Atomic matter wave scanner

We report on the experimental realization of an atom optical device, that allows scanning of an atomic beam. We used a time-modulated evanescent wave field above a glass surface to diffract a continuous beam of metastable Neon atoms at grazing incidence. The diffraction angles and efficiencies were controlled by the frequency and form of modulation, respectively. With an optimized shape, obtained from a numerical simulation, we were able to transfer more than 50% of the atoms into the first order beam, which we were able to move over a range of 8 mrad.Comment: 4 pages, 4 figure

Distribution of mutational fitness effects and of epistasis in the 5' untranslated region of a plant RNA virus

[Background[ Understanding the causes and consequences of phenotypic variability is a central topic of evolutionary biology. Mutations within non-coding cis-regulatory regions are thought to be of major effect since they affect the expression of downstream genes. To address the evolutionary potential of mutations affecting such regions in RNA viruses, we explored the fitness properties of mutations affecting the 5’-untranslated region (UTR) of a prototypical member of the picorna-like superfamily, tobacco etch virus (TEV). This 5’ UTR acts as an internal ribosomal entry site (IRES) and is essential for expression of all viral genes.[Results] We determined in vitro the folding of 5’ UTR using the selective 2’-hydroxyl acylation analyzed by primer extension (SHAPE) technique. Then, we created a collection of single-nucleotide substitutions on this region and evaluated the statistical properties of their fitness effects in vivo. We found that, compared to random mutations affecting coding sequences, mutations at the 5’ UTR were of weaker effect. We also created double mutants by combining pairs of these single mutations and found variation in the magnitude and sign of epistatic interactions, with an enrichment of cases of positive epistasis. A correlation exists between the magnitude of fitness effects and the size of the perturbation made in the RNA folding structure, suggesting that the larger the departure from the predicted fold, the more negative impact in viral fitness.[Conclusions] Evidence that mutational fitness effects on the short 5’ UTR regulatory sequence of TEV are weaker than those affecting its coding sequences have been found. Epistasis among pairs of mutations on the 5’ UTR ranged between the extreme cases of synthetic lethal and compensatory. A plausible hypothesis to explain all these observations is that the interaction between the 5’ UTR and the host translational machinery was shaped by natural selection to be robust to mutations, thus ensuring the homeostatic expression of viral genes even at high mutation rates.This work was supported by grant BFU2012-30805 from the Spanish Ministry of Economy and Competitiveness (MINECO), grant PROMETEOII/2014/021 from Generalitat Valenciana and the EvoEvo (ICT610427) project from the European Commission 7th Framework Program. Publication fees have been partially paid by the CSIC Open Access Publication Support Initiative through its Unit of Information Resources for Research (URICI).Peer reviewe

Implementation of mean-timing and subsequent logic functions on an FPGA

This article describes the implementation of a mean-timer and coincidence logic on a Virtex-5 FPGA for trigger purposes in a particle physics experiment. The novel feature is that the mean-timing and the coincidence logic are not synchronized with a clock which allows for a higher resolution of approximately 400 ps, not limited by a clock frequency.Comment: 15 pages, 11 figure

MgII absorption systems with W_0 > 0.1 \AA for a radio selected sample of 77 QSOs and their associated magnetic fields at high redshifts

We present a catalogue of MgII absorption systems obtained from high resolution UVES/VLT data of 77 QSOs in the redshift range 0.6 < z < 2.0, and down to an equivalent width W_0 > 0.1 \AA. The statistical properties of our sample are found to be in agreement with those from previous work in the literature. However, we point out that the previously observed increase with redshift of dN/dz for weak absorbers, pertains exclusively to very weak absorbers with W_0 < 0.1 \AA. Instead, dN/dz for absorbers with W_0 in the range 0.1-0.3 \AA actually decreases with redshift, similarly to the case of strong absorbers. We then use this catalogue to extend our earlier analysis of the links between the Faraday Rotation Measure of the quasars and the presence of intervening MgII absorbing systems in their spectra. In contrast to the case with strong MgII absorption systems W_0 > 0.3 \AA, the weaker systems do not contribute significantly to the observed Rotation Measure of the background quasars. This is possibly due to the higher impact parameters of the weak systems compared to strong ones, suggesting that the high column density magnetized material that is responsible for the Faraday Rotation is located within about 50 kpc of the galaxies. Finally, we show that this result also rules out the possibility that some unexpected secondary correlation between the quasar redshift and its intrinsic Rotation Measure is responsible for the association of high Rotation Measure and strong intervening MgII absorption that we have presented elsewhere, since this would have produced an equal effect for the weak absorption line systems, which exhibit a very similar distribution of quasar redshifts.Comment: Accepted for publication in ApJ. 12 pages, 8 figure

