Photoabsorption on nuclei

We calculate the total photoabsorption cross section on nuclei in the energy range from 300 MeV to 1 GeV within the framework of a semi-classical phase space model. Besides medium modifications like Fermi motion and Pauli blocking we focus on the collision broadening of the involved resonances. The resonance contributions to the elementary cross section are fixed by fits to partial wave amplitudes of pion photoproduction. The cross sections for $N \, R \to N \, N$, needed for the calculation of collision broadening, are obtained by detailed balance from a fit to $N \, N \to N \, N \, \pi$ cross sections. We show that a reasonable collision broadening is not able to explain the experimentally observed disappearance of the $D_{13}(1520)$-resonance in the photoabsorption cross section on nuclei.Comment: 26 pages Latex including 9 postscript figure

Assessing dengue vaccination impact: Model challenges and future directions.

In response to the sharp rise in the global burden caused by dengue virus (DENV) over the last few decades, the WHO has set out three specific key objectives in its disease control strategy: (i) to estimate the true burden of dengue by 2015; (ii) a reduction in dengue mortality by at least 50% by 2020 (used as a baseline); and (iii) a reduction in dengue morbidity by at least 25% by 2020. Although various elements will all play crucial parts in achieving this goal, from diagnosis and case management to integrated surveillance and outbreak response, sustainable vector control, vaccine implementation and finally operational and implementation research, it seems clear that new tools (e.g. a safe and effective vaccine and/or effective vector control) are key to success. The first dengue vaccine was licensed in December 2015, Dengvaxia® (CYD-TDV) developed by Sanofi Pasteur. The WHO has provided guidance on the use of CYD-TDV in endemic countries, for which there are a variety of considerations beyond the risk-benefit evaluation done by regulatory authorities, including public health impact and cost-effectiveness. Population-level vaccine impact and economic and financial aspects are two issues that can potentially be considered by means of mathematical modelling, especially for new products for which empirical data are still lacking. In December 2014 a meeting was convened by the WHO in order to revisit the current status of dengue transmission models and their utility for public health decision-making. Here, we report on the main points of discussion and the conclusions of this meeting, as well as next steps for maximising the use of mathematical models for vaccine decision-making

Photoproduction of pions and etas in nuclei

We calculate the cross sections for inclusive one-pion, two-pion and eta photoproduction in nuclei in the photon energy range from 300 MeV to 900 MeV within the framework of a semi-classical BUU transport model. Our results are compared with existing experimental data and discussed with respect to a calculation of the total photoabsorption cross section.Comment: 30 pages LaTeX including 13 postscript figure

A chemical genetic approach to engineer phototropin kinases for substrate labeling

Protein kinases (PKs) control many aspects of plant physiology by regulating signaling networks through protein phosphorylation. Phototropins (phots) are plasma membrane-associated serine/threonine PKs that control a range of physiological processes that serve collectively serve to optimize photosynthetic efficiency in plants. These include phototropism, leaf positioning and flattening, chloroplast movement and stomatal opening. Despite their identification over two decades ago, only a handful of substrates have been identified for these PKs. Progress in this area has been hampered by the lack of a convenient means to confirm the identity of potential substrate candidates. Here, we demonstrate that the kinase domain of Arabidopsis phot1 and phot2 can be successfully engineered to accommodate non-natural ATP analogues by substituting the bulky gatekeeper residue threonine for glycine. This approach circumvents the need for radioactivity to track phot kinase activity and follow light-induced receptor autophosphorylation in vitro by incorporating thiophosphate from N6-benzyl-ATPγS. Consequently, thiophosphorylation of phot substrate candidates can be readily monitored when added or co-expressed with phots in vitro. Furthermore, gatekeeper-modified phot1 retained its functionality and its ability to accommodate N6-benzyl-ATPγS as a phosphodonor when expressed in Arabidopsis. We therefore anticipate that this chemical genetic approach will provide new opportunities for labeling and identifying substrates for phots and other related AGC kinases under in vitro and near-native in vivo conditions

Predicting meiofauna abundance to define preservation and impact zones in a deep-sea mining context using random forest modelling

