| Literature DB >> 31632648 |
Cathleen Balantic1, Therese Donovan2.
Abstract
Acoustic recordings of the environment can produce species presence-absence data for characterizing populations of sound-producing wildlife over multiple spatial scales. If a species is present at a site but does not vocalize during a scheduled audio recording survey, researchers may incorrectly conclude that the species is absent ("false negative"). The risk of false negatives is compounded when audio devices have sampling constraints, do not record continuously, and must be manually scheduled to operate at pre-selected times of day, particularly when research programs target multiple species with acoustic availability that varies across temporal conditions.We developed a temporally adaptive acoustic sampling algorithm to maximize detection probabilities for a suite of focal species amid sampling constraints. The algorithm combines user-supplied species vocalization models with site-specific weather forecasts to set an optimized sampling schedule for the following day. To test our algorithm, we simulated hourly vocalization probabilities for a suite of focal species in a hypothetical monitoring area for the year 2016. We conducted a factorial experiment that sampled from the 2016 acoustic environment to compare the probability of acoustic detection by a fixed (stationary) schedule versus a temporally adaptive optimized schedule under several sampling efforts and monitoring durations.We found that over the course of a study season, the probability of acoustically capturing a focal species (given presence) at least once via automated acoustic monitoring was greater (and acoustic capture occurred earlier in the season) when using the temporally adaptive optimized schedule as compared to a fixed schedule.The advantages of a temporally adaptive optimized acoustic sampling schedule are magnified when a study duration is short, sampling effort is low, and/or species acoustic availability is minimal. This methodology presents the opportunity to maximize acoustic monitoring sampling efforts amid constraints.Entities:
Keywords: adaptive sampling; automated acoustic monitoring; bioacoustics; detection probability; occupancy; optimization; wildlife
Year: 2019 PMID: 31632648 PMCID: PMC6787958 DOI: 10.1002/ece3.5579
Source DB: PubMed Journal: Ecol Evol ISSN: 2045-7758 Impact factor: 2.912
Figure 1Objective 1 Workflow for an optimized temporally adaptive sampling algorithm subject to species prioritization and sampling constraints
Summary of nine focal species used for simulation
| Species | Species code | Phylogenetic class | Vocal availability throughout day | Vocal availability throughout year | Believed rarity of vocalizations, given presence | Resident or migratory | Native vs. Invasive |
|---|---|---|---|---|---|---|---|
| Black‐tailed Gnatcatcher | BTGN | Bird | Diurnal | Spring peak | Common | Resident | Native |
| Common Poorwill | COPO | Bird | Nocturnal | Spring peak | Common | Resident | Native |
| Couch's Spadefoot | TOAD | Amphibian | Nocturnal | Late summer/fall only | Rare | Resident | Native |
| Coyote | COYOTE | Mammal | Nocturnal | Peak at equinoxes | Uncommon | Resident | Native Invasive |
| Eurasian Collared‐Dove | ECDO | Bird | Diurnal | Spring peak | Common | Resident | Invasive |
| Gambel's Quail | GAQU | Bird | Diurnal | Spring peak | Common | Resident | Native |
| Lesser Nighthawk | LENI | Bird | Nocturnal | Spring peak | Uncommon | Migratory | Native |
| Phainopepla | PHAI | Bird | Diurnal | Spring peak | Common | Migratory | Native |
| Verdin | VERD | Bird | Diurnal | Spring peak | Common | Resident | Native |
Logistic regression models for nine focal species, each producing the hourly probability of vocalization
| Species | Model |
|---|---|
| Black‐tailed Gnatcatcher (BTGN) | −0.3 − 0.002* |
| Common Poorwill (COPO) | −1.5 − 0.003* |
| Couch's Spadefoot (TOAD) | −8 − 1*cos( |
| Coyote (COYOTE) | −3 − 0.5*cos( |
| Eurasian Collared‐Dove (ECDO) | −1.4 + 1*sin( |
| Gambel's Quail (GAQU) | −1.2 − 0.002* |
| Lesser Nighthawk (LENI) | −2 – 0.006* |
| Phainopepla (PHAI) | −2.2 – 0.00001* |
| Verdin (VERD) | −0.5 – 0.004* |
Covariates: day.of.year = integer of the day of the year, from 1 to 366; day.of.year = integer of the day of the equinox period, from 1 to 183; hour = integer of the hour of the day, on a 24‐hour scale; hour = integer of the hour of the day, on a 12‐hour scale; time.to.sunrise = real number denoting absolute value of the time from sunrise, in minutes; time.to.sunset = real number denoting absolute value of the time from sunset, in minutes; temperature = real number denoting the temperature in degrees Celsius; wind.speed = real number denoting the wind speed in kilometers per hour; lunar.phase = fractional part of the lunation number, ranging from 0 (new moon), 0.25 (first quarter moon), 0.5 (full moon), to 0.75 (last quarter moon), with ranges in between representing waxing or waning crescent or gibbous moons (Dark Sky, 2017); rain.accumulation.in.past.24.hours = amount of rain accumulated in the past 24 hr, in millimeters.
