What have we been looking at? A call for consistency in studies of primate vigilance

Vigilance functions to detect threats. In primates, these threats emerge from both predators and conspecifics, but a host of other social, demographic, and ecological factors have been shown to influence primate vigilance patterns. The primate vigilance literature is thus characterized by considerable variation in findings, with inconsistent or contradictory results reported not only across different species but also within species and populations across studies. Some of this variation could emerge from fundamental differences in the methods employed, making comparisons across species and groups challenging. Furthermore, identifying consistent behavioral markers for the state of vigilance appears to have proved challenging in primates, leading to a range of definitions being developed. Deviation at this level leads directly into concomitant variation at the level of sampling methodologies. As a result, the primate vigilance literature currently presents a diverse series of approaches to exploring subtly different behaviors and phenomena. This review calls for a greater consistency in studying vigilance, with the aim of encouraging future research to follow similar principles leading to more comparable results. Identifying whether an animal is in a vigilant state is challenging for most field researchers; identifying and recording a more general behavior of “looking” should though be more achievable. Experimental approaches could then be employed to understand the compatibility “looking” has with predator detection (and other threats) in individual study systems. The outcome of this approach will allow researchers to understand the key determinants of looking in their study groups and explore threat detection probabilities given an individual or group's relative level of looking

Habituation is not neutral or equal: Individual differences in tolerance suggest an overlooked personality trait

In behavioral studies, observer effects can be substantial, even for habituated animals, but few studies account for potential observer-related phenomenon empirically. We used wild, habituated chacma baboons to explore two key assumptions of behavioral ecology (i) that observers become a “neutral” stimulus and (ii) that habituation is “equal” across group members. Using flight initiation distance (FID) methods within a personality paradigm, the behavioral responses of baboons suggested that observers were not perceived as neutral but instead viewed as a high-ranking social threat. Habituation was also not equal across group members, with repeatable individual differences more important than contextual factors (e.g., habitat) in determining the distance at which baboons visually oriented or displaced from observers. A strong correlation between individual visual tolerance and displacement tolerance (i.e., convergent validity) indicated a personality trait. We offer several suggestions for how to account for these factors and minimize potential bias in future studies

Intolerant baboons avoid observer proximity, creating biased inter-individual association patterns

Social network analysis is an increasingly popular tool for behavioural ecologists exploring the social organisation of animal populations. Such analyses require data on inter-individual association patterns, which in wild populations are often collected using direct observations of habituated animals. This assumes observers have no influence on animal behaviour; however, our previous work showed that individuals in a habituated group of chacma baboons (Papio ursinus griseipes) displayed consistent and individually distinct responses to observer approaches. We explored the implications of our previous findings by measuring the inter-individual association patterns of the same group of chacma baboons at different observer distances. We found a strong positive association between individual tolerance levels (towards observers) and how often an animal appeared as a neighbour to focal animals when observers were nearer, and a neutral relationship between the same variables when the observer was further away. Additionally, association matrices constructed from different observation distances were not comparable within any proximity buffer, and neither were the individual network metrics generated from these matrices. This appears to be the first empirical evidence that observer presence and behaviour can influence the association patterns of habituated animals and thus have potentially significant impacts on measured social networks

Polymorphism in glutathione S-transferase P1 is associated with susceptibility to chemotherapyinduced leukemia

Glutathione S-transferases (GSTs) detoxify potentially mutagenic and toxic DNA-reactive electrophiles, including metabolites of several chemotherapeutic agents, some of which are suspected human carcinogens. Functional polymorphisms exist in at least three genes that encode GSTs, including GSTM1, GSTT1, and GSTP1. We hypothesize, therefore, that polymorphisms in genes that encode GSTs alter susceptibility to chemotherapy-induced carcinogenesis, specifically to therapy-related acute myeloid leukemia (t-AML), a devastating complication of long-term cancer survival. Elucidation of genetic determinants may help to identify individuals at increased risk of developing t-AML. To this end, we have examined 89 cases of t-AML, 420 cases of de novo AML, and 1,022 controls for polymorphisms in GSTM1, GSTT1, and GSTP1. Gene deletion of GSTM1 or GSTT1 was not specifically associated with susceptibility to t-AML. Individuals with at least one GSTP1 codon 105 Val allele were significantly over-represented in t-AML cases compared with de novo AML cases [odds ratio (OR), 1.81; 95% confidence interval (CI), 1.11–2.94]. Moreover, relative to de novo AML, the GSTP1 codon 105 Val allele occurred more often among t-AML patients with prior exposure to chemotherapy (OR, 2.66; 95% CI, 1.39–5.09), particularly among those with prior exposure to known GSTP1 substrates (OR, 4.34; 95% CI, 1.43–13.20), and not among those t-AML patients with prior exposure to radiotherapy alone (OR,1.01; 95% CI, 0.50–2.07). These data suggest that inheritance of at least one Val allele at GSTP1 codon 105 confers a significantly increased risk of developing t-AML after cytotoxic chemotherapy, but not after radiotherapy

