Francis for help processing photos. We also thank our reviewers Stijn Verschueren and Mason Fidino for their constructive suggestions.

Data Availability

The data are available from the Dryad database (https://doi.org/10.5061/dryad.nvx0k6dvf).

Funding Statement

Funding was received from a National Geographic Early Career Grant (EC-336R-18; https://www.nationalgeographic.org/society/grants-and-investments/) awarded to JKvB, the University of British Columbia’s Faculty of Forestry (no grant number; https://forestry.ubc.ca/), and the Natural Sciences and Engineering Research Council of Canada (NSERC; https://www.nserc-crsng.gc.ca/index_eng.asp), through a Canada Graduate Scholarship to JKvB (no grant number) and NSERC Discovery Grant (DGECR-2018-00413) to ACB. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

References

  • 1.Woodroffe R, Thirgood S, Rabinowitz A, editors. People and Wildlife: Conflict or Coexistence? New York: Cambridge University Press; 2005. [Google Scholar]
  • 2.Venter O, Sanderson EW, Magrach A, Allan JR, Beher J, Jones KR, et al. Sixteen years of change in the global terrestrial human footprint and implications for biodiversity conservation. Nat Commun. 2016;7: 1–11. doi: 10.1038/ncomms12558 [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 3.Wolf C, Ripple WJ. Range contractions of the world’s large carnivores. R Soc Open Sci. 2017;4: 1–11. doi: 10.1098/rsos.170052 [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 4.Tucker MA, Böhning-gaese K, Fagan WF, Fryxell JM, Van Moorter B, Alberts SC, et al. Moving in the Anthropocene: Global reductions in terrestrial mammalian movements. Science (80-). 2018;359: 466–469. doi: 10.1126/science.aam9712 [DOI] [PubMed] [Google Scholar]
  • 5.Gaynor KM, Hojnowski CE, Carter NH, Brashares JS. The influence of human disturbance on wildlife nocturnality. Science (80-). 2018;360: 1232–1235. doi: 10.1126/science.aar7121 [DOI] [PubMed] [Google Scholar]
  • 6.Lamb CT, Ford AT, McLellan BN, Proctor MF, Mowat G, Ciarniello L, et al. The ecology of human-carnivore coexistence. Proc Natl Acad Sci. 2020;117: 17876–17883. doi: 10.1073/pnas.1922097117 [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 7.Carter NH, Shrestha BK, Karki JB, Man N, Pradhan B, Liu J. Coexistence between wildlife and humans at fine spatial scales. PNAS. 2012;109: 15360–15365. doi: 10.1073/pnas.1210490109 [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 8.Carter NH, Linnell JDC. Co-Adaptation Is Key to Coexisting with Large Carnivores. Trends Ecol Evol. 2016;31: 575–578. doi: 10.1016/j.tree.2016.05.006 [DOI] [PubMed] [Google Scholar]
  • 9.Wang Y, Smith JA, Wilmers CC. Residential development alters behavior, movement, and energetics in an apex predator, the puma. PLoS One. 2017; 1–17. doi: 10.1371/journal.pone.0184687 [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 10.Beckmann JP, Berger J. Rapid ecological and behavioural changes in carnivores: the responses of black bears (Ursus americanus) to altered food. Zool Soc London. 2003;261: 207–212. doi: 10.1017/S0952836903004126 [DOI] [Google Scholar]
  • 11.Spencer RD, Beausoleil RA, Martorello DA. How agencies respond to human–black bear conflicts: a survey of wildlife agencies in North America. Ursus. 2007;18: 217–229. [Google Scholar]
  • 12.Merkle JA, Robinson HS, Krausman PR, Alaback P. Food availability and foraging near human developments by black bears. J Mammal. 2013;94: 378–385. doi: 10.1644/12-MAMM-A-002.1 [DOI] [Google Scholar]
  • 13.Lamb CT, Mowat G, McLellan BN, Nielsen SE, Boutin S. Forbidden fruit: human settlement and abundant fruit create an ecological trap for an apex omnivore. J Anim Ecol. 2017;86: 55–65. doi: 10.1111/1365-2656.12589 [DOI] [PubMed] [Google Scholar]
  • 14.Beckmann JP, Lackey CW. Carnivores, urban landscapes, and longitudinal studies: a case history of black bears. Human–Wildlife Conflicts. 2008;2: 168–174. doi: 10.26077/3x8t-y791 [DOI] [Google Scholar]
  • 15.Breitenmoser U, Angst C, Landary J-M, Breitenmoser-Wursten C, Linnell JDC, Weber J-M. Non-lethal techniques for reducing depredation. In: Woodroffe R, Thirgood S, Rabinowitz A, editors. People & Wildlife: Conflict or Coexistence? New York: Cambridge University Press; 2005. pp. 49–71. [Google Scholar]
  • 16.Beckmann JP, Berger J. Using Black Bears To Test Ideal-Free Distribution Models Experimentally. J Mammal. 2003;84: 594–606. doi: [DOI] [Google Scholar]
  • 17.Don Carlos AW, Bright AD, Teel TL, Vaske JJ. Human-black bear conflict in urban areas: An integrated approach to management response. Hum Dimens Wildl. 2009;14: 174–184. doi: 10.1080/10871200902839316 [DOI] [Google Scholar]
  • 18.Klees van Bommel J, Badry M, Ford AT, Golumbia T, Burton AC. Predicting human-carnivore conflict at the urban-wildland interface. Glob Ecol Conserv. 2020;24: e01322. doi: 10.1016/j.gecco.2020.e01322 [DOI] [Google Scholar]
  • 19.Johnson HE, Lewis DL, Verzuh TL, Wallace CF, Much RM, Willmarth LK, et al. Human development and climate affect hibernation in a large carnivore with implications for human-carnivore conflicts. J Appl Ecol. 2017; 1–10. doi: 10.1111/1365-2664.13021 [DOI] [Google Scholar]
  • 20.Carter NH, Brown DG, Etter DR, Visser LG. American black bear habitat selection in northern Lower Peninsula, Michigan, USA, using discrete-choice modeling. Ursus. 2010;21: 57–71. doi: 10.2192/09GR011.1 [DOI] [Google Scholar]
  • 21.Lyons AL, Gaines WL, Servheen C. Black bear resource selection in the northeast Cascades, Washington. Biol Conserv. 2003;113: 55–62. doi: 10.1016/S0006-3207(02)00349-X [DOI] [Google Scholar]
  • 22.Davis H, Weir RD, Hamilton AN, Deal JA. Influence of phenology on site selection by female American black bears in coastal British Columbia. Ursus. 2006;17: 41–51. doi: 10.2192/1537-6176(2006)17[41:IOPOSS]2.0.CO;2 [DOI] [Google Scholar]
  • 23.Mowat G, Vander Vennen L. An exploratory analysis of black bear population data in British Columbia. Nelson, BC; 2020.
  • 24.CRD. Population Change, 2016 Census Results, Capital Region. 2016. https://www.crd.bc.ca/docs/default-source/regional-planning-pdf/Population/Population-PDFs/census-pop-2001-2006-2011_2016_abs_change.pdf?sfvrsn=5d8d31ca_8
  • 25.Gorley A, Merkel G. A New Future for Old Forests: A Strategic Review of How British Colombia Manages for Old Forests Within its Ancient Ecosystems. Victoria, BC; 2020. https://engage.gov.bc.ca/oldgrowth/
  • 26.Caravaggi A, Banks PB, Burton AC, Finlay CMV., Haswell PM, Hayward MW, et al. A review of camera trapping for conservation behaviour research. Remote Sens Ecol Conserv. 2017;3: 109–122. doi: 10.1002/rse2.48 [DOI] [Google Scholar]
  • 27.Burton AC, Neilson E, Moreira D, Ladle A, Steenweg R, Fisher JT, et al. Wildlife camera trapping: a review and recommendations for linking surveys to ecological processes. J Appl Ecol. 2015;52: 675–685. doi: 10.1111/1365-2664.12432 [DOI] [Google Scholar]
  • 28.Morrison ML, Block WM, Strickland MD, Collier BA, Peterson MJ. Wildlife Study Design. 2nd ed. Anderson BN, Howarth Robert W, Walker LR, editors. New York: Springer; 2008. [Google Scholar]
  • 29.Kays R, Tilak S, Kranstauber B, Jansen PA, Carbone C, Rowcliffe M, et al. Camera Traps as Sensor Networks for Monitoring Animal Communities. Int J Res Rev Wirel Sens Networks. 2011;1: 811–818. doi: 10.1109/LCN.2009.5355046 [DOI] [Google Scholar]
  • 30.Apps PJ, McNutt JW. How camera traps work and how to work them. Afr J Ecol. 2018;56: 702–709. doi: 10.1111/aje.12563 [DOI] [Google Scholar]
  • 31.Latham ADM, Latham MC, Boyce MS. Habitat selection and spatial relationships of black bears (Ursus americanus) with woodland caribou (Rangifer tarandus caribou) in northeastern Alberta. Can J Zool. 2011;89: 267–277. doi: 10.1139/z10-115 [DOI] [Google Scholar]
  • 32.Greenberg S, Godin T. A Tool Supporting the Extraction of Angling Effort Data from Remote Camera Images. Fisheries. 2015;40: 276–287. doi: 10.1080/03632415.2015.1038380 [DOI] [Google Scholar]
  • 33.Neilson EW, Avgar T, Burton AC, Broadley K, Boutin S. Animal movement affects interpretation of occupancy models from camera-trap surveys of unmarked animals. Ecosphere. 2018;9: e02092. doi: 10.1002/ecs2.2092 [DOI] [Google Scholar]
  • 34.Zuur AF, Ieno EN. Beginner’s Guide to Zero-Inflated Models with R. Newburgh, UK: Highland Statistics Ltd; 2016. [Google Scholar]
  • 35.Brooks ME, Kristensen K, van Benthem KJ, Magnusson A, Berg CW, Nielsen A, et al. Modeling zero-inflated count data with glmmTMB. bioRxiv. 2017; 1–14. doi: 10.1101/132753 [DOI] [Google Scholar]
  • 36.R Core Team. R: A language and environment for statistical computing. Vienna, Austria: R Foundation for Statistical Computing; 2018. https://www.r-project.org/
  • 37.Didan K. MOD13Q1 MODIS/Terra Vegetation Indices 16-Day L3 Global 250m SIN Grid V006 [Data set]. NASA EOSDIS Land Processes DAAC; 2015.
  • 38.Huete A, Didan K, Miura T, Rodriguez EP, Gao X, Ferreira LG. Overview of the radiometric and biophysical performance of the MODIS vegetation indices. Remote Sens Environ. 2002;88: 195–213. doi: 10.1016/S0034-4257(02)00096-2 [DOI] [Google Scholar]
  • 39.Fraga H, Amraoui M, Malheiro AC, Moutinho-Pereira J, Eiras-Dias J, Silvestre J, et al. Examining the relationship between the Enhanced Vegetation Index and grapevine phenology. Eur J Remote Sens. 2017;47: 753–771. doi: 10.5721/EuJRS20144743 [DOI] [Google Scholar]
  • 40.Merkle JA, Krausman PR, Decesare NJ, Jonkel JJ. Predicting spatial distribution of human-black bear interactions in urban areas. J Wildl Manage. 2011;75: 1121–1127. doi: 10.1002/jwmg.153 [DOI] [Google Scholar]
  • 41.British Columbia Conservation Officer Service. Report All Poachers and Polluters (RAPP). In: Government of British Columbia [Internet]. 2019. https://www2.gov.bc.ca/gov/content/environment/natural-resource-stewardship/natural-resource-law-enforcement/conservation-officer-service/cos-rapp
  • 42.Hosmer DW, Lemeshow S. Applied Logistic Regression. New York: John Wiley & Sons, Ltd; 2000. doi: 10.1002/0471722146 [DOI] [Google Scholar]
  • 43.Plant RE. Spatial Data Analysis in Ecology and Agriculture Using R. Boca Raton, FL: CRC Press; 2012. [Google Scholar]
  • 44.Burnham KP, Anderson DR. Model Selection and Multimodel Inference: A Practical Information-Theoretic Approach. 2nd ed. New York: Springer; 2002. [Google Scholar]
  • 45.Bolker B, R Development Core Team, Giné-Vázquez I. bbmle: Tools for General Maximum Likelihood Estimation. 2021. https://cran.r-project.org/package=bbmle
  • 46.Thieurmel B, Elmarhraouli A. suncalc: Compute Sun Position, Sunlight Phases, Moon Position and Lunar Phase. 2019. https://cran.r-project.org/package=suncalc
  • 47.Meredith M, Kruschke J. HDInterval: Highest (Posterior) Density Intervals. 2020. https://cran.r-project.org/package=HDInterval
  • 48.Klees van Bommel J, Sun CC, Ford AT, Todd M, Burton CA. Coexistence or conflict: black bear habitat use along an urban-wildland gradient. Dryad; 2022. doi: 10.5061/dryad.nvx0k6dvf [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 49.Campbell M, Lancaster B-L. Public Attitudes toward Black Bears (Ursus americanus) and Cougars (Puma concolor) on Vancouver Island. Soc Anim. 2010;18: 40–57. doi: 10.1163/106311110X12586086158448 [DOI] [Google Scholar]
  • 50.Lesmerises R, St-Laurent MH. Not accounting for interindividual variability can mask habitat selection patterns: a case study on black bears. Oecologia. 2017;185: 415–425. doi: 10.1007/s00442-017-3939-8 [DOI] [PubMed] [Google Scholar]
  • 51.Welfelt LS, Beausoleil RA, Wielgus RB. Factors Associated with black bear density and implications for management. J Wildl Manage. 2019;83: 1527–1539. doi: 10.1002/jwmg.21744 [DOI] [Google Scholar]
  • 52.Baruch-Mordo S, Wilson KR, Lewis DL, Broderick J, Mao JS, et al. Stochasticity in natural forage production affects use of urban areas by black bears: Implications to management of human-bear conflicts. PLoS One. 2014;9: 1–10. doi: 10.1371/journal.pone.0085122 [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 53.Zeller KA, Wattles DW, Conlee L, Destefano S. Black bears alter movements in response to anthropogenic features with time of day and season. Mov Ecol. 2019;7: 1–14. doi: 10.1186/s40462-019-0166-4 [DOI] [PMC free article] [PubMed] [Google Scholar]
  • 54.Fidino M, Lehrer EW, Kay CAM, Yarmey NT, Murray MH, Fake K, et al. Integrated species distribution models reveal spatiotemporal patterns of human–wildlife conflict. Ecol Appl. 2022; e2647. doi: 10.1002/eap.2647 [DOI] [PubMed] [Google Scholar]
  • 55.Angus T, Coleman M, Erickson A, Hanna C. Community of Sooke, BC, Human-Bear Conflict Management Plan. Victoria, BC; 2018. https://sooke.ca/wp-content/uploads/2019/01/Sooke-HBCMP-FINAL-2018-08-14.pdf
  • 56.Prevéy JS, Parker LE, Harrington CA, Lamb CT, Proctor MF. Climate change shifts in habitat suitability and phenology of huckleberry (Vaccinium membranaceum). Agric For Meteorol. 2020;280: 1–12. doi: 10.1016/j.agrformet.2019.107803 [DOI] [Google Scholar]
  • 57.Kaeriyama M, Seo H, Kudo H. Trends in Run Size and Carrying Capacity of Pacific Salmon in the North Pacific Ocean. North Pacific Anadromous Fish Comm Bull. 2009; 293–302. [Google Scholar]
  • 58.Sun CC, Fuller AK, Hare MP, Hurst JE. Evaluating Population Expansion of Black Bears Using Spatial Capture-Recapture. J Wildl Manage. 2017;81: 814–823. doi: 10.1002/jwmg.21248 [DOI] [Google Scholar]
  • 59.Johnson HE, Breck SW, Baruch-Mordo S, Lewis DL, Lackey CW, Wilson KR, et al. Shifting perceptions of risk and reward: Dynamic selection for human development by black bears in the western United States. Biol Conserv. 2015;187: 164–172. doi: 10.1016/j.biocon.2015.04.014 [DOI] [Google Scholar]

