Validation of models for analysis of ranks in horse breeding evaluation

Background

Ranks have been used as phenotypes in the genetic evaluation of horses for a long time through the use of earnings, normal score or raw ranks. A model, ("underlying model" of an unobservable underlying variable responsible for ranks) exists. Recently, a full Bayesian analysis using this model was developed. In addition, in reality, competitions are structured into categories according to the technical level of difficulty linked to the technical ability of horses (horses considered to be the "best" meet their peers). The aim of this article was to validate the underlying model through simulations and to propose a more appropriate model with a mixture distribution of horses in the case of a structured competition. The simulations involved 1000 horses with 10 to 50 performances per horse and 4 to 20 horses per event with unstructured and structured competitions.

Results

The underlying model responsible for ranks performed well with unstructured competitions by drawing liabilities in the Gibbs sampler according to the following rule: the liability of each horse must be drawn in the interval formed by the liabilities of horses ranked before and after the particular horse. The estimated repeatability was the simulated one (0.25) and regression between estimated competing ability of horses and true ability was close to 1. Underestimations of repeatability (0.07 to 0.22) were obtained with other traditional criteria (normal score or raw ranks), but in the case of a structured competition, repeatability was underestimated (0.18 to 0.22). Our results show that the effect of an event, or category of event, is irrelevant in such a situation because ranks are independent of such an effect. The proposed mixture model pools horses according to their participation in different categories of competition during the period observed. This last model gave better results (repeatability 0.25), in particular, it provided an improved estimation of average values of competing ability of the horses in the different categories of events.

Conclusions

The underlying model was validated. A correct drawing of liabilities for the Gibbs sampler was provided. For a structured competition, the mixture model with a group effect assigned to horses gave the best results.     

Food competition in a semi-free-ranging Cebus apella group

The competitive regime faced by individuals is fundamental to modelling the evolution of social organization. In this paper, we assess the relative importance of contest and scramble food competition on the social dynamics of a provisioned semi-free-ranging Cebus apella group (n = 18). Individuals competed directly for provisioned and clumped foods. Effects of indirect competition were apparent with individuals foraging in different areas and with increased group dispersion during periods of low food abundance. We suggest that both forms of competition can act simultaneously and to some extent synergistically in their influence on social dynamics; the combination of social and ecological opportunities for competition and how those opportunities are exploited both influence the nature of the relationships within social groups of primates and underlie the evolved social structure.     

Women's intercollegiate athletic competition: Cortisol,testosterone, and the dual-hormone hypothesis as it relates to status among teammates

Recent research suggests that testosterone and cortisol jointly regulate dominance motivation and, perhaps, the status relationships that are affected by it. For this article, the results of six different studies of women's intercollegiate athletic competition were combined to give a sample size of almost ninety women for whom we had before- and after-competition values for salivary cortisol and testosterone for at least one and sometimes two competitions. For many of these women, we had surveys that allowed us to assess their status with teammates. In no matter what sport (soccer, softball, volleyball, and tennis) levels of salivary cortisol and testosterone increased when women participated in athletic competition. Salivary levels of C and T appear to rise in parallel during competition and increases in levels of one hormone are significantly related to increases in the other. Salivary levels of these hormones typically decreased for teammates who did not play but watched the competition from the sidelines. For women who played in two competitions, individual differences in the positive effect of competition on cortisol and testosterone were conserved from one competition to the next, affirming the personal consistency of endocrine responses to competition. Status with teammates was positively related to before-competition levels of testosterone, but only for women with relatively low before-competition levels of cortisol. This result provides novel support for the “dual-hormone hypothesis” as it relates to predicting social status in women's athletic teams — natural social groups of individuals who know each other and whose social hierarchy has evolved over the course of practice and play for at least one and, in some cases, several years of intercollegiate athletic competition.     

Ways of measuring rates of recurrent events.

Recurrent events are common in medical research, yet the best ways to measure their occurrence remain controversial. Moreover, the correct statistical techniques to compare the occurrence of such events across populations or treatment groups are not widely known. In both observational studies and randomised clinical trials one natural and intuitive measure of occurrence is the event rate, defined as the number of events (possibly including multiple events per person) divided by the total person-years of experience. This is often a more relevant and clinically interpretable measure of disease burden in a population than considering only the first event that occurs. Appropriate statistical tests to compare such event rates among treatment groups or populations require the recognition that some individuals may be especially likely to experience recurrent events. Straightforward approaches are available to account for this tendency in crude and stratified analyses. Recently developed regression models can appropriately examine the association of several variables with rates of recurrent events.     

