Exploring movement patterns and changing distributions of baleen whales in the western North Atlantic using a decade of passive acoustic data

Planning conservation priority areas for marine mammals accounting for human impact, climate change and multidimensionality of biodiversity

Because of the crucial ecological status of marine mammals, identifying priority areas for these species could significantly contribute to achieving the 30 % ocean protection target set by the Kunming-Montreal Global Biodiversity Framework. However, comprehensive conservation priorities requires considering multiple biodiversity dimensions and the impacts of climate change and human activities, which are poorly considered. In this study, we first investigated the distribution patterns of species, functional, and phylogenetic diversity of marine mammals and analyzed their relationship with cumulative anthropogenic impacts and climate change. We then developed conservation plans in which conservation targets of each species were allocated according to their distinctiveness indices, and protection costs were set as cumulative anthropogenic impacts and future climate velocity. The results indicate that incorporating extinction probability into the calculation of distinctiveness indices affects species uniqueness rankings, highlighting the need to consider species threat levels in future conservation efforts. Negative correlations were found for marine mammal diversity with cumulative anthropogenic impacts and climate change, implying that these factors may have already influenced the biodiversity distribution. The results suggest that existing MPAs are exposed to high levels of cumulative human impacts and climate velocity, necessitating further assessment of their effectiveness. In contrast, the low-regret MPAs identified in this study face significantly lower cumulative human impacts and future climate velocity, presenting valuable opportunities for marine mammal conservation.

Passive acoustic monitoring of baleen whale seasonal presence across the New York Bight

The New York Bight is an ecologically and economically important marine region along the U.S. Atlantic Coast. Extensive assessments have characterized the habitats and biota in this ecosystem; however, most have focused on fishes, benthic habitats, and human impacts. To investigate the spatial and temporal occurrence of whales in this region, we conducted a three-year passive acoustic monitoring survey that documented the acoustic presence of five baleen whale species that occur within the New York Bight and are of conservation concern: North Atlantic right whales (Eubalaena glacialis), humpback whales (Megaptera novaeangliae), fin whales (Balaenoptera physalus), sei whales (Balaenoptera borealis), and blue whales (Balaenoptera musculus). Data were recorded with 14 bottom-mounted acoustic sensors across the continental shelf between 2017 and 2020. Right whales were detected across all seasons, with most detections in autumn closer to New York Harbor and spring detections at sites closer to the continental shelf edge. Humpbacks were detected during all months of the year with varying distribution of detections across the shelf. The year-round presence of right and humpback whales challenges previous hypotheses that this region is primarily a stopover location along their migration paths. Fin whales were detected at all sites on most days. Sei whales were detected primarily during the spring at offshore sites. Blue whales were detected in the winter at sites closer to the continental shelf edge, but were rare. These data improve our understanding of baleen whale seasonal occurrences in the New York Bight and can inform monitoring and mitigation efforts associated with the management and conservation of these species.

Assessing changing baleen whale distributions and reported incidents relative to vessel activity in the Northwest Atlantic

Baleen whales are among the largest marine megafauna, and while mostly well-protected from direct exploitation, they are increasingly affected by vessel traffic, interactions with fisheries, and climate change. Adverse interactions, notably vessel strikes and fishing gear entanglement, often result in distress, injury, or death for these animals. In Atlantic Canadian waters, such negative interactions or 'incidents' are consistently reported to marine animal response organizations but have not yet been analyzed relative to the spatial distribution of whales and vessels. Using a database of 483,003 whale sightings, 1,110 incident reports, and 82 million hours of maritime vessel activity, we conducted a spatiotemporal vulnerability analysis for all six baleen whale species occurring in the Northwest Atlantic Ocean by developing an ensemble of habitat-suitability models. The relative spatial risk of vessel-induced incidents was assessed for present (1985-2015) and projected near-future (2035-2055) distributions of baleen whales. Areas of high habitat suitability for multiple baleen whale species were intrinsically linked to sea surface temperature and salinity, with multispecies hotspots identified in the Bay of Fundy, Scotian Shelf, Laurentian Channel, Flemish Cap, and Gulf of St. Lawrence. Present-day model projections were independently evaluated using a separate database of acoustic detections and found to align well. Regions of high relative incident risk were projected close to densely inhabited regions, principal maritime routes, and major fishing grounds, in general coinciding with reported incident hotspots. While some high-risk regions already benefit from mitigation strategies aimed at protecting North Atlantic Right Whales, our analysis highlights the importance of considering risks to multiple species, both in the present day and under continued environmental change.

