| Literature DB >> 31360521 |
Daniel M Palacios1, Helen Bailey2, Elizabeth A Becker3, Steven J Bograd4, Monica L DeAngelis5,6, Karin A Forney7,8, Elliott L Hazen9,10, Ladd M Irvine11, Bruce R Mate12.
Abstract
BACKGROUND: Species distribution models have shown that blue whales (Balaenoptera musculus) occur seasonally in high densities in the most biologically productive regions of the California Current Ecosystem (CCE). Satellite telemetry studies have additionally shown that blue whales in the CCE regularly switch between behavioral states consistent with area-restricted searching (ARS) and transiting, indicative of foraging in and moving among prey patches, respectively. However, the relationship between the environmental correlates that serve as a proxy of prey relative to blue whale movement behavior has not been quantitatively assessed.Entities:
Keywords: Balaenoptera musculus; Blue whale; California Current Ecosystem; Decadal variability; Foraging behavior; Movement behavior; Nonparametric multiplicative regression; Satellite telemetry; State-space models
Year: 2019 PMID: 31360521 PMCID: PMC6637557 DOI: 10.1186/s40462-019-0164-6
Source DB: PubMed Journal: Mov Ecol ISSN: 2051-3933 Impact factor: 3.600
Fig. 1Maps of the western coast of the USA on the Pacific Ocean showing a the bathymetry of the study area and the names of geographic places mentioned in the text (SCB = Southern California Bight) and b the final set of 1808 SSSM locations in the coastal upwelling environment of the CCE (depth ≤ 2000 m) belonging to 72 Argos-monitored tags deployed over the period 1998 to 2008 (July to November months only) colored by their behavioral mode classification (BMODE, the response variable used in all NPMR models). For completeness, locations from the full tracking data set occurring within the domain of the study are shown as hollow circles. Polygon with thick black outline is the EEZ boundary
Fig. 2Maps of the western coast of the USA on the Pacific Ocean showing the SSSM locations used in NPMR models for each of the years of the study (1998-2008; July to November months only; depth ≤ 2,000 m), colored by their behavioral mode classification (BMODE; blue circles = transiting, red circles = ARS). For each year, the number of whale tracks and the number of locations (total, transiting, and ARS) is given in the map key. Polygon with thick black outline is the EEZ boundary
Details of the environmental variables obtained from digital elevation models and from oceanographic remote sensing satellites for this study, including measurement unit, abbreviation used in the text, range, spatial and temporal resolution, product name, and source. A reference to the literature is provided for product documentation or variable derivation. The original sources of the products are also given
| Variable and unit | Abbrev. | Min. | Max. | Range | Spatial resolution | Temporal resolution | Product/sensora | Sourceb |
|---|---|---|---|---|---|---|---|---|
| Bottom depth (m) | DEPTH | 15.02 | 4669.20 | 4654.18 | 0.0083 deg | static | SRTM30_PLUS v.6.0 digital bathymetry. Reference: [ | UCSD/SIO [ |
| Bottom slope (m/km) | SLOPE | 2.39 | 296.13 | 293.74 | 0.0083 deg | static | Derived from bathymetry using a two-dimensional Sobel gradient operator. Reference: [ | UCSD/SIO [ |
| Bottom aspect (eastness; unitless) | EASTNESS | −0.998 | 0.824 | 1.822 | 0.0083 deg | static | Derived from bathymetry. Reference: [ | UCSD/SIO [ |
| Bottom aspect (northness; unitless) | NORTHNESS | −0.988 | 0.980 | 1.968 | 0.0083 deg | static | Derived from bathymetry. Reference: [ | UCSD/SIO [ |
| Distance to shelf break (200-m isobath) (km) | DISTSHELF | − 425.23 | 36.01 | 461.24 | 0.0333 deg | static | ETOPO2 v.2 g 2-min Gridded Global Relief Data Reference: [ | NOAA/NCEI [ |
| Sea surface height (cm) | SSH | 39.30 | 79.77 | 40.47 | 0.3333 deg | irregular (1–7 d) | Merged (Topex/Poseidon, ERS-1/−2, Geosat, GFO, Envisat, Jason-1/− 2). Reference: [ | CMEMS [ |
| Ekman upwelling (cm/s) | WEKM | − 1076.7 | 1415.0 | 2491.7 | 0.2500 deg | 8 d | Seawinds/QuikSCAT, Global Ekman Current Velocity and Ekman Upwelling. Derived from wind stress. Reference: [ | ERDDAP [ |
| Sea surface temperature (°C) | SST | 10.16 | 22.61 | 12.45 | 4.40 km | 5 d | AVHRR Pathfinder v. 5.2 (day and night) Reference: [ | NOAA/NCEI [ |
