Background Adaptive shifts in gut microbiome composition are one route by which animals adapt to seasonal changes in food availability and diet. However, outside of dietary shifts, other potential environmental drivers of gut microbial composition have rarely been investigated, particularly in organisms living in their natural environments. Results Here, we generated the largest wild nonhuman primate gut microbiome dataset to date to identify the environmental drivers of gut microbial diversity and function in 758 samples collected from wild Ethiopian geladas (Theropithecus gelada). Because geladas live in a cold, high-altitude environment and have a low-quality grass-based diet, they face extreme thermoregulatory and energetic constraints. We tested how proxies of food availability (rainfall) and thermoregulatory stress (temperature) predicted gut microbiome composition of geladas. The gelada gut microbiome composition covaried with rainfall and temperature in a pattern that suggests distinct responses to dietary and thermoregulatory challenges. Microbial changes were driven by differences in the main components of the diet across seasons: in rainier periods, the gut was dominated by cellulolytic/fermentative bacteria that specialized in digesting grass, while during dry periods the gut was dominated by bacteria that break down starches found in underground plant parts. Temperature had a comparatively smaller, but detectable, effect on the gut microbiome. During cold and dry periods, bacterial genes involved in energy, amino acid, and lipid metabolism increased, suggesting a stimulation of fermentation activity in the gut when thermoregulatory and nutritional stress co-occurred, and potentially helping geladas to maintain energy balance during challenging periods. Conclusion Together, these results shed light on the extent to which gut microbiota plasticity provides dietary and metabolic flexibility to the host, and might be a key factor to thriving in changing environments. On a longer evolutionary timescale, such metabolic flexibility provided by the gut microbiome may have also allowed members of Theropithecus to adopt a specialized diet, and colonize new high-altitude grassland habitats in East Africa.

The critical role of major histocompatibility complex (MHC) genes in disease resistance, along with their putative function in sexual selection, reproduction and chemical ecology, make them an important genetic system in evolutionary ecology. Studying selective pressures acting on MHC genes in the wild nevertheless requires population-wide genotyping, which has long been challenging because of their extensive polymorphism. Here, we report on large-scale genotyping of the MHC class II loci of the grey mouse lemur (Microcebus murinus) from a wild population in western Madagascar. The second exons from MHC-DRB and -DQB of 772 and 672 individuals were sequenced, respectively, using a 454 sequencing platform, generating more than 800,000 reads. Sequence analysis, through a stepwise variant validation procedure, allowed reliable typing of more than 600 individuals. The quality of our genotyping was evaluated through three independent methods, namely genotyping the same individuals by both cloning and 454 sequencing, running duplicates, and comparing parent–offspring dyads; each displaying very high accuracy. A total of 61 (including 20 new) and 60 (including 53 new) alleles were detected at DRB and DQB genes, respectively. Both loci were non-duplicated, in tight linkage disequilibrium and in Hardy–Weinberg equilibrium, despite the fact that sequence analysis revealed clear evidence of historical selection. Our results highlight the potential of 454 sequencing technology in attempts to investigate patterns of selection shaping MHC variation in contemporary populations. The power of this approach will nevertheless be conditional upon strict quality control of the genotyping data.

Sexual violence occurring in the context of long-term heterosexual relationships, such as sexual intimidation, is widespread across human populations [1-3]. However, its evolutionary origins remain speculative because few studies have investigated the existence of comparable forms of sexual coercion in animals [4, 5], in which repeated male aggression toward a female provides the aggressor with delayed mating benefits [6]. Here, we test whether male aggression toward females functions as sexual coercion in wild chacma baboons (Papio ursinus). We found support for all three main predictions of the sexual coercion hypothesis [7]: male aggression (1) is greatest against cycling females, (2) is costly and represents the main source of injuries for cycling females, and (3) increases male mating success with their victims in the future. Detailed analysis of chronological sequences between aggression and matings ruled out other coercive mechanisms, such as short-term harassment and punishment, by showing that aggression and matings are temporally decoupled. This decoupling may explain why some forms of sexual violence have been largely overlooked in well-studied animal populations despite their likely impact on the fitness of both sexes. Finally, we found no support for alternative hypotheses such as a female preference for aggressive males [8, 9]. This new, detailed study of the forms and intensity of sexual intimidation in a wild primate suggests that it may be widespread across mammalian societies, with important implications for understanding the evolution of mate choice and sexual conflict in mammals, as well as the origins of human sexual violence.

Sexual selection theory suggests that choice for partners carrying dissimilar genes at the major histocompatibility complex (MHC) may play a role in maintaining genetic variation in animal populations by limiting inbreeding or improving the immunity of future offspring. However, it is often difficult to establish whether the observed MHC dissimilarity among mates drives mate choice or represents a by-product of inbreeding avoidance based on MHC-independent cues. Here, we used 454-sequencing and a 10-year study of wild grey mouse lemurs (Microcebus murinus), small, solitary primates from western Madagascar, to compare the relative importance on the mate choice of two MHC class II genes, DRB and DQB, that are equally variable but display contrasting patterns of selection at the molecular level, with DRB under stronger diversifying selection. We further assessed the effect of the genetic relatedness and of the spatial distance among candidate mates on the detection of MHC-dependent mate choice. Our results reveal inbreeding avoidance, along with disassortative mate choice at DRB, but not at DQB. DRB-disassortative mate choice remains detectable after excluding all related dyads (characterized by a relatedness coefficient r > 0), but varies slightly with the spatial distance among candidate mates. These findings suggest that the observed deviations from random mate choice at MHC are driven by functionally important MHC genes (like DRB) rather than passively resulting from inbreeding avoidance and further emphasize the need for taking into account the spatial and genetic structure of the population in correlative tests of MHC-dependent mate choice.

