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The guppy Y chromosome has been considered a model system for the evolution of suppressed recombination between sex chromosomes, and it has been proposed that complete sex-linkage has evolved across about 3 Mb surrounding this fish's sex-determining locus, followed by recombination suppression across a further 7 Mb of the 23 Mb XY pair, forming younger "evolutionary strata". Sequences of the guppy genome show that Y is very similar to the X chromosome. Knowing which parts of the Y are completely nonrecombining, and whether there is indeed a large completely nonrecombining region, are important for understanding its evolution. Here, we describe analyses of PoolSeq data in samples from within multiple natural populations from Trinidad, yielding new results that support previous evidence for occasional recombination between the guppy Y and X. We detected recent demographic changes, notably that downstream populations have higher synonymous site diversity than upstream ones and other expected signals of bottlenecks. We detected evidence of associations between sequence variants and the sex-determining locus, rather than divergence under a complete lack of recombination. Although recombination is infrequent, it is frequent enough that associations with SNPs can suggest the region in which the sex-determining locus must be located. Diversity is elevated across a physically large region of the sex chromosome, conforming to predictions for a genome region with infrequent recombination that carries one or more sexually antagonistic polymorphisms. However, no consistently male-specific variants were found, supporting the suggestion that any completely sex-linked region may be very small.

When animals move along well-established pathways, sensory cues along the path may provide valuable information concerning other individuals that have used the same route. Yet the extent to which animals use pathways as sources of public social information is poorly understood. Here we quantified the responses of wild African savannah elephants, Loxodonta africana, to olfactory information along natural elephant pathways, habitual routes that link predictable critical resources in the environment. By monitoring the behaviour of elephants travelling on pathways in a predominantly male study population, we found that elephants were highly olfactorily responsive to pathway substrate. Lone travellers were more responsive than elephants travelling in groups, suggesting elephants without social companions may be more dependent on olfactory cues on pathways during navigation. Furthermore, by experimentally presenting olfactory cues on pathways we found that male African elephants exhibited focused olfactory responses to urine cues of same-sex conspecifics for at least 48 h from time of deposition, and that urine from adult elephants was more likely to elicit vomeronasal system responses than subadult urine. African elephants may therefore potentially be able to discern the age and maturity of individuals they can expect to encounter in the environment from remote urine cues on pathways. We suggest elephant pathways act as a public information resource, assisting navigating elephants via the depositing of urine and dung by previous travellers on the route. These results could help inform elephant management, which may manipulate olfactory information on pathways in high human–wildlife conflict areas, or could use olfactory urine cues to improve the efficiency of corridors that link protected areas for elephants.

Animal groups are heterogeneous assemblages of individuals with differing fitness interests, which may lead to internal conflict over investment in group territorial defence. Differences between individuals may lead to different behavioural responses to intergroup conflict, particularly between the sexes. These potential impacts have been little studied. We used social network analysis to investigate the impact of simulated intergroup conflicts on social relationships in groups of wild banded mongooses Mungos mungo, in which intergroup fights are more costly for males than females. We predicted that social cohesion (specifically male-to-male and female-to-male grooming) would increase after conflict, and aggression would decrease, to minimize conflict between the sexes. Simulated intergroup conflicts were performed by exposing banded mongoose groups to scents, 'war cry' playbacks, and live intruders from a rival group. All grooming and aggression interactions between individuals were recorded, and grooming and aggression social networks were created for the 2 days preceding a simulated intergroup conflict (pre-conflict network) and the 2 days after (post-conflict network). We found no evidence of an increase in social cohesion after simulated conflicts, measured as grooming eigenvector centrality. Male-to-male, male-to-female and female-to-male grooming strength decreased after simulated intrusions compared to female-to-female grooming strength. However, male-female aggression decreased in intrusion trials compared to other interaction types, consistent with the hypothesis that intergroup encounters reduce the level of intragroup conflict between males and females. Males were more affected socially by intergroup encounters than females, which may be because they are investing in defence rather than internal relationships. Focusing on individual relationship changes, using social network analysis, can reveal changes in the directionality of behaviour in response to intergroup encounters, and highlight how individual responses to conflict may scale up to affect social networks and, potentially, group performance. This study highlights the importance of studying both group-level behaviours and individual relationships to more fully understand responses to intergroup encounters.