| Chlorophyll- | CHL | 0.05 | 7.60 | 7.55 | 4.63 km | 8 d | Merged (MERIS/MODIS/SeaWiFS/Polder; GSM product). Reference: [ | GlobColour Project [ |
aProducts not available through ERDDAP [61] were obtained directly from the source
bAbbreviations are defined in the text (see Abbreviations section)
Description of the NPMR models reported in this study for the building and validation sets, using locations with complete cases (no missing observations in any of the predictors). For each model, SU is the number of sample units in populated neighborhoods, N is the realized average neighborhood size, n is the realized minimum neighborhood size (0.25 × N), logB is the log likelihood ratio, B is the average contribution of a sample unit to logB. Additional measures of fit reported by HyperNiche include the cross-validated pseudo-R (xR), the Pearson correlation (r) between presence/absence response data and continuous estimate of probability, and the chi-square value (χ2) representing the deviance comparing the model to a naive model
| NPMR model | SU |
|
| Log |
|
|
| χ2 |
|---|---|---|---|---|---|---|---|---|
| Environmental | ||||||||
| Building | 1444 | 93.63 | 23.41 | 26.14 | 1.04 | 0.09 | 0.3 | 100.22 |
| Validation | 364 | 25.10 | 6.28 | 6.39 | 1.04 | 0.09 | 0.3 | 29.42 |
| Spatial | ||||||||
| Building | 1444 | 175.80 | 43.95 | 52.20 | 1.03 | 0.06 | 0.3 | 75.14 |
| Validation | 364 | 46.29 | 11.57 | 10.75 | 1.08 | 0.15 | 0.4 | 49.53 |
Characteristics of the predictors in the NPMR models reported in this study for the building (n = 1444) and validation (n = 364) sets. Note that the validation step used the tolerance of the predictors from the building step, while the sensitivity was computed for each model
| Environmental Predictors | Spatial Predictors | |||||
|---|---|---|---|---|---|---|
| CHL | SST | DEPTH | EAST. | LONG. | LATI. | |
| Building | ||||||
| Minimum | 0.05 | 10.56 | 18.57 | −1.00 | − 126.00 | 31.24 |
| Maximum | 7.60 | 22.61 | 1990.90 | 0.82 | −117.41 | 48.17 |
| Range | 7.55 | 12.05 | 1972.30 | 1.82 | 8.60 | 16.93 |
| Tolerancea | 0.30 | 1.20 | 571.98 | 0.33 | 0.26 | 1.02 |
| Tol. (%)b | 4.0 | 10.0 | 29.0 | 18.0 | 3.0 | 6.0 |
| Sensitivityc | 0.71 | 0.24 | 0.07 | 0.12 | 1.21 | 0.32 |
| Validation | ||||||
| Minimum | 0.11 | 10.16 | 17.97 | −0.98 | −124.89 | 31.41 |
| Maximum | 5.54 | 21.54 | 1997.60 | 0.67 | −117.60 | 45.72 |
| Range | 5.42 | 11.38 | 1979.60 | 1.65 | 7.29 | 14.31 |
| Tolerancea | 0.30 | 1.20 | 571.98 | 0.33 | 0.26 | 1.02 |
| Tol. (%)b | 5.6 | 10.6 | 28.9 | 19.8 | 3.5 | 7.1 |
| Sensitivityc | 0.78 | 0.58 | 0.07 | 0.14 | 2.02 | 0.74 |
aTolerance is the span covered by one standard deviation of the Gaussian weighting function, reported in the original scale of the predictor
bFor comparison among predictors, tolerance is also divided by the range of the predictor and expressed as a percentage
cSensitivity is the mean absolute difference resulting from nudging the predictors, expressed as a proportion of the range of the response variable
Fig. 3The functional responses of likelihood of ARS to a CHL, b SST, c EASTNESS, and d DEPTH in the environmental NPMR model (fitted blue curves). Also shown are the model estimates at each location (red points), and the 5th and 95th percentile variability bands obtained through 100 bootstrap samples (gray points)
Confusion matrix for the binary conversion of the likelihood of ARS estimated by the environmental NPMR model for the building (n = 1444) and validation sets (n = 364), using the cutoff value that maximized the true skill statistic (TSSmax). FPR is the false positive rate, FNR is the false negative rate, TPR is the true positive rate, and TNR is the true negative rate. The second part of the table reports a set of performance metrics for this binary conversion, including prevalence, accuracy, precision, the area under the receiver operating characteristic curve (AUC, range: 0 to 1 with larger numbers indicating a better fit), the root-mean square error (RMSE, range: 0 to infinity with smaller numbers indicating a better fit), and the Brier score (range: 0 to 1 with lower scores indicating a better calibration of the predictions)
| Confusion matrix: | ||||
| Predictions | Classification error | |||
| Absence | Presence | |||
| Observations in the building set | Absence | 149 | 77 | 0.34 (FPR) |
| Presence | 401 | 665 | 0.38 (FNR) | |