Figure 2Visual demonstration of species logistic regression vocalization models. Species codes and regression models are given in Table 2. The probability of vocalization (p v), given presence, is graphed as a function of key weather and temporal covariates to display vocalization characteristics across species. Because covariates are graphed separately, intercepts of zero are used for visual demonstration purposes
Monitoring priority weights for focal species at 133 sites, used for the Full Year (a) and March Only (b) study durations
| Species | Site | ||||||
|---|---|---|---|---|---|---|---|
| 1 | 2 | 3 | … | 131 | 132 | 133 | |
| (a) | |||||||
| Black‐tailed Gnatcatcher (BTGN) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Common Poorwill (COPO) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Couch's Spadefoot (TOAD) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Coyote (COYOTE) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Eurasian Collared‐Dove (ECDO) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Gambel's Quail (GAQU) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Lesser Nighthawk (LENI) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Phainopepla (PHAI) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Verdin (VERD) | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 | 0.11 |
| Sum | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 |
| (b) | |||||||
| Black‐tailed Gnatcatcher (BTGN) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Common Poorwill (COPO) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Coyote (COYOTE) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Eurasian Collared‐Dove (ECDO) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Gambel's Quail (GAQU) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Lesser Nighthawk (LENI) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Phainopepla (PHAI) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Verdin (VERD) | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 | 0.13 |
| Sum | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 |
Fixed sampling schedules used on the 24‐hour clock at each sampling effort (S = 2, 5, 10, 20, 30, or 40 min), applied to both the March Only and Full Year study durations
| Number of samples | Fixed schedule |
|---|---|
| 2 | 08:00:00, 23:00:00 |
| 5 | 02:00:00, 05:00:00, 06:00:00, 08:00:00, 23:00:00 |
| 10 | 00:00:00, 01:00:00, 02:00:00, 06:00:00, 06:30:00, 07:00:00, 07:30:00, 08:00:00, 22:00:00, 23:00:00 |
| 20 | 00:00:00, 01:00:00, 02:00:00, 03:00:00, 04:00:00, 05:00:00, 05:30:00, 06:00:00, 06:30:00, 07:00:00, 07:30:00, 08:00:00, 18:00:00, 18:30:00, 19:00:00, 19:30:00, 22:00:00, 22:30:00, 23:00:00, 23:30:00 |
| 30 | 00:00:00, 01:00:00, 01:30:00, 02:00:00, 02:30:00, 03:00:00, 03:30:00, 04:00:00, 04:30:00, 05:00:00, 05:30:00, 06:00:00, 06:30:00, 07:00:00, 07:30:00, 08:00:00, 08:30:00, 09:00:00, 09:30:00, 10:00:00, 17:00:00, 17:30:00, 18:00:00, 18:30:00, 19:00:00, 19:30:00, 22:00:00, 22:30:00, 23:00:00, 23:30:00 |
