The microphysics of clouds over the Antarctic Peninsula – Part 1: Observations

Observations of clouds over the Antarctic Peninsula during summer 2010 and 2011 are presented here. The peninsula is up to 2500 m high and acts as a barrier to weather systems approaching from the Pacific sector of the Southern Ocean. Observations of the number of ice and liquid particles as well as the ice water content and liquid water content in the clouds from both sides of the peninsula and from both years were compared. In 2011 there were significantly more water drops and ice crystals, particularly in the east, where there were approximately twice the number of drops and ice crystals in 2011. Ice crystals observations as compared to ice nuclei parameterizations suggest that secondary ice multiplication at temperatures around −5 °C is important for ice crystal formation on both sides of the peninsula below 2000 m. Also, back trajectories have shown that in 2011 the air masses over the peninsula were more likely to have passed close to the surface over the sea ice in the Weddell Sea. This suggests that the sea-ice-covered Weddell Sea can act as a source of both cloud condensation nuclei and ice-nucleating particles

Efficient data transport over multimode light-pipes with Megapixel images using differentiable ray tracing and Machine-learning

Retrieving images transmitted through multi-mode fibers is of growing interest, thanks to their ability to confine and transport light efficiently in a compact system. Here, we demonstrate machine-learning-based decoding of large-scale digital images (pages), maximizing page capacity for optical storage applications. Using a millimeter-sized square cross-section waveguide, we image an 8-bit spatial light modulator, presenting data as a matrix of symbols. Normally, decoders will incur a prohibitive O(n^2) computational scaling to decode n symbols in spatially scrambled data. However, by combining a digital twin of the setup with a U-Net, we can retrieve up to 66 kB using efficient convolutional operations only. We compare trainable ray-tracing-based with eigenmode-based twins and show the former to be superior thanks to its ability to overcome the simulation-to-experiment gap by adjusting to optical imperfections. We train the pipeline end-to-end using a differentiable mutual-information estimator based on the von-Mises distribution, generally applicable to phase-coding channels.Comment: 21 pages, 5 figure

Precise optical control of gene expression in C elegans using improved genetic code expansion and Cre recombinase.

Synthetic strategies for optically controlling gene expression may enable the precise spatiotemporal control of genes in any combination of cells that cannot be targeted with specific promoters. We develop an improved genetic code expansion system in Caenorhabditis elegans and use it to create a photoactivatable Cre recombinase. We laser-activate Cre in single neurons within a bilaterally symmetric pair to selectively switch on expression of a loxP-controlled optogenetic channel in the targeted neuron. We use the system to dissect, in freely moving animals, the individual contributions of the mechanosensory neurons PLML/PLMR to the C. elegans touch response circuit, revealing distinct and synergistic roles for these neurons. We thus demonstrate how genetic code expansion and optical targeting can be combined to break the symmetry of neuron pairs and dissect behavioural outputs of individual neurons that cannot be genetically targeted