22Close associations between adult males and lactating females occur in several promiscuous 23 primate species. Benefits gained by males from such bonds may include increases in offspring 24 fitness through paternal effort (the "mate-then-care" hypothesis) and/or subsequent mating 25 opportunities with the female (the "care-then-mate" hypothesis). Heterosexual friendships 26 between males and females have been described as tightly linked to the presence of a 27 dependent infant, but few studies have investigated whether these associations may be longer, 28 starting before an infant birth and lasting after its independence, and whether they may vary in 29 strength across time and dyads. We investigated the stability and strength of heterosexual 30 bonds in two groups of wild chacma baboons (Papio ursinus) to test whether male-female 31 associations (1) last from offspring conception to independence, as expected under the mate-32 then-care hypothesis, (2) last after maternal cycling resumption and increase male mating 33 success, as expected under the care-then-mate hypothesis, and (3) vary in strength depending 34 on female reproductive state, age and rank. Our results show that most male-female bonds are 35 already present at offspring conception, are maintained during pregnancy and lactation, and 36 disappeared when mother resumed cycling. Moreover, heterosexual bonds were most intense 37during early lactation and for high-ranking females, and did not predict subsequent mating 38 activity. Those findings favour the mate-then-care hypothesis, and confirm that male paternity 39 assessment may, at least partially, rely on mating history. Overall, stable heterosexual 40 friendships exist outside early lactation and last longer than previously thought, suggesting 41 that male-female bonds could play an important and under-appreciated role on the social 42 structure of groups in promiscuous primate societies. 43 44 SIGNIFICANCE STATEMENT 45 3 Stable male-female bonds are rare in promiscuous mammals. Baboons are unusual in this 46respect: tight friendships have been described between adult males and lactating females and 47 may protect infants against infanticide, but few studies have investigated whether these 48 associations may start before an infant's birth, or extend after its nutritional independence. We 49 explored the stability and strength of heterosexual relationships in the chacma baboon, and 50 found that friendships start before infant's conception, are maintained throughout pregnancy, 51 strengthen during lactation and disappear before mothers resume cycling. Such pattern of 52 association suggests that male-female bonds represent paternal effort, and may arise from 53 sexual activity before and during the conceptive cycle. Most females appear permanently 54 associated with one male regardless of their reproductive state, suggesting that heterosexual 55 bonds play an important, and under-appreciated, role in structuring the social organization of 56 baboon societies.57 58

Recent research reveals that female reproductive competition is common and may shape the social and reproductive strategies of female mammals. This study explores the determinants and intensity of female intrasexual conflicts in a wild promiscuous primate, the chacma baboon, Papio ursinus. We tested a suite of hypotheses to assess whether female-female aggression was primarily driven by instantaneous competition for food, mates or paternal care, or aimed at reducing future competition among offspring via reproductive suppression. Behavioural data were gathered from 53 females in two groups over two contrasting 2-year periods (2005-2006, 2013-2014): the first characterized by stability in the male dominance hierarchies, the second by instability induced by several immigration events and male takeovers. In both periods, we found that sexually receptive females received high levels of aggression from other sexually receptive females, consistent with competition over mating opportunities. In the unstable period, females exchanged higher rates of aggression than in the stable period, regardless of reproductive state, but lactating females received most aggression, consistent with higher competition over social access to male partners in response to increased infanticide risk. There was no evidence that aggression between females reflected either competition over food or reproductive suppression. These findings indicate that patterns of aggression between females fluctuate with sociodemographic factors affecting sexual and social access to males and reflect reproductive competition more closely than resource competition in this promiscuous primate society.

What do animals know of death? What can animals' responses to death tell us about the evolution of species’ minds, and the origins of humans' awareness of death and dying? A recent surge in interest in comparative thanatology may provide beginnings of answers to these questions. Here, we add to the comparative thanatology literature by reporting 12 cases of group members' responses to infants’ deaths, including 1 miscarriage and 2 stillbirths, recorded over 13 years in wild Namibian chacma baboons. Wild baboons' responses to dead infants were similar to other primates: in general, the mother of the infant carried the infants’ corpse for varying lengths of time (less than 1 h to 10 days) and tended to groom the corpses frequently, though, as in other studies, considerable individual differences were observed. However, we have not yet observed any corpse carriage of very long duration (i.e. greater than 20 days), which, though rare, occurs in other Old World monkeys and chimpanzees. We hypothesize this is due to the costs of carrying the corpse over the greater daily distances travelled by the Tsaobis baboons. Additionally, in contrast to other case reports, we observed male friends' ‘protection’ of the infant corpse on three occasions. We discuss the implications of these reports for current questions in the field.

Female-female competition over paternal care has rarely been investigated in promiscuous mammals, where discreet forms of male care have recently been reported despite low paternity certainty. We investigated female competition over paternal care in a wild promiscuous primate, the chacma baboon (), where pregnant and lactating females establish strong social bonds (friendships) with males that provide care to their offspring. We tested whether pregnant and lactating females interfere with the sexual activity of their male friend to prevent new conceptions that might lead to the subsequent dilution of his paternal care. We found that pregnant and lactating females were more aggressive towards oestrous females when they had recently conceived themselves, and when the oestrous female was mate-guarded by, and showed greater sexual activity with, their male friend. This aggression also reduced the likelihood of conception of the targeted female. These findings indicate that females can aggressively prevent further conceptions with their offspring's carer through reproductive suppression. Competition over access to paternal care may play an important and underestimated role in shaping female social relationships and reproductive strategies in promiscuous mammalian societies.