Pulling a polymer out of a potential well and the mechanical unzipping of DNA

Motivated by the experiments on DNA under torsion, we consider the problem of pulling a polymer out of a potential well by a force applied to one of its ends. If the force is less than a critical value, then the process is activated and has an activation energy proportinal to the length of the chain. Above this critical value, the process is barrierless and will occur spontaneously. We use the Rouse model for the description of the dynamics of the peeling out and study the average behaviour of the chain, by replacing the random noise by its mean. The resultant mean-field equation is a nonlinear diffusion equation and hence rather difficult to analyze. We use physical arguments to convert this in to a moving boundary value problem, which can then be solved exactly. The result is that the time $t_{po}$ required to pull out a polymer of $N$ segments scales like $N^2$. For models other than the Rouse, we argue that $t_{po}\sim N^{1+\nu}$Comment: 11 pages, 6 figures. To appear in PhysicalReview

Effects of Molybdenum Supplementation on Performance of Forage‐fed SteersReceiving High‐sulfur Water

There has been on‐going research in the area of the consumption of high‐sulfur (S) water by steers grazing rangeland as well as forage‐fed steers in a feedlot setting. During the summer of 2009, a trial was conducted on the effects of high‐S water in finishing steers supplemented with molybdenum (Mo). The main purpose of the research was to gather data that may aid in the formulation of a supplement to counteract the negative effects of high‐S water consumed by ruminant livestock species in areas where sulfur concentration in water sources is a risk to animal health and performance. The specific focus of this trial was to determine whether the feeding of supplemental Mo would improve animal health and performance by decreasing the formation of hydrogen sulfide gas (H2S) in the rumen. Yearling steers (n=96) were used for a 56‐d trial. The trial consisted of 3 treatment groups; a low‐S water group and two high‐S water groups. One high‐S water treatment group received the same pellet that the low‐S group was given and the other high‐S water treatment group received a pellet with supplemental Mo included. Rumen gas cap H2S was collected on d ‐1, 29 and 57. Weights were recorded on d ‐2, ‐1, 29, 56 and 57. There were no differences between treatments in water intake (P= 0.719), but feed intake was reduced in the steers receiving the supplemental Mo (P \u3c 0.001). There was a significant difference in ruminal H2S due to treatment (P= 0.014), with higher ruminal H2S in the steers receiving the supplemental Mo. Steers receiving the Mo supplement had lower ADG than steers in the other treatments (P= 0.009). Throughout the duration of the trial, two steers were removed from the trial due to advanced symptoms of sulfur‐induced PEM (sPEM) from the high‐S treatment with no supplemental M

Copper Supplementation of Grazing Yearling Steers Supplemented withMolybdenum While Consuming High‐sulfur Water

There has been on‐going research conducted by South Dakota State University in the area of the consumption of high‐sulfur (S) water by steers grazing rangeland. During the summer of 2009 a trial was conducted in cooperation with the University of Wyoming on the effects of copper supplementation of grazing pasture steers supplemented with molybdenum (Mo), while drinking high‐sulfur water. The main purpose of this experiment was to gather data that may aide in the formulation of a method to counteract the negative effects of high‐S water consumed by ruminant livestock species in areas where sulfur concentrations in water sources causes risk to animal health and performance. Yearling steers (n=120) were assigned randomly to 9 replicate groups, 3 replicates of 3 treatments for a 52 d experiment. All groups were provided with high‐S water containing on average 2,201 mg•kg‐1 of sulfate. Additionally, all treatment groups received 100 mg•kg‐1 of supplemental Mo as an antagonist that would bind excess S. Unfortunately, Mo also binds copper (Cu), indicating that supplemental Cu may be necessary. Therefore treatments differed in level of supplemental copper: treatments 1 through 3 received 0, 75, or 150 mg•kg‐1 of supplemental Cu, respectively. Prior to the trial, mid‐trial and at the conclusion of the trial, ruminal H2S gas cap levels were collected. Animal weights were recorded d ‐2, ‐1, 28, 52 and 53. Over the entire course of the experiment there was a significant difference in ADG due to treatment (P\u3c 0.001). There were no differences in water consumption as a result of treatment (P= 0.618). No differences were observed in ruminal H2S due to treatment. No animal losses occurred due to the consumption of high‐S water in this trial