In long-lived social species, older individuals can provide fitness benefits to their groupmates through the imparting of ecological knowledge. Research in this area has largely focused on females in matrilineal societies where, for example, older female African savannah elephants (Loxodonta africana) are most effective at making decisions crucial to herd survival, and old post-reproductive female resident killer whales (Orcinus orca) lead collective movements in hunting grounds. In contrast, little is known about the role of older males as leaders in long-lived social species. By analysing leadership patterns of all-male African savannah elephant traveling groups along elephant pathways in Makgadikgadi Pans National Park, Botswana, we found that the oldest males were more likely to lead collective movements. Our results challenge the assumption that older male elephants are redundant in the population and raise concerns over the biased removal of old bulls that currently occurs in both legal trophy hunting and illegal poaching. Selective harvesting of older males could have detrimental effects on the wider elephant society through loss of leaders crucial to younger male navigation in unknown, risky environments.

Because of the nature of social interaction or association data, when testing hypotheses using social network data it is common for network studies to rely on permutations to control for confounding variables, and to not also control for them in the fitted statistical model. This can be a problem because it does not adjust for any bias in effect sizes generated by these confounding effects, and thus the effect sizes are not informative in the presence of counfouding variables.We implemented two network simulation examples and analysed an empirical data set to demonstrate how relying solely on permutations to control for confounding variables can result in highly biased effect size estimates of animal social preferences that are uninformative when quantifying differences in behaviour.Using these simulations, we show that this can sometimes even lead to effect sizes that have the wrong sign and are thus the effect size is not biologically interpretable. We demonstrate how this problem can be addressed by controlling for confounding variables in the statistical dyadic or nodal model.We recommend this approach should be adopted as standard practice in the statistical analysis of animal social network data.

The ultimate payoff of behaviours depends not only on their direct impact on an individual, but also on the impact on their relatives. Local relatedness-the average relatedness of an individual to their social environment-therefore has profound effects on social and life history evolution. Recent work has begun to show that local relatedness has the potential to change systematically over an individual's lifetime, a process called kinship dynamics. However, it is unclear how general these kinship dynamics are, whether they are predictable in real systems and their effects on behaviour and life history evolution. In this study, we combine modelling with data from real systems to explore the extent and impact of kinship dynamics. We use data from seven group-living mammals with diverse social and mating systems to demonstrate not only that kinship dynamics occur in animal systems, but also that the direction and magnitude of kinship dynamics can be accurately predicted using a simple model. We use a theoretical model to demonstrate that kinship dynamics can profoundly affect lifetime patterns of behaviour and can drive sex differences in helping and harming behaviour across the lifespan in social species. Taken together, this work demonstrates that kinship dynamics are likely to be a fundamental dimension of social evolution, especially when considering age-linked changes and sex differences in behaviour and life history.

