Closing the air gap: the use of drones for studying wildlife ecophysiology

Techniques for non-invasive sampling of ecophysiological data in wild animals have been developed in response to challenges associated with studying captive animals or using invasive methods. Of these, drones, also known as Unoccupied Aerial Vehicles (UAVs), and their associated sensors, have emerged as a promising tool in the ecophysiology toolkit. In this review, we synthesise research in a scoping review on the use of drones for studying wildlife ecophysiology using the PRISMA-SCr checklist and identify where efforts have been focused and where knowledge gaps remain. We use these results to explore current best practices and challenges and provide recommendations for future use. In 136 studies published since 2010, drones aided studies on wild animal body condition and morphometrics, kinematics and biomechanics, bioenergetics, and wildlife health (e.g. microbiomes, endocrinology, and disease) in both aquatic and terrestrial environments. Focal taxa are biased towards marine mammals, particularly cetaceans. While conducted globally, research is primarily led by institutions based in North America, Oceania, and Europe. The use of drones to obtain body condition and morphometric data through standard colour sensors and single camera photogrammetry predominates. Techniques such as video tracking and thermal imaging have also allowed insights into other aspects of wildlife ecophysiology, particularly when combined with external sampling techniques such as biologgers. While most studies have used commercially available multirotor platforms and standard colour sensors, the modification of drones to collect samples, and integration with external sampling techniques, have allowed multidisciplinary studies to integrate a suite of remote sensing methods more fully. We outline how technological advances for drones will play a key role in the delivery of both novel and improved wildlife ecophysiological data. We recommend that researchers prepare for the influx of drone-assisted advancements in wildlife ecophysiology through multidisciplinary and cross-institutional collaborations. We describe best practices to diversify across species and environments and use current data sources and technologies for more comprehensive results.

A geometric morphometric approach for detecting different reproductive stages of a free-ranging killer whale Orcinus orca population

The expansion of drone-based aerial imagery has facilitated an increase in data obtained from free-ranging marine mammal populations, in particular cetacean species. This non-invasive approach allows for body condition assessments, including nutritional and reproductive health. Yet, existing methods of image analysis are time-consuming and lack the granularity to determine early-stage pregnancies and miscarriage rates. In this study, we leveraged a four-year dataset of drone-based aerial imagery paired with known reproductive statuses (i.e., non-pregnant, early-stage pregnant, late-stage pregnant, and lactating) for killer whales (Orcinus orca) to develop a geometric morphometric-based protocol for detecting reproductive status. We demonstrate the significant separation of resulting shapefiles related to reproductive status between all statuses apart from lactating. This approach reliably detects early-stage pregnancy and highlights the morphological locations of major shape changes during the lactation period. We illustrate the applicability of our geometric morphometric protocol for rapid, robust determination of reproductive status in a free-ranging cetacean species. This work helps to satisfy the need for universal tools for non-invasively gleaning population demographic data from free-ranging cetaceans especially of populations which are experiencing prey-related reproductive failures, to understand miscarriage rates and trigger subsequential conservation actions.

Respiratory Intervals and Swimming Speed as Remotely Sensed Health Metrics in Free-Ranging Killer Whales (Orcinus orca )

Respiratory rate (mean number of breaths per minute) and respiratory interval (mean time between breaths) can offer insight into a diving mammal's activity state, metabolic rate, behavior, and synchronization due to social cohesion. Also, respiratory rate can reflect an individual animal's health and has the potential to be an informative remotely assessed health metric for monitoring individual animal health in endangered whale species and populations such as southern resident killer whales (Orcinus orca). Using data collected from noninvasive, land-based theodolite tracking, we analyzed swimming speed and surfacing intervals (i.e., mean dive time or mean time between breaths) from 20,613 surfacings of 98 individuals from two populations of the fish-eating, resident killer whale ecotype, namely, one growing (northern resident) and one declining and endangered (southern resident) population. Focal animal sampling was used to measure behavior of individuals of known age and sex in various activity states. Our objective was to evaluate variability and generate normal ranges for respiratory intervals and swimming speeds for killer whales of the Northeast Pacific Ocean resident, fish-eating ecotype to identify baseline respiratory intervals. We found that median respiratory intervals for fish-eating killer whales were between 26 and 29 s for all activity states and that swimming speeds varied by activity state. Median swimming speeds were similar for foraging and traveling (1.6 and 1.7 m/s, respectively), but were significantly slower during resting (1.1 m/s) and social activity (1.3 m/s) states. Three southern resident killer whales in poor body condition (had body condition scores in the lowest 20th percentile of the population) swam at reduced speeds and had shorter median respiratory intervals than outwardly healthy whales of similar age and sex. Respiratory rates, respiratory intervals, and swimming speeds are valuable remotely sensed metrics of health for free-swimming killer whales, especially when combined with other metrics as is the standard in veterinary examinations.

