Solitons in Yakushevich-like models of DNA dynamics with improved intrapair potential

The Yakushevich (Y) model provides a very simple pictures of DNA torsion dynamics, yet yields remarkably correct predictions on certain physical characteristics of the dynamics. In the standard Y model, the interaction between bases of a pair is modelled by a harmonic potential, which becomes anharmonic when described in terms of the rotation angles; here we substitute to this different types of improved potentials, providing a more physical description of the H-bond mediated interactions between the bases. We focus in particular on soliton solutions; the Y model predicts the correct size of the nonlinear excitations supposed to model the ``transcription bubbles'', and this is essentially unchanged with the improved potential. Other features of soliton dynamics, in particular curvature of soliton field configurations and the Peierls-Nabarro barrier, are instead significantly changed

Assessing the volcanic hazard for Rome. 40Ar/39Ar and In-SAR constraints on the most recent eruptive activity and present-day uplift at Colli Albani Volcanic District

We present new 40Ar/39Ar data which allow us to refine the recurrence time for the most recent eruptive activity occurred at Colli Albani Volcanic District (CAVD) and constrain its geographic area. Time elapsed since the last eruption (36 kyr) overruns the recurrence time (31 kyr) in the last 100 kyr. New interferometric synthetic aperture radar data, covering the years 1993–2010, reveal ongoing inflation with maximum uplift rates (>2 mm/yr) in the area hosting the most recent (<200 ka) vents, suggesting that the observed uplift might be caused by magma injection within the youngest plumbing system. Finally, we frame the present deformation within the structural pattern of the area of Rome, characterized by 50 m of regional uplift since 200 ka and by geologic evidence for a recent (<2000 years) switch of the local stress-field, highlighting that the precursors of a new phase of volcanic activity are likely occurring at the CAVD

Pancreatic cystosis in cystic fibrosis. Sometimes a bike ride can help you decide

Pancreatic cystosis (PC) is an uncommon manifestation of pancreas involvement in cystic fibrosis (CF), characterized by the presence of multiple macrocysts partially or completely replacing pancreas. Only few reports are available from literature and management (surgery vs follow up) is commonly based on the presence of symptoms or complications due to local mass effect, although evidence-based recommendations are still not available. We here report the case of a young adult CF patient with PC, in which cardiopulmonary exercise testing (CPET) provided important information to be integrated to the radiological finding of inferior vena cava compression by the multicystic pancreas complex. Through the analysis of oxygen kinetic cardiodynamic phase pattern, CPET may be helpful to safely exclude significant mass effects on blood venous return and to improve the decision-making process on whether to consider surgery or not in patients with PC

Solitons in a double pendulums chain model, and DNA roto-torsional dynamics

It was first suggested by Englander et al to model the nonlinear dynamics of DNA relevant to the transcription process in terms of a chain of coupled pendulums. In a related paper [q-bio.BM/0604014] we argued for the advantages of an extension of this approach based on considering a chain of double pendulums with certain characteristics. Here we study a simplified model of this kind, focusing on its general features and nonlinear travelling wave excitations; in particular, we show that some of the degrees of freedom are actually slaved to others, allowing for an effective reduction of the relevant equations

Sine-Gordon solitons, auxiliary fields, and singular limit of a double pendulums chain

We consider the continuum version of an elastic chain supporting topological and non-topological degrees of freedom; this generalizes a model for the dynamics of DNA recently proposed and investigated by ourselves. In a certain limit, the non-topological degrees of freedom are frozen, and the model reduces to the sine-Gordon equations and thus supports well-known topological soliton solutions. We consider a (singular) perturbative expansion around this limit and study in particular how the non-topological field assume the role of an auxiliary field. This provides a more general framework for the slaving of this degree of freedom on the topological one, already observed elsewhere in the context of the mentioned DNA model; in this framework one expects such phenomenon to arise in a quite large class of field-theoretical models.Comment: 18 pages, 2 figure

Weierstrass's criterion and compact solitary waves

Weierstrass's theory is a standard qualitative tool for single degree of freedom equations, used in classical mechanics and in many textbooks. In this Brief Report we show how a simple generalization of this tool makes it possible to identify some differential equations for which compact and even semicompact traveling solitary waves exist. In the framework of continuum mechanics, these differential equations correspond to bulk shear waves for a special class of constitutive laws.Comment: 4 page

Solitons in the Yakushevich model of DNA beyond the contact approximation

The Yakushevich model of DNA torsion dynamics supports soliton solutions, which are supposed to be of special interest for DNA transcription. In the discussion of the model, one usually adopts the approximation $\ell_0 \to 0$, where $\ell_0$ is a parameter related to the equilibrium distance between bases in a Watson-Crick pair. Here we analyze the Yakushevich model without $\ell_0 \to 0$. The model still supports soliton solutions indexed by two winding numbers $(n,m)$; we discuss in detail the fundamental solitons, corresponding to winding numbers (1,0) and (0,1) respectively

On the geometry of lambda-symmetries, and PDEs reduction

We give a geometrical characterization of $\lambda$-prolongations of vector fields, and hence of $\lambda$-symmetries of ODEs. This allows an extension to the case of PDEs and systems of PDEs; in this context the central object is a horizontal one-form $\mu$, and we speak of $\mu$-prolongations of vector fields and $\mu$-symmetries of PDEs. We show that these are as good as standard symmetries in providing symmetry reduction of PDEs and systems, and explicit invariant solutions

Implementation of In-Situ Impedance Techniques on a Full Scale Aero-Engine System

Determination of acoustic liner impedance for jet engine applications remains a challenge for the designer. Although suitable models have been developed that take account of source amplitude and the local flow environment experienced by the liner, experimental validation of these models has been difficult. This is primarily due to the inability of researchers to faithfully mimic the environment in jet engine nacelles in the laboratory. An in-situ measurement technique, one that can be implemented in an actual engine, is desirable so an accurate impedance can be determined for future modeling and quality control. This paper documents the implementation of such a local acoustic impedance measurement technique that is used under controlled laboratory conditions as well as on full scale turbine engine liner test article. The objective for these series of in-situ measurements is to substantiate treatment design, provide understanding of flow effects on installed liner performance, and provide modeling input for fan noise propagation computations. A series of acoustic liner evaluation tests are performed that includes normal incidence tube, grazing incidence tube, and finally testing on a full scale engine on a static test stand. Lab tests were intended to provide insight and guidance for accurately measuring the impedance of the liner housed in the inlet of a Honeywell Tech7000 turbofan. Results have shown that one can acquire very reasonable liner impedance data for a full scale engine under realistic test conditions. Furthermore, higher fidelity results can be obtained by using a three-microphone coherence technique that can enhance signal-to-noise ratio at high engine power settings. This research has also confirmed the limitations of this particular type of in-situ measurement. This is most evident in the installation of instrumentation and its effect on what is being measured

Report on advances for pediatricians in 2018: allergy, cardiology, critical care, endocrinology, hereditary metabolic diseases, gastroenterology, infectious diseases, neonatology, nutrition, respiratory tract disorders and surgery.

This review reported notable advances in pediatrics that have been published in 2018. We have highlighted progresses in allergy, cardiology, critical care, endocrinology, hereditary metabolic diseases, gastroenterology, infectious diseases, neonatology, nutrition, respiratory tract disorders and surgery. Many studies have informed on epidemiologic observations. Promising outcomes in prevention, diagnosis and treatment have been reported. We think that advances realized in 2018 can now be utilized to ameliorate patient car