Sheep are highly social domesticated animals that evolved to live in large and structured groups. As in other group-living species, individuals differ in the level of association they have with others, and these associations often result in lasting and stable social bonds. However, there are substantial gaps in our knowledge of the temporal social dynamics in sheep, and how their social bonds vary in relation to environmental changes. Here, we aimed to assess the social relationships between ewes and lambs, collecting dyadic associations data of 41 ewes and 55 lambs through the use of proximity loggers on a commercial farm. We computed association indices between each pair of animals to estimate the proportion of time any two individuals associated. We first generated an aggregated network of the whole 13-day observation period, and we compared the values of association indices between different types of dyads (i.e., lamb-mother, lamb-ewe non-mother, lambs littermates, lambs non-littermates, ewe-ewe). We generated aggregated contact networks on a daily scale to compare the ego-networks of individuals obtained in successive time windows to determine how stable social associations were over time. As would be expected, the highest values of association indices were found in dyads formed by dams and lambs (0.17 ± 0.11) and by lambs of the same litter (0.32 ± 0.09). Both single-born and twin-born lambs showed high association values with their dams (single-born: 0.24 ± 0.11; twin-born: 0.1 ± 0.05), although twin-born lambs had stronger associations with their littermates compared with those with their mothers (p-value < 0.001). At a temporal level, the flock exhibited periods of high network stability at the beginning and at the end of the study period. However, periods of social instability occurred one-two days after management interventions, such as changes in field size. These transitory periods of social instability were driven by changes in the association patterns of ewes and single born lambs. In contrast, the ego-networks of twin-born lambs remained relatively stable, supported by strong association levels between twins. Thus, the social instability of the social network was not a global one, but some parts of the network remained stable while others underwent important changes. Our study represents a first step to track social associations within an ewe-lamb group using proximity tags and advances our understanding of the social organisation of sheep. We highlight the importance of detecting social network instability as a consequence of different types of perturbations in order to identify the presence of social rearrangements.

To understand the processes underpinning social decision-making, we need to determine how internal states respond to information gathered from the social environment. Brain monoamine neurotransmitters are key in the appraisal of the social environment and can reflect the internal state underlying behavioural responses to social stimuli. Here we determined the effects of conspecific partner cooperativeness during predator inspection on brain monoamine metabolic activity in Trinidadian guppies (Poecilia reticulata). We quantified the concentration of dopamine, serotonin and their metabolites across brain sections sampled immediately after ostensibly experiencing cooperation or defection from social partners whilst inspecting a predator model. Our results indicate dopaminergic and serotonergic activity differs with the cooperativeness experienced; these different neurotransmission profiles are likely to affect the expression and regulation of downstream behaviours that ultimately contribute to the patterning of cooperative interactions among individuals in the population.List of abbreviations used

Mounting evidence suggests that patterns of local relatedness can change over time in predictable ways, a process termed kinship dynamics. Kinship dynamics may occur at the level of the population or social group, where the mean relatedness across all members of the population or group changes over time, or at the level of the individual, where an individual's relatedness to its local group changes with age. Kinship dynamics are likely to have fundamental consequences for the evolution of social behaviour and life history because they alter the inclusive fitness payoffs to actions taken at different points in time. For instance, growing evidence suggests that individual kinship dynamics have shaped the evolution of menopause and age-specific patterns of helping and harming. To date, however, the consequences of kinship dynamics for social evolution have not been widely explored. Here we review the patterns of kinship dynamics that can occur in natural populations and highlight how taking a kinship dynamics approach has yielded new insights into behaviour and life-history evolution. We discuss areas where analysing kinship dynamics could provide new insight into social evolution, and we outline some of the challenges in predicting and quantifying kinship dynamics in natural populations.

The extended female postreproductive life span found in humans and some toothed whales remains an evolutionary puzzle. Theory predicts demographic patterns resulting in increased female relatedness with age (kinship dynamics) can select for a prolonged postreproductive life span due to the combined costs of intergenerational reproductive conflict and benefits of late‐life helping. Here, we test this prediction using >40 years of longitudinal demographic data from the sympatric yet genetically distinct killer whale ecotypes: resident and Bigg's killer whales. The female relatedness with age is predicted to increase in both ecotypes, but with a less steep increase in Bigg's due to their different social structure. Here, we show that there is a significant postreproductive life span in both ecotypes with >30% of adult female years being lived as postreproductive, supporting the general prediction that an increase in local relatedness with age predisposes the evolution of a postreproductive life span. Differences in the magnitude of kinship dynamics however did not influence the timing or duration of the postreproductive life span with females in both ecotypes terminating reproduction before their mid‐40s followed by an expected postreproductive period of about 20 years. Our results highlight the important role of kinship dynamics in the evolution of a long postreproductive life span in long‐lived mammals, while further implying that the timing of menopause may be a robust trait that is persistent despite substantial variation in demographic patterns among populations., The rare life history trait of a long postreproductive period in females have been linked to demographic patterns leading to an increased relatedness to the local group with age (kinship dynamics). Here, we show that two killer whale ecotypes that are genetically distinct and exhibit different demographic patterns as well as different strengths of expected kinship dynamics have evolved a long postreproductive period in females, supporting the prediction that an increased female local relatedness with age predisposes for the evolution of this life history trait. Moreover, this results indicates that the onset of the postreproductive period may be robust to substantial variation in demographic patterns among populations.