Evaluating drivers of recent large whale strandings on the East Coast of the United States

Anthropogenic stressors threaten large whales globally. Effective management requires an understanding of where, when, and why threats are occurring. Strandings data provide key information on geographic hotspots of risk and the relative importance of various threats. There is currently considerable public interest in the increased frequency of large whale strandings occurring along the US East Coast of the United States since 2016. Interest is accentuated due to a purported link with offshore wind energy development. We reviewed spatiotemporal patterns of strandings, mortalities, and serious injuries of humpback whales (Megaptera novaeangliae), the species most frequently involved, for which the US government has declared an "unusual mortality event" (UME). Our analysis highlights the role of vessel strikes, exacerbated by recent changes in humpback whale distribution and vessel traffic.  Humpback whales have expanded into new foraging grounds in recent years. Mortalities due to vessel strikes have increased significantly in these newly occupied regions, which show high vessel traffic that also increased markedly during the UME. Surface feeding and feeding in shallow waters may have been contributing factors. We found no evidence that offshore wind development contributed to strandings or mortalities. This work highlights the need to consider behavioral, ecological, and anthropogenic factors to determine the drivers of mortality and serious injury in large whales and to provide informed guidance to decision-makers.

Unraveling the Genetic Legacy of Commercial Whaling and Population Dynamics in Arctic Bowhead Whales and Narwhals

Assessing genetic structure and diversity in wildlife is particularly important in the context of climate change. The Arctic is rapidly warming, and endemic species must adapt quickly or face significant threats to persistence. Bowhead whales (Balaena mysticetus) and narwhals (Monodon monoceros) are two long-lived Arctic species with similar habitat requirements and are often seen together in the Canadian Arctic. Although their ranges overlap extensively, bowhead whales experienced significantly greater commercial whaling mortality than narwhals over several centuries. The similar habitat requirements but different harvest histories of these two species provide an opportunity to examine present-day genetic diversity and the demographic and genetic consequences of commercial whaling. We whole-genome resequenced contemporary Canadian Arctic bowhead whales and narwhals to delineate population structure and reconstruct demographic history. We found higher genetic diversity in bowhead whales compared to narwhals. However, bowhead whale effective population size sharply declined contemporaneously with the intense commercial whaling period. Narwhals, in contrast, exhibited recent growth in effective population size, likely reflecting exposure to limited opportunistic commercial harvest. Bowhead whales will likely continue to experience significant genetic drift in the future, leading to the erosion of genetic diversity. In contrast, narwhals do not seem to be at imminent risk of losing their current levels of genetic variation due to their long-term low effective population size and lack of evidence for a recent decline. This work highlights the importance of considering population trajectories in addition to genetic diversity when assessing the genetics of populations for conservation and management purposes.

Acoustic monitoring of artificial reefs reveals Atlantic cod and weakfish spawning and presence of individual bottlenose dolphins

The artificial reefs in New York's waters provide structure in areas that are typically flat and sandy, creating habitat for a multitude of species as an area to spawn, forage, and reside. Passive acoustic data collected on the Fire Island and Shinnecock artificial reefs between 2018 and 2022 detected spawning-associated calls of weakfish (Cynoscion regalis) and Atlantic cod (Gadus morhua), as well as the presence of individual bottlenose dolphins (Tursiops truncatus) through their signature whistles. Weakfish and Atlantic cod were more vocally active on the Fire Island reef, where Atlantic cod grunts peaked during a new moon phase in December, and weakfish spawning experienced variable peaks between mid-July and mid-August on both reefs. Fifty-seven individual bottlenose dolphins were identified, with whistle repeats ranging from seconds to years apart. Passive acoustic monitoring allows for simultaneous collection of information on multiple species at different trophic levels as well as behavioral information that helps managers understand how these animals utilize these habitats, which can lead to improved conservation measures.

Migratory movements of fin whales from the Gulf of St. Lawrence challenge our understanding of the Northwest Atlantic stock structure

Fin whales, Balenoptera physalus, are capital breeders, having the potential to separate breeding and feeding both spatially and temporally. Fin whales occur throughout the Northwest Atlantic, but stock structure and seasonal movements remain unclear. By deploying satellite transmitters on 28 individuals, we examine movement patterns within and beyond the Gulf of St. Lawrence (GSL), Canada, and challenge the current understanding of stock structure. Eight individuals left the GSL in autumn, with five tags persisting into January. Migration patterns of these whales showed considerable variation in timing and trajectory, with movements extending south to 24°N, and thus beyond the assumed distribution limit of the species in the Northwest Atlantic. A rapid return to the Scotian Shelf or Gulf of Maine was observed from several whales after incursions in southern waters, suggesting that fin whales in the Northwest Atlantic may not have a common winter destination that fits the definition of a breeding ground. Area-restricted search (ARS) behavior dominated fin whale activities during summer (92%) and fall (72%), with persistence into the winter (56%); ARS occurred at multiple locations in the GSL, Scotian Shelf and Shelf edge, and near seamounts of the North Atlantic, having characteristics consistent with foraging areas.

