Classification of Florida manatee (Trichechus manatus latirostris) vocalizations

Vocal complexity in the long calls of Bornean orangutans

Vocal complexity is central to many evolutionary hypotheses about animal communication. Yet, quantifying and comparing complexity remains a challenge, particularly when vocal types are highly graded. Male Bornean orangutans (Pongo pygmaeus wurmbii) produce complex and variable "long call" vocalizations comprising multiple sound types that vary within and among individuals. Previous studies described six distinct call (or pulse) types within these complex vocalizations, but none quantified their discreteness or the ability of human observers to reliably classify them. We studied the long calls of 13 individuals to: (1) evaluate and quantify the reliability of audio-visual classification by three well-trained observers, (2) distinguish among call types using supervised classification and unsupervised clustering, and (3) compare the performance of different feature sets. Using 46 acoustic features, we used machine learning (i.e., support vector machines, affinity propagation, and fuzzy c-means) to identify call types and assess their discreteness. We additionally used Uniform Manifold Approximation and Projection (UMAP) to visualize the separation of pulses using both extracted features and spectrogram representations. Supervised approaches showed low inter-observer reliability and poor classification accuracy, indicating that pulse types were not discrete. We propose an updated pulse classification approach that is highly reproducible across observers and exhibits strong classification accuracy using support vector machines. Although the low number of call types suggests long calls are fairly simple, the continuous gradation of sounds seems to greatly boost the complexity of this system. This work responds to calls for more quantitative research to define call types and quantify gradedness in animal vocal systems and highlights the need for a more comprehensive framework for studying vocal complexity vis-à-vis graded repertoires.

Persistent long-term habitat use by Florida manatees at Fort Pierce, Florida from 1997 to 2020

To survive cold winters, Florida manatees (Trichechus manatus latirostris) depend on artificial (i.e., power plants) and natural warm water sources such as springs and passive thermal basins. Passive thermal basins can provide critical habitat for manatees for short or extended periods of time. The Henry D. King Powerplant in Fort Pierce, Florida discharged warm water into Moore's Creek until it went offline in 1995. However, it is unknown to what degree manatees continue to occupy this area and how environmental factors influence their occurrence in the creek. To explore this, we examined the habitat use of Florida manatees in Moore's Creek after the shutdown from November 1997 to March 2020 from daily counts of manatees. In addition, we correlated local environmental data (ambient air, temperature, salinity) to assess if Moore's Creek had properties indicative of a passive thermal basin. Results indicated there was not an increase or decrease in habitat use over twenty years in the Creek. The consistent use of Moore's Creek over the study period suggests that this habitat possesses thermal and freshwater resources to support manatee occurrence long-term. These findings provide robust support for the importance of this habitat and passive thermal basins for Florida manatees.

Exploring Sound Emission of the Lizard Pristidactylus valeriae

Lizards, except geckos, are generally considered voiceless organisms, although some species emit oral sounds. For most of these "vocal lizards", however, there is almost no information on the characteristics of the sounds, precluding exploration of the functionality and evolution of the sounds. Pristidactylus are known as "grunter lizards" since individuals emit oral sounds under predation risk. We explored the characteristics of the sounds emitted by P. valeriae, recording 17 adults and 1 juvenile when they were threatened and captured by a predator. Only adults emitted sounds with open mouths and displayed aggressive postures, e.g., biting attempts. These sounds correspond to hisses, which lack amplitude or frequency modulation. The lizards emitted longer hisses when threatened than when captured by the predator, which may provide honest information on individuals' ability to escape. In addition, males may experience higher distress during threats since their hisses had higher aggregate entropy than those of the females. Finally, hissing has been documented in four of the five Leiosauridae genera, the family to which Pristidactylus belongs, suggesting that sound emission is ancestral to the family.

Manatees display diel trends in acoustic activity at two microhabitats in Belize

Many marine mammals exhibit diel trends in vocal production, which can provide information on habitat use and behavioral activity. In Belize, Antillean manatees (Trichechus manatus manatus) commonly inhabit small depressions in the substrate or deep-water coves known as "resting holes". Determining if manatees exhibit diel temporal trends in their call production rate and call types between microhabitats can provide insights into their diurnal and nocturnal activity patterns. Here, we investigate the diel vocalization patterns of wild Antillean manatees in two adjacent resting holes off of St. George's Caye, Belize. Recordings of manatees were made using a bottom-mounted hydrophone located near a reef barrier reef for nine days in July of 2017 and ten days in January of 2018. To explore if and how manatee acoustic activity differs between sites, we compared the number of calls per hour, the number of manatee positive hours, the number of tonal and atonal sounds, and the number of boats detected across sites. A total of 370 hours of acoustic recordings were analyzed resulting in the detection of 3,262 calls. There were no significant differences in the number of manatee calls produced per hour between sites. The average number of calls produced by manatees decreased over the course of several days. The proportion of tonal calls decreased with hours after sunset and increased in boat presence. These results suggest manatees in this region may exhibit different diel activity patterns which appear to be influenced by the characteristics of the environment. These findings can support ongoing conservation and management efforts to safeguard species in Belize.

