Hydrodynamic response of rotationally supported flows in the Small Shearing Box model

The hydrodynamic response of the inviscid small shearing box model of a midplane section of a rotationally supported astrophysical disk is examined. An energy functional ${\cal E}$ is formulated for the general nonlinear problem. It is found that the fate of disturbances is related to the conservation of this quantity which, in turn, depends on the boundary conditions utilized: ${\cal E}$ is conserved for channel boundary conditions while it is not conserved in general for shearing box conditions. Linearized disturbances subject to channel boundary conditions have normal-modes described by Bessel Functions and are qualitatively governed by a quantity $\Sigma$ which is a measure of the ratio between the azimuthal and vertical wavelengths. Inertial oscillations ensue if $\Sigma >1$ - otherwise disturbances must in general be treated as an initial value problem. We reflect upon these results and offer a speculation.Comment: 6 pages, resubmitted to Astronomy and Astrophysics, shortened with references adde

General state-space population dynamics model for Bayesian stock assessment

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On the viability of the shearing box approximation for numerical studies of MHD turbulence in accretion disks

Most of our knowledge on the nonlinear development of the magneto-rotational instability (MRI) relies on the results of numerical simulations employing the shearing box (SB) approximation. A number of difficulties arising from this approach have recently been pointed out in the literature. We thoroughly examine the effects of the assumptions made and numerical techniques employed in SB simulations. This is done in order to clarify and gain better understanding of those difficulties as well as of a number of additional serious problems, raised here for the first time, and of their impact on the results. Analytical derivations and estimates as well as comparative analysis to methods used in the numerical study of turbulence are used. Numerical experiments are performed to support some of our claims and conjectures. The following problems, arising from the (virtually exclusive) use of the SB simulations as a tool for the understanding and quantification of the nonlinear MRI development in disks, are analyzed and discussed: (i) inconsistencies in the application of the SB approximation itself; (ii) the limited spatial scale of the SB; (iii) the lack of convergence of most ideal MHD simulations; (iv) side-effects of the SB symmetry and the non-trivial nature of the linear MRI; (v) physical artifacts arising on the too small box scale due to periodic boundary conditions. The computational and theoretical challenge posed by the MHD turbulence problem in accretion disks cannot be met by the SB approximation, as it has been used to date. A new strategy to confront this challenge is proposed, based on techniques widely used in numerical studies of turbulent flows - developing (e.g., with the help of local numerical studies) a sub-grid turbulence model and implementing it in global calculations.Comment: Accepted for publication in Astronomy and Astrophysic

Distinct levels in Pom1 gradients limit Cdr2 activity and localization to time and position division.

Where and when cells divide are fundamental questions. In rod-shaped fission yeast cells, the DYRK-family kinase Pom1 is organized in concentration gradients from cell poles and controls cell division timing and positioning. Pom1 gradients restrict to mid-cell the SAD-like kinase Cdr2, which recruits Mid1/Anillin for medial division. Pom1 also delays mitotic commitment through Cdr2, which inhibits Wee1. Here, we describe quantitatively the distributions of cortical Pom1 and Cdr2. These reveal low profile overlap contrasting with previous whole-cell measurements and Cdr2 levels increase with cell elongation, raising the possibility that Pom1 regulates mitotic commitment by controlling Cdr2 medial levels. However, we show that distinct thresholds of Pom1 activity define the timing and positioning of division. Three conditions-a separation-of-function Pom1 allele, partial downregulation of Pom1 activity, and haploinsufficiency in diploid cells-yield cells that divide early, similar to pom1 deletion, but medially, like wild-type cells. In these cells, Cdr2 is localized correctly at mid-cell. Further, Cdr2 overexpression promotes precocious mitosis only in absence of Pom1. Thus, Pom1 inhibits Cdr2 for mitotic commitment independently of regulating its localization or cortical levels. Indeed, we show Pom1 restricts Cdr2 activity through phosphorylation of a C-terminal self-inhibitory tail. In summary, our results demonstrate that distinct levels in Pom1 gradients delineate a medial Cdr2 domain, for cell division placement, and control its activity, for mitotic commitment