Dominance,Politics, and Physiology: Voters' Testosterone Changes on the Night of the 2008 United States Presidential Election

Background

Political elections are dominance competitions. When men win a dominance competition, their testosterone levels rise or remain stable to resist a circadian decline; and when they lose, their testosterone levels fall. However, it is unknown whether this pattern of testosterone change extends beyond interpersonal competitions to the vicarious experience of winning or losing in the context of political elections. Women''s testosterone responses to dominance competition outcomes are understudied, and to date, a clear pattern of testosterone changes in response to winning and losing dominance competitions has not emerged.

Methodology/Principal Findings

The present study investigated voters'' testosterone responses to the outcome of the 2008 United States Presidential election. 183 participants provided multiple saliva samples before and after the winner was announced on Election Night. The results show that male Barack Obama voters (winners) had stable post-outcome testosterone levels, whereas testosterone levels dropped in male John McCain and Robert Barr voters (losers). There were no significant effects in female voters.

Conclusions/Significance

The findings indicate that male voters exhibit biological responses to the realignment of a country''s dominance hierarchy as if they participated in an interpersonal dominance contest.     

Bottom-up derivation of population models for competition involving multiple resources

This paper provides first-principles derivations of population models for competition involving multiple resources with different competition types, based on resource partitioning between individuals. The following two cases are investigated. The first is the case in which the resource competed for and its competition type change depending on life stages from scramble to contest competition, or from contest to scramble competition. The second is the case in which individuals compete for two resources simultaneously with scramble and contest types, respectively. In both cases, population models are derived analytically, and in particular, the Hassell model is derived in the second case. The nature of reproduction curves and the stability properties of three population models derived are compared with each other. These models provide three representative models for competition involving both scramble and contest types.     

Familiarity and dominance relations among female sooty mangabeys in the Taï National Park

Dominance relationships of female sooty mangabeys have thus far been studied exclusively in captive groups. In captivity, adult females form a stable linear hierarchy as would be expected in species exhibiting strong contest competition. However, the same individuals do not exhibit other aspects of behavior that would be expected where contest competition occurs. For example, they show no kin‐based alliances leading to hierarchies in which the members of each matriline occupy adjacent ranks. The goal of this study was to provide the first data on dominance relationships of sooty mangabey females in their natural environment in the Taï National Park, Ivory Coast. In our study group, adult females formed a linear dominance hierarchy. Aggression over food increased in food patches, as would be expected for species that experience contest competition. Moreover, females formed highly differentiated social relationships, showing particular affinities with females of adjacent rank. Am. J. Primatol. 56:137–153, 2002. © 2002 Wiley‐Liss, Inc.     

Individual-Based Competition Between Species with Spatial Correlation and Aggregation

In order to clarify the theoretical relationship between individual behavior and population-level competition between two species with spatial correlation, this paper describes how discrete-time competition equations for the two species can be derived from local resource competition among individuals. Competition type of each species is either scramble, contest, or modified contest, and for various combinations of two competition types, different competition models are derived. Simple competition models that can approximate the above models when competition is weak are also derived. Furthermore, the derived models are used to investigate how coexistence conditions and coexistence probability depend on spatial correlation and aggregation of individuals. For the weak competition models, spatial aggregation and non-correlation, in terms of measures adopted here, play exactly symmetric roles in promoting coexistence. In contrast, for the fully developed models, spatial aggregation generally exerts stronger effects than non-correlation on coexistence. Coexistence probability also depends greatly on competition types. For example, two species are generally more likely to coexist when they are of the same competition type than of different competition types. Coexistence probabilities from the mathematical analysis are in good agreement with those from individual-based simulations.     