Decision Letter 0

Bogdan Cristescu

4 Jul 2022

PONE-D-22-12898Coexistence or conflict: black bear habitat use along an urban-wildland gradientPLOS ONE

Dear Dr. Klees van Bommel,

Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process.

Please submit your revised manuscript by Aug 18 2022 11:59PM. If you will need more time than this to complete your revisions, please reply to this message or contact the journal office at plosone@plos.org. When you're ready to submit your revision, log on to https://www.editorialmanager.com/pone/ and select the 'Submissions Needing Revision' folder to locate your manuscript file.

Please include the following items when submitting your revised manuscript:

  • A rebuttal letter that responds to each point raised by the academic editor and reviewer(s). You should upload this letter as a separate file labeled 'Response to Reviewers'.

  • A marked-up copy of your manuscript that highlights changes made to the original version. You should upload this as a separate file labeled 'Revised Manuscript with Track Changes'.

  • An unmarked version of your revised paper without tracked changes. You should upload this as a separate file labeled 'Manuscript'.

If you would like to make changes to your financial disclosure, please include your updated statement in your cover letter. Guidelines for resubmitting your figure files are available below the reviewer comments at the end of this letter.

If applicable, we recommend that you deposit your laboratory protocols in protocols.io to enhance the reproducibility of your results. Protocols.io assigns your protocol its own identifier (DOI) so that it can be cited independently in the future. For instructions see: https://journals.plos.org/plosone/s/submission-guidelines#loc-laboratory-protocols. Additionally, PLOS ONE offers an option for publishing peer-reviewed Lab Protocol articles, which describe protocols hosted on protocols.io. Read more information on sharing protocols at https://plos.org/protocols?utm_medium=editorial-email&utm_source=authorletters&utm_campaign=protocols.