Behavioural responses of common dolphins to naval sonar

Despite strong interest in how noise affects marine mammals, little is known for the most abundant and commonly exposed taxa. Social delphinids occur in groups of hundreds of individuals that travel quickly, change behaviour ephemerally and are not amenable to conventional tagging methods, posing challenges in quantifying noise impacts. We integrated drone-based photogrammetry, strategically placed acoustic recorders and broad-scale visual observations to provide complementary measurements of different aspects of behaviour for short- and long-beaked common dolphins. We measured behavioural responses during controlled exposure experiments (CEEs) of military mid-frequency (3-4 kHz) active sonar (MFAS) using simulated and actual Navy sonar sources. We used latent-state Bayesian models to evaluate response probability and persistence in exposure and post-exposure phases. Changes in subgroup movement and aggregation parameters were commonly detected during different phases of MFAS CEEs but not control CEEs. Responses were more evident in short-beaked common dolphins (n = 14 CEEs), and a direct relationship between response probability and received level was observed. Long-beaked common dolphins (n = 20) showed less consistent responses, although contextual differences may have limited which movement responses could be detected. These are the first experimental behavioural response data for these abundant dolphins to directly inform impact assessments for military sonars.

Males miss and females forgo: Auditory masking from vessel noise impairs foraging efficiency and success in killer whales

Understanding how the environment mediates an organism's ability to meet basic survival requirements is a fundamental goal of ecology. Vessel noise is a global threat to marine ecosystems and is increasing in intensity and spatiotemporal extent due to growth in shipping coupled with physical changes to ocean soundscapes from ocean warming and acidification. Odontocetes rely on biosonar to forage, yet determining the consequences of vessel noise on foraging has been limited by the challenges of observing underwater foraging outcomes and measuring noise levels received by individuals. To address these challenges, we leveraged a unique acoustic and movement dataset from 25 animal-borne biologging tags temporarily attached to individuals from two populations of fish-eating killer whales (Orcinus orca) in highly transited coastal waters to (1) test for the effects of vessel noise on foraging behaviors-searching (slow-click echolocation), pursuit (buzzes), and capture and (2) investigate the mechanism of interference. For every 1 dB increase in maximum noise level, there was a 4% increase in the odds of searching for prey by both sexes, a 58% decrease in the odds of pursuit by females and a 12.5% decrease in the odds of prey capture by both sexes. Moreover, all but one deep (≥75 m) foraging attempt with noise ≥110 dB re 1 μPa (15-45 kHz band; n = 6 dives by n = 4 whales) resulted in failed prey capture. These responses are consistent with an auditory masking mechanism. Our findings demonstrate the effects of vessel noise across multiple phases of odontocete foraging, underscoring the importance of managing anthropogenic inputs into soundscapes to achieve conservation objectives for acoustically sensitive species. While the timescales for recovering depleted prey species may span decades, these findings suggest that complementary actions to reduce ocean noise in the short term offer a critical pathway for recovering odontocete foraging opportunities.

Spatial and seasonal foraging patterns drive diet differences among north Pacific resident killer whale populations

Highly social top marine predators, including many cetaceans, exhibit culturally learned ecological behaviours such as diet preference and foraging strategy that can affect their resilience to competition or anthropogenic impacts. When these species are also endangered, conservation efforts require management strategies based on a comprehensive understanding of the variability in these behaviours. In the northeast Pacific Ocean, three partially sympatric populations of resident killer whales occupy coastal ecosystems from California to Alaska. One population (southern resident killer whales) is endangered, while another (southern Alaska resident killer whales) has exhibited positive abundance trends for the last several decades. Using 185 faecal samples collected from both populations between 2011 and 2021, we compare variability in diet preference to provide insight into differences in foraging patterns that may be linked with the relative success and decline of these populations. We find broad similarities in the diet of the two populations, with differences arising from spatiotemporal and social variability in resource use patterns, especially in the timing of shifts between target prey species. The results described here highlight the importance of comprehensive longitudinal monitoring of foraging ecology to inform management strategies for endangered, highly social top marine predators.