Development of a machine learning detector for North Atlantic humpback whale song

The study of humpback whale song using passive acoustic monitoring devices requires bioacousticians to manually review hours of audio recordings to annotate the signals. To vastly reduce the time of manual annotation through automation, a machine learning model was developed. Convolutional neural networks have made major advances in the previous decade, leading to a wide range of applications, including the detection of frequency modulated vocalizations by cetaceans. A large dataset of over 60 000 audio segments of 4 s length is collected from the North Atlantic and used to fine-tune an existing model for humpback whale song detection in the North Pacific (see Allen, Harvey, Harrell, Jansen, Merkens, Wall, Cattiau, and Oleson (2021). Front. Mar. Sci. 8, 607321). Furthermore, different data augmentation techniques (time-shift, noise augmentation, and masking) are used to artificially increase the variability within the training set. Retraining and augmentation yield F-score values of 0.88 on context window basis and 0.89 on hourly basis with false positive rates of 0.05 on context window basis and 0.01 on hourly basis. If necessary, usage and retraining of the existing model is made convenient by a framework (AcoDet, acoustic detector) built during this project. Combining the tools provided by this framework could save researchers hours of manual annotation time and, thus, accelerate their research.

Fin whale song characteristics and potential subpopulation identity in the New York Bight

Fin whale (Balaenoptera physalus) song can follow a highly consistent pattern, and regional differences in song patterns can be a valuable indicator of subpopulation identity and distribution. In the Northwest Atlantic, endangered fin whales are currently managed as a single stock despite previous identification of different regional song patterns, which indicates potential subpopulation structuring and vulnerability to anthropogenic disturbance if not managed accordingly. Here we document fin whale song in the New York Bight (NYB) from 2017 to 2020 using passive acoustic data to identify monthly and yearly trends in song patterns and to explore potential subpopulation structuring. The predominant song pattern observed was highly consistent with the pattern documented almost a decade prior in the NYB, with short inter-note intervals (INI) from fall-winter and long-INIs in the spring. However, in one song year the majority of songs were composed of long-INIs. This change in song pattern could be due to a shift in fin whale behavior or possibly multiple fin whale subpopulations using the NYB. Fin whales in the NYB may be particularly vulnerable to disturbance given the increasing anthropogenic pressures in this region, and further research into subpopulation structuring is needed to ensure adequate management of these endangered whales.

Estimating distances to baleen whales using multipath arrivals recorded by individual seafloor seismometers at full ocean depth

Ocean bottom seismometer networks can record opportunistic data sets of 20-Hz fin whale calls. Because networks are often too sparse for multi-station tracking, single-station methods are needed to estimate call density. We investigated a method to range to singing fin whales at full ocean depths using the spacing of water column multiples. Calls were detected by cross-correlating a spectrogram with a template call. To enhance multipath signals, we considered 20-min windows and either summed the spectrograms of all calls aligned on the strongest detection before measuring the multipath spacing or measured the spacing directly from the autocorrelation of the cross correlation time series. We evaluated the methods at five sites with contrasting seafloor and subsurface properties, bathymetric relief, and water depths of 4000-6000 m, using fin whale songs at four sites and a sei whale song at the fifth. The autocorrelation method works best, and ranges can be obtained to >15 km. Ranging at sedimented sites requires careful accounting for subsurface reflections. Ranges have considerable uncertainty in regions of bathymetric relief. The method requires that the time between calls is different from that of the multipaths and does not work reliably when more than one whale is singing nearby.

Characteristics and spatiotemporal variation of sei whale (Balaenoptera borealis) downsweeps recorded in Atlantic Canada

The call characteristics and vocal behaviour of sei whales (Balaenoptera borealis) off eastern Canada, including potential spatiotemporal variation, is poorly understood. Such information can improve the performance of automated detector-classifiers, enhancing the accuracy and efficiency of identifying sei whales in large acoustic datasets. Ultimately, these data can be used to understand the occurrence, distribution, and population structure of sei whales in Atlantic Canada. We measured sei whale downsweep characteristics recorded from six locations off Nova Scotia (NS) and Newfoundland and Labrador (NFLD), Canada over a two-year period (2015-2017), and examined variation between call subtypes (singlets, doublets, triplets+), and seasons (Spring, Summer, Fall, Winter). We found that downsweeps had a mean duration of 1.58 s, sweeping from 75.66 to 34.22 Hz, with a peak frequency of 43.89 Hz and an intra-call interval of 2.22 s. Most call characteristics did not vary between location, subtype, or season; however, significantly longer downsweeps occurred off NS, within doublet calls, and in fall months. We also found that NFLD had a higher proportion of doublets (70%) than NS (52%). This variation may be evidence of acoustically diverging sei whale populations, as well as useful for improving detector-classifiers of sei whales in the region.

Acoustic recording tags provide insight into the springtime acoustic behavior of sei whales in Massachusetts Bay

The acoustic ecology of sei whales (Balaenoptera borealis) is poorly understood due to limited direct observation of the behavioral context of sound production and individual behavior. Suction cup-attached acoustic recording tags were deployed on sei whales to unambiguously assign call types and explore the acoustic behavior of this endangered species. Twelve tag deployments resulted in ∼173 h of acoustic data and 1030 calls. Sound types included downsweeps and three previously undescribed call types. Knocks were short duration (<1 s), with an average peak frequency of 330 Hz. Pulse type 1 and pulse type 2 calls, typically produced in sequences, were short in duration (0.08 and 0.28 s) and low in average peak frequency (50 and 26 Hz), with relatively high received levels. Average call rates for all call types combined were three calls per hour, but increased during twilight. Sex differences in call type usage included a higher use of pulses by females and knocks by males. Calls were almost exclusively produced at depths <10 m, although whales rarely dove deeper in this study. These data provide a more comprehensive picture of the acoustic and behavioral ecology of sei whales than previously possible, which can inform future conservation efforts for this endangered species.

