Baboon vocal repertoires and the evolution of primate vocal diversity

A first vocal repertoire characterization of long-finned pilot whales (Globicephala melas) in the Mediterranean Sea: a machine learning approach

The acoustic repertoires of long-finned pilot whales (Globicephala melas) in the Mediterranean Sea are poorly understood. This study aims to create a catalogue of calls, analyse acoustic parameters, and propose a classification tree for future research. An acoustic database was compiled using recordings from the Alboran Sea, Gulf of Lion and Ligurian Sea (Western Mediterranean Basin) between 2008 and 2022, totalling 640 calls. Using a deep neural network, the calls were clustered based on frequency contour similarities, leading to the identification of 40 distinct call types defining the local population's vocal repertoire. These categories encompass pulsed calls with varied complexities, from simplistic to highly intricate structures comprising multiple elements and segments. This study marks the initial documentation of the vocal catalogue of long-finned pilot whales in the Mediterranean Sea. Subsequent research should delve deeper into this multifaceted communication system and explore its potential linkages with social structures.

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.

Chimpanzees show the capacity to communicate about concomitant daily life events

One universal feature of human language is its versatility in communicating about juxtapositions of everyday events. Versatile combinatorial systems of communication can be selected for if (a) several vocal units are flexibly combined into numerous and long vocal sequences and (b) vocal sequences relate to numerous daily life events. We propose (b) is more likely during simultaneous or serial (concomitant) events than single events. We analyzed 9,391 vocal utterances across the repertoire of wild chimpanzees and their events of production. Chimpanzees used vocal sequences across a range of daily life events and twice as often during concomitant than single events. Also, utterance diversity correlated positively with event diversity. Our results show the potential of chimpanzee vocal sequences to convey combined information about numerous daily life events, a step from which generalized combinatoriality could have evolved.

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.

Bioacoustic characterization of the black-and-white ruffed lemur (Varecia variegata) vocal repertoire

Ruffed lemurs (Varecia spp.) exhibit a unique suite of behavioral traits compared to other lemur species, which includes their fluid fission-fusion social dynamics, communal rearing of parked litters, and pronounced frugivory in their humid rainforest habitats. Given these traits, and the dense rainforests they inhabit, vocal communication may be key to maintaining social cohesion, coordinating infant care, and/or defending their high-quality food resources. Indeed, they are known for their raucous 'roar-shriek' calls. However, there has been surprisingly little research on vocal communication in Varecia species and only two previously published repertoires, both of which were qualitative descriptions of their calls. In this study, we quantitatively examined the vocal repertoire of wild black-and-white ruffed lemurs (Varecia variegata) at Mangevo, Ranomafana National Park, Madagascar. We characterized 11 call types using 33 bioacoustic parameters related to frequency, duration, tonality, and composition. We also used discriminant function analysis and hierarchical clustering to quantitatively and objectively classify call types within the black-and-white ruffed lemur vocal repertoire. The repertoire consists of both monosyllabic and multisyllabic calls that are individually given or emitted in contagious choruses. Eight of the 11 calls were also used in combination or in larger multi-call sequences. The discriminant function analysis correctly assigned call types with 87% success, though this varied greatly by call type (1-65%). Hierarchical clustering identified 3-4 robust clusters, indicating low clustering structure in the data and suggesting that V. variegata exhibits a graded vocal repertoire. Future work should consider the environmental and behavioral contexts in which calls are used to better understand the function of these call types and combinations.

Improving the workflow to crack Small, Unbalanced, Noisy, but Genuine (SUNG) datasets in bioacoustics: The case of bonobo calls

Despite the accumulation of data and studies, deciphering animal vocal communication remains challenging. In most cases, researchers must deal with the sparse recordings composing Small, Unbalanced, Noisy, but Genuine (SUNG) datasets. SUNG datasets are characterized by a limited number of recordings, most often noisy, and unbalanced in number between the individuals or categories of vocalizations. SUNG datasets therefore offer a valuable but inevitably distorted vision of communication systems. Adopting the best practices in their analysis is essential to effectively extract the available information and draw reliable conclusions. Here we show that the most recent advances in machine learning applied to a SUNG dataset succeed in unraveling the complex vocal repertoire of the bonobo, and we propose a workflow that can be effective with other animal species. We implement acoustic parameterization in three feature spaces and run a Supervised Uniform Manifold Approximation and Projection (S-UMAP) to evaluate how call types and individual signatures cluster in the bonobo acoustic space. We then implement three classification algorithms (Support Vector Machine, xgboost, neural networks) and their combination to explore the structure and variability of bonobo calls, as well as the robustness of the individual signature they encode. We underscore how classification performance is affected by the feature set and identify the most informative features. In addition, we highlight the need to address data leakage in the evaluation of classification performance to avoid misleading interpretations. Our results lead to identifying several practical approaches that are generalizable to any other animal communication system. To improve the reliability and replicability of vocal communication studies with SUNG datasets, we thus recommend: i) comparing several acoustic parameterizations; ii) visualizing the dataset with supervised UMAP to examine the species acoustic space; iii) adopting Support Vector Machines as the baseline classification approach; iv) explicitly evaluating data leakage and possibly implementing a mitigation strategy.