| 40 | 00:00:00, 00:30:00, 01:00:00, 01:30:00, 02:00:00, 02:30:00, 03:00:00, 03:30:00, 04:00:00, 04:30:00, 05:00:00, 05:30:00, 05:45:00, 06:00:00, 06:15:00, 06:30:00, 06:45:00, 07:00:00, 07:15:00, 07:30:00, 07:45:00, 08:00:00, 08:15:00, 08:30:00, 08:45:00, 09:00:00, 09:30:00, 10:00:00, 17:00:00, 17:30:00, 18:00:00, 18:15:00, 18:30:00, 18:45:00, 19:00:00, 19:30:00, 22:00:00, 22:30:00, 23:00:00, 23:30:00 |
Summary statistics for weather and temporal covariates across the simulation study area in 2016
| Month | Temperature (°C) | 24‐hour Rain accumulation (mm) | Wind speed (km/hr) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Avg. | Min. | Max. |
| Avg. | Min. | Max. |
| Avg. | Min. | Max. |
| |
| January | 12.3 | 1.9 | 27.0 | 3.1 | 0.60 | 0.00 | 11.22 | 1.70 | 8.2 | 0.0 | 49.0 | 5.9 |
| February | 17.7 | 1.1 | 31.0 | 4.5 | 0.05 | 0.00 | 3.89 | 0.28 | 9.9 | 0.0 | 36.7 | 6.0 |
| March | 20.0 | 6.7 | 33.9 | 4.0 | 0.04 | 0.00 | 2.02 | 0.14 | 10.5 | 0.0 | 55.7 | 7.0 |
| April | 22.5 | 10.6 | 36.0 | 3.7 | 0.30 | 0.00 | 4.56 | 0.75 | 11.0 | 0.0 | 50.8 | 7.5 |
| May | 25.1 | 13.1 | 38.5 | 3.8 | 0.05 | 0.00 | 1.21 | 0.17 | 10.1 | 0.0 | 38.7 | 5.9 |
| June | 33.2 | 19.9 | 48.8 | 4.1 | 0.01 | 0.00 | 1.09 | 0.05 | 10.5 | 0.1 | 35.3 | 5.3 |
| July | 34.9 | 22.4 | 45.7 | 3.5 | 0.10 | 0.00 | 2.91 | 0.33 | 11.6 | 0.0 | 47.3 | 5.3 |
| August | 33.9 | 22.0 | 45.5 | 3.3 | 0.07 | 0.00 | 1.74 | 0.17 | 9.2 | 0.0 | 39.7 | 5.1 |
| September | 28.9 | 16.0 | 42.3 | 3.7 | 0.19 | 0.00 | 6.34 | 0.79 | 9.1 | 0.0 | 35.4 | 5.7 |
| October | 25.0 | 14.8 | 36.3 | 3.5 | 0.07 | 0.00 | 2.83 | 0.37 | 8.1 | 0.0 | 34.4 | 4.8 |
| November | 18.3 | 3.6 | 33.5 | 4.2 | 0.09 | 0.00 | 3.21 | 0.31 | 8.4 | 0.0 | 34.8 | 5.3 |
| December | 12.8 | 1.3 | 25.6 | 3.1 | 1.22 | 0.00 | 22.32 | 3.44 | 9.5 | 0.0 | 44.8 | 6.9 |
Monthly summaries convey conditions in March as compared with the Full Year variation. Summaries include the average (Avg.), minimum (Min.), maximum (Max.), and standard deviation (SD) for each covariate.
Begin daylight saving time.
End daylight saving time.
Figure 3Vocalization Simulation Results. Average probability of vocalization in a given hour across all hours and sites for each focal species during both the March Only and Full Year study durations. Species codes are provided in Table 1. Standard deviation error bars reveal wide variation in vocalization probabilities contingent on weather and temporal conditions
Figure 4Factorial experiment results. p* and p * max charts are given for all focal species at six sampling efforts (S = 2, 5, 10, 20, 30, or 40 1‐min samples) for the Full Year (a) and March Only (b) study durations. Species codes are provided in Table 1. Lines track cumulative p* values for both the fixed and optimized schedule treatments. Total area under the cumulative p* curve (AUC) values are given for both treatments within each box. Where applicable, the date of first p * max achievement is denoted by a single solid point on the line
| Species | Optimized | Fixed | Difference (days) | Effort |
|---|---|---|---|---|
| Date | ||||
| BTGN | 12/27/2016 | – | – | 2 |
| ECDO | 5/24/2016 | – | – | 2 |
| GAQU | 5/12/2016 | – | – | 2 |
