Mobile genetic elements in Clostridium difficile and their role in genome function.

Approximately 11% the Clostridium difficile genome is made up of mobile genetic elements which have a profound effect on the biology of the organism. This includes transfer of antibiotic resistance and other factors that allow the organism to survive challenging environments, modulation of toxin gene expression, transfer of the toxin genes themselves and the conversion of non-toxigenic strains to toxin producers. Mobile genetic elements have also been adapted by investigators to probe the biology of the organism and the various ways in which these have been used are reviewed

Underestimating Internal Variability Leads to Narrow Estimates of Climate System Properties

Probabilistic estimates of climate system properties often rely on the comparison of model simulations to observed temperature records and an estimate of the internal climate variability. In this study, we investigate the sensitivity of probability distributions for climate system properties in the Massachusetts Institute of Technology Earth System Model to the internal variability estimate. In particular, we derive probability distributions using the internal variability extracted from 25 different Coupled Model Intercomparison Project Phase 5 models. We further test the sensitivity by pooling variability estimates from models with similar characteristics. We find the distributions to be highly sensitive when estimating the internal variability from a single model. When merging the variability estimates across multiple models, the distributions tend to converge to a wider distribution for all properties. This suggests that using a single model to approximate the internal climate variability produces distributions that are too narrow and do not fully represent the uncertainty in the climate system property estimates

A framework for modeling uncertainty in regional climate change

In this study, we present a new modeling framework and a large ensemble of climate projections to investigate the uncertainty in regional climate change over the United States (US) associated with four dimensions of uncertainty. The sources of uncertainty considered in this framework are the emissions projections, global climate system parameters, natural variability and model structural uncertainty. The modeling framework revolves around the Massachusetts Institute of Technology (MIT) Integrated Global System Model (IGSM), an integrated assessment model with an Earth System Model of Intermediate Complexity (EMIC) (with a two-dimensional zonal-mean atmosphere). Regional climate change over the US is obtained through a two-pronged approach. First, we use the IGSM-CAM framework, which links the IGSM to the National Center for Atmospheric Research (NCAR) Community Atmosphere Model (CAM). Second, we use a pattern-scaling method that extends the IGSM zonal mean based on climate change patterns from various climate models. Results show that the range of annual mean temperature changes are mainly driven by policy choices and the range of climate sensitivity considered. Meanwhile, the four sources of uncertainty contribute more equally to end-of-century precipitation changes, with natural variability dominating until 2050. For the set of scenarios used in this study, the choice of policy is the largest driver of uncertainty, defined as the range of warming and changes in precipitation, in future projections of climate change over the US

Gyne and drone production in bombus atratus (Hymenoptera: Apidae)

For over a decade, our research group has studied the biology of the native bumblebee, Bombus atratus, to investigate the feasibility of using it to pollinate crops such as tomato, strawberry, blackberry and peppers. Traditionally, captive breeding has depended on the use of captured wild queens to initiate the colonies. The goal of the current work is to investigate conditions required to produce new queens and drones in captivity. In this study, 31 colonies were evaluated under either greenhouse or open field conditions over a 15 month period. A total of 1492 drones (D) and 737 gynes (G, i.e., virgin queens) were produced by all colonies, with 16 colonies producing both drones and gynes (D&G), 11 producing only drones (D) and 4 producing neither. Some of the D&G colonies had more than one sexual phase, but no colonies produced exclusively gynes. More drones and fewer gynes were produced per colony under greenhouse conditions with the highest number of drones produced by D&G colonies. The numbers of immature stages per cell declined in colonies as increasingly more resources were allocated to the production of gynes and the maintenance of increased nest temperature

Self-heterodyned detection of dressed state coherences in helium by noncollinear extreme ultraviolet wave mixing with attosecond pulses

Noncollinear wave-mixing spectroscopies with attosecond extreme ultraviolet (XUV) pulses provide unprecedented insight into electronic dynamics. In infrared and visible regimes, heterodyne detection techniques utilize a reference field to amplify wave-mixing signals while simultaneously allowing for phase-sensitive measurements. Here, we implement a self-heterodyned detection scheme in noncollinear wave-mixing measurements with a short attosecond XUV pulse train and two few-cycle near infrared (NIR) pulses. The initial spatiotemporally overlapped XUV and NIR pulses generate a coherence of both odd (1snp) and even (1sns and 1snd) parity states within gaseous helium. A variably delayed noncollinear NIR pulse generates angularly-dependent four-wave mixing signals that report on the evolution of this coherence. The diffuse angular structure of the XUV harmonics underlying these emission signals is used as a reference field for heterodyne detection, leading to cycle oscillations in the transient wave-mixing spectra. With this detection scheme, wave-mixing signals emitting from at least eight distinct light-induced, or dressed, states can be observed, in contrast to only one light induced state identified in a similar homodyne wave-mixing measurement. In conjunction with the self-heterodyned detection scheme, the noncollinear geometry permits the conclusive identification and angular separation of distinct wave-mixing pathways, reducing the complexity of transient spectra. These results demonstrate that the application of heterodyne detection schemes can provide signal amplification and phase-sensitivity, while maintaining the versatility and selectivity of noncollinear attosecond XUV wave-mixing spectroscopies. These techniques will be important tools in the study of ultrafast dynamics within complex chemical systems in the XUV regime

