Identical inferences about correlated evolution arise from ancestral state reconstruction and independent contrasts

Inferences about the evolution of continuous traits based on reconstruction of ancestral states has often been considered more error-prone than analysis of independent contrasts. Here we show that both methods in fact yield identical estimators for the correlation coefficient and regression gradient of correlated traits, indicating that reconstructed ancestral states are a valid source of information about correlated evolution. We show that the independent contrast associated with a pair of sibling nodes on a phylogenetic tree can be expressed in terms of the maximum likelihood ancestral state function at those nodes and their common parent. This expression gives rise to novel formulae for independent contrasts for any model of evolution admitting of a local likelihood function. We thus derive new formulae for independent contrasts applicable to traits evolving under directional drift, and use simulated data to show that these directional contrasts provide better estimates of evolutionary model parameters than standard independent contrasts, when traits in fact evolve with a directional tendency.Comment: 31 pages including supplementary information, 2 figure

50 years of the International Committee on Taxonomy of Viruses: progress and prospects

We mark the 50th anniversary of the International Committee on Taxonomy of Viruses (ICTV) by presenting a brief history of the organization since its foundation, showing how it has adapted to advancements in our knowledge of virus diversity and the methods used to characterize it. We also outline recent developments, supported by a grant from the Wellcome Trust (UK), that are facilitating substantial changes in the operations of the ICTV and promoting dialogue with the virology community. These developments will generate improved online resources, including a freely available and regularly updated ICTV Virus Taxonomy Report. They also include a series of meetings between the ICTV and the broader community focused on some of the major challenges facing virus taxonomy, with the outcomes helping to inform the future policy and practice of the ICTV

Digital Signal Processing

Contains research objectives and summary of research on seven research projects.U. S. Navy Office of Naval Research (Contract N00014-75-C-0951)National Science Foundation (Grant ENG71-02319-A02

Complex lithium ion dynamics in simulated LiPO3 glass studied by means of multi-time correlation functions

Molecular dynamics simulations are performed to study the lithium jumps in LiPO3 glass. In particular, we calculate higher-order correlation functions that probe the positions of single lithium ions at several times. Three-time correlation functions show that the non-exponential relaxation of the lithium ions results from both correlated back-and-forth jumps and the existence of dynamical heterogeneities, i.e., the presence of a broad distribution of jump rates. A quantitative analysis yields that the contribution of the dynamical heterogeneities to the non-exponential depopulation of the lithium sites increases upon cooling. Further, correlated back-and-forth jumps between neighboring sites are observed for the fast ions of the distribution, but not for the slow ions and, hence, the back-jump probability depends on the dynamical state. Four-time correlation functions indicate that an exchange between fast and slow ions takes place on the timescale of the jumps themselves, i.e., the dynamical heterogeneities are short-lived. Hence, sites featuring fast and slow lithium dynamics, respectively, are intimately mixed. In addition, a backward correlation beyond the first neighbor shell for highly mobile ions and the presence of long-range dynamical heterogeneities suggest that fast ion migration occurs along preferential pathways in the glassy matrix. In the melt, we find no evidence for correlated back-and-forth motions and dynamical heterogeneities on the length scale of the next-neighbor distance.Comment: 12 pages, 13 figure

Oxidative stress and the evolutionary origins of preeclampsia.

In this speculative paper, I consider the relationship between oxidative stress and the evolution of placentation in eutherian mammals. I argue that epitheliochorial placentation, in which fetal tissues remain separated from maternal blood throughout gestation, has evolved as a protective mechanism against oxidative stress arising from pregnancy, particularly in species with unusually long gestation periods and unusually large placentas. Human beings comprise an unusual species that has the life history characteristics of an epitheliochorial species, but exhibits hemochorial placentation, in which fetal tissues come into direct contact with maternal blood. I argue that the risk of preeclampsia has arisen as a consequence of the failure of human beings to evolve epitheliochorial placentation.I thank Pierre-Yves Robillard for his kind hospitality, and participants in the International Workshops on Reproductive Immunology, Immunological Tolerance and Immunology of Preeclampsia, for their helpful comments and suggestions. I thank St. John’s College, Cambridge, for supporting my attendance at the workshop.This is the author accepted manuscript. The final version is available from Elsevier via http://dx.doi.org/10.1016/j.jri.2016.02.00

Sex-linked mating strategies diverge with a manipulation of genital salience

Trivers (Sexual selection and the descent of man, Aldine-Atherton, Chicago, pp 136–179, 1972) proposed that evolutionary factors should favor divergent mating strategies for males versus females. Such differences may be less pronounced among human beings than other animals and social norms and sex roles are also pertinent influences. The present experiment (N = 133 college undergraduates, 74 female) sought to bypass some of these other influences. Participants were randomly assigned to a condition designed to increase attention to the genital region (a downward pointing arrow) or not (an upward pointing arrow). They then reported on their interest in short-term (e.g., a one-night stand) and long-term (e.g., a potential marital partner) mating opportunities. A theory-consistent three-way interaction occurred such that the genital salience manipulation primed a shorter-term reproductive strategy among men and a longer-term reproductive strategy among women. The results provide unique support for evolution-linked ideas about sex differences in the form of a role for bodily attention

A Changing Wind Collision

We report on the first detection of a global change in the X-ray emitting properties of a wind–wind collision, thanks to XMM-Newton observations of the massive Small Magellenic Cloud (SMC) system HD 5980. While its light curve had remained unchanged between 2000 and 2005, the X-ray flux has now increased by a factor of ~2.5, and slightly hardened. The new observations also extend the observational coverage over the entire orbit, pinpointing the light-curve shape. It has not varied much despite the large overall brightening, and a tight correlation of fluxes with orbital separation is found without any hysteresis effect. Moreover, the absence of eclipses and of absorption effects related to orientation suggests a large size for the X-ray emitting region. Simple analytical models of the wind–wind collision, considering the varying wind properties of the eruptive component in HD 5980, are able to reproduce the recent hardening and the flux-separation relationship, at least qualitatively, but they predict a hardening at apastron and little change in mean flux, contrary to observations. The brightness change could then possibly be related to a recently theorized phenomenon linked to the varying strength of thin-shell instabilities in shocked wind regions