Influence of controlled fluid shear on nucleation rates in glycine aqueous solutions

The nucleation of glycine was investigated in supersaturated aqueous solutions exposed to well-controlled fluid shear under isothermal conditions. Shear rates between 25 s-1 and 1000 s-1 were studied using Couette and capillary flow devices. Induction times were obtained from imaging, transmission and scattering measurements, or visual monitoring. Great care was taken to eliminate any seeding in order to avoid secondary nucleation preceding formation of first crystals through primary nucleation. The observed induction times of sheared solutions were considerably lower than those of unsheared solutions. Increasing the average shear rate was found to reduce the mean induction time through a power law relationship. A detailed statistical analysis showed that the number of experimental repetitions used was sufficient to obtain statistically significant trends for the system studied. Induction times appeared to closely follow a probability distribution based on a previously published model of Jiang and ter Horst. Using their model, where the induction time is related to the rate of formation of primary nuclei and the time it takes them to grow to the size where the secondary nucleation becomes significant, it was found that both the primary nucleation rate and the growth time were strongly dependent on the shear rate imposed

Genetic Evolution of a Helicobacter pylori Acid-Sensing Histidine Kinase and Gastric Disease

Helicobacter pylori is the strongest risk factor for gastric adenocarcinoma, which develops within a hypochlorhydric environment. We sequentially isolated H. pylori (strain J99) from a patient who developed corpus-predominant gastritis and hypochlorhydia over a 6-year interval. Archival J99 survived significantly better under acidic conditions than recent J99 strains. H. pylori arsRS encodes a 2-component system critical for stress responses; recent J99 isolates harbored 2 nonsynonymous arsS mutations, and arsS inactivation abolished acid survival. In vivo, acid-resistant archival, but not recent J99, successfully colonized high-acid-secreting rodents. Thus, genetic evolution of arsS may influence progression to hypochlorhydia and gastric cancer

Estimates of the impacts of invasive alien plants on water flows in South Africa

The adverse impacts of alien plant invasions on water flows have been a prime motivation for South Africa’s Working for Water Programme. The approach used in this study builds on a previous national assessment in 1998 by incorporating factors that limit plant water-use, information from recent research and improved flow reduction models. The total reduction in flows is estimated to be 1 444 million m3·yr−1 or 2.9% of the naturalised mean annual runoff (MAR), less than half of the 3 300 million m3·yr−1 estimated in 1998. Two main factors account for this difference: (a) a decrease in the estimated unit-area flow reduction to 970 m3·ha−1·yr−1 compared with 1 900 m3·ha−1·yr−1 estimated in 1998, largely due to the new model being based on more representative reduction factors; and (b) the updated estimate of the condensed invaded area of 1.50 million ha (previously 1.76 million ha), although the taxa mapped for this assessment only accounted for 1.00 million of the 1.76 million ha reported in 1998. Reductions due to invasions in Lesotho are estimated to be about 161 million m3·yr−1 and those in Swaziland about 193 million m3·yr−1. The taxon with the greatest estimated impact was wattles (Acacia mearnsii, A. dealbata, A. decurrens) with 34.0% of the total reductions, followed by Pinus species (19.3%) and Eucalyptus species (15.8%). The revised estimate is considered on the low side largely because the extent and impacts of riparian invasions have been underestimated. If the current estimates that 4–6% of Acacia mearnsii, Eucalyptus, Populus and Salix invasions are riparian, are adjusted to a more representative 20%, 50%, 80% and 80%, respectively, the total reductions increase by nearly 70% to ~2 444 million m3·yr−1. Producing these estimates involved a number of assumptions and extrapolations, and further research is needed to provide more robust estimates of the impacts.Keywords: plant water-use, flow reduction, mean annual runoff, riparian invasions, Working for Water Programm

Crosstalk between the HpArsRS two-component system and HpNikR is necessary for maximal activation of urease transcription

Helicobacter pylori NikR (HpNikR) is a nickel dependent transcription factor that directly regulates a number of genes in this important gastric pathogen. One key gene that is regulated by HpNikR is ureA, which encodes for the urease enzyme. In vitro DNA binding studies of HpNikR with the ureA promoter (P-ureA) previously identified a recognition site that is required for high affinity protein/DNA binding. As a means to determine the in vivo significance of this recognition site and to identify the key DNA sequence determinants required for ureA transcription, herein, we have translated these in vitro results to analysis directly within H. pylori. Using a series of GFP reporter constructs in which the P-ureA DNA target was altered, in combination with mutant H. pylori strains deficient in key regulatory proteins, we confirmed the importance of the previously identified HpNikR recognition sequence for HpNikR-dependent ureA transcription. Moreover, we identified a second factor, the HpArsRS two-component system that was required for maximum transcription of ureA. While HpArsRS is known to regulate ureA in response to acid shock, it was previously thought to function independently of HpNikR and to have no role at neutral pH. However, our qPCR analysis of ureA expression in wildtype, Delta nikR and Delta arsS single mutants as well as a Delta arsS/nikR double mutant strain background showed reduced basal level expression of ureA when arsS was absent. Additionally, we determined that both HpNikR and HpArsRS were necessary for maximal expression of ureA under nickel, low pH and combined nickel and low pH stresses. In vitro studies of HpArsR-P with the P-ureA DNA target using florescence anisotropy confirmed a direct protein/DNA binding interaction. Together, these data support a model in which HpArsRS and HpNikR cooperatively interact to regulate ureA transcription under various environmental conditions. This is the first time that direct cross-talk between HpArsRS and HpNikR at neutral pH has been demonstrated

