A Dynamic Analysis of the Rotation Mechanism for Conformational Change in F1-ATPase

AbstractMolecular dynamics trajectories for the bovine mitochondrial F1-ATPase are used to demonstrate the motions and interactions that take place during the elementary (120° rotation) step of the γ subunit. The results show how rotation of the γ subunit induces the observed structural changes in the catalytic β subunits. Both steric and electrostatic interactions contribute. An “ionic track” of Arg and Lys residues on the protruding portion of the γ subunit plays a role in guiding the motions of the β subunits. Experimental data for mutants of the DELSEED motif and the hinge region are interpreted on the basis of the molecular dynamics results. The trajectory provides a unified dynamic description of the coupled subunit motions involved in the 120° rotation cycles of F1-ATPase

Debris disk size distributions: steady state collisional evolution with P-R drag and other loss processes

We present a new scheme for determining the shape of the size distribution, and its evolution, for collisional cascades of planetesimals undergoing destructive collisions and loss processes like Poynting-Robertson drag. The scheme treats the steady state portion of the cascade by equating mass loss and gain in each size bin; the smallest particles are expected to reach steady state on their collision timescale, while larger particles retain their primordial distribution. For collision-dominated disks, steady state means that mass loss rates in logarithmic size bins are independent of size. This prescription reproduces the expected two phase size distribution, with ripples above the blow-out size, and above the transition to gravity-dominated planetesimal strength. The scheme also reproduces the expected evolution of disk mass, and of dust mass, but is computationally much faster than evolving distributions forward in time. For low-mass disks, P-R drag causes a turnover at small sizes to a size distribution that is set by the redistribution function (the mass distribution of fragments produced in collisions). Thus information about the redistribution function may be recovered by measuring the size distribution of particles undergoing loss by P-R drag, such as that traced by particles accreted onto Earth. Although cross-sectional area drops with 1/age^2 in the PR-dominated regime, dust mass falls as 1/age^2.8, underlining the importance of understanding which particle sizes contribute to an observation when considering how disk detectability evolves. Other loss processes are readily incorporated; we also discuss generalised power law loss rates, dynamical depletion, realistic radiation forces and stellar wind drag.Comment: Accepted for publication by Celestial Mechanics and Dynamical Astronomy (special issue on EXOPLANETS

An Upgraded Analysis of ϵ′/ϵ\epsilon\prime/\epsilon at the Next-to-Leading Order

An upgraded analysis of \ep, $x_d$ and \epp/\ep, using the latest determinations of the relevant experimental and theoretical parameters, is presented. Using the recent determination of the top quark mass, $m_t=(174 \pm 17)$ GeV, our best estimate is \epp/\ep= 3.1 \pm 2.5 , which lies in the range given by E731. We describe our determination of \epp/\ep and make a comparison with other similar studies. A detailed discussion of the matching of the full theory to the effective Hamiltonian, written in terms of lattice operators, is also given.Comment: LaTeX, 45 pages, 6 postscript figure

A resonant-term-based model including a nascent disk, precession, and oblateness: application to GJ 876

Investigations of two resonant planets orbiting a star or two resonant satellites orbiting a planet often rely on a few resonant and secular terms in order to obtain a representative quantitative description of the system's dynamical evolution. We present a semianalytic model which traces the orbital evolution of any two resonant bodies in a first- through fourth-order eccentricity or inclination-based resonance dominated by the resonant and secular arguments of the user's choosing. By considering the variation of libration width with different orbital parameters, we identify regions of phase space which give rise to different resonant ''depths,'' and propose methods to model libration profiles. We apply the model to the GJ 876 extrasolar planetary system, quantify the relative importance of the relevant resonant and secular contributions, and thereby assess the goodness of the common approximation of representing the system by just the presumably dominant terms. We highlight the danger in using ''order'' as the metric for accuracy in the orbital solution by revealing the unnatural libration centers produced by the second-order, but not first-order, solution, and by demonstrating that the true orbital solution lies somewhere ''in-between'' the third- and fourth-order solutions. We also present formulas used to incorporate perturbations from central-body oblateness and precession, and a protoplanetary or protosatellite thin disk with gaps, into a resonant system. We quantify these contributions to the GJ 876 system, and thereby highlight the conditions which must exist for multi-planet exosystems to be significantly influenced by such factors. We find that massive enough disks may convert resonant libration into circulation; such disk-induced signatures may provide constraints for future studies of exoplanet systems.Comment: 39 pages of body text, 21 figures, 5 tables, 1 appendix, accepted for publication in Celestial Mechanics and Dynamical Astronom

Use of SMS texts for facilitating access to online alcohol interventions: a feasibility study

A41 Use of SMS texts for facilitating access to online alcohol interventions: a feasibility study In: Addiction Science & Clinical Practice 2017, 12(Suppl 1): A4