A New Outlook on Ice Cloud through Sub-Millimetre-Wave Scattering

Scattering by atmospheric ice at sub-mm-wave frequencies is a challenge to both the cloud physics and light scattering communities owing to scattering at these frequencies being dependent on assumptions about the particle size distribution, ice crystal shape, orientation and size. Moreover, the scattering also depends on how the particle density is assumed to evolve with size. As there is as yet no prediction of a universal PSD or mass–dimension or density–dimension relationship, the modelling of ice crystals, so as to conserve the observed scattering and ice mass, is potentially problematic. In this presentation, the challenge presented by sub-mm-wave scattering is explored through the study of an ice cloud case using a new sub-mm spectral-like radiometer that was deployed on board an aircraft. Here, we evaluate the predictive quality of applying members from an ensemble model of cirrus ice crystals to modelling observed sub-millimetre brightness temperatures. The airborne straight and level near-nadir observations used here were from a case of ice cloud, which occurred during a winter period. The airborne microwave observations were obtained using the International Submillimetre Airborne Radiometer (ISMAR) [1], as the observations collected were at near-nadir we do not as yet consider polarisation. The ISMAR instrument has five central frequencies located between 118 and 664 GHz, with a number of sub-channels situated around some of the central frequencies to obtain spectral-like observations. The frequency selected for presentation is the 664 GHz “window” channel. This channel selection reduces uncertainties in modelling the gaseous spectroscopy, thereby enabling the scattering properties of members of the ensemble model to be more directly evaluated at this frequency. This is also the frequency that is most sensitive to assumptions about the ice crystal models and microphysics. The methodologies adopted for the calculation of the single-scattering properties of the ensemble model members at this frequency have been previously peer-reviewed and published [2, 3]. As such, this presentation concentrates on the application of these methodologies to the interpretation of the airborne ISMAR observations using a fast, state-of-the-art line-by-line radiative transfer model [4]. Moreover, state-of-the-art airborne observations of particle size distributions (PSDs) were also collected from the ice cloud case. These in-situ PSDs, as well as an often used database of in-situ PSDs collected during the SPARTICUS campaign in 2010, are applied to the two most compact and spatial hexagonal ice aggregate members of the ensemble model. A further ice aggregate model, called the Voronoi model, forming a chain of polyhedral particles, constructed to follow an observed density–dimension relationship, was also applied so as to simulate the observations. From the in-situ PSDs, geometric optics-based power law relationships have been previously obtained between the ice water content and the bulk extinction coefficient [5]. These same geometric optics-based relationships were estimated using the area–dimension power laws predicted by the ensemble model members and the Voronoi model. The best-fit ensemble model members to the observed power laws, and the Voronoi model, were applied in order to simulate the sub-mm-wave observations. Thus, we demonstrate consistency of model application from the limit of geometric optics (i.e. typically at visible wavelengths) to the sub-mm. In this presentation, we demonstrate a general overlap between the uncertainty in the radiative transfer simulations assuming the ensemble model members and the uncertainty in ISMAR brightness temperature observations at 664 GHz. However, portions of the straight and level runs were either simulated well with the compact aggregate model member or a three-component model, consisting of the two members of the ensemble model and the Voronoi particle, but never with one and the same model. Owing to the Voronoi model being the most spatial of all the models, this model simulated, to within the upper end of the experimental uncertainty, the ISMAR observations, but never the coldest observations at the highest sub-mm-wave frequency. However, if a different density–dimension relationship were to be adopted in the modelling of the Voronoi model that predicted higher mass values, then this should result in an improved agreement with the observations. It is as yet unclear as to which density–dimension relation is best to apply in general. These observations indicate changes in microphysics in terms of the mass–dimension profile and/or the size of the ice crystals and, therefore, represent a challenge to the global retrieval of ice cloud properties using the Ice Cloud Imager (ICI), which is due for launch around 2022. A further uncertainty is the assumed parametrised shape of the PSD. We also show in this presentation that the choice of PSD and ice crystal models are of equal importance in interpreting sub-mm-wave observations. [1] Fox, S et al., 2017: ISMAR: an airborne submillimetre radiometer. Atmos. Meas. Tech., doi:10.5194/ amt-10-477-2017. [2] Baran, A. J., et al., 2018: The applicability of physical optics in the millimetre and sub-millimetre spectral region. Part II: Application to a three-component model of ice cloud and its evaluation against the bulk single-scattering properties of various other aggregate models. JQSRT. 206, 68-80. [3] Baran, A. J., Hesse E., and Sourdeval O., 2017: The applicability of physical optics in the millimetre and sub-millimetre spectral region. Part I: The ray tracing with diffraction on facets method. JQSRT. 190, 83-100. [4] Havemann, S et al., The Havemann-Taylor Fast Radiative Transfer Code (HT-FRTC): a multipurpose code based on Principal Components, submitted to JQSRT (February 2018). [5] Fox, S et al., 2017: ISMAR: an airborne submillimetre radiometer. Atmos. Meas. Tech., doi:10.5194/ amt-10-477-2017.Peer reviewe

Antimicrobial resistance among migrants in Europe: a systematic review and meta-analysis