Genetic Signatures for \u3cem\u3eHelicobacter pylori\u3c/em\u3e Strains of West African Origin

Helicobacter pylori is a genetically diverse bacterial species that colonizes the stomach in about half of the human population. Most persons colonized by H. pylori remain asymptomatic, but the presence of this organism is a risk factor for gastric cancer. Multiple populations and subpopulations of H. pylori with distinct geographic distributions are recognized. Genetic differences among these populations might be a factor underlying geographic variation in gastric cancer incidence. Relatively little is known about the genomic features of African H. pylori strains compared to other populations of strains. In this study, we first analyzed the genomes of H. pylori strains from seven globally distributed populations or subpopulations and identified encoded proteins that exhibited the highest levels of sequence divergence. These included secreted proteins, an LPS glycosyltransferase, fucosyltransferases, proteins involved in molybdopterin biosynthesis, and Clp protease adaptor (ClpS). Among proteins encoded by the cag pathogenicity island, CagA and CagQ exhibited the highest levels of sequence diversity. We then identified proteins in strains of Western African origin (classified as hspWAfrica by MLST analysis) with sequences that were highly divergent compared to those in other populations of strains. These included ATP-dependent Clp protease, ClpS, and proteins of unknown function. Three of the divergent proteins sequences identified in West African strains were characterized by distinct insertions or deletions up to 8 amino acids in length. These polymorphisms in rapidly evolving proteins represent robust genetic signatures for H. pylori strains of West African origin

Weakly- and Semi-Supervised Panoptic Segmentation

We present a weakly supervised model that jointly performs both semantic- and instance-segmentation -- a particularly relevant problem given the substantial cost of obtaining pixel-perfect annotation for these tasks. In contrast to many popular instance segmentation approaches based on object detectors, our method does not predict any overlapping instances. Moreover, we are able to segment both "thing" and "stuff" classes, and thus explain all the pixels in the image. "Thing" classes are weakly-supervised with bounding boxes, and "stuff" with image-level tags. We obtain state-of-the-art results on Pascal VOC, for both full and weak supervision (which achieves about 95% of fully-supervised performance). Furthermore, we present the first weakly-supervised results on Cityscapes for both semantic- and instance-segmentation. Finally, we use our weakly supervised framework to analyse the relationship between annotation quality and predictive performance, which is of interest to dataset creators.Comment: ECCV 2018. The first two authors contributed equall

Localization and Characterization of Fatigue Cracks Around Fastener Holes Using Spherically Focused Ultrasonic Probes

Results are presented from laboratory experiments and simulations designed to determine the ability to localize and characterize fatigue cracks around fastener holes using spherically fo-cused ultrasonic (UT) probes for shear-wave inspections. In designing and evaluating inspection protocols, the number of cases that can be studied through laboratory experiments is severely limited by cost and time constraints. Simulations therefore stand to play a significant role in the design and optimization of inspection strategies for those conditions that can be accurately mod-eled. Moving from benchmark studies for relatively simple geometries toward more realistic conditions creates significant challenges. For shear-wave inspections of fastener holes these challenges include the complex energy field in the thin plates, reflections off the borehole, the complexity of making measurements in the near-field, material anisotropy, cracks as small as 1mm square, and a sealant layer between aluminum sheets. To achieve comparable modeling and simulation data requires a very accurate experimental setup that allows the probe angle, probe height and scan path to be precisely set. For the modeling, care must be taken to match the applied gain and gates used during acquisition of the experimental data. Initial results presented include sensitivity studies to determine how probe variables (frequency, focal depth, diameter), crack variables (size, shape, location, angle with respect to the probe), and the experimental setup affect results. Simulated and experimental C-scan images for 5 and 10 MHz probes are shown in Figure 1 for a fatigue crack that intersects the back wall. This work is supported by the U.S. Air Force Research Laboratory (AFRL) through Research Initiatives for Materials State Sensing (RIMSS) contract with Universal Technologies Corp., Contract No: FA8650-10-D-5210