An Improvement Study of the Decomposition-based Algorithm Global WASF-GA for Evolutionary Multiobjective Optimization

The convergence and the diversity of the decompositionbased evolutionary algorithm Global WASF-GA (GWASF-GA) relies on a set of weight vectors that determine the search directions for new non-dominated solutions in the objective space. Although using weight vectors whose search directions are widely distributed may lead to a well-diversified approximation of the Pareto front (PF), this may not be enough to obtain a good approximation for complicated PFs (discontinuous, non-convex, etc.). Thus, we propose to dynamically adjust the weight vectors once GWASF-GA has been run for a certain number of generations. This adjustment is aimed at re-calculating some of the weight vectors, so that search directions pointing to overcrowded regions of the PF are redirected toward parts with a lack of solutions that may be hard to be approximated. We test different parameters settings of the dynamic adjustment in optimization problems with three, five, and six objectives, concluding that GWASF-GA performs better when adjusting the weight vectors dynamically than without applying the adjustment.Universidad de Málaga. Campus de Excelencia Internacional Andalucía Tech

Non-Pauli Effects from Noncommutative Spacetimes

Noncommutative spacetimes lead to nonlocal quantum field theories (qft's) where spin-statistics theorems cannot be proved. For this reason, and also backed by detailed arguments, it has been suggested that they get corrected on such spacetimes leading to small violations of the Pauli principle. In a recent paper \cite{Pauli}, Pauli-forbidden transitions from spacetime noncommutativity were calculated and confronted with experiments. Here we give details of the computation missing from this paper. The latter was based on a spacetime $\mathcal{B}_{\chi\vec{n}}$ different from the Moyal plane. We argue that it quantizes time in units of $\chi$. Energy is then conserved only mod $\frac{2\pi}{\chi}$. Issues related to superselection rules raised by non-Pauli effects are also discussed in a preliminary manner.Comment: 15 Pages, 1 Table, Full details and further developments of arXiv:1003.2250. This version is close to the one accepted by JHE

The Gauss Law: A Tale

The Gauss law plays a basic role in gauge theories, enforcing gauge invariance and creating edge states and superselection sectors. This article surveys these aspects of the Gauss law in QED, QCD and nonlinear $G/H$ models. It is argued that nonabelian superselection rules are spontaneously broken. That is the case with $SU(3)$ of colour which is spontaneously broken to $U(1)\times U(1)$. Nonlinear $G/H$ models are reformulated as gauge theories and the existence of edge states and superselection sectors in these models is also established.Comment: Published version. References adde

HTR4 gene structure and altered expression in the developing lung

Background: Meta-analyses of genome-wide association studies (GWAS) have identified single nucleotide polymorphisms (SNPs) spanning the 5-hydroxytryptamine receptor 4 (5-HT4R) gene (HTR4) associated with lung function. The aims of this study were to i) investigate the expression profile of HTR4 in adult and fetal lung tissue and cultured airway cells, ii) further define HTR4 gene structure and iii) explore the potential functional implications of key SNPs using a bioinformatic approach

A possible new approach in the prediction of late gestational hypertension: The role of the fetal aortic intima-media thickness

The aim was to determine the predictive role of combined screening for late-onset gestational hypertension by fetal ultrasound measurements, third trimester uterine arteries (UtAs) Doppler imaging, and maternal history. This prospective study on singleton pregnancies was conducted at the tertiary center of Maternal and Fetal Medicine of the University of Padua during the period between January 2012 and December 2014. Ultrasound examination (fetal biometry, fetal wellbeing, maternal Doppler study, fetal abdominal aorta intima-media thickness [aIMT], and fetal kidney volumes), clinical data (mother age, prepregnancy body mass index [BMI], and parity), and pregnancy outcomes were collected. The P value <0.05 was defined significant considering a 2-sided alternative hypothesis. The distribution normality of variables were assessed using Kolmogorov-Smirnoff test. Data were presented by mean (±standard deviation), median and interquartile range, or percentage and absolute values. We considered data from 1381 ultrasound examinations at 29 to 32 weeks’ gestation, and in 73 cases late gestational hypertension developed after 34 weeks’ gestation. The final multivariate model found that fetal aIMT as well as fetal umbilical artery pulsatility index (PI), maternal age, maternal prepregnacy BMI, parity, and mean PI of maternal UtAs, assessed at ultrasound examination of 29 to 32 weeks’ gestation, were significant and independent predictors for the development of gestational hypertension after 34 weeks’ gestation. The area under the curve of the model was 81.07% (95% confidence interval, 75.83%-86.32%). A nomogram was developed starting from multivariate logistic regression coefficients. Late-gestational hypertension could be independently predicted by fetal aIMT assessment at 29 to 32 weeks’ gestation, ultrasound Doppler waveforms, and maternal clinical parameters. Copyright © 2017 the Author(s). Published by Wolters Kluwer Health, Inc