Developing a predictive modelling capacity for a climate change-vulnerable blanket bog habitat: Assessing 1961-1990 baseline relationships

Aim: Understanding the spatial distribution of high priority habitats and developing predictive models using climate and environmental variables to replicate these distributions are desirable conservation goals. The aim of this study was to model and elucidate the contributions of climate and topography to the distribution of a priority blanket bog habitat in Ireland, and to examine how this might inform the development of a climate change predictive capacity for peat-lands in Ireland. Methods: Ten climatic and two topographic variables were recorded for grid cells with a spatial resolution of 1010 km, covering 87% of the mainland land surface of Ireland. Presence-absence data were matched to these variables and generalised linear models (GLMs) fitted to identify the main climatic and terrain predictor variables for occurrence of the habitat. Candidate predictor variables were screened for collinearity, and the accuracy of the final fitted GLM was evaluated using fourfold cross-validation based on the area under the curve (AUC) derived from a receiver operating characteristic (ROC) plot. The GLM predicted habitat occurrence probability maps were mapped against the actual distributions using GIS techniques. Results: Despite the apparent parsimony of the initial GLM using only climatic variables, further testing indicated collinearity among temperature and precipitation variables for example. Subsequent elimination of the collinear variables and inclusion of elevation data produced an excellent performance based on the AUC scores of the final GLM. Mean annual temperature and total mean annual precipitation in combination with elevation range were the most powerful explanatory variable group among those explored for the presence of blanket bog habitat. Main conclusions: The results confirm that this habitat distribution in general can be modelled well using the non-collinear climatic and terrain variables tested at the grid resolution used. Mapping the GLM-predicted distribution to the observed distribution produced useful results in replicating the projected occurrence of the habitat distribution over an extensive area. The methods developed will usefully inform future climate change predictive modelling for Irelan

Rare Coding Variants Associated With Electrocardiographic Intervals Identify Monogenic Arrhythmia Susceptibility Genes: A Multi-Ancestry Analysis

Background: Alterations in electrocardiographic (ECG) intervals are well-known markers for arrhythmia and sudden cardiac death (SCD) risk. While the genetics of arrhythmia syndromes have been studied, relations between electrocardiographic intervals and rare genetic variation at a population level are poorly understood. Methods: Using a discovery sample of 29 000 individuals with whole-genome sequencing from Trans-Omics in Precision Medicine and replication in nearly 100 000 with whole-exome sequencing from the UK Biobank and MyCode, we examined associations between low-frequency and rare coding variants with 5 routinely measured electrocardiographic traits (RR, P-wave, PR, and QRS intervals and corrected QT interval). Results: We found that rare variants associated with population-based electrocardiographic intervals identify established monogenic SCD genes (KCNQ1, KCNH2, and SCN5A), a controversial monogenic SCD gene (KCNE1), and novel genes (PAM and MFGE8) involved in cardiac conduction. Loss-of-function and pathogenic SCN5A variants, carried by 0.1% of individuals, were associated with a nearly 6-fold increased odds of the first-degree atrioventricular block (P=8.4×10-5). Similar variants in KCNQ1 and KCNH2 (0.2% of individuals) were associated with a 23-fold increased odds of marked corrected QT interval prolongation (P=4×10-25), a marker of SCD risk. Incomplete penetrance of such deleterious variation was common as over 70% of carriers had normal electrocardiographic intervals. Conclusions: Our findings indicate that large-scale high-depth sequence data and electrocardiographic analysis identifies monogenic arrhythmia susceptibility genes and rare variants with large effects. Known pathogenic variation in conventional arrhythmia and SCD genes exhibited incomplete penetrance and accounted for only a small fraction of marked electrocardiographic interval prolongation

Energetic particle influence on the Earth's atmosphere

This manuscript gives an up-to-date and comprehensive overview of the effects of energetic particle precipitation (EPP) onto the whole atmosphere, from the lower thermosphere/mesosphere through the stratosphere and troposphere, to the surface. The paper summarizes the different sources and energies of particles, principally galactic cosmic rays (GCRs), solar energetic particles (SEPs) and energetic electron precipitation (EEP). All the proposed mechanisms by which EPP can affect the atmosphere are discussed, including chemical changes in the upper atmosphere and lower thermosphere, chemistry-dynamics feedbacks, the global electric circuit and cloud formation. The role of energetic particles in Earth’s atmosphere is a multi-disciplinary problem that requires expertise from a range of scientific backgrounds. To assist with this synergy, summary tables are provided, which are intended to evaluate the level of current knowledge of the effects of energetic particles on processes in the entire atmosphere