We look forward to receiving your revised manuscript.

Kind regards,

Bogdan Cristescu

Academic Editor

PLOS ONE

Academic Editor's (Bogdan Cristescu) comments:

Two reviewers provided excellent comments and suggestions, with the feedback from one of them resembling more of a major than minor revision. Please address their points in the revised manuscript and response to reviewers document.

It will be important to justify why an occupancy modeling approach was not used. One reviewer provided suggestions on some ways to achieve that.

Please include metrics of model fit throughout, for example in Tables 1 and 2.

Looking forward to seeing the revision.

Journal Requirements:

When submitting your revision, we need you to address these additional requirements.

1. Please ensure that your manuscript meets PLOS ONE's style requirements, including those for file naming. The PLOS ONE style templates can be found at

https://journals.plos.org/plosone/s/file?id=wjVg/PLOSOne_formatting_sample_main_body.pdf  and

https://journals.plos.org/plosone/s/file?id=ba62/PLOSOne_formatting_sample_title_authors_affiliations.pdf

2. In your Methods section, please provide additional information regarding the permits you obtained for the work. Please ensure you have included the full name of the authority that approved the field site access and, if no permits were required, a brief statement explaining why.

3. In your Data Availability statement, you have not specified where the minimal data set underlying the results described in your manuscript can be found. PLOS defines a study's minimal data set as the underlying data used to reach the conclusions drawn in the manuscript and any additional data required to replicate the reported study findings in their entirety. All PLOS journals require that the minimal data set be made fully available. For more information about our data policy, please see http://journals.plos.org/plosone/s/data-availability.

"Upon re-submitting your revised manuscript, please upload your study’s minimal underlying data set as either Supporting Information files or to a stable, public repository and include the relevant URLs, DOIs, or accession numbers within your revised cover letter. For a list of acceptable repositories, please see http://journals.plos.org/plosone/s/data-availability#loc-recommended-repositories. Any potentially identifying patient information must be fully anonymized.

Important: If there are ethical or legal restrictions to sharing your data publicly, please explain these restrictions in detail. Please see our guidelines for more information on what we consider unacceptable restrictions to publicly sharing data: http://journals.plos.org/plosone/s/data-availability#loc-unacceptable-data-access-restrictions. Note that it is not acceptable for the authors to be the sole named individuals responsible for ensuring data access.

We will update your Data Availability statement to reflect the information you provide in your cover letter.

4. We note that you have stated that you will provide repository information for your data at acceptance. Should your manuscript be accepted for publication, we will hold it until you provide the relevant accession numbers or DOIs necessary to access your data. If you wish to make changes to your Data Availability statement, please describe these changes in your cover letter and we will update your Data Availability statement to reflect the information you provide.

5. We note that Figure 1 in your submission contain [map/satellite] images which may be copyrighted. All PLOS content is published under the Creative Commons Attribution License (CC BY 4.0), which means that the manuscript, images, and Supporting Information files will be freely available online, and any third party is permitted to access, download, copy, distribute, and use these materials in any way, even commercially, with proper attribution. For these reasons, we cannot publish previously copyrighted maps or satellite images created using proprietary data, such as Google software (Google Maps, Street View, and Earth). For more information, see our copyright guidelines: http://journals.plos.org/plosone/s/licenses-and-copyright.

 We require you to either (1) present written permission from the copyright holder to publish these figures specifically under the CC BY 4.0 license, or (2) remove the figures from your submission:

   a. You may seek permission from the original copyright holder of Figure 1 to publish the content specifically under the CC BY 4.0 license. 

We recommend that you contact the original copyright holder with the Content Permission Form (http://journals.plos.org/plosone/s/file?id=7c09/content-permission-form.pdf) and the following text:

“I request permission for the open-access journal PLOS ONE to publish XXX under the Creative Commons Attribution License (CCAL) CC BY 4.0 (http://creativecommons.org/licenses/by/4.0/). Please be aware that this license allows unrestricted use and distribution, even commercially, by third parties. Please reply and provide explicit written permission to publish XXX under a CC BY license and complete the attached form.”

Please upload the completed Content Permission Form or other proof of granted permissions as an "Other" file with your submission.

 In the figure caption of the copyrighted figure, please include the following text: “Reprinted from [ref] under a CC BY license, with permission from [name of publisher], original copyright [original copyright year].”

   b. If you are unable to obtain permission from the original copyright holder to publish these figures under the CC BY 4.0 license or if the copyright holder’s requirements are incompatible with the CC BY 4.0 license, please either i) remove the figure or ii) supply a replacement figure that complies with the CC BY 4.0 license. Please check copyright information on all replacement figures and update the figure caption with source information. If applicable, please specify in the figure caption text when a figure is similar but not identical to the original image and is therefore for illustrative purposes only.

The following resources for replacing copyrighted map figures may be helpful:

 USGS National Map Viewer (public domain): http://viewer.nationalmap.gov/viewer/

The Gateway to Astronaut Photography of Earth (public domain): http://eol.jsc.nasa.gov/sseop/clickmap/

Maps at the CIA (public domain): https://www.cia.gov/library/publications/the-world-factbook/index.html and https://www.cia.gov/library/publications/cia-maps-publications/index.html

NASA Earth Observatory (public domain): http://earthobservatory.nasa.gov/

Landsat: http://landsat.visibleearth.nasa.gov/

USGS EROS (Earth Resources Observatory and Science (EROS) Center) (public domain): http://eros.usgs.gov/#

Natural Earth (public domain): http://www.naturalearthdata.com

6. Please review your reference list to ensure that it is complete and correct. If you have cited papers that have been retracted, please include the rationale for doing so in the manuscript text, or remove these references and replace them with relevant current references. Any changes to the reference list should be mentioned in the rebuttal letter that accompanies your revised manuscript. If you need to cite a retracted article, indicate the article’s retracted status in the References list and also include a citation and full reference for the retraction notice.

[Note: HTML markup is below. Please do not edit.]

Reviewers' comments:

Reviewer's Responses to Questions

Comments to the Author

1. Is the manuscript technically sound, and do the data support the conclusions?

The manuscript must describe a technically sound piece of scientific research with data that supports the conclusions. Experiments must have been conducted rigorously, with appropriate controls, replication, and sample sizes. The conclusions must be drawn appropriately based on the data presented.

Reviewer #1: Yes

Reviewer #2: Yes

**********

2. Has the statistical analysis been performed appropriately and rigorously?

Reviewer #1: Yes

Reviewer #2: No

**********

3. Have the authors made all data underlying the findings in their manuscript fully available?

The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified.

Reviewer #1: No

Reviewer #2: Yes

**********

4. Is the manuscript presented in an intelligible fashion and written in standard English?

PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here.

Reviewer #1: Yes

Reviewer #2: Yes

**********

5. Review Comments to the Author

Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters)

Reviewer #1: The authors analyze camera detection rates of black bears in and around a conflict hotspot. Urban-wildlife interfaces are expanding rapidly and understanding habitat use of key species in human environments is critical for their management. The manuscript is well-written, the objectives are clearly defined and addressed, and the findings are discussed within a relevant context. I have few comments:

The authors acknowledge complexities with individual bear identification and discuss future directions of research that include density estimates and individual movements. Is there however any indication that multiple and enough individuals have been captured during your study to be representative for the broader population. In particular because generalist species typically display a great amount of behavioral plasticity, and the extent of the study area is rather small (~80km2).

Related to above comment and a potential avenue for future research, would there be any (expected) differences in habitat use between adult males, adult females, and females with cubs? And how would this influence conflict or coexistence?

How did you deal with the fact that not detecting a bear at a camera trap location may be a false absence? And consequently the zero’s in the zero inflated model may not all be true absences, which may induce bias in inferences on habitat use?

L388-393: It is not clear to me on what base you make these inferences. You report, for example, a negative association between bear habitat use and human density, but no effects of trail density are reported. From looking at Fig3, it seems however that both variables have similar coefficient estimates, standard errors (not overlapping zero) and confidence intervals (overlapping zero). The same applies for the quadratic term of human density and elevation. I would therefore think that only ‘Active Days’ and ‘EVI’ are informative predictors of bear habitat use.

L414-418: Please be consistent in reporting p-values and could you include these in the previous results section?

L416: maybe add ‘compared to spring’.

L460-463 & L469-471: Is there any previous research in natural systems that shows seasonal shifts in habitat use as a consequence of hyperphagia?

Reviewer #2: # Review for:

*Coexistence or conflict: black bear habitat use along an urban-wildland gradient*

Note: This was written in markdown format. I've also included a PDF if that is easier for you to read.

