Phocoena Phocoena Research Articles

Harbour Porpoise Bycatch: Determining Spatial Distribution of Risk to Inform Management Measures

Harbour Porpoise Bycatch: Determining Spatial Distribution of Risk to Inform Management Measures

Using eDNA to Supplement Population Genetic Analyses for Cryptic Marine Species: Identifying Population Boundaries for Alaska Harbour Porpoises.

Isolation by distance and biogeographical boundaries define patterns of population genetic structure for harbour porpoise along the Pacific coast from California to British Columbia. Until recently, inadequate sample sizes in many regions constrained efforts to characterise population genetic structure throughout the coastal waters of Alaska. Here, tissue samples from beachcast strandings and fisheries bycatch were supplemented with targeted environmental DNA (eDNA) samples in key regions of Alaska coastal and inland waters. Using a geographically explicit, hierarchical approach, we examined the genetic structure of Alaska harbour porpoises, using both mitochondrial DNA (mtDNA) sequence data and multilocus SNP genotypes. Despite a lack of evidence of genetic differentiation from nuclear SNP loci, patterns of relatedness and genetic differentiation from mtDNA suggest natal philopatry at multiple geographic scales, with limited gene flow among sites possibly mediated by male dispersal. A priori clustering of sampled areas at an intermediate scale (eastern and western Bering Sea, Gulf of Alaska and Southeast Alaska) best explained the genetic variance (12.37%) among regions. In addition, mtDNA differentiation between the Gulf of Alaska and eastern Bering Sea, and among regions within the Gulf of Alaska, indicated significant genetic structuring of harbour porpoise populations in Southeast Alaska. The targeted collection of eDNA samples from strata within Southeast Alaska was key for elevating the statistical power of our mtDNA dataset, and findings indicate limited dispersal between neighbouring strata within coastal and inland waters. These results provide evidence supporting a population boundary within the currently recognised Southeast Alaska Stock. Together, these findings will prove useful for ongoing management efforts to reduce fisheries conflict and conserve genetic diversity in this iconic coastal species.

Cancer Prevalence across Vertebrates.

Cancer is pervasive across multicellular species, but what explains the differences in cancer prevalence across species? Using 16,049 necropsy records for 292 species spanning three clades of tetrapods (amphibians, sauropsids, and mammals), we found that neoplasia and malignancy prevalence increases with adult mass (contrary to Peto's paradox) and somatic mutation rate but decreases with gestation time. The relationship between adult mass and malignancy prevalence was only apparent when we controlled for gestation time. Evolution of cancer susceptibility appears to have undergone sudden shifts followed by stabilizing selection. Outliers for neoplasia prevalence include the common porpoise (<1.3%), the Rodrigues fruit bat (<1.6%), the black-footed penguin (<0.4%), ferrets (63%), and opossums (35%). Discovering why some species have particularly high or low levels of cancer may lead to a better understanding of cancer syndromes and novel strategies for the management and prevention of cancer. Significance: Evolution has discovered mechanisms for suppressing cancer in a wide variety of species. By analyzing veterinary necropsy records, we can identify species with exceptionally high or low cancer prevalence. Discovering the mechanisms of cancer susceptibility and resistance may help improve cancer prevention and explain cancer syndromes.

Temporary Hearing Threshold Shift and Testing the Equal-Energy Hypothesis in a Harbor Porpoise (Phocoena phocoena) After Exposure to a Continuous Noise Band at 8 kHz, and a Revised TTS-Onset Function

Temporary Hearing Threshold Shift and Testing the Equal-Energy Hypothesis in a Harbor Porpoise (Phocoena phocoena) After Exposure to a Continuous Noise Band at 8 kHz, and a Revised TTS-Onset Function

Harbor porpoise displacement by a solitary bottlenose dolphin in the Baltic Sea

Harbor porpoise displacement by a solitary bottlenose dolphin in the Baltic Sea

A matter of scale: Identifying the best spatial and temporal scale of environmental variables to model the distribution of a small cetacean.