There is a strong economic interest in commercial deep‐sea mining of polymetallic nodules and therefore a need to define suitable preservation zones in the abyssal plain of the Clarion Clipperton Fracture Zone (CCZ). However, besides ship‐based multibeam data, only sparse continuous environmental information is available over large geographic scales. We test the potential of modelling meiofauna abundance and diversity on high taxonomic level on large geographic scale using a random forest approach. Ship‐based multibeam bathymetry and backscatter signal are the only sources for 11 predictor variables, as well as the modelled abundance of polymetallic nodules on the seafloor. Continuous meiofauna predictions have been combined with all available environmental variables and classified into classes representing abyssal habitats using k‐means clustering. Results show that ship‐based, multibeam‐derived predictors can be used to calculate predictive models for meiofauna distribution on a large geographic scale. Predicted distribution varies between the different meiofauna response variables. To evaluate predictions, random forest regressions were additionally computed with 1,000 replicates, integrating varying numbers of sampling positions and parallel samples per site. Higher numbers of parallel samples are especially useful to smoothen the influence of the remarkable variability of meiofauna distribution on a small scale. However, a high number of sampling positions is even more important, integrating a greater amount of natural variability of environmental conditions into the model. Synthesis and applications. Polymetallic nodule exploration contractors are required to define potential mining and preservation zones within their licence area. The biodiversity and the environment of preservation zones should be representative of the sites that will be impacted by mining. Our predicted distributions of meiofauna and the derived habitat maps are an essential first step to enable the identification of areas with similar ecological conditions. In this way, it is possible to define preservation zones not only based on expert opinion and environmental proxies but also integrating evidence from the distribution of benthic communities

Characterisation of Medipix3 Silicon Detectors in a Charged-Particle Beam

While designed primarily for X-ray imaging applications, the Medipix3 ASIC can also be used for charged-particle tracking. In this work, results from a beam test at the CERN SPS with irradiated and non-irradiated sensors are presented and shown to be in agreement with simulation, demonstrating the suitability of the Medipix3 ASIC as a tool for characterising pixel sensors.Comment: 16 pages, 13 figure

Hadron formation in high energy photonuclear reactions

We present a new method to account for coherence length effects in a semi-classical transport model. This allows us to describe photo- and electroproduction at large nuclei (A>12) and high energies using a realistic coupled channel description of the final state interactions that goes beyond simple Glauber theory. We show that the purely absorptive treatment of the final state interactions can lead to wrong estimates of color transparency and formation time effects in particle production. As an example, we discuss exclusive rho^0 photoproduction on Pb at a photon energy of 7 GeV as well as K^+ production in the photon energy range 1-7 GeV.Comment: 14 pages, 6 figures, version published in Phys. Rev.

Detection of Erythropoietin in Exhaled Breath Condensate of Nonhypoxic Subjects Using a Multiplex Bead Array

As a noninvasive method, exhaled breath condensate (EBC) has gained importance to improve monitoring of lung diseases and to detect biomarkers. The aim of the study was to investigate, whether erythropoietin (EPO) is detectable in EBC. EBC was collected from 22 consecutive patients as well as from healthy individuals. Using a multiplex fluorescent bead immunoassay, we detected EPO in EBC, as well as tumour necrosis factor-α (TNF-α) in 13 out of 22 patients simultaneously (EPO 0.21 ± 0.03 in U/mL and TNF-α 34.6 ± 4.2 in pg/mL, mean ± SEM). No significant differences for EPO levels or correlation between EPO and TNF-α were found but TNF-α was significantly higher in patients with chronic obstructive pulmonary disease (COPD) than in non-COPD (obstructive sleep apnoea, OSA, and lung healthy patients). This is the first report of detection of EPO in EBC. Due to the small study size more data is needed to clarify the role of EPO in EBC

Photoproduction of mesons in nuclei at GeV energies

In a transport model that combines initial state interactions of the photon with final state interactions of the produced particles we present a calculation of inclusive photoproduction of mesons in nuclei in the energy range from 1 to 7 GeV. We give predictions for the photoproduction cross sections of pions, etas, kaons, antikaons, and $\pi^+\pi^-$ invariant mass spectra in ^{12}C and ^{208}Pb. The effects of nuclear shadowing and final state interaction of the produced particles are discussed in detail.Comment: Text added in summary in general reliability of the method, references updated. Phys. Rev. C (2000) in pres

Probing nuclear expansion dynamics with π−/π+\pi^-/\pi^+-spectra

We study the dynamics of charged pions in the nuclear medium via the ratio of differential $\pi^-$- and $\pi^+$-spectra in a coupled-channel BUU (CBUU) approach. The relative energy shift of the charged pions is found to correlate with the pion freeze-out time in nucleus-nucleus collisions as well as with the impact parameter of the heavy-ion reaction. Furthermore, the long-range Coulomb force provides a 'clock' for the expansion of the hot nuclear system. Detailed comparisons with experimental data for $Au + Au$ at 1 GeV/A and $Ni + Ni$ at 2.0 GeV/A are presented.Comment: 21 pages, latex, figures include