The finding of an inverse relationship between social dominance and feeding priority among pairs of unfamiliar adult male vervet monkeys (Cercopithecus aethiops sabaeus)

Dominance is often presumed to confer priority of access to resources. This study evaluated the relationship between two assessments of dominance: (1) social dominance, based on agonistic interactions and (2) feeding priority among pairs of unfamiliar adult vervet monkeys (Cercopithecus aethiops sabaeus) differing in scrotal colour, but matched for height, weight and testicular volume, during paired introduction experiments. Results of this investigation showed that neither size differences nor scrotal colour were predictive of feeding priority, and social dominance was inversely related to feeding priority. This finding demonstrates that different assessments of dominance can yield different outcomes even within the same primate taxon. I propose that male dominance rank may best predict access to resources when there is direct contest competition over a resource, which is not immediately exhaustible, whereas highly impulsive low ranking males may gain a competitive edge in scramble competitions for ephemeral and small resources.     

Food calling in wild ravens (Corvus corax) revisited: Who is addressed?

Numerous birds and mammals use vocal signals to advertise feeding opportunities but often such signals vary with individual and contextual factors. Non-breeding ravens call at food that is difficult to access, resulting in the attraction of nearby conspecifics. Although callers may benefit from group formation in various ways, we recently found substantial individual variation in food calling. We here explored whether this variation can be partly explained by the social dynamics in raven foraging groups, together with already known effects of age class and sex. Specifically, we expected ravens to respond to the presence or absence of affiliates that could act as cooperative partners in the forthcoming feeding event, that is they should call when other ravens were present but they themselves were alone rather than when they were also in company of an affiliation partner. We observed the vocal behaviour of individually marked wild ravens and, simultaneously, categorized their affiliative behaviour with other ravens in the minutes before experimentally controlled feedings. In line with our prediction, individuals were less likely to produce food-associated calls when they were in close contact with an affiliation partner prior to feeding as compared to when they were alone. Furthermore, sex and age class influenced food calling as females called more often than males and younger birds called more often than adult ravens. In conclusion, these results suggest that ravens attempt to find support from a particular cooperative partner by broadly advertise feeding opportunities via food-associated calls, especially when they have low chances in contest competition due to their age and sex. These findings lend further support to the assumption of raven flocks being structured by social relationships and individual birds flexibly controlling their vocal signalling according to the current flock composition.     

Homophily and the Speed of Social Mobilization: The Effect of Acquired and Ascribed Traits

Large-scale mobilization of individuals across social networks is becoming increasingly prevalent in society. However, little is known about what affects the speed of social mobilization. Here we use a framed field experiment to identify and measure properties of individuals and their relationships that predict mobilization speed. We ran a global social mobilization contest and recorded personal traits of the participants and those they recruited. We studied the effects of ascribed traits (gender, age) and acquired traits (geography, and information source) on the speed of mobilization. We found that homophily, a preference for interacting with other individuals with similar traits, had a mixed role in social mobilization. Homophily was present for acquired traits, in which mobilization speed was faster when the recuiter and recruit had the same trait compared to different traits. In contrast, we did not find support for homophily for the ascribed traits. Instead, those traits had other, non-homophily effects: Females mobilized other females faster than males mobilized other males. Younger recruiters mobilized others faster, and older recruits mobilized slower. Recruits also mobilized faster when they first heard about the contest directly from the contest organization, and decreased in speed when hearing from less personal source types (e.g. family vs. media). These findings show that social mobilization includes dynamics that are unlike other, more passive forms of social activity propagation. These findings suggest relevant factors for engineering social mobilization tasks for increased speed.     

Hierarchical models of intra-specific competition: scramble versus contest

Hierarchical structured models for scramble and contest intraspecific competition are derived. The dynamical consequences of the two modes of competition are studied under the assumption that both populations divide up the same amount of a limiting resource at equal population levels. A comparison of equilibrium levels and their resiliences is made in order to determine which mode of competition is more advantageous. It is found that the concavity of the resource uptake rate is an important determining factor. Under certain circumstances contest competition is more advantageous for a population while under other circumstances scramble competition is more advantageous.Supported by NSF grant DMS-9306271     

The dining etiquette of desert baboons: the roles of social bonds, kinship, and dominance in co-feeding networks