Modeling ocean distributions and abundances of natural- and hatchery-origin Chinook salmon stocks with integrated genetic and tagging data

Background

Considerable resources are spent to track fish movement in marine environments, often with the intent of estimating behavior, distribution, and abundance. Resulting data from these monitoring efforts, including tagging studies and genetic sampling, often can be siloed. For Pacific salmon in the Northeast Pacific Ocean, predominant data sources for fish monitoring are coded wire tags (CWTs) and genetic stock identification (GSI). Despite their complementary strengths and weaknesses in coverage and information content, the two data streams rarely have been integrated to inform Pacific salmon biology and management. Joint, or integrated, models can combine and contextualize multiple data sources in a single statistical framework to produce more robust estimates of fish populations.

Methods

We introduce and fit a comprehensive joint model that integrates data from CWT recoveries and GSI sampling to inform the marine life history of Chinook salmon stocks at spatial and temporal scales relevant to ongoing fisheries management efforts. In a departure from similar models based primarily on CWT recoveries, modeled stocks in the new framework encompass both hatchery- and natural-origin fish. We specifically model the spatial distribution and marine abundance of four distinct stocks with spawning locations in California and southern Oregon, one of which is listed under the U.S. Endangered Species Act.

Results

Using the joint model, we generated the most comprehensive estimates of marine distribution to date for all modeled Chinook salmon stocks, including historically data poor and low abundance stocks. Estimated marine distributions from the joint model were broadly similar to estimates from a simpler, CWT-only model but did suggest some differences in distribution in select seasons. Model output also included novel stock-, year-, and season-specific estimates of marine abundance. We observed and partially addressed several challenges in model convergence with the use of supplemental data sources and model constraints; similar difficulties are not unexpected with integrated modeling. We identify several options for improved data collection that could address issues in convergence and increase confidence in model estimates of abundance. We expect these model advances and results provide management-relevant biological insights, with the potential to inform future mixed-stock fisheries management efforts, as well as a foundation for more expansive and comprehensive analyses to follow.

A Review of Circumpolar Arctic Marine Mammal Health-A Call to Action in a Time of Rapid Environmental Change

The impacts of climate change on the health of marine mammals are increasingly being recognised. Given the rapid rate of environmental change in the Arctic, the potential ramifications on the health of marine mammals in this region are a particular concern. There are eleven endemic Arctic marine mammal species (AMMs) comprising three cetaceans, seven pinnipeds, and the polar bear (Ursus maritimus). All of these species are dependent on sea ice for survival, particularly those requiring ice for breeding. As air and water temperatures increase, additional species previously non-resident in Arctic waters are extending their ranges northward, leading to greater species overlaps and a concomitant increased risk of disease transmission. In this study, we review the literature documenting disease presence in Arctic marine mammals to understand the current causes of morbidity and mortality in these species and forecast future disease issues. Our review highlights potential pathogen occurrence in a changing Arctic environment, discussing surveillance methods for 35 specific pathogens, identifying risk factors associated with these diseases, as well as making recommendations for future monitoring for emerging pathogens. Several of the pathogens discussed have the potential to cause unusual mortality events in AMMs. Brucella, morbillivirus, influenza A virus, and Toxoplasma gondii are all of concern, particularly with the relative naivety of the immune systems of endemic Arctic species. There is a clear need for increased surveillance to understand baseline disease levels and address the gravity of the predicted impacts of climate change on marine mammal species.

2018-2022 Southern Resident killer whale presence in the Salish Sea: continued shifts in habitat usage

The fish-eating Southern Resident killer whales (Orcinus orca) of the northeastern Pacific are listed as Endangered in both the USA and Canada. The inland waters of Washington State and British Columbia, a region known as the Salish Sea, are designated as Southern Resident critical habitat by both countries. The whales have historically had regular monthly presence in the Salish Sea, with peak abundance occurring from May through September. In recent years, at least partially in response to shifting prey abundance, habitat usage by the Southern Residents has changed. As conservation measures aim to provide the best possible protection for the whales in their hopeful recovery, it is key that policies are based both on historic trends and current data. To this aim, our study shares 2018-2022 daily occurrence data to build upon and compare to previously published whale presence numbers and to demonstrate more recent habitat shifts. Based on reports from an extensive network of community scientists as well as online streaming hydrophones, every Southern Resident occurrence was confirmed either visually or acoustically. Documented here are the first-ever total absence of the Southern Residents in the Salish Sea in the months of May, June, and August, as well as their continued overall declining presence in the spring and summer, while fall and winter presence remains relatively high. It is key that management efforts consider these shifting presence patterns when setting both seasonal and regional protection measures aimed at supporting population recovery.