The importance of scale when investigating ecological patterns and processes is recognised across many species. In marine ecosystems, the processes that drive species distribution have a hierarchical structure over multiple nested spatial and temporal scales. Hence, multi-scale approaches should be considered when developing accurate distribution models to identify key habitats, particularly for populations of conservation concern. Here, we propose a modelling procedure to identify the best spatial and temporal scale for each modelled and remotely sensed oceanographic variable to model harbour porpoise (Phocoena phocoena) distribution within the Irish Exclusive Economic Zone. Harbour porpoise sightings were recorded during dedicated line-transect aerial surveys conducted in the summers of 2016, 2021 and 2022. Binary generalised additive models were used to assess the relationships between porpoise presence and oceanographic variables at different spatial (5-40 km) and temporal (daily, monthly and across survey period) scales. Selected variables included sea surface temperature, thermal fronts, chlorophyll-a, sea surface height, mixed layer depth and salinity. A total of 30,514 km was covered on-effort with 216 harbour porpoise sightings recorded. Overall, the best spatial scale corresponded to the coarsest resolution considered in this study (40 km), while porpoise presence showed stronger association with oceanographic variables summarised at a longer temporal scale. Habitat models including covariates at coarse spatial and temporal scales may better reflect the processes driving availability and abundance of resources at these large scales. These findings support the hypothesis that a multi-scale approach should be applied when investigating species distribution. Identifying suitable spatial and temporal scale would improve the functional interpretation of the underlying relationships, particularly when studying how a small marine predator interacts with its environment and responds to climate and ecosystem changes.

Harbour porpoises respond to recreational boats by speeding up and moving away from the boat path.

Recreational boats are common in many coastal waters, yet their effects on cetaceans and other sensitive marine species remain poorly understood. To address this knowledge gap, we used drone video footage recorded from a recreational boat to quantify how harbour porpoises (Phocoena phocoena) responded to the boat approaching at different speeds (10 or 20 knots). Furthermore, we used a hydrophone to record boat noise levels at full bandwidth (0.1-150 kHz) and at the 1/3 octave 16 kHz frequency band for both experimental speeds. The experiments were carried out in shallow waters near Funen, Denmark (55.51° N, 10.79° E) between July and September 2022. Porpoises were more likely to move further away from the path of the boat when approached at 10 knots, but not when approached at 20 knots. In contrast, they swam faster when approached at 20 knots, but not when approached at 10 knots. The recorded received sound level did not depend on how fast the boat approached, suggesting that differences in porpoise responses were related to the speed of the approaching boat rather than to sound intensity. In addition, porpoises generally reacted within close proximity (<200 m) to the approaching boat and quickly (<50 s) resumed their natural behaviour once the boat had passed, indicating that the direct impact of small vessels on porpoise behaviour was most likely small. Nevertheless, repeated exposure to noise from small vessels may influence porpoises' activity or energy budget, and cause them to relocate from disturbed areas. The approach used in this study increases our understanding of recreational boats' impact on harbour porpoises and can be used to inform efficient mitigation measures to help focus conservation efforts.

Harbour porpoise (Phocoena phocoena) in the Wadden Sea World Heritage Site and requirements for trilateral monitoring

The harbour porpoise (Phocoena phocoena) is considered part of the ‘Outstanding Universal Value’ characterising the Wadden Sea World Heritage Site (WS WHS). The Trilateral Wadden Sea Plan aims to preserve the conservation status of the Trilateral Wadden Sea Cooperation Area, encompassing the WS WHS. The plan has specified two conservation targets for the harbour porpoise: (1) viable stocks and a natural reproduction capacity and (2) conservation of habitat quality for its conservation. To assess the current occurrence of the harbour porpoise in the Wadden Sea area, we collated and analysed data from regional and national research projects using telemetry, aerial surveys, strandings and passive acoustic monitoring, obtained over the years 1990–2020. The results illustrate that porpoises occur in both offshore and intertidal waters, showing seasonal movements and changes in local occurrence over time. Some porpoises displayed limited home ranges throughout the year, suggesting a possible residency for some of the animals using the Wadden Sea area. We also showed that methods, frequency and spatial coverage of monitoring activities vary among the countries Denmark, Germany and the Netherlands. We discuss the suitability of the different methods both regarding the challenges of monitoring in the complex Wadden Sea habitat as well as their ability to target the conservation aims of the WHS. We give several recommendations to assess the status of the species to meet the identified conservation aims.