To better understand how individual relationships influence patterns of social foraging in primate groups, we explored networks of co-feeding in wild desert baboons (Papio ursinus). To minimize the risk of aggression and injury associated with contest competition, we expected that individual group members would choose to co-feed with those group-mates that are most likely to show tolerance and a willingness to share food patches. We tested two alternative hypotheses about who those group-mates might be: the "social bonds hypothesis" predicts that preferred foraging partners will be those with whom individuals share strong social bonds, indexed by grooming, whereas the "kinship hypothesis" predicts that preferred foraging partners will be relatives. We also investigated and controlled for the effects of dominance rank, given that competitive ability is known to shape foraging patterns. Social network analyses of over 5,000 foraging events for 14 adults in a single troop revealed that baboon co-feeding was significantly correlated with grooming relationships but not genetic relatedness, and this finding was also true of the female-only co-feeding network. Dominant individuals were also found to be central to the co-feeding network, frequently sharing food patches with multiple group-mates. This polyadic analysis of foraging associations between individuals underlines the importance of dominance and affiliation to patterns of primate social foraging.     

2016 Rio Olympic Games: Can the schedule of events compromise athletes’ performance?

The organizing committee of the 2016 Rio Olympic Games recently announced that some of the preliminary and final competitions will be held at night. The present article discusses the potential harmful effects of these late-night competitions on sleep, circadian rhythms and athletic performance during the Olympic Games. Specifically, night-time competition could lead to injury and may compromise an athlete’s decision-making, attentional, physiological and other processes. Consequently, these impacts could negatively affect the performance of athletes and their teams. Thus, it is suggested that technical commissions take special care when creating strategies to minimize harm to the athletes by considering factors such as light exposure, melatonin intake, sleep hygiene and scheduled naps, and training at local competition time. Furthermore, it is necessary for specialists in chronobiology and sleep to engage with members of the national teams to develop an activity schedule for physical, technical, tactical and psychological preparation that accounts for circadian rhythms, thereby creating the best possible environment for the athletes to achieve their ideal performance.     

Interspecific Competition Models Derived from Competition Among Individuals

This paper demonstrates how discrete-time models describing population dynamics of two competing species can be derived in a bottom-up manner by considering competition for resources among individuals and the spatial distribution of individuals. The competition type of each species is assumed to be either scramble, contest, or an intermediate between them. Individuals of two species are distributed over resource sites or patches following one of three distribution functions. According to the combination of competition types of the two species and the distribution of individuals, various interspecific competition models are derived. Furthermore, a general interspecific competition model that includes various competition models as special cases is derived for each distribution of individuals. Finally, this paper examines dynamics of some of the derived competition models and shows that the likelihood of coexistence of the two species varies greatly, depending on the type of spatial distribution of individuals.     

The Regional Student Group Program of the ISCB Student Council: Stories from the Road

The International Society for Computational Biology (ISCB) Student Council was launched in 2004 to facilitate interaction between young scientists in the fields of bioinformatics and computational biology. Since then, the Student Council has successfully run events and programs to promote the development of the next generation of computational biologists. However, in its early years, the Student Council faced a major challenge, in that students from different geographical regions had different needs; no single activity or event could address the needs of all students. To overcome this challenge, the Student Council created the Regional Student Group (RSG) program. The program consists of locally organised and run student groups that address the specific needs of students in their region. These groups usually encompass a given country, and, via affiliation with the international Student Council, are provided with financial support, organisational support, and the ability to share information with other RSGs. In the last five years, RSGs have been created all over the world and organised activities that have helped develop dynamic bioinformatics student communities. In this article series, we present common themes emerging from RSG initiatives, explain their goals, and highlight the challenges and rewards through specific examples. This article, the first in the series, introduces the Student Council and provides a high-level overview of RSG activities. Our hope is that the article series will be a valuable source of information and inspiration for initiating similar activities in other regions and scientific communities.     

Multi-Modal Use of a Socially Directed Call in Bonobos

‘Contest hoots’ are acoustically complex vocalisations produced by adult and subadult male bonobos (Pan paniscus). These calls are often directed at specific individuals and regularly combined with gestures and other body signals. The aim of our study was to describe the multi-modal use of this call type and to clarify its communicative and social function. To this end, we observed two large groups of bonobos, which generated a sample of 585 communicative interactions initiated by 10 different males. We found that contest hooting, with or without other associated signals, was produced to challenge and provoke a social reaction in the targeted individual, usually agonistic chase. Interestingly, ‘contest hoots’ were sometimes also used during friendly play. In both contexts, males were highly selective in whom they targeted by preferentially choosing individuals of equal or higher social rank, suggesting that the calls functioned to assert social status. Multi-modal sequences were not more successful in eliciting reactions than contest hoots given alone, but we found a significant difference in the choice of associated gestures between playful and agonistic contexts. During friendly play, contest hoots were significantly more often combined with soft than rough gestures compared to agonistic challenges, while the calls'' acoustic structure remained the same. We conclude that contest hoots indicate the signaller''s intention to interact socially with important group members, while the gestures provide additional cues concerning the nature of the desired interaction.     