The phase spiral in Gaia DR3

We aim to study the phase spiral in the Milky Way (MW) with Gaia DR3. We used an edge detection algorithm to find the border of the phase spiral, allowing us to robustly quantify its shape at different positions and for different selections. We calculated the time of onset of the phase-mixing by determining the different turns of the phase spiral and using the vertical frequencies from commonly used MW potential models. We find that the phase spiral extends down to $-1.2$ kpc in height below the plane (about 3 to 5 scale heights of the thin disc) and beyond $\pm 50$ km/s in $V_Z$. We see a secondary branch mostly at positive vertical velocities when coloured by azimuthal velocity and in the counts projection. We also find complex variations of the phase spirals with angular momentum and azimuth. All these possibly provide evidence of multiple perturbations (from different times or from different perturbers) and/or of the complexity of the phase mixing process. We detect the phase spiral from 6 to 11 kpc from the Galactic centre and find signatures of vertical asymmetries 1-2 kpc beyond this range. We measure small but clear variations with azimuth. When we determine the phase mixing times from the phase spiral at different angular momenta and using the different spiral turns (at different $Z$) we obtain inconsistent times with systematic differences (times increasing with $|L_Z|$ and with $|Z|$). Our determinations are mostly in the range of [0.3-0.9] Gyr, with an average of 0.5 Gyr. The inconsistencies do not change when using different usual potential models, different stellar distances or frequencies for different kinetic temperatures. They could stem from the inconsistency of potential models with the true MW, and from too simple modelling, in particular neglecting self-gravity, not considering the multiple perturbations and the interference with other processes.Comment: accepted for publication in A&

Matter wave pulses characteristics

We study the properties of quantum single-particle wave pulses created by sharp-edged or apodized shutters with single or periodic openings. In particular, we examine the visibility of diffraction fringes depending on evolution time and temperature; the purity of the state depending on the opening-time window; the accuracy of a simplified description which uses ``source'' boundary conditions instead of solving an initial value problem; and the effects of apodization on the energy width.Comment: 11 pages, 11 figure

Focal modulation using rotating phase filters

We describe a simple method of refocusing optical systems that is based on the use of two identical phase filters. These filters are divided in annuli and each annulus is divided into sectors with a particular phase value. A controlled focus displacement is achieved by rotating one filter with respect to the other. This displacement is related with the filter parameters. Transverse responses are studied as a function of filters relative position. Furthermore, the experimental set up shows that theoretical prediction fit well with experimental results. The main advantage of this system is the ease of fabrication so that it could be useful in different applications requiring small size, light weight or thin systems, like mobile phone cameras, microscopy tomography, and others

Urine Fetuin-A is a biomarker of autosomal dominant polycystic kidney disease progression.

BACKGROUND: Autosomal dominant polycystic kidney disease (ADPKD) is a genetic disorder characterized by numerous fluid-filled cysts that frequently result in end-stage renal disease. While promising treatment options are in advanced clinical development, early diagnosis and follow-up remain a major challenge. We therefore evaluated the diagnostic value of Fetuin-A as a new biomarker of ADPKD in human urine. RESULTS: We found that renal Fetuin-A levels are upregulated in both Pkd1 and Bicc1 mouse models of ADPKD. Measurement by ELISA revealed that urinary Fetuin-A levels were significantly higher in 66 ADPKD patients (17.5 ± 12.5 μg/mmol creatinine) compared to 17 healthy volunteers (8.5 ± 3.8 μg/mmol creatinine) or 50 control patients with renal diseases of other causes (6.2 ± 2.9 μg/mmol creatinine). Receiver operating characteristics (ROC) analysis of urinary Fetuin-A levels for ADPKD rendered an optimum cut-off value of 12.2 μg/mmol creatinine, corresponding to 94% of sensitivity and 60% of specificity (area under the curve 0.74 ; p = 0.0019). Furthermore, urinary Fetuin-A levels in ADPKD patients correlated with the degree of renal insufficiency and showed a significant increase in patients with preserved renal function followed for two years. CONCLUSIONS: Our findings establish urinary Fetuin-A as a sensitive biomarker of the progression of ADPKD. Further studies are required to examine the pathogenic mechanisms of elevated renal and urinary Fetuin-A in ADPKD