BACKGROUND: Rates of antimicrobial resistance (AMR) are rising globally and there is concern that increased migration is contributing to the burden of antibiotic resistance in Europe. However, the effect of migration on the burden of AMR in Europe has not yet been comprehensively examined. Therefore, we did a systematic review and meta-analysis to identify and synthesise data for AMR carriage or infection in migrants to Europe to examine differences in patterns of AMR across migrant groups and in different settings. METHODS: For this systematic review and meta-analysis, we searched MEDLINE, Embase, PubMed, and Scopus with no language restrictions from Jan 1, 2000, to Jan 18, 2017, for primary data from observational studies reporting antibacterial resistance in common bacterial pathogens among migrants to 21 European Union-15 and European Economic Area countries. To be eligible for inclusion, studies had to report data on carriage or infection with laboratory-confirmed antibiotic-resistant organisms in migrant populations. We extracted data from eligible studies and assessed quality using piloted, standardised forms. We did not examine drug resistance in tuberculosis and excluded articles solely reporting on this parameter. We also excluded articles in which migrant status was determined by ethnicity, country of birth of participants' parents, or was not defined, and articles in which data were not disaggregated by migrant status. Outcomes were carriage of or infection with antibiotic-resistant organisms. We used random-effects models to calculate the pooled prevalence of each outcome. The study protocol is registered with PROSPERO, number CRD42016043681. FINDINGS: We identified 2274 articles, of which 23 observational studies reporting on antibiotic resistance in 2319 migrants were included. The pooled prevalence of any AMR carriage or AMR infection in migrants was 25·4% (95% CI 19·1-31·8; I2 =98%), including meticillin-resistant Staphylococcus aureus (7·8%, 4·8-10·7; I2 =92%) and antibiotic-resistant Gram-negative bacteria (27·2%, 17·6-36·8; I2 =94%). The pooled prevalence of any AMR carriage or infection was higher in refugees and asylum seekers (33·0%, 18·3-47·6; I2 =98%) than in other migrant groups (6·6%, 1·8-11·3; I2 =92%). The pooled prevalence of antibiotic-resistant organisms was slightly higher in high-migrant community settings (33·1%, 11·1-55·1; I2 =96%) than in migrants in hospitals (24·3%, 16·1-32·6; I2 =98%). We did not find evidence of high rates of transmission of AMR from migrant to host populations. INTERPRETATION: Migrants are exposed to conditions favouring the emergence of drug resistance during transit and in host countries in Europe. Increased antibiotic resistance among refugees and asylum seekers and in high-migrant community settings (such as refugee camps and detention facilities) highlights the need for improved living conditions, access to health care, and initiatives to facilitate detection of and appropriate high-quality treatment for antibiotic-resistant infections during transit and in host countries. Protocols for the prevention and control of infection and for antibiotic surveillance need to be integrated in all aspects of health care, which should be accessible for all migrant groups, and should target determinants of AMR before, during, and after migration. FUNDING: UK National Institute for Health Research Imperial Biomedical Research Centre, Imperial College Healthcare Charity, the Wellcome Trust, and UK National Institute for Health Research Health Protection Research Unit in Healthcare-associated Infections and Antimictobial Resistance at Imperial College London

The Leucine Zipper Domains of the Transcription Factors GCN4 and c-Jun Have Ribonuclease Activity

Basic-region leucine zipper (bZIP) proteins are one of the largest transcription factor families that regulate a wide range of cellular functions. Owing to the stability of their coiled coil structure leucine zipper (LZ) domains of bZIP factors are widely employed as dimerization motifs in protein engineering studies. In the course of one such study, the X-ray structure of the retro-version of the LZ moiety of yeast transcriptional activator GCN4 suggested that this retro-LZ may have ribonuclease activity. Here we show that not only the retro-LZ but also the authentic LZ of GCN4 has weak but distinct ribonuclease activity. The observed cleavage of RNA is unspecific, it is not suppressed by the ribonuclease A inhibitor RNasin and involves the breakage of 3′,5′-phosphodiester bonds with formation of 2′,3′-cyclic phosphates as the final products as demonstrated by HPLC/electrospray ionization mass spectrometry. Several mutants of the GCN4 leucine zipper are catalytically inactive, providing important negative controls and unequivocally associating the enzymatic activity with the peptide under study. The leucine zipper moiety of the human factor c-Jun as well as the entire c-Jun protein are also shown to catalyze degradation of RNA. The presented data, which was obtained in the test-tube experiments, adds GCN4 and c-Jun to the pool of proteins with multiple functions (also known as moonlighting proteins). If expressed in vivo, the endoribonuclease activity of these bZIP-containing factors may represent a direct coupling between transcription activation and controlled RNA turnover. As an additional result of this work, the retro-leucine zipper of GCN4 can be added to the list of functional retro-peptides

Methane and carbon dioxide fluxes and their regional scalability for the European Arctic wetlands during the MAMM project in summer 2012