Physics with the KLOE-2 experiment at the upgraded DAϕ\phiNE

Investigation at a $\phi$--factory can shed light on several debated issues in particle physics. We discuss: i) recent theoretical development and experimental progress in kaon physics relevant for the Standard Model tests in the flavor sector, ii) the sensitivity we can reach in probing CPT and Quantum Mechanics from time evolution of entangled kaon states, iii) the interest for improving on the present measurements of non-leptonic and radiative decays of kaons and eta/eta$^\prime$ mesons, iv) the contribution to understand the nature of light scalar mesons, and v) the opportunity to search for narrow di-lepton resonances suggested by recent models proposing a hidden dark-matter sector. We also report on the $e^+ e^-$ physics in the continuum with the measurements of (multi)hadronic cross sections and the study of gamma gamma processes.Comment: 60 pages, 41 figures; added affiliation for one of the authors; added reference to section

A chromosome-level Amaranthus cruentus genome assembly highlights gene family evolution and biosynthetic gene clusters that may underpin the nutritional value of this traditional crop

Traditional crops historically provided accessible and affordable nutrition to millions of rural dwellers but have been neglected, with most modern agricultural systems over reliant on a small number of internationally-traded crops. Traditional crops are typically well-adapted to local agro-ecological conditions and many are nutrient-dense. They can play a vital role in local food systems through enhanced nutrition (especially where diets are dominated by starch crops), food security and livelihoods for smallholder farmers, and a climate-resilient and biodiverse agriculture. Using short-read, long-read and phased sequencing technologies we generated a high-quality chromosome-level genome assembly for Amaranthus cruentus, an under-researched crop with micronutrient- and protein-rich leaves and gluten-free seed, but lacking improved varieties, with respect to productivity and quality traits. The 370.9 MB genome demonstrates a shared whole genome duplication with a related species, Amaranthus hypochondriacus. Comparative genome analysis indicates chromosomal loss and fusion events following genome duplication that are common to both species, as well as fission of chromosome 2 in A. cruentus alone, giving rise to a haploid chromosome number of 17 (versus 16 in A. hypochondriacus). Genomic features potentially underlying the nutritional value of this crop include two A. cruentus-specific genes with a likely role in phytic acid synthesis (an anti-nutrient), expansion of ion transporter gene families, and identification of biosynthetic gene clusters conserved within the amaranth lineage. The A. cruentus genome assembly will underpin much-needed research and global breeding efforts to develop improved varieties for economically viable cultivation and realisation of the benefits to global nutrition security and agrobiodiversity

Vascular Remodeling in Health and Disease

The term vascular remodeling is commonly used to define the structural changes in blood vessel geometry that occur in response to long-term physiologic alterations in blood flow or in response to vessel wall injury brought about by trauma or underlying cardiovascular diseases.1, 2, 3, 4 The process of remodeling, which begins as an adaptive response to long-term hemodynamic alterations such as elevated shear stress or increased intravascular pressure, may eventually become maladaptive, leading to impaired vascular function. The vascular endothelium, owing to its location lining the lumen of blood vessels, plays a pivotal role in regulation of all aspects of vascular function and homeostasis.5 Thus, not surprisingly, endothelial dysfunction has been recognized as the harbinger of all major cardiovascular diseases such as hypertension, atherosclerosis, and diabetes.6, 7, 8 The endothelium elaborates a variety of substances that influence vascular tone and protect the vessel wall against inflammatory cell adhesion, thrombus formation, and vascular cell proliferation.8, 9, 10 Among the primary biologic mediators emanating from the endothelium is nitric oxide (NO) and the arachidonic acid metabolite prostacyclin [prostaglandin I2 (PGI2)], which exert powerful vasodilatory, antiadhesive, and antiproliferative effects in the vessel wall

Growth and gas exchange responses of Leucadendron xanthoconus (Proteaceae) seedlings to different nutrient and water regimes

Potted seedlings of Leucadendron xanthoconus (Proteaceae) were grown in native mountain fynbos soil under different nutrient and water regimes. Nutrient treatments comprised addition of nitrogen, phosphorus and a Long Ashton macronutrient solution (LA). Water was applied at three levels, ranging from near drought to maintained saturation. Rates of gas exchange were measured on a subset of the experimental plants under a range of irradiance levels prior to harvesting of all plants at an age of six months. Measurement of biomass and its distribution showed that increasing water had a significantly positive effect on productivity, and that drought reduced root:shoot ratio and leaf specific weight. Total productivity was highest with LA-addition and lowest in the control, whereas phosphorus and nitrogen additions had an intermediate effect. None of the treatments included in the gas exchange work was shown to affect significantly photosynthetic capacity or water use efficiency. Droughted individuals showed an increased ability to reduce carbon dioxide concentration in the substomatal cavity, and a lower stomatal conductance overall. Stomatal conductance was found to be independent of irradiance in all treatments. The relationships investigated are placed in the context of fynbos utilization and the management of natural fynbos landscapes with regard to the reclamation and maintenance of component natural ecosystems