Chimpanzees produce diverse vocal sequences with ordered and recombinatorial properties

The origins of human language remains a major question in evolutionary science. Unique to human language is the capacity to flexibly recombine a limited sound set into words and hierarchical sequences, generating endlessly new sentences. In contrast, sequence production of other animals appears limited, stunting meaning generation potential. However, studies have rarely quantified flexibility and structure of vocal sequence production across the whole repertoire. Here, we used such an approach to examine the structure of vocal sequences in chimpanzees, known to combine calls used singly into longer sequences. Focusing on the structure of vocal sequences, we analysed 4826 recordings of 46 wild adult chimpanzees from Taï National Park. Chimpanzees produced 390 unique vocal sequences. Most vocal units emitted singly were also emitted in two-unit sequences (bigrams), which in turn were embedded into three-unit sequences (trigrams). Bigrams showed positional and transitional regularities within trigrams with certain bigrams predictably occurring in either head or tail positions in trigrams, and predictably co-occurring with specific other units. From a purely structural perspective, the capacity to organize single units into structured sequences offers a versatile system potentially suitable for expansive meaning generation. Further research must show to what extent these structural sequences signal predictable meanings.

Social pressure drives "conversational rules" in great apes

In the last decade, two hypotheses, one on the evolution of animal vocal communication in general and the other on the origins of human language, have gained ground. The first hypothesis argues that the complexity of communication co-evolved with the complexity of sociality. Species forming larger groups with complex social networks have more elaborate vocal repertoires. The second hypothesis posits that the core of communication is represented not only by what can be expressed by an isolated caller, but also by the way that vocal interactions are structured, language being above all a social act. Primitive forms of conversational rules based on a vocal turn-taking principle are thought to exist in primates. To support and bring together these hypotheses, more comparative studies of socially diverse species at different levels of the primate phylogeny are needed. However, the majority of available studies focus on monkeys, primates that are distant from the human lineage. Great apes represent excellent candidates for such comparative studies because of their phylogenetic proximity to humans and their varied social lives. We propose that studying vocal turn-taking in apes could address several major gaps regarding the social relevance of vocal turn-taking and the evolutionary trajectory of this behaviour among anthropoids. Indeed, how the social structure of a species may influence the vocal interaction patterns observed among group members remains an open question. We gathered data from the literature as well as original unpublished data (where absent in the literature) on four great ape species: chimpanzees Pan troglodytes, bonobos Pan paniscus, western lowland gorillas Gorilla gorilla gorilla and Bornean orang-utans Pongo pygmaeus. We found no clear-cut relationship between classical social complexity metrics (e.g. number of group members, interaction rates) and vocal complexity parameters (e.g. repertoire size, call rates). Nevertheless, the nature of the society (i.e. group composition, diversity and valence of social bonds) and the type of vocal interaction patterns (isolated calling, call overlap, turn-taking-based vocal exchanges) do appear to be related. Isolated calling is the main vocal pattern found in the species with the smallest social networks (orang-utan), while the other species show vocal interactions that are structured according to temporal rules. A high proportion of overlapping vocalisations is found in the most competitive species (chimpanzee), while vocal turn-taking predominates in more tolerant bonobos and gorillas. Also, preferentially interacting individuals and call types used to interact are not randomly distributed. Vocal overlap ('chorusing') and vocal exchange ('conversing') appear as possible social strategies used to advertise/strengthen social bonds. Our analyses highlight that: (i) vocal turn-taking is also observed in non-human great apes, revealing universal rules for conversing that may be deeply rooted in the primate lineage; (ii) vocal interaction patterns match the species' social lifestyle; (iii) although limited to four species here, adopting a targeted comparative approach could help to identify the multiple and subtle factors underlying social and vocal complexity. We believe that vocal interaction patterns form the basis of a promising field of investigation that may ultimately improve our understanding of the socially driven evolution of communication.