Epidemiology of skin changes in endangered Southern Resident killer whales (Orcinus orca)

Photographic identification catalogs of individual killer whales (Orcinus orca) over time provide a tool for remote health assessment. We retrospectively examined digital photographs of Southern Resident killer whales in the Salish Sea to characterize skin changes and to determine if they could be an indicator of individual, pod, or population health. Using photographs collected from 2004 through 2016 from 18,697 individual whale sightings, we identified six lesions (cephalopod, erosions, gray patches, gray targets, orange on gray, and pinpoint black discoloration). Of 141 whales that were alive at some point during the study, 99% had photographic evidence of skin lesions. Using a multivariate model including age, sex, pod, and matriline across time, the point prevalence of the two most prevalent lesions, gray patches and gray targets, varied between pods and between years and showed small differences between stage classes. Despite minor differences, we document a strong increase in point prevalence of both lesion types in all three pods from 2004 through 2016. The health significance of this is not clear, but the possible relationship between these lesions and decreasing body condition and immunocompetence in an endangered, non-recovering population is a concern. Understanding the etiology and pathogenesis of these lesions is important to better understand the health significance of these skin changes that are increasing in prevalence.

Costly lifetime maternal investment in killer whales

Parents often sacrifice their own future reproductive success to boost the survival of their offspring, a phenomenon referred to as parental investment. In several social mammals, mothers continue to improve the survival of their offspring well into adulthood;^1,2,3,4,5 however, whether this extended care comes at a reproductive costs to mothers, and therefore represents maternal investment, is not well understood. We tested whether lifetime maternal care is a form of parental investment in fish-eating "resident" killer whales. Adult killer whales, particularly males, are known to receive survival benefits from their mothers;³ however, whether this comes at a cost to mothers' reproductive success is not known. Using multiple decades of complete census data from the "southern resident" population, we found a strong negative correlation between females' number of surviving weaned sons and their annual probability of producing a viable calf. This negative effect did not attenuate as sons grew older, and the cost of sons could not be explained by long-term costs of lactation or group composition effects, supporting the hypothesis that caring for adult sons is reproductively costly. This is the first direct evidence of lifetime maternal investment in an iteroparous animal, revealing a previously unknown life history strategy.

Key questions in marine mammal bioenergetics

Bioenergetic approaches are increasingly used to understand how marine mammal populations could be affected by a changing and disturbed aquatic environment. There remain considerable gaps in our knowledge of marine mammal bioenergetics, which hinder the application of bioenergetic studies to inform policy decisions. We conducted a priority-setting exercise to identify high-priority unanswered questions in marine mammal bioenergetics, with an emphasis on questions relevant to conservation and management. Electronic communication and a virtual workshop were used to solicit and collate potential research questions from the marine mammal bioenergetic community. From a final list of 39 questions, 11 were identified as 'key' questions because they received votes from at least 50% of survey participants. Key questions included those related to energy intake (prey landscapes, exposure to human activities) and expenditure (field metabolic rate, exposure to human activities, lactation, time-activity budgets), energy allocation priorities, metrics of body condition and relationships with survival and reproductive success and extrapolation of data from one species to another. Existing tools to address key questions include labelled water, animal-borne sensors, mark-resight data from long-term research programs, environmental DNA and unmanned vehicles. Further validation of existing approaches and development of new methodologies are needed to comprehensively address some key questions, particularly for cetaceans. The identification of these key questions can provide a guiding framework to set research priorities, which ultimately may yield more accurate information to inform policies and better conserve marine mammal populations.

Foreword to the Special Issue on ‘The rapidly expanding role of drones as a tool for wildlife research’

Drones have emerged as a popular wildlife research tool, but their use for many species and environments remains untested and research is needed on validation of sampling approaches that are optimised for unpiloted aircraft. Here, we present a foreword to a special issue that features studies pushing the taxonomic and innovation boundaries of drone research and thus helps address these knowledge and application gaps. We then conclude by highlighting future drone research ideas that are likely to push biology and conservation in exciting new directions.