Ecological inferences about marine mammals from passive acoustic data

Monitoring on the basis of sound recordings, or passive acoustic monitoring, can complement or serve as an alternative to real-time visual or aural monitoring of marine mammals and other animals by human observers. Passive acoustic data can support the estimation of common, individual-level ecological metrics, such as presence, detection-weighted occupancy, abundance and density, population viability and structure, and behaviour. Passive acoustic data also can support estimation of some community-level metrics, such as species richness and composition. The feasibility of estimation and certainty of estimates is highly context dependent, and understanding the factors that affect the reliability of measurements is useful for those considering whether to use passive acoustic data. Here, we review basic concepts and methods of passive acoustic sampling in marine systems that often are applicable to marine mammal research and conservation. Our ultimate aim is to facilitate collaboration among ecologists, bioacousticians, and data analysts. Ecological applications of passive acoustics require one to make decisions about sampling design, which in turn requires consideration of sound propagation, sampling of signals, and data storage. One also must make decisions about signal detection and classification and evaluation of the performance of algorithms for these tasks. Investment in the research and development of systems that automate detection and classification, including machine learning, are increasing. Passive acoustic monitoring is more reliable for detection of species presence than for estimation of other species-level metrics. Use of passive acoustic monitoring to distinguish among individual animals remains difficult. However, information about detection probability, vocalisation or cue rate, and relations between vocalisations and the number and behaviour of animals increases the feasibility of estimating abundance or density. Most sensor deployments are fixed in space or are sporadic, making temporal turnover in species composition more tractable to estimate than spatial turnover. Collaborations between acousticians and ecologists are most likely to be successful and rewarding when all partners critically examine and share a fundamental understanding of the target variables, sampling process, and analytical methods.

Occurrence and patterns of fin whale songs reveal alternative migration strategies in Svalbard Islands, Norway

The Arctic marine environment is highly affected by global warming with notable changes in habitat conditions, which have great consequences on migrating species. For example, the timing of their migration can be altered leading to changes in their occurrence in suitable areas, which are critical for their survival. In this study, seven years of acoustic data were analysed in Svalbard Islands from 2014 to 2020, revealing that the occurrence of fin whales (Balaenoptera physalus) happened all year-round. The sea surface temperature recorded reveals conditions which could be favorable for these species to persist until the Polar Night. The occurrence of songs indicated that certain individuals did not undertake the migratory journey through the southern breeding grounds, possibly using the area for mating purposes. The analyses of the Inter-Note-Interval (INI) demonstrated that over the years songs with different patterns were found. This suggests that either the fin whales are able to switch their INI patterns or that populations with different INIs are visiting during the Winter. Therefore, this study unveils the undertaking of an alternative strategy to migration movements, and the possible potential origin of the fin whales overwintering in Svalbard.

Long-term stability in the circumpolar foraging range of a Southern Ocean predator between the eras of whaling and rapid climate change

Assessing environmental changes in Southern Ocean ecosystems is difficult due to its remoteness and data sparsity. Monitoring marine predators that respond rapidly to environmental variation may enable us to track anthropogenic effects on ecosystems. Yet, many long-term datasets of marine predators are incomplete because they are spatially constrained and/or track ecosystems already modified by industrial fishing and whaling in the latter half of the 20th century. Here, we assess the contemporary offshore distribution of a wide-ranging marine predator, the southern right whale (SRW, Eubalaena australis), that forages on copepods and krill from ~30°S to the Antarctic ice edge (>60°S). We analyzed carbon and nitrogen isotope values of 1,002 skin samples from six genetically distinct SRW populations using a customized assignment approach that accounts for temporal and spatial variation in the Southern Ocean phytoplankton isoscape. Over the past three decades, SRWs increased their use of mid-latitude foraging grounds in the south Atlantic and southwest (SW) Indian oceans in the late austral summer and autumn and slightly increased their use of high-latitude (>60°S) foraging grounds in the SW Pacific, coincident with observed changes in prey distribution and abundance on a circumpolar scale. Comparing foraging assignments with whaling records since the 18th century showed remarkable stability in use of mid-latitude foraging areas. We attribute this consistency across four centuries to the physical stability of ocean fronts and resulting productivity in mid-latitude ecosystems of the Southern Ocean compared with polar regions that may be more influenced by recent climate change.