Harbour porpoises respond to chronic acoustic deterrent device noise from aquaculture

Acoustic deterrent devices (ADDs) are used globally by the aquaculture industry to attempt to reduce pinniped depredation. However, noise from ADDs sited in areas used by cetaceans may lead to changes in cetacean behaviour and displacement from habitats impacting conservation status. Here, we investigate whether ADD noise from aquaculture within a habitat reduces acoustic detections of harbour porpoises, indicating either displacement or changes in echolocation activity. Nine years (2011–2019) of boat-based acoustic line-transect data for harbour porpoises were collected across the west coast of Scotland together with ADD presence and perceived loudness recorded by volunteers at regular listening stations along each transect. The most intense ADD noise coincided with significantly fewer harbour porpoise detections than in areas with no ADD noise. This corresponded with an estimated displacement of 34 % of the total undisturbed population, assuming that there was no change in echolocation behaviour. Furthermore, significant responses occurred at estimated received sound levels from ADDs >108 dB re 1 μPa RMS (frequency weighted for harbour porpoises). These findings suggest porpoises are either displaced from habitats degraded by intense ADD noise and/or echolocate less. In Scotland, ADD use in aquaculture has required a license since 2021. Limiting licensing, and monitoring ADD use by aquaculture should be considered by conservation managers globally, particularly in areas used by acoustically sensitive protected species. Non-acoustic (and non-lethal) measures to mitigate pinniped depredation on aquaculture sites are available and should be encouraged.

Investigation of Spatiotemporal Patterns of Harbour Porpoise (Phocoena phocoena) Strandings in Swedish Waters for Improved Monitoring and Management

Harbour porpoises (Phocoena phocoena) are the only cetacean residents found year-round in Swedish waters and they are exposed to numerous natural and anthropogenic threats. Since the in situ monitoring of cetaceans can be difficult, invasive and often expensive, investigation of stranding patterns and examination of stranded animals can be used as a cost-effective source of data to study these elusive animals. The aim of this study was to investigate the spatiotemporal patterns of harbour porpoise stranding reports and the possible underlying causes in Swedish waters over a ten-year period (2014–2023). Additionally, the Swedish stranding network plays a key role in the collection of stranded carcasses for health and disease surveillance, and geographic coverage of the network also was analysed. When making spatial comparisons, the ten-year period was divided into two five-year blocks. Data on 854 stranded harbour porpoises were analysed from the coasts of the Skagerrak, Kattegat, and Baltic Seas. Both significant spatial and temporal patterns could be identified. Strandings peaked in July through September and hotspots occurred along most of the Swedish west coast, with the most frequent hotspots located around Öresund and especially the area around the Kullen peninsula. The spatial patterns of strandings found in this study are consistent with data on porpoise abundance, prey abundance, and gillnet fisheries’ efforts. The latter is known to be one of the primary causes of porpoise mortality. Furthermore, the coverage of the Swedish stranding network increased between the two periods, likely reflecting an increased awareness of the carcass-based surveillance program, and gaps requiring network expansion efforts were identified. These results also provide baseline data to enable the continued monitoring of stranding trends, as changes may indicate changes in population distribution, size or mortality rates.

Acoustic monitoring of harbor porpoises in Hood Canal, WA: Efforts to improve detection of a highly cryptic cetacean

Harbor porpoises (Phocoena phocoena) are the smallest, most abundant cetaceans occurring within the waters of the US Navy’s Northwest Training and Testing Ranges. The ability to detect harbor porpoise and monitor their presence over time is essential to assessing potential impacts of Navy activities. This can be difficult due to their highly cryptic nature exhibited in their surface behavior (vessel avoidance) and acoustic repertoire (producing only high-frequency clicks). This presents significant challenges for both visual and acoustic (PAM) survey methods. Here, we discuss the Navy’s efforts to improve harbor porpoise monitoring capability using an automated acoustic detection system. We tested multiple detection algorithms and evaluated their performance in identifying and extracting harbor porpoise clicks from acoustic recordings collected in Hood Canal, WA. Using this detection data combined with data collected from concurrent visual surveys of Hood Canal, we explored how acoustic and visual methods may be used in concert to improve harbor porpoise monitoring. Hood Canal provides a unique opportunity to do this, as it is the only known US Navy range with a resident population of harbor porpoise. These efforts will also inform future behavioral response studies needed to measure the impact of Navy sounds to individual animals.