In many animal species, individuals with certain morphological, physiological, or behavioural traits may have a disproportionately large role in determining group behaviour. While most empirical studies of leadership have focused on behaviour of individuals exploring new environments or foraging, little is known about leading behaviour in other ecological contexts. Here, we use a selective breeding design in the Trinidadian guppy (Poecilia reticulata) to quantify the heritability of leadership in a cooperative context, and determine the behavioural traits associated with it. Firstly we found that phenotypic selection for high and low leadership (HL and LL, respectively) over three filial generations resulted in pronounced differences in leadership tendency with a moderate degree of heritability. In our assay of other social traits, LL males were more aggressive and sampled their social environment less than HL males, but HL and LL females did not differ in either aggressiveness or sociability. Traits such as boldness and exploratory tendency did not diverge between the two lines. Leading behaviour was thus associated with social traits in males, but not females; suggesting that there may be sex-specific mechanisms driving the emergence of leadership in this context. We discuss our findings in the context of the evolution of cooperation.

This work was supported by the University of Exeter through an Exeter Graduate Fellow studentship.

Abstract In studies of social behaviour, social bonds are usually inferred from rates of interaction or association. This approach has revealed many important insights into the proximate formation and ultimate function of animal social structures. However, it remains challenging to compare social structure between systems or time-points because extrinsic factors, such as sampling methodology, can also influence the observed rate of association. As a consequence of these methodological challenges, it is difficult to analyse how patterns of social association change with demographic processes, such as the death of key social partners. Here we develop and illustrate the use of binomial mixture models to quantitatively compare patterns of social association between networks. We then use this method to investigate how patterns of social preferences in killer whales respond to demographic change. Resident killer whales are bisexually philopatric, and both sexes stay in close association with their mother in adulthood. We show that mothers and daughters show reduced social association after the birth of the daughter’s first offspring, but not after the birth of an offspring to the mother. We also show that whales whose mother is dead associate more with their opposite sex siblings and with their grandmother than whales whose mother is alive. Our work demonstrates the utility of using mixture models to compare social preferences between networks and between species. We also highlight other potential uses of this method such as to identify strong social bonds in animal populations. Significance statement Comparing patters of social associations between systems, or between the same systems at different times, is challenging due to the confounding effects of sampling and methodological differences. Here we present a method to allow social associations to be robustly classified and then compared between networks using binomial mixture models. We illustrate this method by showing how killer whales change their patterns of social association in response to the birth of calves and the death of their mother. We show that after the birth of her calf, females associate less with their mother. We also show that whales’ whose mother is dead associate more with their opposite sex siblings and grandmothers than whales’ whose mother is alive. This clearly demonstrates how this method can be used to examine fine scale temporal processes in animal social systems.