Oceans of plenty? Challenges, advancements, and future directions for the provision of evidence-based fisheries management advice

Marine population modeling, which underpins the scientific advice to support fisheries interventions, is an active research field with recent advancements to address modern challenges (e.g., climate change) and enduring issues (e.g., data limitations). Based on discussions during the 'Land of Plenty' session at the 2021 World Fisheries Congress, we synthesize current challenges, recent advances, and interdisciplinary developments in biological fisheries models (i.e., data-limited, stock assessment, spatial, ecosystem, and climate), management strategy evaluation, and the scientific advice that bridges the science-policy interface. Our review demonstrates that proliferation of interdisciplinary research teams and enhanced data collection protocols have enabled increased integration of spatiotemporal, ecosystem, and socioeconomic dimensions in many fisheries models. However, not all management systems have the resources to implement model-based advice, while protocols for sharing confidential data are lacking and impeding research advances. We recommend that management and modeling frameworks continue to adopt participatory co-management approaches that emphasize wider inclusion of local knowledge and stakeholder input to fill knowledge gaps and promote information sharing. Moreover, fisheries management, by which we mean the end-to-end process of data collection, scientific analysis, and implementation of evidence-informed management actions, must integrate improved communication, engagement, and capacity building, while incorporating feedback loops at each stage. Increasing application of management strategy evaluation is viewed as a critical unifying component, which will bridge fisheries modeling disciplines, aid management decision-making, and better incorporate the array of stakeholders, thereby leading to a more proactive, pragmatic, transparent, and inclusive management framework-ensuring better informed decisions in an uncertain world.

SUPPLEMENTARY INFORMATION

The online version contains supplementary material available at 10.1007/s11160-022-09726-7.

Acoustic and visual cetacean surveys reveal year-round spatial and temporal distributions for multiple species in northern British Columbia, Canada

Cetaceans spend most of their time below the surface of the sea, highlighting the importance of passive acoustic monitoring as a tool to facilitate understanding and mapping their year-round spatial and temporal distributions. To increase our limited knowledge of cetacean acoustic detection patterns for the east and west coasts of Gwaii Haanas, a remote protected area on Haida Gwaii, BC, Canada, acoustic datasets recorded off SG̱ang Gwaay (Sep 2009-May 2011), Gowgaia Slope (Jul 2017-Jul 2019), and Ramsay Island (Aug 2018-Aug 2019) were analyzed. Comparing overlapping periods of visual surveys and acoustic monitoring confirmed presence of 12 cetacean species/species groups within the study region. Seasonal patterns were identified for blue, fin, humpback, grey and sperm whale acoustic signals. Killer whale and delphinid acoustic signals occurred year-round on both coasts of Haida Gwaii and showed strong diel variation. Cuvier's, Baird's, beaked whale and porpoise clicks, were identified in high-frequency recordings on the west coast. Correlations between environmental factors, chlorophyll-a and sea surface temperature, and cetacean acoustic occurrence off Gwaii Haanas were also examined. This study is the first to acoustically monitor Gwaii Haanas waters for an extended continuous period and therefore serves as a baseline from which to monitor future changes.

Mid-frequency song and low-frequency calls of sei whales in the Falkland Islands

Although sei whales (Balaenoptera borealis) are distributed throughout the globe, their behaviour and vocal repertoire are poorly described. We used passive acoustic monitoring to describe the vocal behaviour of sei whales in the Falkland Islands, between December 2018 and April 2019. We isolated more than 2000 low-frequency calls for manual classification, of which 510 calls with high signal-to-noise ratio were quantitatively measured. Five categories of stereotyped call types in the 15-230 Hz range were described, some with multiple subcategories. These included some similar to previously described calls (e.g. downsweeps), but others that were novel in acoustic structure and frequency band. In the mid-frequency range, we documented a highly stereotyped, hierarchically structured and rhythmically repetitive song display. Songs were arranged in phrases with a structure composed of repetitive sub-phrases, and a diverse variety of sounds in the 1-5 kHz range. Singing commenced in late February, despite the presence of whales and calls since early December, and continued through April. These acoustic properties and behavioural characteristics indicate that this is likely a male breeding display similar to songs and singing of other balaenopterids. This is the first detailed description of a song display for sei whales, highlighting the importance of the Falkland Islands.

Diet variation in a critically endangered marine predator revealed with stable isotope analysis

Understanding the foraging ecology of animals gives insights into their trophic relationships and habitat use. We used stable isotope analysis to understand the foraging ecology of a critically endangered marine predator, the Māui dolphin. We analysed carbon and nitrogen isotope ratios of skin samples (n = 101) collected from 1993 to 2021 to investigate temporal changes in diet and niche space. Genetic monitoring associated each sample with a DNA profile which allowed us to assess individual and population level changes in diet. Potential prey and trophic level indicator samples were also collected (n = 166; 15 species) and incorporated in Bayesian mixing models to estimate importance of prey types to Māui dolphin diet. We found isotopic niche space had decreased over time, particularly since the 2008 implementation of a Marine Mammal Sanctuary. We observed a decreasing trend in ∂¹³C and ∂¹⁵N values, but this was not linear and several fluctuations in isotope values occurred over time. The largest variation in isotope values occurred during an El Niño event, suggesting that prey is influenced by climate-driven oceanographic variables. Mixing models indicated relative importance of prey remained constant since 2008. The isotopic variability observed here is not consistent with individual specialization, rather it occurs at the population level.