TDP-43 and Alzheimer's Disease Pathology in the Brain of a Harbor Porpoise Exposed to the Cyanobacterial Toxin BMAA.

Cetaceans are well-regarded as sentinels for toxin exposure. Emerging studies suggest that cetaceans can also develop neuropathological changes associated with neurodegenerative disease. The occurrence of neuropathology makes cetaceans an ideal species for examining the impact of marine toxins on the brain across the lifespan. Here, we describe TAR DNA-binding protein 43 (TDP-43) proteinopathy and Alzheimer's disease (AD) neuropathological changes in a beached harbor porpoise (Phocoena phocoena) that was exposed to a toxin produced by cyanobacteria called β-N-methylamino-L-alanine (BMAA). We found pathogenic TDP-43 cytoplasmic inclusions in neurons throughout the cerebral cortex, midbrain and brainstem. P62/sequestosome-1, responsible for the autophagy of misfolded proteins, was observed in the amygdala, hippocampus and frontal cortex. Genes implicated in AD and TDP-43 neuropathology such as APP and TARDBP were expressed in the brain. AD neuropathological changes such as amyloid-β plaques, neurofibrillary tangles, granulovacuolar degeneration and Hirano bodies were present in the hippocampus. These findings further support the development of progressive neurodegenerative disease in cetaceans and a potential causative link to cyanobacterial toxins. Climate change, nutrient pollution and industrial waste are increasing the frequency of harmful cyanobacterial blooms. Cyanotoxins like BMAA that are associated with neurodegenerative disease pose an increasing public health risk.

Distribution, abundance, and density of harbor porpoises in Hood Canal, Washington

AbstractHarbor porpoises (Phocoena phocoena) are the only cetaceans routinely sighted in Hood Canal, a narrow fjord that comprises the western edge of Puget Sound, Washington, USA. Harbor porpoises are sensitive to anthropogenic sounds, including noise from recreational and commercial vessel traffic, and the United States Navy, which conducts military training and testing within Hood Canal that can include underwater sound sources. This study was funded as part of the Navy monitoring program to assess potential impacts of naval activities on cetaceans. We conducted vessel‐based line‐transect surveys for harbor porpoises in Hood Canal in 2022–2023 to derive seasonal estimates of abundance and density. We carried out surveys over 37 days and surveyed the entire canal twice per season totaling 2,176 km of on‐effort track line. We recorded 809 on‐effort harbor porpoise groups and 1,385 individuals. Seasonal abundance estimates were lowest in winter (308 animals, 95% CI = 189–503) and gradually increased through spring and summer to a peak of 1,336 animals (95% CI = 826–2,160) in fall. Overall porpoise density was highest in central Hood Canal, an area that includes a designated United States Navy training range, though porpoise sightings were notably absent in a 21‐km2 area adjacent to the naval submarine base within this otherwise high‐density region. Though we collected only a single year of data, these results suggest that harbor porpoise abundance in Hood Canal increased significantly since it was last estimated (2013–2015). The notable seasonal fluctuation of harbor porpoise abundance suggests Hood Canal may host a larger percentage of the overall Washington Inland Waters stock during the fall season, raising important management considerations.

Harbor porpoise losing its edge: Genetic time series suggests a rapid population decline in Iberian waters over the last 30 years.

Impact of climate change is expected to be especially noticeable at the edges of a species' distribution, where they meet suboptimal habitat conditions. In Mauritania and Iberia, two genetically differentiated populations of harbor porpoises (Phocoena phocoena) form an ecotype adapted to local upwelling conditions and distinct from other ecotypes further north on the NE Atlantic continental shelf and in the Black Sea. By analyzing the evolution of mitochondrial genetic variation in the Iberian population between two temporal cohorts (1990-2002 vs. 2012-2015), we report a substantial decrease in genetic diversity. Phylogenetic analyses including neighboring populations identified two porpoises in southern Iberia carrying a divergent haplotype closely related to those from the Mauritanian population, yet forming a distinct lineage. This suggests that Iberian porpoises may not be as isolated as previously thought, indicating possible dispersion from Mauritania or an unknown population in between, but none from the northern ecotype. Demo-genetic scenario testing by approximate Bayesian computation showed that the rapid decline in the Iberian mitochondrial diversity was not simply due to the genetic drift of a small population, but models support instead a substantial decline in effective population size, possibly resulting from environmental stochasticity, prey depletion, or acute fishery bycatches. These results illustrate the value of genetics time series to inform demographic trends and emphasize the urgent need for conservation measures to ensure the viability of this small harbor porpoise population in Iberian waters.