Communication in Cook Inlet beluga whales: Describing the vocal repertoire and masking of calls by commercial ship noise

Many species rely on acoustic communication to coordinate activities and communicate to conspecifics. Cataloging vocal behavior is a first step towards understanding how individuals communicate information and how communication may be degraded by anthropogenic noise. The Cook Inlet beluga population is endangered with an estimated 331 individuals. Anthropogenic noise is considered a threat for this population and can negatively impact communication. To characterize this population's vocal behavior, vocalizations were measured and classified into three categories: whistles (n = 1264, 77%), pulsed calls (n = 354, 22%), and combined calls (n = 15, 1%), resulting in 41 call types. Two quantitative analyses were conducted to compare with the manual classification. A classification and regression tree and Random Forest had a 95% and 85% agreement with the manual classification, respectively. The most common call types per category were then used to investigate masking by commercial ship noise. Results indicate that these call types were partially masked by distant ship noise and completely masked by close ship noise in the frequency range of 0-12 kHz. Understanding vocal behavior and the effects of masking in Cook Inlet belugas provides important information supporting the management of this endangered population.

Manatees in Zoological Parks throughout the World: History, State, and Welfare

The order Sirenia comprises several species of manatees and one species of dugong. These popular marine mammals are relatively recent acquisitions to zoological parks throughout the world. As far as we know, there are less than 200 manatees, mostly American, a few African, and ever less Amazonian, currently in zoological parks. American manatees are predominantly found in zoos in Europe, North America, and in some Asian countries, while African ones are present exclusively in Asian zoos. The living conditions of captive manatees differ considerably from zoo to zoo (i.e., numbers, sex ratio, outdoor vs. indoor habitats, complex vs. simple habitats). Most research on manatee behaviour has been relatively recent, and studies on cognition, sociality, and ecology have a significant impact on our perception of manatee needs and management, with wider implications for their welfare. In the wild, manatees demonstrated various cognitive capacities; spatial memory and learning abilities play an important role in their daily life in a complex and dynamic environment. Furthermore, there is evidence that these mammals are more social animals than expected. Individuals show various personality traits on the boldness-shyness continuum and their sociality varies. All those parameters are important in terms of animal welfare. Several behavioural studies showed that standardized enrichment programs benefit and ensure the welfare of captive zoo animals. However, obtaining accurate information on the presence of manatees in zoos, living conditions, management, and consequently welfare remains challenging. This study examines the current knowledge on manatee behaviour and cognition and then discusses different approaches to improving the welfare of this charismatic marine mammal in zoological parks.

Vocalizations of wild West Indian manatee vary across subspecies and geographic location

Geographic variation in the vocal behavior of manatees has been reported but is largely unexplored. Vocalizations of wild West Indian manatees (Trichechus manatus) were recorded with hydrophones in Florida from Florida manatees (Trichechus manatus latirostris), and in Belize and Panama from Antillean manatees (Trichechus manatus manatus) to determine if calls varied between subspecies and geographic regions. Calls were visually classified into five categories: squeaks, high squeaks, squeals, squeak-squeals, and chirps. From these five categories, only three call types (squeaks, high squeaks and squeals) were observed in all three populations. Six parameters from the temporal and frequency domains were measured from the fundamental frequency of 2878 manatee vocalizations. A repeated measures PERMANOVA found significant differences for squeaks and high squeaks between each geographic location and for squeals between Belize and Florida. Almost all measured frequency and temporal parameters of manatee vocalizations differed between and within subspecies. Variables that may have influenced the variation observed may be related to sex, body size, habitat and/or other factors. Our findings provide critical information of manatee calls for wildlife monitoring and highlight the need for further study of the vocal behavior of manatees throughout their range.