Repatriation of a historical North Atlantic right whale habitat during an era of rapid climate change

Climate change is affecting species distributions in space and time. In the Gulf of Maine, one of the fastest-warming marine regions on Earth, rapid warming has caused prey-related changes in the distribution of the critically endangered North Atlantic right whale (Eubalaena glacialis). Concurrently, right whales have returned to historically important areas such as southern New England shelf waters, an area known to have been a whaling ground. We compared aerial survey data from two time periods (2013-2015; 2017-2019) to assess trends in right whale abundance in the region during winter and spring. Using distance sampling techniques, we chose a hazard rate key function to model right whale detections and used seasonal encounter rates to estimate abundance. The mean log of abundance increased by 1.40 annually between 2013 and 2019 (p = 0.004), and the mean number of individuals detected per year increased by 2.23 annually between 2013 and 2019 (R2 = 0.69, p = 0.001). These results demonstrate the current importance of this habitat and suggest that management options must continually evolve as right whales repatriate historical habitats and potentially expand to new habitats as they adapt to climate change.

Acoustic localization, validation, and characterization of Rice's whale calls

The recently named Rice's whale in the Gulf of Mexico is one of the most endangered whales in the world, and improved knowledge of spatiotemporal occurrence patterns is needed to support their recovery and conservation. Passive acoustic monitoring methods for determining spatiotemporal occurrence patterns require identifying the species' call repertoire. Rice's whale call repertoire remains unvalidated though several potential call types have been identified. This study uses sonobuoys and passive acoustic tagging to validate the source of potential call types and to characterize Rice's whale calls. During concurrent visual and acoustic surveys, acoustic-directed approaches were conducted to obtain visual verifications of sources of localized sounds. Of 28 acoustic-directed approaches, 79% led to sightings of balaenopterid whales, of which 10 could be positively identified to species as Rice's whales. Long-moan calls, downsweep sequences, and tonal-sequences are attributed to Rice's whales based on these matches, while anthropogenic sources are ruled out. A potential new call type, the low-frequency downsweep sequence, is characterized from tagged Rice's whale recordings. The validation and characterization of the Rice's whale call repertoire provides foundational information needed to use passive acoustic monitoring for better understanding and conservation of these critically endangered whales.

Temporal patterns in the soundscape of a Norwegian gateway to the Arctic

As an Arctic gateway, the Norwegian Sea sustains a rich diversity of seasonal and resident species of soniferous animals, vulnerable to the effects of climate change and anthropogenic activities. We show the occurrence of seasonal patterns of acoustic signals in a small canyon off Northern Norway, and investigate cetacean vocal behavior, human-made noise, and climatic contributions to underwater sound between January and May 2018. Mostly median sound levels ranged between 68.3 and 96.31 dB re 1 μPa2 across 1/3 octave bands (13 Hz-16 kHz), with peaks in February and March. Frequencies under 2 kHz were dominated by sounds from baleen whales with highest rates of occurrence during winter and early spring. During late-spring non-biological sounds were predominant at higher frequencies that were linked mainly to ship traffic. Seismic pulses were also recorded during spring. We observed a significant effect of wind speed and ship sailing time on received sound levels across multiple distance ranges. Our results provide a new assessment of high-latitude continental soundscapes in the East Atlantic Ocean, useful for management strategies in areas where anthropogenic pressure is increasing. Based on the current status of the local soundscape, we propose considerations for acoustic monitoring to be included in future management plans.

Evolution of the recombination regulator PRDM9 in minke whales

Background

PRDM9 is a key regulator of meiotic recombination in most metazoans, responsible for reshuffling parental genomes. During meiosis, the PRDM9 protein recognizes and binds specific target motifs via its array of C₂H₂ zinc-fingers encoded by a rapidly evolving minisatellite. The gene coding for PRDM9 is the only speciation gene identified in vertebrates to date and shows high variation, particularly in the DNA-recognizing positions of the zinc-finger array, within and between species. Across all vertebrate genomes studied for PRDM9 evolution, only one genome lacks variability between repeat types – that of the North Pacific minke whale. This study aims to understand the evolution and diversity of Prdm9 in minke whales, which display the most unusual genome reference allele of Prdm9 so far discovered in mammals.

Results

Minke whales possess all the features characteristic of PRDM9-directed recombination, including complete KRAB, SSXRD and SET domains and a rapidly evolving array of C₂H₂-type-Zincfingers (ZnF) with evidence of rapid evolution, particularly at DNA-recognizing positions that evolve under positive diversifying selection. Seventeen novel PRDM9 variants were identified within the Antarctic minke whale species, plus a single distinct PRDM9 variant in Common minke whales – shared across North Atlantic and North Pacific minke whale subspecies boundaries.