Implications of porpoise echolocation and dive behaviour on passive acoustic monitoring.

Harbour porpoises are visually inconspicuous but highly soniferous echolocating marine predators that are regularly studied using passive acoustic monitoring (PAM). PAM can provide quality data on animal abundance, human impact, habitat use, and behaviour. The probability of detecting porpoise clicks within a given area (P̂) is a key metric when interpreting PAM data. Estimates of P̂ can be used to determine the number of clicks per porpoise encounter that may have been missed on a PAM device, which, in turn, allows for the calculation of abundance and ideally non-biased comparison of acoustic data between habitats and time periods. However, P̂ is influenced by several factors, including the behaviour of the vocalising animal. Here, the common implicit assumption that changes in animal behaviour have a negligible effect on P̂ between different monitoring stations or across time is tested. Using a simulation-based approach informed by acoustic biologging data from 22 tagged harbour porpoises, it is demonstrated that porpoise behavioural states can have significant (up to 3× difference) effects on P̂. Consequently, the behavioural state of the animals must be considered in analysis of animal abundance to avoid substantial over- or underestimation of the true abundance, habitat use, or effects of human disturbance.

Evolutionary history and seascape genomics of Harbour porpoises (Phocoena phocoena) across environmental gradients in the North Atlantic and adjacent waters.

The Harbour porpoise (Phocoena phocoena) is a highly mobile cetacean species primarily occurring in coastal and shelf waters across the Northern hemisphere. It inhabits heterogeneous seascapes broadly varying in salinity and temperature. Here, we produced 74 whole genomes at intermediate coverage to study Harbour porpoise's evolutionary history and investigate the role of local adaptation in the diversification into subspecies and populations. We identified ~6 million high quality SNPs sampled at eight localities across the North Atlantic and adjacent waters, which we used for population structure, demographic and genotype-environment association analyses. Our results suggest a genetic differentiation between three subspecies (P.p. relicta, P.p. phocoena and P.p. meridionalis), and three distinct populations within P.p. phocoena: Atlantic, Belt Sea and Proper Baltic Sea. Effective population size and Tajima's D suggest population contraction in Black Sea and Iberian porpoises, but expansion in the P.p. phocoena populations. Phylogenetic trees indicate post-glacial colonization from a southern refugium. Genotype-environment association analysis identified salinity as major driver in genomic variation and we identified candidate genes putatively underlying adaptation to different salinity. Our study highlights the value of whole genome resequencing to unravel subtle population structure in highly mobile species, shows how strong environmental gradients and local adaptation may lead to population differentiation, and how neutral and adaptive markers can give different perspectives on population subdivision. The results have great conservation implications as we found inbreeding and low genetic diversity in the endangered Black Sea subspecies and identified the critically endangered Proper Baltic Sea porpoises as a separate population.

Assessment of Harbour Porpoise Bycatch along the Portuguese and Galician Coast: Insights from Strandings over Two Decades.

The Iberian harbour porpoise population is small and fisheries bycatch has been described as one of its most important threats. Data on harbour porpoise strandings collected by the Portuguese and Galician stranding networks between 2000 and 2020 are indicative of a recent mortality increase in the western Iberian coast (particularly in northern Portugal). Overall, in Portugal and Galicia, individuals stranded due to confirmed fishery interaction represented 46.98% of all analysed porpoises, and individuals stranded due to probable fishery interaction represented another 10.99% of all analysed porpoises. Considering the Portuguese annual abundance estimates available between 2011 and 2015, it was possible to calculate that an annual average of 207 individuals was removed from the population in Portuguese waters alone, which largely surpasses the potential biological removal (PBR) estimates (22 porpoises, CI: 12-43) for the same period. These results are conservative and bycatch values from strandings are likely underestimated. A structured action plan accounting for new activities at sea is needed to limit the Iberian porpoise population decline. Meanwhile, there is an urgent need for a fishing effort reorganization to directly decrease porpoise mortality.