Cutoff for the Ising model on the lattice

Introduced in 1963, Glauber dynamics is one of the most practiced and extensively studied methods for sampling the Ising model on lattices. It is well known that at high temperatures, the time it takes this chain to mix in $L^1$ on a system of size $n$ is $O(\log n)$. Whether in this regime there is cutoff, i.e. a sharp transition in the $L^1$-convergence to equilibrium, is a fundamental open problem: If so, as conjectured by Peres, it would imply that mixing occurs abruptly at $(c+o(1))\log n$ for some fixed $c>0$, thus providing a rigorous stopping rule for this MCMC sampler. However, obtaining the precise asymptotics of the mixing and proving cutoff can be extremely challenging even for fairly simple Markov chains. Already for the one-dimensional Ising model, showing cutoff is a longstanding open problem. We settle the above by establishing cutoff and its location at the high temperature regime of the Ising model on the lattice with periodic boundary conditions. Our results hold for any dimension and at any temperature where there is strong spatial mixing: For $\Z^2$ this carries all the way to the critical temperature. Specifically, for fixed $d\geq 1$, the continuous-time Glauber dynamics for the Ising model on $(\Z/n\Z)^d$ with periodic boundary conditions has cutoff at $(d/2\lambda_\infty)\log n$, where $\lambda_\infty$ is the spectral gap of the dynamics on the infinite-volume lattice. To our knowledge, this is the first time where cutoff is shown for a Markov chain where even understanding its stationary distribution is limited. The proof hinges on a new technique for translating $L^1$ to $L^2$ mixing which enables the application of log-Sobolev inequalities. The technique is general and carries to other monotone and anti-monotone spin-systems.Comment: 34 pages, 3 figure

Nonlinear surface waves in left-handed materials

We study both linear and nonlinear surface waves localized at the interface separating a left-handed medium (i.e. the medium with both negative dielectric permittivity and negative magnetic permeability) and a conventional (or right-handed) dielectric medium. We demonstrate that the interface can support both TE- and TM-polarized surface waves - surface polaritons, and we study their properties. We describe the intensity-dependent properties of nonlinear surface waves in three different cases, i.e. when both the LH and RH media are nonlinear and when either of the media is nonlinear. In the case when both media are nonlinear, we find two types of nonlinear surface waves, one with the maximum amplitude at the interface, and the other one with two humps. In the case when one medium is nonlinear, only one type of surface wave exists, which has the maximum electric field at the interface, unlike waves in right-handed materials where the surface-wave maximum is usually shifted into a self-focussing nonlinear medium. We discus the possibility of tuning the wave group velocity in both the linear and nonlinear cases, and show that group-velocity dispersion, which leads to pulse broadening, can be balanced by the nonlinearity of the media, so resulting in soliton propagation.Comment: 9 pages, 10 figure

Frequency and damping of hydrodynamic modes in a trapped Bose-condensed gas

Recently it was shown that the Landau-Khalatnikov two-fluid hydrodynamics describes the collision-dominated region of a trapped Bose condensate interacting with a thermal cloud. We use these equations to discuss the low frequency hydrodynamic collective modes in a trapped Bose gas at finite temperatures. We derive a variational expressions based on these equations for both the frequency and damping of collective modes. A new feature is our use of frequency-dependent transport coefficients, which produce a natural cutoff by eliminating the collisionless low-density tail of the thermal cloud. Above the superfluid transition, our expression for the damping in trapped inhomogeneous gases is analogous to the result first obtained by Landau and Lifshitz for uniform classical fluids. We also use the moment method to discuss the crossover from the collisionless to the hydrodynamic region. Recent data for the monopole-quadrupole mode in the hydrodynamic region of a trapped gas of metastable $^4$He is discussed. We also present calculations for the damping of the analogous $m=0$ monopole-quadrupole condensate mode in the superfluid phase.Comment: 22 pages, 10 figures, submitted to Physical Review

CANELC: constructing an e-language corpus

This paper reports on the construction of CANELC: the Cambridge and Nottingham e-language Corpus.3 CANELC is a one million word corpus of digital communication in English, taken from online discussion boards, blogs, tweets, emails and SMS messages. The paper outlines the approaches used when planning the corpus: obtaining consent; collecting the data and compiling the corpus database. This is followed by a detailed analysis of some of the patterns of language used in the corpus. The analysis includes a discussion of the key words and phrases used as well as the common themes and semantic associations connected with the data. These discussions form the basis of an investigation of how e-language operates in both similar and different ways to spoken and written records of communication (as evidenced by the BNC - British National Corpus). 3 CANELC stands for Cambridge and Nottingham e-language Corpus. This corpus has been built as part of a collaborative project between The University of Nottingham and Cambridge University Press with whom sole copyright of the annotated corpus resides. CANELC comprises one-million words of digital English taken from SMS messages, blogs, tweets, discussion board content and private/business emails. Plans to extend the corpus are under discussion. The legal dimension to corpus ‘ownership’ of some forms of unannotated data is a complex one and is under constant review. At the present time the annotated corpus is only available to authors and researchers working for CUP and is not more generally available