Best practice methodology for 14C calibration of marine and mixed terrestrial/marine samples

There is a lack of detailed guidance in the published literature on how to calibrate 14C measurements made on marine or mixed marine/terrestrial (primarily human remains) samples. We describe what we consider to be the best approach towards achieving the most accurate calibrated age ranges, using the most appropriate ΔR and percentage marine diet estimates, and associated, realistic error terms on these values. However, this approach will increase the calibrated age range(s) by fully accounting for the variability in both the model and the material. While the discussion is based on examples from the UK and Iceland, the same fundamental arguments can be applied in any geographic location largely devoid of C4 plants as the high δ13C values from such plants can make identification of marine intake difficult to determine

Search for gravitational waves from Scorpius X-1 in the second Advanced LIGO observing run with an improved hidden Markov model

We present results from a semicoherent search for continuous gravitational waves from the low-mass x-ray binary Scorpius X-1, using a hidden Markov model (HMM) to track spin wandering. This search improves on previous HMM-based searches of LIGO data by using an improved frequency domain matched filter, the J-statistic, and by analyzing data from Advanced LIGO's second observing run. In the frequency range searched, from 60 to 650 Hz, we find no evidence of gravitational radiation. At 194.6 Hz, the most sensitive search frequency, we report an upper limit on gravitational wave strain (at 95% confidence) of h095%=3.47×10-25 when marginalizing over source inclination angle. This is the most sensitive search for Scorpius X-1, to date, that is specifically designed to be robust in the presence of spin wandering. © 2019 American Physical Society

Search for Gravitational Waves Associated with Gamma-Ray Bursts Detected by Fermi and Swift during the LIGO-Virgo Run O3b

We search for gravitational-wave signals associated with gamma-ray bursts (GRBs) detected by the Fermi and Swift satellites during the second half of the third observing run of Advanced LIGO and Advanced Virgo (2019 November 1 15:00 UTC-2020 March 27 17:00 UTC). We conduct two independent searches: A generic gravitational-wave transients search to analyze 86 GRBs and an analysis to target binary mergers with at least one neutron star as short GRB progenitors for 17 events. We find no significant evidence for gravitational-wave signals associated with any of these GRBs. A weighted binomial test of the combined results finds no evidence for subthreshold gravitational-wave signals associated with this GRB ensemble either. We use several source types and signal morphologies during the searches, resulting in lower bounds on the estimated distance to each GRB. Finally, we constrain the population of low-luminosity short GRBs using results from the first to the third observing runs of Advanced LIGO and Advanced Virgo. The resulting population is in accordance with the local binary neutron star merger rate. © 2022. The Author(s). Published by the American Astronomical Society

Narrowband Searches for Continuous and Long-duration Transient Gravitational Waves from Known Pulsars in the LIGO-Virgo Third Observing Run

Isolated neutron stars that are asymmetric with respect to their spin axis are possible sources of detectable continuous gravitational waves. This paper presents a fully coherent search for such signals from eighteen pulsars in data from LIGO and Virgo's third observing run (O3). For known pulsars, efficient and sensitive matched-filter searches can be carried out if one assumes the gravitational radiation is phase-locked to the electromagnetic emission. In the search presented here, we relax this assumption and allow both the frequency and the time derivative of the frequency of the gravitational waves to vary in a small range around those inferred from electromagnetic observations. We find no evidence for continuous gravitational waves, and set upper limits on the strain amplitude for each target. These limits are more constraining for seven of the targets than the spin-down limit defined by ascribing all rotational energy loss to gravitational radiation. In an additional search, we look in O3 data for long-duration (hours-months) transient gravitational waves in the aftermath of pulsar glitches for six targets with a total of nine glitches. We report two marginal outliers from this search, but find no clear evidence for such emission either. The resulting duration-dependent strain upper limits do not surpass indirect energy constraints for any of these targets. © 2022. The Author(s). Published by the American Astronomical Society