Vocal complexity in Antillean manatees (Trichechus manatus manatus)

Vocal complexity can be expressed through variations in repertoire size, structure, and individual manatee repertoires. Here we aimed to assess the complexity of the vocal behaviour of Antillean manatees living in captivity (i.e., artificial pools) and in reintroduction enclosures (i.e., natural enclosures placed in an estuarine area). Specifically, we evaluated: (i) the structure of vocalisations to assess whether they had variants; (ii) the variation in call production (rate and pattern) between groups with different configurations; (iii) whether individuality occurred in vocalisation structure. We found four categories of vocalisations, of which two had different variants. Not all study groups produced all call categories and variants. Older and younger males in the reintroduction enclosures had the highest call rates compared to captive females and captive males. The vocal and behavioural patterns differed between groups. Squeak call structure differed between individuals. Such vocal complexity may aid manatees in adapting to their dynamic social and structural environment, facilitating communication.

Estimating Florida manatee (Trichechus manatus latirostris) abundance using passive acoustic methods

Manatees are difficult to detect, particularly cryptic populations that inhabit areas with limited water clarity. The effectiveness of using vocal detections to estimate manatee abundance was evaluated in a clear water spring where manatees congregate seasonally. Vocalizations were extracted by a detection classifier that clustered sounds with similar spectral properties. Vocalization counts from recordings in Blue Spring, FL, USA were strong predictors of manatee abundance. The link between independent visual counts and abundance estimates from passive acoustic monitoring was used to provide an estimate of 1.059 (95% confidence interval 0.963-1.127) vocalizations/manatee/5-min, which might be used elsewhere for cue counting of manatees.

First characterization of vocalizations and passive acoustic monitoring of the vulnerable African manatee (Trichechus senegalensis)

Even among the understudied sirenians, African manatees (Trichechus senegalensis) are a poorly understood, elusive, and vulnerable species that is difficult to detect. We used passive acoustic monitoring in the first effort to acoustically detect African manatees and provide the first characterization of their vocalizations. Within two 3-day periods at Lake Ossa, Cameroon, at least 3367 individual African manatee vocalizations were detected such that most vocalizations were detected in the middle of the night and at dusk. Call characteristics such as fundamental frequency, duration, harmonics, subharmonics, and emphasized band were characterized for 289 high-quality tonal vocalizations with a minimum signal-to-noise ratio of 4.5 dB. African manatee vocalizations have a fundamental frequency of 4.65 ± 0.700 kHz (mean ± SD), duration of 0.181 ± 0.069 s, 97% contained harmonics, 21% contained subharmonics, and 27% had an emphasized band other than the fundamental frequency. Altogether, the structure of African manatee vocalizations is similar to other manatee species. We suggest utilizing passive acoustic monitoring to fill in the gaps in understanding the distribution and biology of African manatees.

Contribution to unravel variability in bowhead whale songs and better understand its ecological significance

Since the first studies on bowhead whale singing behaviour, song variations have been consistently reported. However, there has been little discussion regarding variability in bowhead whale singing display and its ecological significance. Unlike the better studied humpback whales, bowhead whales do not appear to share songs at population level, but several studies have reported song sharing within clusters of animals. Over the winter season 2013-2014, in an unstudied wintering ground off Northeast Greenland, 13 song groups sharing similar hierarchical structure and units were identified. Unit types were assessed through multidimensional maps, showing well separated clusters corresponding to manually labelled units, and revealing the presence of unit subtypes. Units presented contrasting levels of variability over their acoustic parameters, suggesting that bowhead whales keep consistency in some units while using a continuum in values of frequency, duration and modulation parameters for other unit types. Those findings emphasise the need to account for variability in song analysis to better understand the behavioural ecology of this endangered species. Additionally, shifting from song toward units or phrase-based analysis, as it has been suggested for humpback whales, offers the opportunity to identify and track similarities in songs over temporal and geographical scales relevant to population monitoring.

Bioacoustic Classification of Antillean Manatee Vocalization Spectrograms Using Deep Convolutional Neural Networks

We evaluated the potential of using convolutional neural networks in classifying spectrograms of Antillean manatee (Trichechus manatus manatus) vocalizations. Spectrograms using binary, linear and logarithmic amplitude formats were considered. Two deep convolutional neural networks (DCNN) architectures were tested: linear (fixed filter size) and pyramidal (incremental filter size). Six experiments were devised for testing the accuracy obtained for each spectrogram representation and architecture combination. Results show that binary spectrograms with both linear and pyramidal architectures with dropout provide a classification rate of 94–99% on the training and 92–98% on the testing set, respectively. The pyramidal network presents a shorter training and inference time. Results from the convolutional neural networks (CNN) are substantially better when compared with a signal processing fast Fourier transform (FFT)-based harmonic search approach in terms of accuracy and F1 Score. Taken together, these results prove the validity of using spectrograms and using DCNNs for manatee vocalization classification. These results can be used to improve future software and hardware implementations for the estimation of the manatee population in Panama.