Conclusion

The PRDM9 ZnF array evolves rapidly, in minke whales, with at least one DNA-recognizing position under positive selection. Extensive PRDM9 diversity is observed, particularly in the Antarctic in minke whales. Common minke whales shared a specific Prdm9 allele across subspecies boundaries, suggesting incomplete speciation by the mechanisms associated with PRDM9 hybrid sterility.

Supplementary Information

The online version contains supplementary material available at 10.1186/s12864-022-08305-1.

Sounding the Call for a Global Library of Underwater Biological Sounds

Aquatic environments encompass the world’s most extensive habitats, rich with sounds produced by a diversity of animals. Passive acoustic monitoring (PAM) is an increasingly accessible remote sensing technology that uses hydrophones to listen to the underwater world and represents an unprecedented, non-invasive method to monitor underwater environments. This information can assist in the delineation of biologically important areas via detection of sound-producing species or characterization of ecosystem type and condition, inferred from the acoustic properties of the local soundscape. At a time when worldwide biodiversity is in significant decline and underwater soundscapes are being altered as a result of anthropogenic impacts, there is a need to document, quantify, and understand biotic sound sources–potentially before they disappear. A significant step toward these goals is the development of a web-based, open-access platform that provides: (1) a reference library of known and unknown biological sound sources (by integrating and expanding existing libraries around the world); (2) a data repository portal for annotated and unannotated audio recordings of single sources and of soundscapes; (3) a training platform for artificial intelligence algorithms for signal detection and classification; and (4) a citizen science-based application for public users. Although individually, these resources are often met on regional and taxa-specific scales, many are not sustained and, collectively, an enduring global database with an integrated platform has not been realized. We discuss the benefits such a program can provide, previous calls for global data-sharing and reference libraries, and the challenges that need to be overcome to bring together bio- and ecoacousticians, bioinformaticians, propagation experts, web engineers, and signal processing specialists (e.g., artificial intelligence) with the necessary support and funding to build a sustainable and scalable platform that could address the needs of all contributors and stakeholders into the future.

Passive acoustic monitoring reveals year-round marine mammal community composition off Tasiilaq, Southeast Greenland

Climate-driven changes are affecting sea ice conditions off Tasiilaq, Southeast Greenland, with implications for marine mammal distributions. Knowledge about marine mammal presence, biodiversity, and community composition is key to effective conservation and management but is lacking, especially during winter months. Seasonal patterns of acoustic marine mammal presence were investigated relative to sea ice concentration at two recording sites between 2014 and 2018, with one (65.6°N, 37.4°W) or three years (65.5°N, 38.0°W) of passive acoustic recordings. Seven marine mammal species were recorded. Bearded seals were acoustically dominant during winter and spring, whereas sperm, humpback, and fin whales dominated during the sea ice-free summer and autumn. Narwhals, bowhead, and killer whales were recorded only rarely. Song-fragments of humpback whales and acoustic presence of fin whales in winter suggest mating-associated behavior taking place in the area. Ambient noise levels in 1/3-octave level bands (20, 63, 125, 500, 1000, and 4000 Hz), ranged between 75.6 to 105 dB re 1 μPa. This study provides multi-year insights into the coastal marine mammal community composition off Southeast Greenland and suggests that the Tasiilaq area provides suitable habitat for various marine mammal species year-round.

Monitoring spatial and temporal soundscape features within ecologically significant U.S. National Marine Sanctuaries

The U.S. National Oceanic and Atmospheric Administration's Office of National Marine Sanctuaries manages a system of marine protected areas encompassing more than 2,000,000 km² . U.S. National Marine Sanctuaries (NMS) have been designated to provide protection for their conservation, recreational, ecological, historical, scientific, cultural, archaeological, educational, or aesthetic qualities. Due to the large variability of attributes among NMS, designing coordinated system-wide monitoring to support diverse resource protection goals can be challenging. Underwater sound monitoring is seeing increasing application to marine protected area management because it is able to support this wide variety of information needs. Passive acoustics are providing invaluable autonomous information regarding habitat associations, identifying species spatial and temporal use, and highlighting patterns in conditions that are otherwise difficult to survey. Using standardized equipment and analysis methods this study collected ambient underwater sound data and derived measurements to investigate temporal changes in sound pressure levels and power spectral density, identify presence of select species of importance and support within and among site comparison of ambient underwater sound among eight sites within four U.S. NMS. Broadband sound pressure levels of ambient sound (10-24,000 Hz) varied as much as 24 dB re 1 µPa (max difference 100-124 dB re 1 µPa) among the recording sites, sanctuaries, and seasons. Biotic signals, such as snapping shrimp snaps and vocalizations of fishes, exhibited distinct diel and seasonal patterns and showed variation among sites. Presence of anthropogenic signals, such as vessel passage, also varied substantially among sites, ranging from on average 1.6-21.8 h/d. The study identified measurements that effectively summarized baseline soundscape attributes and prioritized future opportunities for integrating non-acoustic and acoustic variables in order to inform area-specific management questions within four ecologically varying U.S. National Marine Sanctuaries.