In this paper the authors look at spatio-temporal variation in the distribution of black bears in an area where conflict between black bears and humans is high. Additionally, they also look at the correlation between black bear detections and the probability of black-bear conflict that was estimated from previous research. In general, I think this is an interesting and well written piece of research. I often found myself in agreement with the logical flow of the research, the modeling choices made, and the interpretation of said models. Great work!

Perhaps my biggest concern is the secondary modeling approach, which treats the estimated conflict probability as known, when in fact it is something that is estimated with error. In my review below I have a number of hopefully helpful citations about this specific issue for the authors.

I also suggest the authors look at a recent article of mine (Fidino et al. 2022), which shows how integrated models could be use to combine human-wildlife conflict data with camera trap data. I'm not on the hunt for a citation here, but since it is relevant to this piece of research I am sharing in case you were interested in how to do this in the future.

```

Fidino, M., Lehrer, E. W., Kay, C. A., Yarmey, N. T., Murray, M. H., Fake, K., ... & Magle, S. B. (2022). Integrated species distribution models reveal spatiotemporal patterns of human–wildlife conflict. Ecological Applications, e2647.

```

If you have any specific questions about any of my comments, feel free to email me at mfidino@lpzoo.org. Again, great work on this!

- Mason Fidino

## Abstract

---

### Line by line comments

Line 46: The 'such as' breaks up this sentence in a weird way. I think you can remove it and the examples become a little more clear.

## Introduction

---

### Top-level thoughts

1. Well written introduction, I only have some minor comments on some of the wording / sentence structure.

### Line by line comments

Line 64: Is sustainable the correct word here? I think it could be, but also it tends to have a bit of a positive connotation to it, so it reads a little off to say sustainable risks of death. Maybe 'acceptable' could be used instead? Just a minor point, feel free to ignore if you disagree.

Line 69: This sentence is a little circular. Changes to avoid direct conflict can increase direct conflict when risk of direct conflict is lower. I think it's the second use of direct conflict, which makes it feel a little redundant. Could that bit right after the first (e.g.,) just get removed? I think the point still comes across.

Line 76-77: Is 'year round' needed when you already state they are available consistently? "...as they are predictable, consistent, and spatially aggregated sources of..."

Line 82-84: Does it help here to remind the reader that the urban-wildlife interface is increases, and therefore increased risk of ecological traps for such species?

Line 88: ...to signal wildlife mortality risks...

Line 98: ...and can alter their foraging patterns to...

Line 103: ..., and can result in seasonal...

Line 103-105: Sentence starting with "If such attractants" reads a little weird. Maybe it's the 'attractants can attract animals' part or that the '...and food-conditioning' bit at the end feels like a different thought tacked on.

Line 105 - 108: This sentence could be made more active (and therefore a little more succinct). "In Nevada, urban black bears are less active each day (as they satisfied their caloric needs faster), more nocturnal, and hibernate less."

Line 116-120: Conflict probability of what? Do you mean human-wildlife conflict probability in general? Human-bear conflict in particular?

Line 123-125: Great point, and the introduction sets a really strong foundation for the need to study this.

## Methods

---

### Top-level thoughts

1. I would imagine that the distance between camera trapping locations would be species specific to maintain spatial independence. For black bear, multiple camera traps can be contained within the home range of a single bear, and therefore I would assume that spatial independence is not met. This citation is also a pre-print, though it's been around for 12 years. Maybe just soften the language here (e.g,. say to increase spatial independence rather than maintain spatial independence).

2. Was the sampling effort term included as an offset to the model or did you just include it as a covariate? If the latter was done, I would encourage adding a log offset term instead, as that is a more standard approach when there is variation in sampling effort. If I had to guess, you used a log-offset, so just be specific about that here in the methods.

3. I could see some readers get their hackles up about not using an occupancy model here. I leave it to the authors, but it may help to just get ahead of it here (by using a zero-inflated model you may be estimating habitat use conditional on presence anyways, depending on the class of zero-inflated model you fit). Likewise, occupancy models are literally just zero-inflated logistic regression, so your approach has substantial overlap. For example, the old MacKenzie et al. occupancy modeling book talks about these similarities on about page 135 (i.e., the use of the zero-inflated binomial to model occupancy).

```

MacKenzie, D. I., Nichols, J. D., Royle, J. A., Pollock, K. H., Bailey, L. L., & Hines, J. E. (2017). Occupancy estimation and modeling: inferring patterns and dynamics of species occurrence. Elsevier.

```

4. There are a few different kinds of zero-inflated glmms, can you be a little more specific? For example, what is the error distribution that was used (negative binomial, Poisson, etc.). Is this a two part model and therefore the conditional model cannot include zeroes or is it a mixture model and therefore the conditional models can include zero? A little more explanation here would be helpful. note: I see now that the distributional information is shared much lower, around line 297. I'd move that little bit of info upwards so it's not separated from when you introduce the modeling framework.

5. Thank you for using a set of candidate models to assess your different hypotheses. Solid approach. Given the two set hypotheses brought up in the introduction, in may help to add a little more connection between those hypotheses and the set of candidate models given that there are two hypotheses but four candidate models. You should also fit a fifth null model as well (just the active days term plus the site random effect). Given the results I suspect the null will provide the worst fit (highest delta AIC), but it's nice to demonstrate this.

6. Based on the introduction (lines 133-134) I thought that modeled conflict probabilities would be incorporated into your glmms, but instead it looks like counts of conflict are included instead. I suspect other readers will also be confused about this. What makes this more confusing, is that there is a second batch of models done that uses the estimated conflict probabilities.

7. Why conflicts over the year instead of conflicts per month?

8. Using the output from one model as a predictor in another is okay, but the uncertainty of those estimates should also be propagated into the secondary model. From my reading of this secondary model set, I'm guessing that these spatially explicit probabilities are treated as known (i.e., measured without error). If this is the case, using such predictions in secondary analysis leads to anticonservative tests because this error is excluded from further tests (i.e., estimates are too precise). Some papers about this topic that the authors may find useful include:

```

Hadfield, J. D., Wilson, A. J., Garant, D., Sheldon, B. C., & Kruuk, L. E. (2010). The

misuse of BLUP in ecology and evolution. The American Naturalist, 175(1), 116-125.

Houslay, T. M., & Wilson, A. J. (2017). Avoiding the misuse of BLUP in behavioural

ecology. Behavioral Ecology, 28(4), 948-952.

Link, W. A. (1999). Modeling pattern in collections of parameters. The Journal of

wildlife management, 1017-1027.

```

The Houslay & Wilson paper is open access, so that is where I'd start. I've personally found this easiest to account for in a Bayesian framework (e.g., if you have the mean and SE of each prediction you can set a prior for each data point to propagate that uncertainty), but there are likely ways to deal with this in a frequentist framework as well (e.g., bootstrapping, but resampling the predicted covariate instead of the response variable).

9. What is a reported conflict in these data? Do they vary in severity?

## Results

---

### Top-level thoughts

1. Failing to detect an effect does not mean that there was no effect (e.g., line 391 - 392). I'd just reword to "We failed to detect an effect of road density" so that you avoid confirming the null (which these tests do not do). Other than that, great breakdown of the results.

## Discussion

---

### Top-level thoughts

1. Given the conflicting hypotheses, do the authors feel that one hypothesis was supported more than the other?

2. Any caveats worth bringing up here? For example, there was the assumption that EVI indicates forage availability. Is it possible for there to be human-bear conflicts that go unreported and so the conflicts / year metric used may have some error?

### Line by line comments

Line 530: You used ecological trap earlier.

## Tables & figures

---

### Top-level thoughts

1. The axis text on many of the figures is a very light gray, I'd suggest replacing with black to make it easier to read.

2. You could increase the line width for the 95% CI's on figure 3&4, plus the mean estimate on figure 5.

**********

6. PLOS authors have the option to publish the peer review history of their article (what does this mean?). If published, this will include your full peer review and any attached files.

If you choose “no”, your identity will remain anonymous but your review may still be made public.

Do you want your identity to be public for this peer review? For information about this choice, including consent withdrawal, please see our Privacy Policy.

Reviewer #1: Yes: Stijn Verschueren

Reviewer #2: Yes: Mason Fidino

**********

[NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.]

While revising your submission, please upload your figure files to the Preflight Analysis and Conversion Engine (PACE) digital diagnostic tool, https://pacev2.apexcovantage.com/. PACE helps ensure that figures meet PLOS requirements. To use PACE, you must first register as a user. Registration is free. Then, login and navigate to the UPLOAD tab, where you will find detailed instructions on how to use the tool. If you encounter any issues or have any questions when using PACE, please email PLOS at figures@plos.org. Please note that Supporting Information files do not need this step.

Attachment

Submitted filename: PONE-D-22-12898_review.pdf

PLoS One. 2022 Nov 29;17(11):e0276448. doi: 10.1371/journal.pone.0276448.r002

Author response to Decision Letter 0


14 Sep 2022

Academic Editor's comments:

Two reviewers provided excellent comments and suggestions, with the feedback from one of

them resembling more of a major than minor revision. Please address their points in the

revised manuscript and response to reviewers document.

