A framework for large-scale relativistic simulations in the characteristic approach

We present a new computational framework (LEO), that enables us to carry out the very first large-scale, high-resolution computations in the context of the characteristic approach in numerical relativity. At the analytic level, our approach is based on a new implementation of the ``eth'' formalism, using a non-standard representation of the spin-raising and lowering angular operators in terms of non-conformal coordinates on the sphere; we couple this formalism to a partially first-order reduction (in the angular variables) of the Einstein equations. The numerical implementation of our approach supplies the basic building blocks for a highly parallel, easily extensible numerical code. We demonstrate the adaptability and excellent scaling of our numerical code by solving, within our numerical framework, for a scalar field minimally coupled to gravity (the Einstein-Klein-Gordon problem) in 3-dimensions. The nonlinear code is globally second-order convergent, and has been extensively tested using as reference a calibrated code with the same boundary-initial data and radial marching algorithm. In this context, we show how accurately we can follow quasi-normal mode ringing. In the linear regime, we show energy conservation for a number of initial data sets with varying angular structure. A striking result that arises in this context is the saturation of the flow of energy through the Schwarzschild radius. As a final calibration check we perform a large simulation with resolution never achieved before.Comment: RevTeX4, 22 pages, 21 figures, to appear in Phys. Rev.

Early Planet Formation in Embedded Disks (eDisk). I. Overview of the Program and First Results

We present an overview of the Large Program, ``Early Planet Formation in Embedded Disks (eDisk)'', conducted with the Atacama Large Millimeter/submillimeter Array (ALMA). The ubiquitous detections of substructures, particularly rings and gaps, in protoplanetary disks around T Tauri stars raise the possibility that at least some planet formation may have already started during the embedded stages of star formation. In order to address exactly how and when planet formation is initiated, the program focuses on searching for substructures in disks around 12 Class 0 and 7 Class I protostars in nearby ($<$200 pc) star-forming regions through 1.3 mm continuum observations at a resolution of $\sim7$ au (0.04"). The initial results show that the continuum emission, mostly arising from dust disks around the sample protostars, has relatively few distinctive substructures, such as rings and spirals, in marked contrast to Class II disks. The dramatic difference may suggest that substructures quickly develop in disks when the systems evolve from protostars to Class II sources or alternatively that high optical depth of the continuum emission could obscure internal structures. Kinematic information obtained through CO isotopologue lines and other lines reveals the presence of Keplerian disks around protostars, providing us with crucial physical parameters, in particular, the dynamical mass of the central protostars. We describe the background of the eDisk program, the sample selection and their ALMA observations, the data reduction, and also highlight representative first-look results.Comment: This is a publication of a series of eDisk ALMA large program first-look paper

Xylella fastidiosa gene expression analysis by DNA microarrays

Xylella fastidiosa genome sequencing has generated valuable data by identifying genes acting either on metabolic pathways or in associated pathogenicity and virulence. Based on available information on these genes, new strategies for studying their expression patterns, such as microarray technology, were employed. A total of 2,600 primer pairs were synthesized and then used to generate fragments using the PCR technique. The arrays were hybridized against cDNAs labeled during reverse transcription reactions and which were obtained from bacteria grown under two different conditions (liquid XDM2 and liquid BCYE). All data were statistically analyzed to verify which genes were differentially expressed. In addition to exploring conditions for X. fastidiosa genome-wide transcriptome analysis, the present work observed the differential expression of several classes of genes (energy, protein, amino acid and nucleotide metabolism, transport, degradation of substances, toxins and hypothetical proteins, among others). The understanding of expressed genes in these two different media will be useful in comprehending the metabolic characteristics of X. fastidiosa, and in evaluating how important certain genes are for the functioning and survival of these bacteria in plants