Influence of thermomechanical processing parameters on critical temperatures to develop an Advanced High-Strength Steel microstructure

A good selection of the thermomechanical processing parameters will optimize the function of alloying elements to get the most of mechanical properties in Advanced High-Strength Steels for automotive components, where high resistance is required for passenger safety. As such, critical processing temperatures must be defined taking into account alloy composition, in order for effective thermomechanical processing schedules to be designed. These critical temperatures mainly include the recrystallization stop temperature (T5%) and the transformation temperatures (Ar1, Ar3, Bs, etc.). These critical processing temperatures were characterized using different thermomechanical conditions. T5% was determined through the softening evaluation on double hit tests and the observation of prior austenite grain boundaries on the microstructure. Phase transformation temperatures were measured by dilatometry experiments at different cooling rates. The results indicate that the strain per pass and the interpass time will influence the most on the determination of T5%. The range of temperatures between the recrystallized and non-recrystallized regions can be as narrow as 30 °C at a higher amount of strain. The proposed controlled thermomechanical processing schedule involves getting a severely deformed austenite with a high dislocation density and deformation bands to increase the nucleation sites to start the transformation products. This microstructure along with a proper cooling strategy will lead to an enhancement in the final mechanical properties of a particular steel composition

The transcription factor Hey and nuclear lamins specify and maintain cell identity

The inability of differentiated cells to maintain their identity is a hallmark of age-related diseases. We found that the transcription factor Hey supervises the identity of differentiated enterocytes (ECs) in the adult Drosophila midgut. Lineage tracing established that Hey-deficient ECs are unable to maintain their unique nuclear organization and identity. To supervise cell identity, Hey determines the expression of nuclear lamins, switching from a stem-cell lamin configuration to a differentiated lamin configuration. Moreover, continued Hey expression is required to conserve large-scale nuclear organization. During aging, Hey levels decline, and EC identity and gut homeostasis are impaired, including pathological reprograming and compromised gut integrity. These phenotypes are highly similar to those observed upon acute targeting of Hey or perturbation of lamin expression in ECs in young adults. Indeed, aging phenotypes were suppressed by continued expression of Hey in ECs, suggesting that a Hey-lamin network safeguards nuclear organization and differentiated cell identity

Heavy mesons in a hadronic medium:Interaction and transport coefficients

We review the recent results of heavy meson diffusion in thermal hadronic matter. The interactions of D and B mesons with other hadrons (light mesons and baryons) are extracted from effective field theories based on chiral and heavy-quark symmetries. When these guiding principles are combined with exact unitarity, physical values of the cross sections are obtained. These cross sections (which contain resonant contributions) are used to calculate the drag and diffusion coefficients of heavy mesons immersed in a thermal and dense medium. The transport coefficients are computed using a Fokker-Planck reduction of the Boltzmann equation

Diagnostic Accuracy of Procalcitonin in Differentiating Sepsis from Noninfectious SIRS in Adult Patients with Subarachnoid Hemorrhage

Background: Subarachnoid hemorrhage (SAH) is a frequent diagnosis in the neuro-intensive care unit (NICU) that can result in the development of systemic inflammatory response syndrome (SIRS) and fever. The differentiation between central fever and infectious fever is paramount in order to prevent superfluous diagnostic testing and overuse of empiric antibiotics. Methods: A prospective chart review study conducted in the NICU between December 2012 and September 2015. Patients with SAH, fever (≥101.0°F) and/or who were SIRS positive and had PCT levels measured were included. The primary outcome was clinical infection defined as any positive culture or infiltrate on chest X-ray within three days of onset of fever. Results: Out of 129 patients, 54 were positive for any culture: 14 with PCT ≤0.2, 12 with PCT \u3e0.2 and ≤0.5, and 28 with PCT \u3e0.5. Using multiple logistic regression, PCT between 0.2-0.5 had an odds ratio of 2.99 (95% CI 1.12-8.00) while PCT \u3e0.5 had an odds ratio of 29.11 (CI 8.49-99.83) and p-value of \u3c0.001. All other predictors were not statistically significant. For procalcitonin \u3e0.5, specificity is 94.7%, sensitivity 51.9%, positive predictive value 87.5%, and negative predictive value 73.2%. ROC Curve area: 79.3%. Conclusion: PCT of 0.5 ng/mL or greater was useful for distinguishing infectious from central fever in SAH patients, with PCT values between 0.2-0.5 as somewhat predictive of infection. The test has high specificity and a reasonably high negative predictive value, so it can be a valuable tool to rule out infectious fever in patients with SAH