Estimating minke whale relative abundance in the North Atlantic using passive acoustic sensors

Estimates of abundance and their changes through time are key elements of marine mammal conservation and management. Absolute marine mammal abundance in a region of the open ocean is often difficult to attain. However, methods of estimating their abundance based on passive acoustic recordings are becoming increasingly employed. This study shows that passive acoustic monitoring of North Atlantic minke whales with a single hydrophone provides sufficient information to estimate relative population abundance. An automated detector was developed for minke whale pulse trains and an approach for converting its output into a relative abundance index is proposed by accounting for detectability as well as false positives and negatives. To demonstrate this technique, a 2 y dataset from the seven sites of the Atlantic Deepwater Ecosystem Observatory Network project on the U.S. east coast was analyzed. Resulting relative abundance indices confirm pulse train-calling minke whale presence in the deep waters of the outer continental shelf. The minkes are present December through April annually with the highest abundance near the site offshore of Savannah, Georgia.

Interannual variability in acoustic detection of blue and fin whale calls in the Northeast Atlantic High Arctic between 2008 and 2018

Northern Hemisphere blue and fin whales are regular summer migrants to Arctic waters. Given the profound changes the Arctic is currently undergoing due to global warming, changes in habitat use and distribution of these migratory species are predicted. In this study, 3 passive acoustic recorders, 2 in Fram Strait about 95 km apart and 1 north of the Svalbard Archipelago (Atwain), were used to investigate the spatial and temporal vocal occurrence of these species in the Northeast Atlantic High Arctic. Acoustic data were available for 7 years for western Fram Strait (WFS), 2.5 years for central Fram Strait (CFS) and 3 years for Atwain. At both Fram Strait locations, most blue whale call detections occurred from August through October, though recently (2015-2018) in WFS a clear increase in blue whale call rates was detected in June/July, suggesting an expansion of the seasonal occurrence of blue whales. In WFS, fin whale calls were detected intermittently, at low levels, almost year-round. In CFS, fin whale calls were more frequent but occurred mainly from July through December. At Atwain, blue whale detections commenced in July, both species were recorded in September/October and fin whale calls extended into November. Results from this study provide novel long-term baseline information about the occurrence of blue and fin whales at extreme northerly locations, where traditional ship-based survey methods are seasonally limited. Continued sampling will support investigation of how environmental change influences cetacean distribution and habitat use.

Improve automatic detection of animal call sequences with temporal context

Many animals rely on long-form communication, in the form of songs, for vital functions such as mate attraction and territorial defence. We explored the prospect of improving automatic recognition performance by using the temporal context inherent in song. The ability to accurately detect sequences of calls has implications for conservation and biological studies. We show that the performance of a convolutional neural network (CNN), designed to detect song notes (calls) in short-duration audio segments, can be improved by combining it with a recurrent network designed to process sequences of learned representations from the CNN on a longer time scale. The combined system of independently trained CNN and long short-term memory (LSTM) network models exploits the temporal patterns between song notes. We demonstrate the technique using recordings of fin whale (Balaenoptera physalus) songs, which comprise patterned sequences of characteristic notes. We evaluated several variants of the CNN + LSTM network. Relative to the baseline CNN model, the CNN + LSTM models reduced performance variance, offering a 9-17% increase in area under the precision-recall curve and a 9-18% increase in peak F1-scores. These results show that the inclusion of temporal information may offer a valuable pathway for improving the automatic recognition and transcription of wildlife recordings.

Decadal shift in foraging strategy of a migratory southern ocean predator

Rapid anthropogenic environmental change is expected to impact a host of ecological parameters in Southern Ocean ecosystems. Of critical concern are the consequences of these changes on the range of species that show fidelity to migratory destinations, as philopatry is hypothesized to help or hinder adaptation to climate change depending on the circumstances. Many baleen whales show philopatry to feeding grounds and are also capital breeders that meet migratory and reproductive costs through seasonal energy intake. Southern right whales (Eubalaena australis, SRWs) are capital breeders that have a strong relationship between reproductive output and foraging success. The population dynamics of South Africa's population of SRWs are characterized by two distinct periods: the 1990s, a period of high calving rates; and the late 2010s, a period associated with lowered calving rates. Here we use analyses of stable carbon (δ13 C) and nitrogen (δ15 N) isotope values from SRW biopsy samples (n = 122) collected during these two distinct periods to investigate foraging ecology of the South African population of SRWs over a time period coincident with the demographic shift. We show that South African SRWs underwent a dramatic northward shift, and diversification, in foraging strategy from 1990s to 2010s. Bayesian mixing model results suggest that during the 1990s, South African SRWs foraged on prey isotopically similar to South Georgia/Islas Georgias del Sur krill. In contrast, in the 2010s, South African SRWs foraged on prey isotopically consistent with the waters of the Subtropical Convergence, Polar Front and Marion Island. We hypothesize that this shift represents a response to changes in preferred habitat or prey, for example, the decrease in abundance and southward range contraction of Antarctic krill. By linking reproductive decline to changing foraging strategies for the first time in SRWs, we show that altering foraging strategies may not be sufficient to adapt to a changing ocean.