| PHAI | 4/27/2016 | – | – | 2 |
| VERD | 5/16/2016 | – | – | 2 |
| BTGN | 4/7/2016 | 5/22/2016 | −45.5 | 5 |
| COPO | 7/7/2016 | – | – | 5 |
| ECDO | 3/1/2016 | 4/22/2016 | −51.5 | 5 |
| GAQU | 2/26/2016 | 4/10/2016 | −43.8 | 5 |
| PHAI | 2/18/2016 | 3/28/2016 | −38.7 | 5 |
| VERD | 2/25/2016 | 4/8/2016 | −42.4 | 5 |
| BTGN | 2/17/2016 | 3/20/2016 | −31.6 | 10 |
| COPO | 3/7/2016 | 4/8/2016 | −32.5 | 10 |
| ECDO | 1/31/2016 | 3/7/2016 | −35.7 | 10 |
| GAQU | 1/29/2016 | 3/1/2016 | −32.3 | 10 |
| PHAI | 1/25/2016 | 2/23/2016 | −28.7 | 10 |
| VERD | 1/28/2016 | 2/28/2016 | −30.7 | 10 |
| BTGN | 1/23/2016 | 2/25/2016 | −33.3 | 20 |
| COPO | 2/3/2016 | 2/13/2016 | −10.8 | 20 |
| COYOTE | 10/2/2016 | 9/28/2016 |
| 20 |
| ECDO | 1/17/2016 | 2/13/2016 | −27.2 | 20 |
| GAQU | 1/16/2016 | 2/8/2016 | −23.4 | 20 |
| LENI | 3/25/2016 | 9/19/2016 | −178.9 | 20 |
| PHAI | 1/14/2016 | 1/31/2016 | −17.3 | 20 |
| VERD | 1/15/2016 | 2/6/2016 | −22.7 | 20 |
| BTGN | 1/16/2016 | 2/9/2016 | −23.9 | 30 |
| COPO | 1/23/2016 | 1/31/2016 | −7.5 | 30 |
| COYOTE | 5/26/2016 | 8/3/2016 | −68.8 | 30 |
| ECDO | 1/12/2016 | 2/2/2016 | −21.4 | 30 |
| GAQU | 1/11/2016 | 1/29/2016 | −18.1 | 30 |
| LENI | 2/26/2016 | 4/12/2016 | −46.6 | 30 |
| PHAI | 1/10/2016 | 1/24/2016 | −14.8 | 30 |
| TOAD | 11/1/2016 | – | – | 30 |
| VERD | 1/10/2016 | 1/27/2016 | −16.3 | 30 |
| BTGN | 1/15/2016 | 1/25/2016 | −10.1 | 40 |
| COPO | 1/19/2016 | 1/24/2016 | −5.1 | 40 |
| COYOTE | 4/8/2016 | 5/8/2016 | −30.0 | 40 |
| ECDO | 1/10/2016 | 1/21/2016 | −11.3 | 40 |
| GAQU | 1/9/2016 | 1/19/2016 | −10.5 | 40 |
| LENI | 2/14/2016 | 3/9/2016 | −24.2 | 40 |
| PHAI | 1/8/2016 | 1/17/2016 | −9.3 | 40 |
| TOAD | 9/24/2016 | – | – | 40 |
| VERD | 1/8/2016 | 1/18/2016 | −9.4 | 40 |
| Summary statistics for difference in days (Full Year) | |||||
|---|---|---|---|---|---|
| Min. | 1st Qu. | Median | Mean | 3rd Qu. | Max |
| −178.9 | −34.5 | −24.2 | −30.0 | −13.1 | 4.4 |
| Species | Optimized | Fixed | Difference (days) | Effort |
|---|---|---|---|---|
| Date | ||||
| No species achieved | ||||
| BTGN | 3/30/2016 | – | – | 10 |
| ECDO | 3/27/2016 | – | – | 10 |
| GAQU | 3/23/2016 | – | – | 10 |
| PHAI | 3/28/2016 | – | – | 10 |
| VERD | 3/25/2016 | – | – | 20 |
| BTGN | 3/18/2016 | – | – | 20 |
| COPO | 3/14/2016 | 3/31/2016 | −16.8 | 20 |
| ECDO | 3/12/2016 | 3/25/2016 | −13.2 | 20 |
| GAQU | 3/16/2016 | – | – | 20 |
| PHAI | 3/14/2016 | 3/30/2016 | −16.0 | 30 |
| VERD | 3/24/2016 | – | – | 30 |
| BTGN | 3/10/2016 | 3/26/2016 | −15.5 | 30 |
| COPO | 3/10/2016 | 3/22/2016 | −12.3 | 30 |
| ECDO | 3/9/2016 | 3/18/2016 | −9.2 | 30 |
| GAQU | 3/10/2016 | 3/23/2016 | −13.9 | 30 |
| PHAI | 3/11/2016 | 3/20/2016 | −9.0 | 40 |
| VERD | 3/19/2016 | 3/27/2016 | −8.1 | 40 |
| BTGN | 3/8/2016 | 3/17/2016 | −8.3 | 40 |
| COPO | 3/8/2016 | 3/15/2016 | −7.1 | 40 |
| COYOTE | 3/7/2016 | 3/12/2016 | −5.1 | 40 |
| ECDO | 3/8/2016 | 3/16/2016 | −7.9 | 40 |
| Summary statistics for difference in days (March Only) | |||||
|---|---|---|---|---|---|
| Min. | 1st Qu. | Median | Mean | 3rd Qu. | Max |
| −16.8 | −13.9 | −9.2 | −11.0 | −8.0 | −5.1 |