Individual Recognition Affects Aggression and Dominance Relations in Rainbow Trout,Oncorhynchus mykiss

In this study, the hypothesis that individual recognition is used as a cue to reduce the cost of contesting resources in rainbow trout Oncorhynchus mykiss, was addressed. The predictions were that the second contest between familiar individuals should be settled with less aggression, and lower probability of status reversal, than a contest between strangers. To test these predictions, similar-sized juvenile rainbow trout were subjected to two dyadic dominance contests in one of four treatment groups: in half of the pairs, the initially subordinate and dominant individuals were staged against an unfamiliar opponent (of opposite rank to their own) in a second contest, while in the other the initial pair was reunited for the second contest. Further, in half of the pairs, contestants were separated for 3 d between contests, while in the other the second contest was staged immediately after the first. Levels of aggression in contests between familiar individuals were lower than in contests between strangers, which supports the hypothesis that individual recognition reduces aggression. Dominance status was reversed in 31% of the 62 tested pairs. Although the probability of status reversal was not significantly affected by individual recognition, the degree of change in competitive success appeared to be lower in familiar pairs. Separation interacted with familiarity so that the effect of individual recognition generally was less pronounced when pairs were separated between contests, suggesting that the ability to remember opponents is time/limited. In natural streams, salmonids may use individual recognition to reduce the cost of contesting resources within groups, to reduce aggression between territory neighbours and to distinguish ‘cheaters’ from honest signallers.     

Balancing contest competition,scramble competition,and social tolerance at feeding sites in wild common marmosets (Callithrix jacchus)

Models of primate sociality focus on the costs and benefits of group living and how factors such as rank, feeding competition, alliance formation, and cooperative behavior shape within‐group social relationships. We conducted a series of controlled field experiments designed to investigate how resource distribution (one or three of four reward platforms) and amount of food on a reward platform affected foraging strategies and individual feeding success in four groups of wild common marmosets (Callithrix jacchus) living in the Caatinga of northeastern Brazil. At our field site, common marmoset groups are characterized by a single breeding female who can produce twin litters twice per year, strong social cohesion, and cooperative infant care provided principally by several adult male helpers. We found that except for the dominant breeding female, rank (based on aggression) was not a strong predictor of feeding success. Although the breeding female in each group occupied the highest rank position and obtained the greatest daily feeding success, all other group members, including adults and juveniles experienced relatively equal feeding success across most experimental conditions. This was accomplished using a balance of behavioral strategies related to contest competition, scramble competition (associated with a finder's advantage), and social tolerance (sharing the same feeding platform). Based on these results, the social structure of common marmosets is best described as “single female dominance,” with the breeding female maximizing food intake needed to offset the energetic costs associated with reproductive twinning and the ability to produce two litters per year. Cooperative infant caregiving, in which the number of helpers is positively correlated with offspring survivorship, requires a set of behavioral strategies that serve to reduce contest competition and promote prosocial behaviors at feeding sites.     

Scramble competitions can rescue endangered species subject to strong Allee effects

In this article, we study population dynamics of a general two-species discrete-time competition model where each species suffers from both strong Allee effects and scramble intra-specific competitions. We focus on how the combinations of the scramble intra-specific and inter-specific competition affect the extinction and coexistence of these two competing species where each species is subject to strong Allee effects. We derive sufficient conditions on the extinction, essential-like extinction and coexistence for such models. One of the most interesting findings is that scramble competitions can promote coexistence of these two species at their high densities. This is supported by the outcome of single species models with strong Allee effects. In addition, we apply theoretical results to a symmetric competition model with strong Allee effects induced by predator saturations where we give a completed study of its possible equilibria and attractors. Numerical simulations are performed to support our results.