Dominance style is a key predictor of vocal use and evolution across nonhuman primates

Animal communication has long been thought to be subject to pressures and constraints associated with social relationships. However, our understanding of how the nature and quality of social relationships relates to the use and evolution of communication is limited by a lack of directly comparable methods across multiple levels of analysis. Here, we analysed observational data from 111 wild groups belonging to 26 non-human primate species, to test how vocal communication relates to dominance style (the strictness with which a dominance hierarchy is enforced, ranging from 'despotic' to 'tolerant'). At the individual-level, we found that dominant individuals who were more tolerant vocalized at a higher rate than their despotic counterparts. This indicates that tolerance within a relationship may place pressure on the dominant partner to communicate more during social interactions. At the species-level, however, despotic species exhibited a larger repertoire of hierarchy-related vocalizations than their tolerant counterparts. Findings suggest primate signals are used and evolve in tandem with the nature of interactions that characterize individuals' social relationships.

The vocal repertoire of an African colobine, Colobus angolensis ruwenzorii: a multi-level society compared to congeners in stable groups

Vocal behaviour offers a window into understanding the social life and evolution of animals. Colobine monkeys show great interspecific and interpopulation variation in their social organization and behaviour. Recent research has shown that Rwenzori Angolan colobus (Colobus angolensis ruwenzorii) differ substantially from other black-and-white colobus in forming a multi-level society. No previous research has been conducted on the communication of C. a. ruwenzorii, but the social complexity hypothesis for communication suggests that more complex societies should evolve more complex communication repertoires. Our objective was to catalogue the vocal repertoire of C. a. ruwenzorii at Nabugabo, Uganda, and to compare it with the data available on congeners regarding intergroup tolerance, vocal repertoire size, and acoustic and behavioural features of vocal communication. Vocalizations were subject to spectrographic and behavioural analysis, and a descriptive analysis of each vocalization type was made. The influence of a few environmental and social factors on calling rates was also examined. We describe five vocalizations (i.e., the snort, roar, squeak, scream and pok) and one non-vocal signal (i.e., the tongue click) in this subspecies and their contexts. Distinct alarm calls are made for dogs, and these are given more often near the edge of the forest where humans frequent. We did not find that C. a. ruwenzorii showed a greater vocal repertoire than C. guereza or C. polykomos, which do not live in multi-level societies. Further, preliminary data do not indicate greater calling rates in larger core units of C. a. ruwenzorii compared to smaller units. These findings support the view that these primates’ vocalizations tend to be relatively conserved despite large differences in social organization.

Evolutionary significance of the variation in acoustic communication of a cryptic nocturnal primate radiation (Microcebus spp.)

Acoustic phenotypic variation is of major importance for speciation and the evolution of species diversity. Whereas selective and stochastic forces shaping the acoustic divergence of signaling systems are well studied in insects, frogs, and birds, knowledge on the processes driving acoustic phenotypic evolution in mammals is limited. We quantified the acoustic variation of a call type exchanged during agonistic encounters across eight distinct species of the smallest-bodied nocturnal primate radiation, the Malagasy mouse lemurs. The species live in two different habitats (dry forest vs. humid forest), differ in geographic distance to each other, and belong to four distinct phylogenetic clades within the genus. Genetically defined species were discriminated reliably on the phenotypic level based on their acoustic distinctiveness in a discriminant function analysis. Acoustic variation was explained by genetic distance, whereas differences in morphology, forest type, or geographic distance had no effect. The strong impact of genetics was supported by a correlation between acoustic and genetic distance and the high agreement in branching pattern between the acoustic and molecular phylogenetic trees. In sum, stochastic factors such as genetic drift best explained acoustic diversification in a social communication call of mouse lemurs.