Harbor Porpoise Aggregations in the Salish Sea

Harbor porpoises are typically seen in small groups of 1–3 individuals, with aggregations of 20+ individuals treated as rare events. Since the 1990s, the harbor porpoise population in the Salish Sea has seen a significant recovery, and an increased number of observed aggregations that exceed the more usual small group sizes has been observed in recent years. By combining the observational data of United States and Canadian research organizations, community scientists, and whale watch captains or naturalists, we demonstrate that harbor porpoise aggregations appear to be more common than previously known, with 160 aggregations documented in 2022 alone. Behavioral data also indicate that foraging behaviors are common and social behaviors, like mating, are seen more often during these encounters compared to small groups. Other behaviors that are considered to be rare or unknown were also observed during these encounters, including cooperative foraging and vessel approach. These aggregations are likely important foraging and social gatherings for harbor porpoises. This holistic approach integrating data from two countries and multiple sources provides a population level assessment that more effectively reflects the behavior of harbor porpoises in this region, which do not recognize the socio-political boundaries imposed upon the natural world.

Hardly seen, often heard: acoustic presence of harbour porpoises (Phocoena phocoena) in one of the most urbanised estuaries in the world

The New York-New Jersey (NY-NJ) Harbour Estuary and surrounding waters support the largest port along the U.S. East Coast, commercial and recreational fishing, and a burgeoning offshore wind energy industry. Despite the high level of anthropogenic use, cetacean sightings have increased in recent years. Here, we investigated the spatiotemporal distribution of harbour porpoise in the NY-NJ Harbour Estuary from 2018–2020 using six archival acoustic recorders. Generalised additive mixed models were used to explore the relationship between weekly harbour porpoise presence and environmental variables. Harbour porpoises were detected at low levels year-round, with seasonal peaks in presence in winter to spring (February to June). Sea surface temperature and chlorophyll-a concentration were significant predictors of harbour porpoise presence, although the relationship warrants further investigation. Our results provide valuable insight into harbour porpoise distribution in the NY-NJ Harbour Estuary, which is likely related to oceanographic processes affecting prey availability. This information is timely for informing mitigation and management actions for forthcoming offshore wind energy development. Harbour porpoises are vulnerable to a range of anthropogenic impacts that have led to population declines in other regions, and therefore further research efforts are recommended for the NY-NJ Harbour Estuary and greater New York Bight.

Current knowledge of the cetacean fauna of the Greek Seas

From 1991-2002 data on the presence and distribution of cetaceans in the Greek Seas have been systematically collated in a database (821 sightings and 715 strandings). Data originated from dedicated surveys, stranding reports, opportunistic sightings and published or unpublished photographic and video documents. Twelve cetacean species have been recorded. Seven of them are permanently present and commonly observed in one or more of the Greek Seas: striped dolphin, common bottlenose dolphin, short-beaked common dolphin, Cuvier’s beaked whale, sperm whale, Risso’s dolphin and fin whale. In addition, the harbour porpoise is present locally in the Thracian and northern Aegean Seas. The humpback whale, false killer whale and common minke whale are occasional Mediterranean species that were sighted or stranded infrequently; the Sowerby’s beaked whale is an accidental species that was found floating dead only once. Five other species (white whale, Blainville’s beaked whale, long-finned pilot whale, killer whale, blue whale) have been erroneously included in the Greek cetacean fauna in the past due to wrong assumptions, false identifications or lack of supporting evidence. The occasional occurrence of pilot and killer whales in the Greek Seas should still be regarded as unconfirmed. The distributional range, stranding numbers and sighting frequencies of sperm whales, Cuvier’s beaked whales and short-beaked common dolphins in the Greek Seas indicate that their local ‘sub-populations’ are among the most important in the entire Mediterranean Sea. Harbour porpoises in the Thracian and northern Aegean Seas are important from a conservation perspective since this species does not inhabit any other part of the Mediterranean Sea.