It will be important to justify why an occupancy modeling approach was not used. One

reviewer provided suggestions on some ways to achieve that.

Please include metrics of model fit throughout, for example in Tables 1 and 2.

Looking forward to seeing the revision.

We appreciate the comments and suggestions from the reviewers and have added their names to our Acknowledgement section [Line 623-624]. We have provided point-by-point responses to the reviewer comments below.

With respect to our reasons for not using occupancy modelling, please see our response to Reviewer #2, Methods question 3 (page 9 below). We have also added metrics of model fit to the Results section to better link the table information to the text.

Journal Requirements:

1. Please ensure that your manuscript meets PLOS ONE's style requirements, including those

for file naming.

We have reviewed the PLOS ONE style requirements and made the necessary changes to the file names.

2. In your Methods section, please provide additional information regarding the permits you

obtained for the work. Please ensure you have included the full name of the authority that

approved the field site access and, if no permits were required, a brief statement explaining

why.

We have added “Work was completed under a CRD Regional Parks park use permit (#15/19) and signed consent to entry forms from all private landowners and T’Sou-ke Nation.” [Lines 198-200]

3. In your Data Availability statement, you have not specified where the minimal data set

underlying the results described in your manuscript can be found. PLOS defines a study's

minimal data set as the underlying data used to reach the conclusions drawn in the manuscript

and any additional data required to replicate the reported study findings in their entirety. All

PLOS journals require that the minimal data set be made fully available. For more information

about our data policy, please see http://journals.plos.org/plosone/s/data-availability.

We have now stored the minimal dataset on Dryad and included the citation “Klees van Bommel J, Sun CC, Ford AT, Todd M, Burton CA. Coexistence or conflict: black bear habitat use along an urban-wildland gradient; 2022 [cited 2022 Aug 18]. Database: Dryad [internet]. doi: 10.5061/dryad.nvx0k6dvf” [48] in our reference list. The dataset is currently listed as private for peer review and can be viewed using the following link: https://datadryad.org/stash/share/LX_zkxl9UuNjMggVpsaA2ukTn7j0646vs3KiBtF45IA

4. We note that you have stated that you will provide repository information for your data at

acceptance. Should your manuscript be accepted for publication, we will hold it until you

provide the relevant accession numbers or DOIs necessary to access your data. If you wish to

make changes to your Data Availability statement, please describe these changes in your cover

letter and we will update your Data Availability statement to reflect the information you

provide.

Please refer to the response to number 3 above.

5. We note that Figure 1 in your submission contain [map/satellite] images which may be

copyrighted. All PLOS content is published under the Creative Commons Attribution License

(CC BY 4.0), which means that the manuscript, images, and Supporting Information files will

be freely available online, and any third party is permitted to access, download, copy,

distribute, and use these materials in any way, even commercially, with proper attribution. For

these reasons, we cannot publish previously copyrighted maps or satellite images created

using proprietary data, such as Google software (Google Maps, Street View, and Earth). For

more information, see our copyright guidelines: http://journals.plos.org/plosone/s/licensesand-copyright.

The data used for land cover in Figure 1 is not copyrighted. We initially cited the dataset in our figure legend, but to avoid confusion have removed that line and now only include it in the supplemental table listing data sources as with all of the other environmental and anthropogenic variables used.

6. Please review your reference list to ensure that it is complete and correct. If you have cited

papers that have been retracted, please include the rationale for doing so in the manuscript

text, or remove these references and replace them with relevant current references. Any

changes to the reference list should be mentioned in the rebuttal letter that accompanies your

revised manuscript. If you need to cite a retracted article, indicate the article’s retracted status

in the References list and also include a citation and full reference for the retraction notice.

We have reviewed our reference list, fixed a couple of formatting issues, and found no retracted articles.

Reviewer #1:

The authors analyze camera detection rates of black bears in and around a conflict hotspot. Urban-wildlife interfaces are expanding rapidly and understanding habitat use of key species in human environments is critical for their management. The manuscript is well-written, the objectives are clearly defined and addressed, and the findings are discussed

within a relevant context. I have few comments:

The authors acknowledge complexities with individual bear identification and discuss future

directions of research that include density estimates and individual movements. Is there

however any indication that multiple and enough individuals have been captured during your

study to be representative for the broader population. In particular because generalist species

typically display a great amount of behavioral plasticity, and the extent of the study area is

rather small (~80km2).

We have added the following to the Methods section [Line 178-180]: “Based on estimated female black bear home ranges on Vancouver Island (7.83 km2) [22], we expected the study area to include multiple overlapping home ranges, capturing a representative sample of the local bear population.” Additionally, in the Results we added “While individual bears are not reliably distinguishable from camera trap images, we did photograph multiple bears of different sizes at the same sites, sows with cubs of different sizes taken around the same date, and multiple photos taken close in time at different sites that were unlikely to be the same bear.” to Line 403-406. Therefore, we are confident we captured multiple individuals and that our inferences would extend beyond just a few bears to the broader population.

Related to above comment and a potential avenue for future research, would there be any

(expected) differences in habitat use between adult males, adult females, and females with

cubs? And how would this influence conflict or coexistence?

This is a good point. There is evidence from the literature suggesting that in general male black bears use areas of human development more than females and are thus more likely to be involved in human-carnivore conflict (Beckmann and Berger 2003, Merkle et al. 2013). However, one study found that while females used less developed areas in good natural food years, they selected higher development areas than males in poor natural food years (with and without cubs; Johnson et al. 2015). This could have an exacerbated negative effect on black bear populations if natural food sources are scarce and females are involved in more conflict which may lead to fatal mitigation methods. In fact, a population sink was identified in the Lake Tahoe Basin, Nevada, USA, because female bears in urban areas had higher age-specific mortality rates (Beckmann & Lackey 2008).

We have expanded on our suggestion for future research to look at individual variation within a population (and the implications for managing sex-specific conflicts) [Line 590-594]: “If bears are attracted to urban areas, determining the sexes of those individuals would be important as females of reproductive age have a greater impact on population demography. In general, male black bears have been found to use more developed areas and thus be involved in more conflict [12,16], however in poor natural food years, females may select areas of higher development than males [59].”

How did you deal with the fact that not detecting a bear at a camera trap location may be a

false absence? And consequently the zero’s in the zero inflated model may not all be true

absences, which may induce bias in inferences on habitat use?

We respond to this comment in detail below under Reviewer 2’s suggestion to use occupancy models to account for imperfect detection, please see our response under the section “Methods”, question 3 (page 9 below).

L388-393: It is not clear to me on what base you make these inferences. You report, for

example, a negative association between bear habitat use and human density, but no effects of

trail density are reported. From looking at Fig3, it seems however that both variables have

similar coefficient estimates, standard errors (not overlapping zero) and confidence intervals

(overlapping zero). The same applies for the quadratic term of human density and elevation. I

would therefore think that only ‘Active Days’ and ‘EVI’ are informative predictors of bear

habitat use.

We thank the reviewer for catching this discrepancy. We interpret significant effects as those with a 95% confidence interval that does not overlap zero, so have reworded the Results to clarify that EVI is the only significant predictor variable and moved the model results for human density down with the other predictors [Line 422-424], and removed language stating human density was significant from the Abstract [Line 39-40] and Discussion [Line 500; 507; 517-519].

L414-418: Please be consistent in reporting p-values and could you include these in the

previous results section?

We thank the reviewer for catching this error and have included the p-values for the first set of models in the Results section as well [Line 420-431].

L416: maybe add ‘compared to spring’.

We have edited Line 449 to add “compared to spring”.

L460-463 & L469-471: Is there any previous research in natural systems that shows seasonal

shifts in habitat use as a consequence of hyperphagia?

Yes, previous research has found that bears shift to areas of high natural food abundance before denning. We have added text to highlight that similarity on Line 509-511: “This is similar to observations of seasonal shifts in natural diets before hyperphagia, where bears select swamp habitat with an abundance of berries, grasses, and willows [50].”

Reviewer #2:

In this paper the authors look at spatio-temporal variation in the distribution of black bears in

an area where conflict between black bears and humans is high. Additionally, they also look at

the correlation between black bear detections and the probability of black-bear conflict that

was estimated from previous research. In general, I think this is an interesting and well written

piece of research. I often found myself in agreement with the logical flow of the research, the

modeling choices made, and the interpretation of said models. Great work!

Perhaps my biggest concern is the secondary modeling approach, which treats the estimated

conflict probability as known, when in fact it is something that is estimated with error. In my

review below I have a number of hopefully helpful citations about this specific issue for the

authors.

I also suggest the authors look at a recent article of mine (Fidino et al. 2022), which shows

how integrated models could be use to combine human-wildlife conflict data with camera trap

data. I'm not on the hunt for a citation here, but since it is relevant to this piece of research I

am sharing in case you were interested in how to do this in the future.