| Observations in the validation set | Absence | 17 | 47 | 0.73 (FPR) |
| Presence | 12 | 112 | 0.09 (FNR) | |
| Performance metrics: | ||||
| Building set | Validation set | |||
| TSSmax | 0.28 | 0.18 | ||
| Cutoff | 0.84 | 0.61 | ||
| Observed prevalencea | 0.83 | 0.66 | ||
| Predicted prevalencea | 0.57 | 0.85 | ||
| TNR (1-FPR) | 0.66 | 0.27 | ||
| TPR (1-FNR) | 0.63 | 0.91 | ||
| Accuracyb | 0.63 | 0.69 | ||
| Precisionc | 0.90 | 0.70 | ||
| AUC | 0.69 | 0.57 | ||
| RMSE | 0.36 | 0.47 | ||
| Brier scored | 0.13 | 0.22 | ||
aPrevalence is estimated as: presences/total
bAccuracy is estimated as: (true positives + true negatives)/(obs. Presences + obs. absences)
cPrecision is estimated as: true positives/(true positives + false positives)
dThe Brier score is computed as the mean of the squared residuals
Fig. 4Maps of the western coast of the USA on the Pacific Ocean showing the spatial distribution of a 1444 SSSM locations used for model building, corresponding to tracks collected during years of positive NPGO phase (1998-2004 and 2007-2008), colored by the likelihood (lkhd) of ARS estimated by the environmental NPMR model, and b the corresponding classification error relative to the observations in (a). Panels (c) and (d) show the same results for the 364 SSSM locations in the validation set, which was collected during years of negative NPGO phase (2005 and 2006). TP = true positives, TN = true negatives, FP = false positives, FN = false negatives. Polygon with thick black outline is the EEZ boundary
Confusion matrix for the binary conversion of the likelihood of ARS estimated by the spatial coordinates NPMR model for the building (n = 1444) and validation sets (n = 364), using the cutoff value that maximized the true skill statistic (TSSmax). FPR is the false positive rate, FNR is the false negative rate, TPR is the true positive rate, and TNR is the true negative rate. The second part of the table reports a set of performance metrics for this binary conversion, including prevalence, accuracy, precision, the area under the receiver operating characteristic curve (AUC, range: 0 to 1 with larger numbers indicating a better fit), the root-mean square error (RMSE, range: 0 to infinity with smaller numbers indicating a better fit), and the Brier score (range: 0 to 1 with lower scores indicating a better calibration of the predictions)
| Confusion matrix: | ||||
| Predictions | Classification error | |||
| Absence | Presence | |||
| Observations in the building set | Absence | 113 | 45 | 0.28 (FPR) |
| Presence | 404 | 696 | 0.37 (FNR) | |
| Observations in the validation set | Absence | 83 | 39 | 0.32 (FPR) |
| Presence | 59 | 146 | 0.29 (FNR) | |
| Performance metrics: | ||||
| Building set | Validation set | |||
| TSSmax | 0.35 | 0.40 | ||
| Cutoff | 0.90 | 0.65 | ||
| Observed prevalencea | 0.87 | 0.63 | ||
| Predicted prevalencea | 0.59 | 0.57 | ||
| TNR (1-FPR) | 0.71 | 0.68 | ||
| TPR (1-FNR) | 0.63 | 0.71 | ||
| Accuracyb | 0.64 | 0.70 | ||
| Precisionc | 0.94 | 0.79 | ||
| AUC | 0.71 | 0.72 | ||
| RMSE | 0.32 | 0.45 | ||
| Brier scored | 0.10 | 0.20 | ||
aPrevalence is estimated as: presences/total
bAccuracy is estimated as: (true positives + true negatives)/(obs. Presences + obs. absences)
cPrecision is estimated as: true positives/(true positives + false positives)
dThe Brier score is computed as the mean of the squared residuals
Fig. 5Maps of the western coast of the USA on the Pacific Ocean showing the spatial distribution of a 1444 SSSM locations used for model building, corresponding to tracks collected during years of positive NPGO phase (1998–2004 and 2007–2008), colored by their estimated likelihood (lkhd) of ARS by the spatial coordinates (longitude × latitude) NPMR model, and b the corresponding classification error relative to the observations in (a). Panels (c) and (d) show the same results for the 364 SSSM locations in the validation set, which was collected during years of negative NPGO phase (2005 and 2006). TP = true positives, TN = true negatives, FP = false positives, FN = false negatives. Polygon with thick black outline is the EEZ boundary
Fig. 6Sample variograms of neighborhood size and likelihood of ARS for NPMR models based on spatial coordinates (red line) and environmental predictors (blue line) for the building set (a and c) and the validation set (b and d)