Evolutionary analysis of the TPP-dependent enzyme family

The evolutionary relationships of the thiamine pyrophosphate (TPP)-dependent family of enzymes was investigated by generation of a neighbor joining phylogenetic tree using sequences from the conserved pyrophosphate (PP) and pyrimidine (Pyr) binding domains of 17 TPP-dependent enzymes. This represents the most comprehensive analysis of TPP-dependent enzyme evolution to date. The phylogeny was shown to be robust by comparison with maximum likelihood trees generated for each individual enzyme and also broadly confirms the evolutionary history proposed recently from structural comparisons alone (Duggleby 2006). The phylogeny is most parsimonious with the TPP enzymes having arisen from a homotetramer which subsequently diverged into an α2β2 heterotetramer. The relationship between the PP- and Pyr-domains and the recruitment of additional protein domains was examined using the transketolase C-terminal (TKC)-domain as an example. This domain has been recruited by several members of the family and yet forms no part of the active site and has unknown function. Removal of the TKC-domain was found to increase activity toward β-hydroxypyruvate and glycolaldehyde. Further truncations of the Pyr-domain yielded several variants with retained activity. This suggests that the influence of TKC-domain recruitment on the evolution of the mechanism and specificity of transketolase (TK) has been minor, and that the smallest functioning unit of TK comprises the PP- and Pyr-domains, whose evolutionary histories extend to all TPP-dependent enzymes

The Photodetachment of Ps ion and Low-Energy e(+) -H Collisions

Two calculations in the area of positron collisions are presented. The first is the calculation of the photodetachment cross section of the positronium negative ion (Ps-) using accurate variational wave functions for both the initial bound-state and the final P continuum state. The second is the calculation of partial wave cross sections for Ps(1s)-formation in ef -H(ls) collisions using the hyperspherical hidden crossing method. Since the S-wave Stiickelberg phase is close to pi, the very small S-wave Ps(1s) formation cross section can be understood in terms of destructive interference. Other examples in positron collisions are given where it is either known or expected that destructive interference is the cause of the small S-wave Ps(1s) formation cross section. In addition, examples are presented of processes in atomic physics where the Stiickelberg phase is a multiple of pi/2

Expectations from a Microlensing Search for Planets

The statistical distribution of the masses of planets about stars between the Sun and the center of the galaxy is constrained to within a factor of three by an intensive search for planets during microlensing events. Projected separations in terms of the lens Einstein ring radius yield a rough estimate of the distribution of planetary semimajor axes with planetary mass. The search consists of following ongoing stellar microlensing events involving sources in the center of the galaxy lensed by intervening stars with high time resolution, 1% photometry in two colors in an attempt to catch any short time scale planetary perturbations of the otherwise smooth light curve. It is assumed that 3000 events are followed over an 8 year period, but with half of the lenses, those that are members of binary systems, devoid of planets. The remaining 1500 lenses have solar-system-like distributions of 4 or 5 planets. The expectations from the microlensing search are extremely assumption dependent with 56, 138, and 81 planets being detected for three sets of assumptions involving how the planetary masses and separations vary with lens mass. The events can be covered from 54% to 62% of the time on average by high time resolution photometry from a system of three or four dedicated two meter telescopes distributed in longitude, so 38% to 46% of the detectable small mass planets (very short perturbations of the light curve) will be missed. But perturbations comparable to a day in length means all of the detectable Jupiters and Saturns will in fact be detected as well as a large fraction of the Uranuses. Although meaningful statistics on planetary masses and separations can be inferred from such an intensive search, they, like the inferred data set, will be dependent on the assumed nature of the systems.Comment: 26 pages, LaTeX, uses aas2pp4.sty, 11 postscript figures, Submitted to Icaru

Developing Tautai Lavea‘i, a Breast Cancer Patient Nativation Program in American Samoa

This article focuses on development of the psychosocial-cultural components of a breast cancer patient navigation program (PNP) in the medically underserved, albeit culturally-rich Territory of American Samoa. Efforts to reduce cancer morbidity and mortality in American Samoa must necessarily consider the territory’s limited cancer resources and indigenous culture, as well as the individuals at risk for poor health outcomes and premature death. Within this complex set of challenges resides the prospect of health equity and opportunities for advancing service innovations that meaningfully plait native ways of knowing with Western evidencebased practice. Increasing adherence to diagnostic and treatment procedures is of significant concern to the American Samoa Cancer Community Network who initiated this inquiry to assess patients lost to follow-up, describe treatment-seeking influences, and identify cultural preferences for inclusion in a PNP tailored on fa‘aSamoa or the Samoan worldview

Properties of hyperkahler manifolds and their twistor spaces

We describe the relation between supersymmetric sigma-models on hyperkahler manifolds, projective superspace, and twistor space. We review the essential aspects and present a coherent picture with a number of new results.Comment: 26 pages. v2: Sign mistakes corrected; Kahler potential explicitly calculated in example; references added. v3: Published version--several small clarifications per referee's reques

On type-I migration near opacity transitions. A generalized Lindblad torque formula for planetary population synthesis

