Near-Infrared Spectroscopy as a Tool for Marine Mammal Research and Care

Developments in wearable human medical and sports health trackers has offered new solutions to challenges encountered by eco-physiologists attempting to measure physiological attributes in freely moving animals. Near-infrared spectroscopy (NIRS) is one such solution that has potential as a powerful physio-logging tool to assess physiology in freely moving animals. NIRS is a non-invasive optics-based technology, that uses non-ionizing radiation to illuminate biological tissue and measures changes in oxygenated and deoxygenated hemoglobin concentrations inside tissues such as skin, muscle, and the brain. The overall footprint of the device is small enough to be deployed in wearable physio-logging devices. We show that changes in hemoglobin concentration can be recorded from bottlenose dolphins and gray seals with signal quality comparable to that achieved in human recordings. We further discuss functionality, benefits, and limitations of NIRS as a standard tool for animal care and wildlife tracking for the marine mammal research community.

Selective Inner Hair Cell Loss in a Neonate Harbor Seal (Phoca vitulina)

Congenital hearing loss is recognized in humans and other terrestrial species. However, there is a lack of information on its prevalence or pathophysiology in pinnipeds. It is important to have baseline knowledge on marine mammal malformations in the inner ear, to differentiate between congenital and acquired abnormalities, which may be caused by infectious pathogens, age, or anthropogenic interactions, such as noise exposure. Ultrastructural evaluation of the cochlea of a neonate harbor seal (Phoca vitulina) by scanning electron microscopy revealed bilateral loss of inner hair cells with intact outer hair cells. The selective inner hair cell loss was more severe in the basal turn, where high-frequency sounds are encoded. The loss of inner hair cells started around 40% away from the apex or tip of the spiral, reaching a maximum loss of 84.6% of hair cells at 80–85% of the length from the apex. Potential etiologies and consequences are discussed. This is believed to be the first case report of selective inner hair cell loss in a marine mammal neonate, likely congenital.

Detection and tracking of belugas, kayaks and motorized boats in drone video using deep learning

Aerial imagery surveys are commonly used in marine mammal research to determine population size, distribution and habitat use. Analysis of aerial photos involves hours of manually identifying individuals present in each image and converting raw counts into useable biological statistics. Our research proposes the use of deep learning algorithms to increase the efficiency of the marine mammal research workflow. To test the feasibility of this proposal, the existing YOLOv4 convolutional neural network model was trained to detect belugas, kayaks and motorized boats in oblique drone imagery, collected from a stationary tethered system. Automated computer-based object detection achieved the following precision and recall, respectively, for each class: beluga = 74%/72%; boat = 97%/99%; and kayak = 96%/96%. We then tested the performance of computer vision tracking of belugas and manned watercraft in drone videos using the DeepSORT tracking algorithm, which achieved a multiple-object tracking accuracy (MOTA) ranging from 37% – 88% and multiple object tracking precision (MOTP) between 63% – 86%. Results from this research indicate that deep learning technology can detect and track features more consistently than human annotators, allowing for larger datasets to be processed within a fraction of the time while avoiding discrepancies introduced by labeling fatigue or multiple human annotators.

Evaluating Strategies for Managing Anthropogenic Mortality on Marine Mammals: An R Implementation With the Package RLA

Bycatch, the undesirable and non-intentional catch of non-target species in marine fisheries, is one of the main causes of mortality of marine mammals worldwide. When quantitative conservation objectives and management goals are clearly defined, computer-based procedures can be used to explore likely population dynamics under different management scenarios and estimate the levels of anthropogenic removals, including bycatch, that marine mammal populations may withstand. Two control rules for setting removal limits are the Potential Biological Removal (PBR) established under the US Marine Mammal Protection Act and the Removals Limit Algorithm (RLA) inspired from the Catch Limit Algorithm (CLA) developed under the Revised Management Procedure of the International Whaling Commission. The PBR and RLA control rules were tested in a Management Strategy Evaluation (MSE) framework. A key feature of PBR and RLA is to ensure conservation objectives are met in the face of the multiple uncertainties or biases that plague real-world data on marine mammals. We built a package named RLA in the R software to carry out MSE of control rules to set removal limits in marine mammal conservation. The package functionalities are illustrated by two case studies carried out under the auspices of the Oslo and Paris convention (OSPAR) (the Convention for the Protection of the Marine Environment of the North-East Atlantic) Marine Mammal Expert Group (OMMEG) in the context of the EU Marine Strategy Framework Directive. The first case study sought to tune the PBR control rule to the conservation objective of restoring, with a probability of 0.8, a cetacean population to 80% of carrying capacity after 100 years. The second case study sought to further develop a RLA to set removals limit on harbor porpoises in the North Sea with the same conservation objective as in the first case study. Estimation of the removals limit under the RLA control rule was carried out within the Bayesian paradigm. Outputs from the functions implemented in the package RLA allows the assessment of user-defined performance metrics, such as time to reach a given fraction of carrying capacity under a given level of removals compared to the time needed given no removals.

Examining the Role of Marine Mammals and Seabirds in Southeast Alaska’s Marine Ecosystem Dynamics

Primary producers are the foundation of marine food webs and require reliable nutrient sources to maintain their important role with ecosystems. While marine mammals and seabirds can play critical roles in marine nutrient cycling, their contributions are often overlooked. Southeast Alaska’s marine environment supports abundant marine mammal and seabird populations in addition to valuable fisheries. Nonetheless, there is still relatively little known about nutrient sources and fluxes in this region which is a critical component of fisheries management. The goal of our study was to advance knowledge of the role of mammals and seabirds in marine nutrient cycling and to understand how changing marine mammal and seabird populations may alter ecosystem dynamics. We utilized qualitative network models (QNMs) to examine how a simulated Southeast Alaska ecosystem would respond to an increase in marine mammals, seabirds, and nutrients. Researchers are increasingly utilizing QNMs as a first step in the development of ecosystem-based fisheries management plans as their adaptable nature is well suited to address rapidly changing climatic conditions. Our results indicate that marine mammals and seabirds make important contributions to marine nutrient concentrations in the region and that these valuable ecosystem services should not be overlooked.

The Contribution of Kurī (Polynesian Dog) to the Ecological Impacts of the Human Settlement of Aotearoa New Zealand

The pre-human Aotearoa New Zealand fauna was dominated by avian and reptilian species. Prior to first human settlement by East Polynesian colonists, the top predators were two giant raptorial birds. Aside from humans themselves, colonisation also resulted in the simultaneous introduction of two novel mammalian predators into this naive ecosystem, the kiore (Pacific rat) and kurī (Polynesian dog). While the ecological impacts of kiore are relatively well understood, those of kurī are difficult to assess, and as such kurī have frequently been disregarded as having any meaningful impact on New Zealand’s biodiversity. Here we use the archaeological and palaeoecological record to reassess the potential impacts of kurī on this ecosystem. We argue that far from being confined to villages, kurī could have had a significant widespread but relatively localised impact on New Zealand’s avian, reptilian and marine mammal (seals and sea lions) fauna as a novel predator of medium-sized species. In this way, kurī potentially amplified the already significant impacts of Polynesian colonists and their descendants on New Zealand’s ecosystem, prior to European arrival. As such, kurī should be included in models of human impact in addition to over-hunting, environmental modification and predation by kiore.