Transient Changes in the Plasma of Astrocytic and Neuronal Injury Biomarkers in COVID-19 Patients without Neurological Syndromes

The levels of several glial and neuronal plasma biomarkers have been found to increase during the acute phase in COVID-19 patients with neurological symptoms. However, replications in patients with minor or non-neurological symptoms are needed to understand their potential as indicators of CNS injury or vulnerability. Plasma levels of glial fibrillary acidic protein (GFAP), neurofilament light chain protein (NfL), and total Tau (T-tau) were determined by Single molecule array (Simoa) immunoassays in 45 samples from COVID-19 patients in the acute phase of infection [moderate (n = 35), or severe (n = 10)] with minor or non-neurological symptoms; in 26 samples from fully recovered patients after ~2 months of clinical follow-up [moderate (n = 23), or severe (n = 3)]; and in 14 non-infected controls. Plasma levels of the SARS-CoV-2 receptor, angiotensin-converting enzyme 2 (ACE2), were also determined by Western blot. Patients with COVID-19 without substantial neurological symptoms had significantly higher plasma concentrations of GFAP, a marker of astrocytic activation/injury, and of NfL and T-tau, markers of axonal damage and neuronal degeneration, compared with controls. All these biomarkers were correlated in COVID-19 patients at the acute phase. Plasma GFAP, NfL and T-tau levels were all normalized after recovery. Recovery was also observed in the return to normal values of the quotient between the ACE2 fragment and circulating full-length species, following the change noticed in the acute phase of infection. None of these biomarkers displayed differences in plasma samples at the acute phase or recovery when the COVID-19 subjects were sub-grouped according to occurrence of minor symptoms at re-evaluation 3 months after the acute episode (so called post-COVID or "long COVID"), such as asthenia, myalgia/arthralgia, anosmia/ageusia, vision impairment, headache or memory loss. Our study demonstrated altered plasma GFAP, NfL and T-tau levels in COVID-19 patients without substantial neurological manifestation at the acute phase of the disease, providing a suitable indication of CNS vulnerability; but these biomarkers fail to predict the occurrence of delayed minor neurological symptoms

SNP discovery in the bovine milk transcriptome using RNA-Seq technology

High-throughput sequencing of RNA (RNA-Seq) was developed primarily to analyze global gene expression in different tissues. However, it also is an efficient way to discover coding SNPs. The objective of this study was to perform a SNP discovery analysis in the milk transcriptome using RNA-Seq. Seven milk samples from Holstein cows were analyzed by sequencing cDNAs using the Illumina Genome Analyzer system. We detected 19,175 genes expressed in milk samples corresponding to approximately 70% of the total number of genes analyzed. The SNP detection analysis revealed 100,734 SNPs in Holstein samples, and a large number of those corresponded to differences between the Holstein breed and the Hereford bovine genome assembly Btau4.0. The number of polymorphic SNPs within Holstein cows was 33,045. The accuracy of RNA-Seq SNP discovery was tested by comparing SNPs detected in a set of 42 candidate genes expressed in milk that had been resequenced earlier using Sanger sequencing technology. Seventy of 86 SNPs were detected using both RNA-Seq and Sanger sequencing technologies. The KASPar Genotyping System was used to validate unique SNPs found by RNA-Seq but not observed by Sanger technology. Our results confirm that analyzing the transcriptome using RNA-Seq technology is an efficient and cost-effective method to identify SNPs in transcribed regions. This study creates guidelines to maximize the accuracy of SNP discovery and prevention of false-positive SNP detection, and provides more than 33,000 SNPs located in coding regions of genes expressed during lactation that can be used to develop genotyping platforms to perform marker-trait association studies in Holstein cattle