Parallel evolution, in which independent populations evolve along similar phenotypic trajectories, offers insights into the repeatability of adaptive evolution. Here, we revisit a classic example of parallelism, that of repeated evolution of brighter males in the Trinidadian guppy (Poecilia reticulata). In guppies, colonisation of low predation habitats is associated with emergence of 'more colourful' phenotypes since predator-induced viability selection for crypsis weakens while sexual selection by female preference for conspicuousness remains strong. Our study differs from previous investigations in three respects. First, we adopted a multivariate phenotyping approach to characterise parallelism in multitrait space. Second, we used ecologically-relevant colour traits defined by the visual systems of the two selective agents (i.e., guppy, predatory cichlid). Third, we estimated population genetic structure to test for adaptive (parallel) evolution against a model of neutral phenotypic divergence. We find strong phenotypic differentiation that is inconsistent with a neutral model but very limited support for the predicted pattern of greater conspicuousness at low predation. Effects of predation regime on each trait were in the expected direction, but weak, largely nonsignificant, and explained little among-population variation. In multitrait space, phenotypic trajectories of lineages colonising low from high predation regimes were not parallel. Our results are consistent with reduced predation risk facilitating adaptive differentiation, potentially by female choice, but suggest that this proceeds in independent directions of multitrait space across lineages. Pool-sequencing data also revealed SNPs showing greater differentiation than expected under neutrality, among which some are found in genes contributing to colour pattern variation, presenting opportunities for future genetic study.

For non-kin cooperation to be maintained, individuals need to respond adaptively to the cooperative behaviour of their social partners. Currently, however, little is known about the biological responses of individuals to experiencing cooperation. Here, we quantify the neuroregulatory response of Trinidadian guppies (Poecilia reticulata) experiencing cooperation or defection by examining the transcriptional response of the oxytocin gene (oxt; also known as isotocin), which has been implicated in cooperative decision-making. We exposed wild-caught females to social environments where partners either cooperated or defected during predator inspection, or to a control (non-predator inspection) context, and quantified the relative transcription of the oxt gene. We tested an experimental group, originating from a site where individuals are under high predation threat and have previous experience of large aquatic predators (HP), and a control group, where individuals are under low predation threat and naive to large aquatic predators (LP). LP, but not HP, fish showed different behavioural responses to the behaviour of their social environment, cooperating with cooperative partners and defecting when paired with defecting ones. In HP, but not LP, fish brain mid-section oxt relative transcription varied depending on social partner behaviour. HP fish experiencing cooperation during predator inspection had lower oxt transcription than those experiencing defection. This effect was not present in the control population or in the control context, where the behaviour of social partners did not affect oxt transcription. Our findings provide insight into the neuromodulation underpinning behavioural responses to social experiences, and ultimately to the proximate mechanisms underlying social decision-making.

Inhibitory control (IC) is the ability to overcome impulsive or prepotent but ineffective responses in favour of more appropriate behaviours. The ability to inhibit internal predispositions or external temptations is vital in coping with a complex and variable world. Traditionally viewed as cognitively demanding and a main component of executive functioning and self-control, IC was historically examined in only a few species of birds and mammals but recently a number of studies has shown that a much wider range of taxa rely on IC. Furthermore, there is growing evidence that inhibitory abilities may vary within species at the population and individual levels owing to genetic and environmental factors. Here we use a detour-reaching task, a standard paradigm to measure motor inhibition in nonhuman animals, to quantify patterns of interindividual variation in IC in wild-descendant female guppies, Poecilia reticulata. We found that female guppies displayed inhibitory performances that were, on average, half as successful as the performances reported previously for other strains of guppies tested in similar experimental conditions. Moreover, we showed consistent individual variation in the ability to inhibit inappropriate behaviours. Our results contribute to the understanding of the evolution of fish cognition and suggest that IC may show considerable variation among populations within a species. Such variation in IC abilities might contribute to individual differences in other cognitive functions such as spatial learning, quantity discrimination or reversal learning.

Understanding the herd structure of housed dairy cows has the potential to reveal preferential interactions, detect changes in behavior indicative of illness, and optimize farm management regimes. This study investigated the structure and consistency of the proximity interaction network of a permanently housed commercial dairy herd throughout October 2014, using data collected from a wireless local positioning system. Herd-level networks were determined from sustained proximity interactions (pairs of cows continuously within three meters for 60 s or longer), and assessed for social differentiation, temporal stability, and the influence of individual-level characteristics such as lameness, parity, and days in milk. We determined the level of inter-individual variation in proximity interactions across the full barn housing, and for specific functional zones within it (feeding, non-feeding). The observed networks were highly connected and temporally varied, with significant preferential assortment, and inter-individual variation in daily interactions in the non-feeding zone. We found no clear social assortment by lameness, parity, or days in milk. Our study demonstrates the potential benefits of automated tracking technology to monitor the proximity interactions of individual animals within large, commercially relevant groups of livestock.