Fidino, M., Lehrer, E. W., Kay, C. A., Yarmey, N. T., Murray, M. H., Fake, K., ... & Magle, S.

B. (2022). Integrated species distribution models reveal spatiotemporal patterns of human–

wildlife conflict. Ecological Applications, e2647.

Thank you for sharing this new paper! We agree this is a promising approach and we have added a citation to it in our recommendations for future research in Line 563-565: “Future research could further integrate reports of human-black bear conflict with camera trap surveys to more accurately predict and target where and when conflicts may happen, as in Fidino et al. [55].”

## Abstract

Line 46: The 'such as' breaks up this sentence in a weird way. I think you can remove it and

the examples become a little more clear.

We have edited Line 46 to removed “such as”.

## Introduction

1. Well written introduction, I only have some minor comments on some of the wording /

sentence structure.

Line 64: Is sustainable the correct word here? I think it could be, but also it tends to have a bit

of a positive connotation to it, so it reads a little off to say sustainable risks of death. Maybe

'acceptable' could be used instead? Just a minor point, feel free to ignore if you disagree.

We can see how with a positive connotation, “sustainable” may be a jarring word to use in this context. However, the definition of coexistence we are referencing in this sentence and using in our paper was defined in the citation Carter & Linnell, 2016 [8], and we believe reflects the understanding that some conflict is unavoidable but should be mitigated to levels that sustain wildlife populations, human health, and livelihoods.

Line 69: This sentence is a little circular. Changes to avoid direct conflict can increase direct

conflict when risk of direct conflict is lower. I think it's the second use of direct conflict,

which makes it feel a little redundant. Could that bit right after the first (e.g.,) just get

removed? I think the point still comes across.

We have changed the sentence to remove the second instance of “direct conflict” and combined the examples in parentheses: “Behavioural changes to avoid direct conflict may actually increase indirect conflicts due to attempts by animals to access calorie-rich human food attractants (e.g., accessing garbage, fruit, or crops at night when interaction with people is less likely).” [Line 68-70]

Line 76-77: Is 'year round' needed when you already state they are available consistently?

"...as they are predictable, consistent, and spatially aggregated sources of..."

We have edited the sentence to remove “…available consistently (e.g. weekly), year-round, and are…” and replaced with: “…predictable, consistent, and…” [Line 76-77].

Line 82-84: Does it help here to remind the reader that the urban-wildlife interface is

increases, and therefore increased risk of ecological traps for such species?

We have edited the sentence from “These ecological traps function as population sinks which have negative impacts on long-term population persistence [14].” to “These ecological traps function as population sinks which have negative impacts on long-term population persistence [14], and may become more common as the urban-wildland interface increases.” [Line 84-85]

Line 88: ...to signal wildlife mortality risks…

The current line “Strategies include protecting anthropogenic food attractants or creating a hostile environment to signal the mortality risks for wildlife in human-dominated areas.” is meant to generalize human-carnivore conflict mitigation strategies that block or modify carnivore behaviour. In the latter case, techniques such as an electric fence (used as an example in the following sentence) provide an unpleasant or painful sensation to signal danger – this signal is directed at the wildlife in question and thus the phrasing “…to signal wildlife mortality risks…” would be unclear. To clarify our language, we have edited the word “for” to “to”, making the sentence read: “… to signal the mortality risks to wildlife…” [Line 89].

Line 98: ...and can alter their foraging patterns to…

We have edited “…the ability to quickly…” to the recommended “…can alter their…” [Line 99].

Line 103: ..., and can result in seasonal…

We have edited “but” to “and” as recommended [Line 104].

Line 103-105: Sentence starting with "If such attractants" reads a little weird. Maybe it's the

'attractants can attract animals' part or that the '...and food-conditioning' bit at the end feels like

a different thought tacked on.

We have changed the sentence to highlight the connection between attractant availability, reliance of bears on that food source, and behaviour change as a lead in to the next example: “If such attractants remain constant and available, they can draw animals from surrounding wild areas and create a reliance on anthropogenic food, which may change bear behaviour in the urban-wildland interface. In Nevada…” [Line 104-107].

Line 105 - 108: This sentence could be made more active (and therefore a little more

succinct). "In Nevada, urban black bears are less active each day (as they satisfied their caloric

needs faster), more nocturnal, and hibernate less."

We have replaced the sentence with the recommended text [Line 107-108].

Line 116-120: Conflict probability of what? Do you mean human-wildlife conflict probability

in general? Human-bear conflict in particular?

We have edited to clarify it is “human-black bear” conflict probability [Line 120].

Line 123-125: Great point, and the introduction sets a really strong foundation for the need to

study this.

## Methods

### Top-level thoughts

1. I would imagine that the distance between camera trapping locations would be species

specific to maintain spatial independence. For black bear, multiple camera traps can be

contained within the home range of a single bear, and therefore I would assume that spatial

independence is not met. This citation is also a pre-print, though it's been around for 12 years.

Maybe just soften the language here (e.g,. say to increase spatial independence rather than

maintain spatial independence).

We changed “maintain” to “increase” as suggested [Line 191], and we corrected the error in our citation (it is published in a journal, not a pre-print).

Kays, R., Tilak, S., Kranstauber, B., Jansen, P., Carbone, C., Rowcliffe, M., Fountain, T., Eggert, J., He, Z., 2011. Camera traps as sensor networks for monitoring animal communities. International Journal of Research and Reviews in Wireless Sensor Networks 1, 19-29.

While we agree that individual bears could be detected at multiple camera traps, we are suggesting that detections are statistically independent as measures of habitat use (as evidenced by the lack of spatial autocorrelation in detections). If individual identities were known, a random effect could be used to account for between-individual variation, but that is not possible with our data.

2. Was the sampling effort term included as an offset to the model or did you just include it as

a covariate? If the latter was done, I would encourage adding a log offset term instead, as that

is a more standard approach when there is variation in sampling effort. If I had to guess, you

used a log-offset, so just be specific about that here in the methods.

We have updated the models to include Active Days as an offset instead of as a covariate and subsequently removed Active Days from Figure 3. The model’s results remain the same, with the conflict model still the top model and parameters estimates nearly identical (i.e. only changing by tenths or hundredths of a decimal place). The Methods and Results have been edited to reflect these changes, with text to clarify our modelling approach [Line 240-242]: “All models also included the number of active camera days as an offset to account for variable sampling effort (i.e. not all cameras were active for all study days).” and updated estimates in the Results [Line 416-431], Table 1, and Table S3.

3. I could see some readers get their hackles up about not using an occupancy model here. I

leave it to the authors, but it may help to just get ahead of it here (by using a zero-inflated

model you may be estimating habitat use conditional on presence anyways, depending on the

class of zero-inflated model you fit). Likewise, occupancy models are literally just zeroinflated

logistic regression, so your approach has substantial overlap. For example, the old

MacKenzie et al. occupancy modeling book talks about these similarities on about page 135

(i.e., the use of the zero-inflated binomial to model occupancy).

MacKenzie, D. I., Nichols, J. D., Royle, J. A., Pollock, K. H., Bailey, L. L., & Hines, J. E.

(2017). Occupancy estimation and modeling: inferring patterns and dynamics of species

occurrence. Elsevier.

We appreciate that the use of occupancy models is very popular in the camera trap literature, however we feel that they are often applied uncritically and their reliability is an area of active research. We chose to directly model detection rates as measure of site habitat use, since occupancy models have an unsupported assumption of site closure and treat heterogeneity in detections within (arbitrarily defined) sampling periods as observation error, whereas we think it more reflects the signal of interest. Furthermore, some studies have suggested that estimates from occupancy models may not be reliable, particularly for species with relatively large home ranges relative to the spacing of sampling points (e.g., Neilson et al. 2018). We have added some text to clarify our thinking in manuscript on Line 233-235: “We chose to directly model detection rates instead of commonly proposed occupancy models as estimates from the latter may not be reliable for species with relatively large home ranges compared to the spacing of sampling points [33].”

4. There are a few different kinds of zero-inflated glmms, can you be a little more specific?

For example, what is the error distribution that was used (negative binomial, Poisson, etc.). Is

this a two part model and therefore the conditional model cannot include zeroes or is it a

mixture model and therefore the conditional models can include zero? A little more

explanation here would be helpful. note: I see now that the distributional information is shared

much lower, around line 297. I'd move that little bit of info upwards so it's not separated from

when you introduce the modeling framework.

We moved up the text explaining the negative binomial distribution earlier, as suggested, from Line 294-298 to Line 242-245: “Models were run with the ‘glmmTMB’ package [35] in Program R [36]. We used the negative binomial distribution “Nbinom2” which treats the variance quadratically because all candidate models had a lower AICc compared to the “Nbinom1” distribution (where variance was treated linearly) [35].”