Airborne and ground-based measurements of methane (CH4), carbon dioxide (CO2) and boundary layer thermodynamics were recorded over the Fennoscandian landscape (67–69.5° N, 20–28° E) in July 2012 as part of the MAMM (Methane and other greenhouse gases in the Arctic: Measurements, process studies and Modelling) field campaign. Employing these airborne measurements and a simple boundary layer box model, net regional-scale (~ 100 km) fluxes were calculated to be 1.2 ± 0.5 mg CH4 h−1 m−2 and −350 ± 143 mg CO2 h−1 m−2. These airborne fluxes were found to be relatively consistent with seasonally averaged surface chamber (1.3 ± 1.0 mg CH4 h−1 m−2) and eddy covariance (1.3 ± 0.3 mg CH4 h−1 m−2 and −309 ± 306 mg CO2 h−1 m−2) flux measurements in the local area. The internal consistency of the aircraft-derived fluxes across a wide swath of Fennoscandia coupled with an excellent statistical comparison with local seasonally averaged ground-based measurements demonstrates the potential scalability of such localised measurements to regional-scale representativeness. Comparisons were also made to longer-term regional CH4 climatologies from the JULES (Joint UK Land Environment Simulator) and HYBRID8 land surface models within the area of the MAMM campaign. The average hourly emission flux output for the summer period (July–August) for the year 2012 was 0.084 mg CH4 h−1 m−2 (minimum 0.0 and maximum 0.21 mg CH4 h−1 m−2) for the JULES model and 0.088 mg CH4 h−1 m−2 (minimum 0.0008 and maximum 1.53 mg CH4 h−1 m−2) for HYBRID8. Based on these observations both models were found to significantly underestimate the CH4 emission flux in this region, which was linked to the under-prediction of the wetland extents generated by the models

Sex effects in mouse prion disease incubation time.

Prion disease incubation time in mice is determined by many factors including PrP expression level, Prnp alleles, genetic background, prion strain and route of inoculation. Sex differences have been described in age of onset for vCJD and in disease duration for both vCJD and sporadic CJD and have also been shown in experimental models. The sex effects reported for mouse incubation times are often contradictory and detail only one strain of mice or prions, resulting in broad generalisations and a confusing picture. To clarify the effect of sex on prion disease incubation time in mice we have compared male and female transmission data from twelve different inbred lines of mice inoculated with at least two prion strains, representing both mouse-adapted scrapie and BSE. Our data show that sex can have a highly significant difference on incubation time. However, this is limited to particular mouse and prion strain combinations. No sex differences were seen in endogenous PrP(C) levels nor in the neuropathological markers of prion disease: PrP(Sc) distribution, spongiosis, neuronal loss and gliosis. These data suggest that when comparing incubation times between experimental groups, such as testing the effects of modifier genes or therapeutics, single sex groups should be used

Creative destruction in science

Drawing on the concept of a gale of creative destruction in a capitalistic economy, we argue that initiatives to assess the robustness of findings in the organizational literature should aim to simultaneously test competing ideas operating in the same theoretical space. In other words, replication efforts should seek not just to support or question the original findings, but also to replace them with revised, stronger theories with greater explanatory power. Achieving this will typically require adding new measures, conditions, and subject populations to research designs, in order to carry out conceptual tests of multiple theories in addition to directly replicating the original findings. To illustrate the value of the creative destruction approach for theory pruning in organizational scholarship, we describe recent replication initiatives re-examining culture and work morality, working parents\u2019 reasoning about day care options, and gender discrimination in hiring decisions. Significance statement It is becoming increasingly clear that many, if not most, published research findings across scientific fields are not readily replicable when the same method is repeated. Although extremely valuable, failed replications risk leaving a theoretical void\u2014 reducing confidence the original theoretical prediction is true, but not replacing it with positive evidence in favor of an alternative theory. We introduce the creative destruction approach to replication, which combines theory pruning methods from the field of management with emerging best practices from the open science movement, with the aim of making replications as generative as possible. In effect, we advocate for a Replication 2.0 movement in which the goal shifts from checking on the reliability of past findings to actively engaging in competitive theory testing and theory building. Scientific transparency statement The materials, code, and data for this article are posted publicly on the Open Science Framework, with links provided in the article

Search for dark matter produced in association with bottom or top quarks in √s = 13 TeV pp collisions with the ATLAS detector

A search for weakly interacting massive particle dark matter produced in association with bottom or top quarks is presented. Final states containing third-generation quarks and miss- ing transverse momentum are considered. The analysis uses 36.1 fb−1 of proton–proton collision data recorded by the ATLAS experiment at √s = 13 TeV in 2015 and 2016. No significant excess of events above the estimated backgrounds is observed. The results are in- terpreted in the framework of simplified models of spin-0 dark-matter mediators. For colour- neutral spin-0 mediators produced in association with top quarks and decaying into a pair of dark-matter particles, mediator masses below 50 GeV are excluded assuming a dark-matter candidate mass of 1 GeV and unitary couplings. For scalar and pseudoscalar mediators produced in association with bottom quarks, the search sets limits on the production cross- section of 300 times the predicted rate for mediators with masses between 10 and 50 GeV and assuming a dark-matter mass of 1 GeV and unitary coupling. Constraints on colour- charged scalar simplified models are also presented. Assuming a dark-matter particle mass of 35 GeV, mediator particles with mass below 1.1 TeV are excluded for couplings yielding a dark-matter relic density consistent with measurements