Parallel evolution, in which independent populations evolve along similar phenotypic trajectories, offers insights into the repeatability of adaptive evolution. Here, we revisit a classic example of parallelism, that of repeated evolution of brighter males in the Trinidadian guppy. In guppies, colonisation of low predation habitats is associated with emergence of ‘more colourful’ phenotypes since predator-induced viability selection for crypsis weakens while sexual selection by female preference for conspicuity remains strong. Our study differs from previous investigations in three respects. First, we adopt a multivariate phenotyping approach to characterise parallelism in multi-trait space. Second, we use ecologically-relevant colour traits defined by the visual systems of the two selective agents (i.e. guppy, predatory cichlid). Third, we estimate population genetic structure to test for adaptive (parallel) evolution against a model of neutral phenotypyc divergence. We find strong phenotypic differentiation that is inconsistent with a neutral model, but only limited support for the predicted pattern of greater conspicuity at low predation. Effects of predation regime on each trait were in the expected direction, but weak, largely non-significant, and explained little among-population variation. In multi-trait space, phenotypic trajectories of lineages colonising low from high predation regimes were not parallel. Our results are consistent with reduced predation risk facilitating adaptive differentiation by female choice, but suggest that this proceeds in (effectively) independent directions of multi-trait space across lineages. Pool-sequencing data also revealed SNPs showing greater differentiation than expected under neutrality and/or associations with known colour genes in other species, presenting opportunities for future genetic study.

Social network methods have become a key tool for describing, modelling, and testing hypotheses about the social structures of animals. However, due to the non-independence of network data and the presence of confounds, specialized statistical techniques are often needed to test hypotheses in these networks. Datastream permutations, originally developed to test the null hypothesis of random social structure, have become a popular tool for testing a wide array of null hypotheses. In particular, they have been used to test whether exogenous factors are related to network structure by interfacing these permutations with regression models.Here, we show that these datastream permutations typically do not represent the null hypothesis of interest to researchers interfacing animal social network analysis with regression modelling, and use simulations to demonstrate the potential pitfalls of using this methodology.Our simulations show that utilizing common datastream permutations to test the coefficients of regression models can lead to extremely high type I (false-positive) error rates (> 30%) in the presence of non-random social structure. The magnitude of this problem is primarily dependent on the degree of non-randomness within the social structure and the intensity of samplingWe strongly recommend against utilizing datastream permutations to test regression models in animal social networks. We suggest that a potential solution may be found in regarding the problems of non-independence of network data and unreliability of observations as separate problems with distinct solutions.

Many animals live in societies where individuals frequently interact socially with each other. The social structures of these systems can be studied in depth by means of network analysis. A large number of studies on animal social networks in many species have in recent years been carried out in the biological research field of animal behaviour and have provided new insights into behaviour, ecology, and social evolution. This line of research is currently not so well connected to the field of complex systems as could be expected. The purpose of this paper is to provide an introduction to animal social networks for complex systems scientists and highlight areas of synergy. We believe that an increased integration of animal social networks with the interdisciplinary field of complex systems and networks would be beneficial for various reasons. Increased collaboration between researchers in this field and biologists studying animal social systems could be valuable in solving challenges that are of importance to animal social network research. Furthermore, animal social networks provide the opportunity to investigate hypotheses about complex systems across a range of natural real-world social systems. In this paper, we describe what animal social networks are and main research themes where they are studied; we give an overview of the methods commonly used to study animal social networks; we highlight challenges in the study of animal social networks where complex systems expertise may be particularly valuable; and we consider aspects of animal social networks that may be of particular interest to complex systems researchers. We hope that this will help to facilitate further interdisciplinary collaborations involving animal social networks, and further integration of these networks into the field of complex systems., 15 pages, 2 figures