Further, the package glmmTMB runs the zero-inflated model as a mixture model, so the conditional models can include zero. For more information see:

Brooks, M. E., Kristensen, K., van Benthem, K. J., Magnusson, A., Berg, C. W., Nielsen, A., Skaug, H. J., Machler, M., & Bolker, B. M. (2017). glmmTMB balances speed and flexibility among packages for Zero-inflated Generalized Linear Mixed Modeling. The R Journal, 9(2), 378-400. https://doi.org/10.32614/RJ-2017-066

5. Thank you for using a set of candidate models to assess your different hypotheses. Solid

approach. Given the two set hypotheses brought up in the introduction, in may help to add a

little more connection between those hypotheses and the set of candidate models given that

there are two hypotheses but four candidate models. You should also fit a fifth null model as

well (just the active days term plus the site random effect). Given the results I suspect the null

will provide the worst fit (highest delta AIC), but it's nice to demonstrate this.

We have added some clarifying language to the Methods section outlining our habitat use models to connect the four candidate models with the overarching two hypotheses to Line 284-289: “We expected if our overall “conflict hypothesis” was supported, the best fit model would show selection for human-dominated areas with high values for variables associated with high conflict probability; selection for wild areas with high values for low conflict probability variables, would support our “coexistence hypothesis”. We tested four sets of candidate models to see which types of predictor variables best explained bear habitat use.”

We also edited the table caption for Table 1 from “Model sets are grouped by hypothesis…” to “Models are grouped by candidate set…” [Line 306-307].

We did run a null model and have now included mention of that in our Methods [Line 299] as well as Table 1. The reviewer is correct in that the null did have the highest delta AIC (24.1 which is more than 10 dAIC higher than the next model, see Table 1).

6. Based on the introduction (lines 133-134) I thought that modeled conflict probabilities

would be incorporated into your glmms, but instead it looks like counts of conflict are

included instead. I suspect other readers will also be confused about this. What makes this

more confusing, is that there is a second batch of models done that uses the estimated conflict probabilities.

We used counts of conflict reported within the year of camera trapping in the first set of models to incorporate local observations from the same temporal scale as the habitat use dependent variable. For the second set of models, we wanted to test how well the predictions from a regional model built using seven years of previous conflict reports matched the local habitat use results from the first set of models. To clarify, we replaced the word “also” with “subsequently” in Line 137: “To assess the relationship between habitat use and conflict, we subsequently modeled detections using previously estimated seasonal conflict probabilities from the same region [18].”

We have also added some text in the Methods section for the second set of models to state our intention to test the regional conflict probabilities against local habitat use [Line 326-327]: “…, and thus test predictions from a regional model of conflict at a local scale…”.

7. Why conflicts over the year instead of conflicts per month?

We used the number of reported conflicts within a 500 m buffer of a camera site within the study year as one of our additional local-scale test variables. We decided to use conflicts per year instead of per month because there were not enough reports per month at most of our sites to include.

8. Using the output from one model as a predictor in another is okay, but the uncertainty of

those estimates should also be propagated into the secondary model. From my reading of this

secondary model set, I'm guessing that these spatially explicit probabilities are treated as

known (i.e., measured without error). If this is the case, using such predictions in secondary

analysis leads to anticonservative tests because this error is excluded from further tests (i.e.,

estimates are too precise). Some papers about this topic that the authors may find useful

include:

Hadfield, J. D., Wilson, A. J., Garant, D., Sheldon, B. C., & Kruuk, L. E. (2010). The

misuse of BLUP in ecology and evolution. The American Naturalist, 175(1), 116-125.

Houslay, T. M., & Wilson, A. J. (2017). Avoiding the misuse of BLUP in behavioural

ecology. Behavioral Ecology, 28(4), 948-952.

Link, W. A. (1999). Modeling pattern in collections of parameters. The Journal of

wildlife management, 1017-1027.

The Houslay & Wilson paper is open access, so that is where I'd start. I've personally found

this easiest to account for in a Bayesian framework (e.g., if you have the mean and SE of each

prediction you can set a prior for each data point to propagate that uncertainty), but there are

likely ways to deal with this in a frequentist framework as well (e.g., bootstrapping, but

resampling the predicted covariate instead of the response variable).

Thank you for this reflection and the useful references. We acknowledge that we did not propagate the uncertainty from the previously published conflict models into this secondary modelling in this study, and that this is an important consideration. However, this would require an overhaul of our modelling approach, and the addition of further details of the previous models, that is beyond the scope of our intentions for this manuscript. We anticipate that local conflict managers are more likely to use maps of the mean estimates of predicted conflict probabilities in land use planning, i.e. to delineate relatively higher vs lower predicted probabilities. Our intention was to see if these mean predictions from the previously published regional models corresponded to our estimates of local black bear habitat use, in the context of comparing competing model-based hypotheses, rather than to estimate precise coefficients from this second stage of modelling. Thus, we felt it was reasonable to use the mean predictions as “certain” in the way managers might for planning purposes. However, we have added text to clarify that we did not propagate uncertainty and suggested that future models could better integrate conflict and habitat use (Line 561-565): “We do note that our second set of models comparing habitat use to seasonal conflict probability did not propagate the uncertainty from the models used to estimate the conflict probabilities. Future research could further integrate reports of human-black bear conflict with camera trap surveys to more accurately predict and target where and when conflicts may happen, as in Fidino et al. [55].”

9. What is a reported conflict in these data? Do they vary in severity?

We defined conflicts as any interaction that has a negative impact on either black bears or humans. Common conflicts with bears included accessing garbage and other anthropogenic food sources, property damage, and livestock predation. These conflicts are further explained in Klees van Bommel et al. 2020, but we noted “garbage attractants to include fruit, compost, and other rural attractants” along with the citation on Line 123-124. Livestock predation may be considered greater severity, but we did not attempt to rank conflicts.

## Results

### Top-level thoughts

1. Failing to detect an effect does not mean that there was no effect (e.g., line 391 - 392). I'd

just reword to "We failed to detect an effect of road density" so that you avoid confirming the

null (which these tests do not do). Other than that, great breakdown of the results.

We edited as recommended [Line 422].

## Discussion

### Top-level thoughts

1. Given the conflicting hypotheses, do the authors feel that one hypothesis was supported

more than the other?

We believe that further research is required to strengthen support for one hypothesis over the other. We recommended extending the length of camera trap sampling and the addition of finer scale data on anthropogenic and natural bear foods – particularly salmon and berries – to determine the role that natural food availability plays in bear conflict behaviours [Lines 594-598]. However, given the conflicting support among hypotheses in our study, it is likely, that new hypotheses that explicit address behavioural differences across seasons, sex, and ages should also be tested. We provide such recommendations for future research, as well as the recommendation to test if urban areas are sinks affecting the broader black bear community and if conflicts result from widespread behaviours or are limited to certain “conflict bears”.

2. Any caveats worth bringing up here? For example, there was the assumption that EVI

indicates forage availability. Is it possible for there to be human-bear conflicts that go

unreported and so the conflicts / year metric used may have some error?

Yes, to clarify our assumption the EVI indicated forage availability and crop ripeness, we edited Line 550-553 to read: “If our assumption that higher EVI indicates forage availability and crop ripeness is correct, as has been shown in other studies [12,38,39], Sooke bears may be selecting for…”

We also agree it is important to emphasize that conflict is reported with uncertainty and have included text in Line 565-570: “Conflict reports themselves are a sample of all the conflict that occurs, and thus contain error as some conflict goes unreported. However, community demographics have been found to have limited influence on the chance of reporting conflicts, and conflicts relating to safety or property damage (which encompass many human-black bear conflicts) are more likely to be reported [18]. We therefore assumed that sampling of conflicts across Sooke was not systematically biased.”

### Line by line comments

Line 530: You used ecological trap earlier.

We edited “sink” to “trap” [Line 587].

## Tables & figures

### Top-level thoughts

1. The axis text on many of the figures is a very light gray, I'd suggest replacing with black to

make it easier to read.

The axis text is in black, but in some cases the axis label is in a larger font and bolded, so the axis text may appear lighter in comparison. We have increased the font size for the axis text on figures 3-5 to make them clearer.

2. You could increase the line width for the 95% CI's on figure 3&4, plus the mean estimate

on figure 5.

We have doubled the width of the 95% confidence interval lines for Figures 3 and 4, as well as for the mean estimates in Figure 5.

Additional Edits

We have updated the author affiliation for co-author Melissa Todd on Line 15.

Line 132 citation changed from “[British Columbia Conservation Officer Service, unpublished data]” to “[18]” as the results were previously published in Klees van Bommel et al. 2020.