We give an expression for the Lindblad torque acting on a low-mass planet embedded in a protoplanetary disk that is valid even at locations where the surface density or temperature profile cannot be approximated by a power law, such as an opacity transition. At such locations, the Lindblad torque is known to suffer strong deviation from its standard value, with potentially important implications for type I migration, but the full treatment of the tidal interaction is cumbersome and not well suited to models of planetary population synthesis. The expression that we propose retains the simplicity of the standard Lindblad torque formula and gives results that accurately reproduce those of numerical simulations, even at locations where the disk temperature undergoes abrupt changes. Our study is conducted by means of customized numerical simulations in the low-mass regime, in locally isothermal disks, and compared to linear torque estimates obtained by summing fully analytic torque estimates at each Lindblad resonance. The functional dependence of our modified Lindblad torque expression is suggested by an estimate of the shift of the Lindblad resonances that mostly contribute to the torque, in a disk with sharp gradients of temperature or surface density, while the numerical coefficients of the new terms are adjusted to seek agreement with numerics. As side results, we find that the vortensity related corotation torque undergoes a boost at an opacity transition that can counteract migration, and we find evidence from numerical simulations that the linear corotation torque has a non-negligible dependency upon the temperature gradient, in a locally isothermal disk.Comment: Appeared in special issue of "Celestial Mechanics and Dynamical Astronomy" on Extrasolar Planetary System

Mathematical modelling of contact dermatitis from nickel and chromium

Dermal exposure to metal allergens can lead to irritant (ICD) and allergic contact dermatitis (ACD). In this paper we present a mathematical model of the absorption of metal ions, hexavalent chromium and nickel, into the viable epidermis and compare the localised irritant and T-lymphocyte (T-cell) mediated immune responses. The model accounts for the spatial-temporal variation of skin health, extra and intracellular allergen concentrations, innate immune cells, T-cells, cytokine signalling and lymph node activity up to about 6 days after contact with these metals; repair processes associated with withdrawal of exposure to both metals is not considered in the current model, being assumed secondary during the initial phases of exposure. Simulations of the resulting system of PDEs are studied in one-dimension, i.e. across skin depth, and three-dimensional scenarios with the aim of comparing the responses to the two ions in the cases of first contact (no T-cells initially present) and second contact (T-cells initially present). The results show that on continuous contact, chromium ions elicit stronger skin inflammation, but for nickel, subsequent re-exposure stimulates stronger responses due to an accumulation of cytotoxic T-cell mediated responses which characterise ACD. Furthermore, the surface area of contact to these metals has little effect on the speed of response, whilst sensitivity is predicted to increase with the thickness of skin. The modelling approach is generic and should be applicable to describe contact dermatitis from a wide range of allergens

The impact of COVID-19 zoo closures on behavioural and physiological parameters of welfare in primates

Primates are some of the most cognitively advanced species held in zoos, and their interactions with visitors are complex. The COVID-19 pandemic provided a unique opportunity to understand the impact of zoo visitors on animals, in comparison to “empty zoos”. This study sought to understand the impact of facility closures and subsequent reopenings on behavioural and physiological parameters of welfare in four primate species housed in the UK: bonobos (Pan paniscus) (n = 8), chimpanzees (Pan troglodytes) (n = 11), and western lowland gorillas (Gorilla gorilla gorilla) (n = 6) held at Twycross Zoo (TZ); and olive baboons (Papio anubis) (n = 192) held at Knowsley Safari (KS). Behavioural data were collected from April–September 2020 (KS) and November 2020–January 2021 (TZ). Faecal samples were collected during morning checks from October–November (TZ) and July–November 2020 (KS). Faecal glucocorticoid metabolites (FGMs) were measured using ELISA kits. Statistical analysis for behavioural observations was undertaken using general linear models. Enclosure usage was assessed using t-tests and Mann–Whitney U-tests as appropriate. Bonobos and gorillas spent less time alone when facilities were open to the public (p = 0.004, p = 0.02 respectively). Gorillas spent less time resting when the facility was open to the public (p = 0.04), and chimpanzees engaged in more feeding (p = 0.02) and engagement with enrichment (p = 0.03) when the zoo was open to the public than when it was closed. Olive baboons performed less sexual and dominance behaviour and approached visitor cars more frequently when the safari park was opened to the public than they did the ranger’s vehicle during closure periods. There were no significant changes in physiological parameters for any of the study species. The results suggest variable impacts of the zoo closures on zoo-housed primates. We recommend future work that seeks to understand the impact of individual-level differences on “visitor effects” and that differences between animal experiences in zoos and safari parks are further explored in a range of species

Recent developments in planet migration theory

Planetary migration is the process by which a forming planet undergoes a drift of its semi-major axis caused by the tidal interaction with its parent protoplanetary disc. One of the key quantities to assess the migration of embedded planets is the tidal torque between the disc and planet, which has two components: the Lindblad torque and the corotation torque. We review the latest results on both torque components for planets on circular orbits, with a special emphasis on the various processes that give rise to additional, large components of the corotation torque, and those contributing to the saturation of this torque. These additional components of the corotation torque could help address the shortcomings that have recently been exposed by models of planet population syntheses. We also review recent results concerning the migration of giant planets that carve gaps in the disc (type II migration) and the migration of sub-giant planets that open partial gaps in massive discs (type III migration).Comment: 52 pages, 18 figures. Review article to be published in "Tidal effects in Astronomy and Astrophysics", Lecture Notes in Physic