Towards a new taxonomy of primate vocal production learning

The extent to which vocal learning can be found in nonhuman primates is key to reconstructing the evolution of speech. Regarding the adjustment of vocal output in relation to auditory experience (vocal production learning in the narrow sense), effects on the ontogenetic trajectory of vocal development as well as adjustment to group-specific call features have been found. Yet, a comparison of the vocalizations of different primate genera revealed striking similarities in the structure of calls and repertoires in different species of the same genus, indicating that the structure of nonhuman primate vocalizations is highly conserved. Thus, modifications in relation to experience only appear to be possible within relatively tight species-specific constraints. By contrast, comprehension learning may be extremely rapid and open-ended. In conjunction, these findings corroborate the idea of an ancestral independence of vocal production and auditory comprehension learning. To overcome the futile debate about whether or not vocal production learning can be found in nonhuman primates, we suggest putting the focus on the different mechanisms that may mediate the adjustment of vocal output in response to experience; these mechanisms may include auditory facilitation and learning from success. This article is part of the theme issue 'What can animal communication teach us about human language?'

Insights into the evolution of social systems and species from baboon studies

Baboons, members of the genus Papio, comprise six closely related species distributed throughout sub-Saharan Africa and southwest Arabia. The species exhibit more ecological flexibility and a wider range of social systems than many other primates. This article summarizes our current knowledge of the natural history of baboons and highlights directions for future research. We suggest that baboons can serve as a valuable model for complex evolutionary processes, such as speciation and hybridization. The evolution of baboons has been heavily shaped by climatic changes and population expansion and fragmentation in the African savanna environment, similar to the processes that acted during human evolution. With accumulating long-term data, and new data from previously understudied species, baboons are ideally suited for investigating the links between sociality, health, longevity and reproductive success. To achieve these aims, we propose a closer integration of studies at the proximate level, including functional genomics, with behavioral and ecological studies.

Sexual selection in the Kinda baboon

Due to wide variation in the presence and degree of expression of a diverse suite of sexually-selected traits, the tribe Papionini represents an outstanding model for understanding how variation in sexual selection pressures and mechanisms leads to trait evolution. Here, we discuss the particular value of Papio as a model genus for studies of sexual selection, emphasizing the presence of multiple mating systems, and differences in the expression of sexually-selected traits among closely-related species. We draw particular attention to the Kinda baboon (Papio kindae), a comparatively less-studied baboon species, by providing a primer to Kinda baboon morphology, genetics, physiology, and behavior. Based on observations of large group sizes, combined with low degrees of sexual dimorphism and large relative testis size relative to other baboon species, we test the hypothesis that Kinda baboons have evolved under reduced direct, and increased indirect, male-male competition. We present the first long-term data on wild Kinda baboons in Zambia. Kinda baboon females show seasonal peaks in births and reproductive receptivity, and males exhibit a queing-rather than contest-based dominance acquisition with long alpha-male tenure lengths. We finish by making a number of explicit testable predictions about Kinda baboon sexual signals and behaviors, and suggest that Kinda baboons have potential to offer new insights into the selective environments that may have been experienced during homininization.

Finding Meanings in Low Dimensional Structures: Stochastic Neighbor Embedding Applied to the Analysis of Indri indri Vocal Repertoire

Simple Summary

The description of the vocal repertoire represents a critical step before deepening other aspects of animal behaviour. Repertoires may contain both discrete vocalizations—acoustically distinct and distinguishable from each other—or graded ones, with a less rigid acoustic structure. The gradation level is one of the causes that make repertoires challenging to be objectively quantified. Indeed, the higher the level of gradation in a system, the higher the complexity in grouping its components. A large sample of Indri indri calls was divided into ten putative categories from the acoustic similarity among them. We extracted frequency and duration parameters and then performed two different analyses that were able to group the calls accordingly to the a priori categories, indicating the presence of ten robust vocal classes. The analyses also showed a neat grouping of discrete vocalizations and a weaker classification of graded ones.

Abstract

Although there is a growing number of researches focusing on acoustic communication, the lack of shared analytic approaches leads to inconsistency among studies. Here, we introduced a computational method used to examine 3360 calls recorded from wild indris (Indri indri) from 2005–2018. We split each sound into ten portions of equal length and, from each portion we extracted spectral coefficients, considering frequency values up to 15,000 Hz. We submitted the set of acoustic features first to a t-distributed stochastic neighbor embedding algorithm, then to a hard-clustering procedure using a k-means algorithm. The t-distributed stochastic neighbor embedding (t-SNE) mapping indicated the presence of eight different groups, consistent with the acoustic structure of the a priori identification of calls, while the cluster analysis revealed that an overlay between distinct call types might exist. Our results indicated that the t-distributed stochastic neighbor embedding (t-SNE), successfully been employed in several studies, showed a good performance also in the analysis of indris’ repertoire and may open new perspectives towards the achievement of shared methodical techniques for the comparison of animal vocal repertoires.