We edited Line 158-164 to clarify the findings of black bear hunting data, from “Vancouver Island, British Columbia, Canada, is home to black bears living at high densities near urban areas. While recent bear population estimates for Vancouver Island are not available, high bear abundance is indicated by some of the highest hunter harvesting rates in the province, increasing from 300 to 700 bears per year since the 1980s with no change in hunter success [23]. The municipality of Sooke, on the southern tip of Vancouver Island, British Columbia, Canada,...” to “Vancouver Island, BC, Canada, is home to black bears living at high densities near urban areas. Recent bear population estimates for Vancouver Island are not available, however high bear abundance is indicated by some of the highest average annual harvest densities across BC during the past ten years (up to 25 bears/100 km2) [23]. The municipality of Sooke, on the southern tip of Vancouver Island,…”

We have further edited our explanations of EVI in a couple locations for improved clarity. Firstly, in Line 262-263 we specified that EVI is a proxy for fruit abundance as greenness peaks at the same time: “EVI has been used as a proxy for fruit abundance (grapes, Vitis spp.) in rural areas as ripeness peaks at the same time as greenness [39].” Secondly, we added “...as a proxy for food and cover.” to Line 293.

We also clarified that we didn’t include counts of conflict in our “conflict” habitat use model like we did in our “anthropogenic” model because we wanted to test if the same predictors from Klees van Bommel et al. 2020 were also the best fit for these data in Line 290-292: “...using the same predictors as Klees van Bommel et al. [18] used to model regional-scale on human-black bear conflict in the same study area, but applied to the local camera scale…”

To clarify why spring is not shown in Fig 4, we added text to the Methods in Line 337-338: “Seasons were modelled as a factor, with spring used as the intercept.”

We added a note that the scale at which we extracted variables may have contributed to many variables having an insignificant impact on habitat use [Line 524-525]: “The lack of a similar effect in our study may have resulted from the 150 m buffer size we extracted our variables at, or…”

Finally, some of these edits were suggested by Garth Mowat who provided comments through our co-author Melissa Todd. We have thus included

Response to Map Copyright Question

1. Please note that PLOS ONE is unable to publish previously copyrighted maps or satellite images, or images created using proprietary data. For these reasons, we cannot publish images generated by software which copyrights their output (such as Google Maps, Street View, and Earth). In order to use these images in your submission, we require explicit permission from the copyright owner to publish the figures under the CC BY 4.0 license.

At this time, please kindly clarify the following regarding Figure 1:

a) Where did the authors obtain the maps, satellite images, basemaps, shapefiles, map data, etc. in Figure 1?

The map was created by author Joanna Klees van Bommel using ArcGIS Pro. The camera locations are data collected by author Joanna Klees van Bommel while setting the camera traps for the duration of the project. The land cover dataset which serves as a basemap and the Parks shapefile were obtained from CRD Regional Parks. The T’Sou-ke Nation Land shapefile was adapted from the “Aboriginal Lands of Canada Legislative Boundaries” dataset by the Government of Canada.

b) Please state whether the map/satellite images have been previously copyrighted to your knowledge.

The map was created by author Joanna Klees van Bommel using ArcGIS Pro. According to their website: “You do not need to obtain permission from Esri to include static maps, whether screen capture or printed, in academic publications, for personal use, or in most use cases that do not involve direct resale or commercial monetization of the map.” https://resources.esri.ca/education-and-research/how-to-cite-arcgis-maps-and-data

The camera locations are data collected by author Joanna Klees van Bommel while setting the camera traps for the duration of the project and are not copyrighted.

The land cover dataset and Parks shapefile were obtained from CRD Regional Parks and are not copyrighted.

The T’Sou-ke Nation Land shapefile was adapted from the “Aboriginal Lands of Canada Legislative Boundaries” dataset licenced under an Open Government Licence – Canada which allows for uses including to “Copy, modify, publish, translate, adapt, distribute or otherwise use the Information in any medium, mode or format for any lawful purpose.” https://open.canada.ca/en/open-government-licence-canada

c) If any of the map/satellite images have been previously copyrighted, we require specific consent from the copyright holder to publish these images in PLOS ONE, under the CC BY 4.0 license. To seek permission from the copyright owner to publish your map figures under the specific Creative Commons Attribution License (CCAL), CC BY 4.0, please contact them with the following text and PLOS ONE Request for Permission form (http://journals.plos.org/plosone/s/file?id=7c09/content-permission-form.pdf):

“I request permission for the open-access journal PLOS ONE to publish XXX under the Creative Commons Attribution License (CCAL) CC BY 4.0 (http://creativecommons.org/licenses/by/4.0/). Please be aware that this license allows unrestricted use and distribution, even commercially, by third parties. Please reply and provide explicit written permission to publish XXX under a CC BY license.”

Please upload the granted permission to the manuscript as an other file. In the figure caption of the copyrighted figure, please include the following text: “Republished from [ref] under a CC BY license, with permission from [name of publisher], original copyright [original copyright year].”

Not applicable.

Attachment

Submitted filename: Response to Reviewers.docx

Decision Letter 1

Bogdan Cristescu

7 Oct 2022

Coexistence or conflict: black bear habitat use along an urban-wildland gradient

PONE-D-22-12898R1

Dear Dr. Klees van Bommel,

We’re pleased to inform you that your manuscript has been judged scientifically suitable for publication and will be formally accepted for publication once it meets all outstanding technical requirements.

Within one week, you’ll receive an e-mail detailing the required amendments. When these have been addressed, you’ll receive a formal acceptance letter and your manuscript will be scheduled for publication.

An invoice for payment will follow shortly after the formal acceptance. To ensure an efficient process, please log into Editorial Manager at http://www.editorialmanager.com/pone/, click the 'Update My Information' link at the top of the page, and double check that your user information is up-to-date. If you have any billing related questions, please contact our Author Billing department directly at authorbilling@plos.org.

If your institution or institutions have a press office, please notify them about your upcoming paper to help maximize its impact. If they’ll be preparing press materials, please inform our press team as soon as possible -- no later than 48 hours after receiving the formal acceptance. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org.

Kind regards,

Bogdan Cristescu

Academic Editor

PLOS ONE

Additional Editor Comments:

The revisions helped improve clarity and strengthened the manuscript. Congratulations on your paper.

Acceptance letter

Bogdan Cristescu

18 Nov 2022

PONE-D-22-12898R1

Coexistence or conflict: black bear habitat use along an urban-wildland gradient

Dear Dr. Klees van Bommel:

I'm pleased to inform you that your manuscript has been deemed suitable for publication in PLOS ONE. Congratulations! Your manuscript is now with our production department.

If your institution or institutions have a press office, please let them know about your upcoming paper now to help maximize its impact. If they'll be preparing press materials, please inform our press team within the next 48 hours. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information please contact onepress@plos.org.

If we can help with anything else, please email us at plosone@plos.org.

Thank you for submitting your work to PLOS ONE and supporting open access.

Kind regards,

PLOS ONE Editorial Office Staff

on behalf of

Dr. Bogdan Cristescu

Academic Editor

PLOS ONE

Associated Data

    This section collects any data citations, data availability statements, or supplementary materials included in this article.

    Supplementary Materials

    S1 Table. Black bear habitat use predictor variables.

    Predictor variables used to model black bear habitat use in Sooke, Vancouver Island, Canada, between 2018–2019. Variables all derived within 150 m radius buffers around camera trap locations unless otherwise noted. Weighted buffers reduce the contribution of raster layer cells not fully within the circular buffer by the percent excluded.

    (DOCX)

    S2 Table. Mean values of black bear habitat use predictor variables.

    Mean values of predictor variables by strata used to model black bear habitat use in Sooke, Vancouver Island, Canada, between 2018–2019.

    (DOCX)

    S3 Table. Complete set of black bear habitat use candidate models.

    All candidate for black bear habitat use as measured by monthly camera trap detection rates, from 54 camera traps sampled in and around Sooke, BC, Canada from July 2018 –July 2019 using zero-inflated GLMMs. Evaluated predictor variables extracted from a 150m buffer around camera locations include HD = human density, RD = road density, EVI = enhanced vegetation index, DUrb = distance-to-urban, DAg = distance-to-agriculture, Con = conflict (500 m buffer), DW = distance-to-freshwater, Sal = salmon, Ele = elevation, and TD = trail density. All models also have site as a random effect and number of active days as an offset. Df is the degrees of freedom of the model, within ΔAICc is the difference in AICc scores from the top model within a set, between ΔAICc is the difference in top models between sets, Akaike weight is the relative likelihood of a model divided by the sum of those values across all models.

    (DOCX)

    S4 Table. Count of day vs. night black bear detections.

    Number of independent black bear detections in the day versus night at urban, rural, and wild camera trap sites (n = 548).

    (DOCX)

    S1 Fig. Graph of average monthly Enhanced Vegetation Index in urban, rural, and wild areas.

    Enhanced Vegetation Index (EVI) averaged within sampling strata (urban, rural, or wild) across 54 camera-trap sites in Sooke, BC, Canada sampled from July 2018–2019.

    (TIF)

    Attachment

    Submitted filename: PONE-D-22-12898_review.pdf

    Attachment

    Submitted filename: Response to Reviewers.docx

    Data Availability Statement

    The data are available from the Dryad database (https://doi.org/10.5061/dryad.nvx0k6dvf).


    Articles from PLOS ONE are provided here courtesy of PLOS

    RESOURCES