Unraveling Membrane Perturbations Caused by the Bacterial Riboregulator Hfq

Hfq is a pleiotropic regulator that mediates several aspects of bacterial RNA metabolism. The protein notably regulates translation efficiency and RNA decay in Gram-negative bacteria, usually via its interaction with small regulatory RNAs. Previously, we showed that the Hfq C-terminal region forms an amyloid-like structure and that these fibrils interact with membranes. The immediate consequence of this interaction is a disruption of the membrane, but the effect on Hfq structure was unknown. To investigate details of the mechanism of interaction, the present work uses different in vitro biophysical approaches. We show that the Hfq C-terminal region influences membrane integrity and, conversely, that the membrane specifically affects the amyloid assembly. The reported effect of this bacterial master regulator on membrane integrity is discussed in light of the possible consequence on small regulatory RNA-based regulation.     

Common knowledge does not have the Beth property

Common knowledge is an essential notion for coordination among agents. We show that the logic of common knowledge does not have the Beth property and thus it also lacks interpolation. The proof we present is a variant of Maksimova's proof that temporal logics with ‘the next’ do not have the Beth property. Our result also provides an explanation why it is so difficult to find ‘nice’ deductive systems for common knowledge.     

Characterization of a Cutibacterium acnes Camp Factor 1-Related Peptide as a New TLR-2 Modulator in In Vitro and Ex Vivo Models of Inflammation

Cutibacterium acnes (C. acnes) has been implicated in inflammatory acne where highly mutated Christie–Atkins–Munch–Petersen factor (CAMP)1 displays strong toll like receptor (TLR)-2 binding activity. Using specific antibodies, we showed that CAMP1 production was independent of C. acnes phylotype and involved in the induction of inflammation. We confirmed that TLR-2 bound both mutated and non-mutated recombinant CAMP1, and peptide array analysis showed that seven peptides (A14, A15, B1, B2, B3, C1 and C3) were involved in TLR-2 binding, located on the same side of the three-dimensional structure of CAMP1. Both mutated and non-mutated recombinant CAMP1 proteins induced the production of C-X-C motif chemokine ligand interleukin (CXCL)8/(IL)-8 in vitro in keratinocytes and that of granulocyte macrophage-colony stimulating factor (GM-CSF), tumor necrosis factor (TNF)-α, IL-1β and IL-10 in ex vivo human skin explants. Only A14, B1 and B2 inhibited the production of CXCL8/IL-8 by keratinocytes and that of (GM-CSF), TNF-α, IL-1β and IL-10 in human skin explants stimulated with rCAMP1 and C. acnes. Following pretreatment with B2, RNA sequencing on skin explants identified the 10 genes displaying the strongest differential expression as IL6, TNF, CXCL1, CXCL2, CXCL3, CXCL8, IL-1β, chemokine ligand (CCL)2, CCL4 and colony stimulating factor (CSF)2. We, thus, identified a new CAMP1-derived peptide as a TLR-2 modulator likely to be a good candidate for clinical evaluation.     

Fretting wear behavior of bulk amorphous steel

Fretting wear of Fe₄₁Co₇Cr₁₅Mo₁₄C₁₅B₆Y₂ bulk metallic glass (BMG) was investigated using the ball-on-disc measurement. The wear behaviors of the samples roughly follow the classical Archard wear law at room temperature. The influence of temperature on wear resistance (R_w) and microhardness (H_v) was evaluated. A good linear correlation was found between R_w and H for the Fe-based BMG. The results indicate that the hardness softening is responsible for the decrease of R_w at high temperature. The wear mechanism at high temperature was elucidated through the analysis of oxidation and debris morphology on the wear scar. Compared with traditional crystalline steels and other non-ferrous metal-based glassy alloys, the bulk amorphous steel shows higher wear resistance and hardness, which promotes its application as an advanced engineering material.     

Blood flow in the rabbit aortic arch and descending thoracic aorta

The distribution of atherosclerotic lesions within the rabbit vasculature, particularly within the descending thoracic aorta, has been mapped in numerous studies. The patchy nature of such lesions has been attributed to local variation in the pattern of blood flow. However, there have been few attempts to model and characterize the flow. In this study, a high-order continuous Galerkin finite-element method was used to simulate blood flow within a realistic representation of the rabbit aortic arch and descending thoracic aorta. The geometry, which was obtained from computed tomography of a resin corrosion cast, included all vessels originating from the aortic arch (followed to at least their second generation) and five pairs of intercostal arteries originating from the proximal descending thoracic aorta. The simulations showed that small geometrical undulations associated with the ductus arteriosus scar cause significant deviations in wall shear stress (WSS). This finding highlights the importance of geometrical accuracy when analysing WSS or related metrics. It was also observed that two Dean-type vortices form in the aortic arch and propagate down the descending thoracic aorta (along with an associated skewed axial velocity profile). This leads to the occurrence of axial streaks in WSS, similar in nature to the axial streaks of lipid deposition found in the descending aorta of cholesterol-fed rabbits. Finally, it was observed that WSS patterns within the vicinity of intercostal branch ostia depend not only on local flow features caused by the branches themselves, but also on larger-scale flow features within the descending aorta, which vary between branches at different locations. This result implies that disease and WSS patterns in the vicinity of intercostal ostia are best compared on a branch-by-branch basis.     

On Homogeneous Nucleation of Dislocation Loops in Nanocrystalline Materials

In this article, we readdress the question of homogeneous nucleation of dislocation loops in the context of nanocrystalline materials. In this case, the commonly adopted assumption of an infinite medium is no longer valid, and image forces on dislocations must be accounted for in the analysis. An additional energy term associated with the presence of finite boundaries may act to promote homogeneous nucleation and growth of dislocation loops. Based on a simplified consideration of a circular dislocation loop in a spherical nanoparticle or nanosized grain in a polycrystal, energy calculations are carried out to estimate the activation energy for homogeneous nucleation of a dislocation loop in such a system. Two different cases are considered: (1) a single nanoparticle and (2) a grain in a polycrystalline nanomaterial. Based on simulations for aluminum, it is shown that this mechanism may be plausible in both cases, albeit only for small particles and grains in the nanometer range.     

Cell design in bacteria as a convex optimization problem

In this paper, we investigate the prediction of the cell composition of bacteria with respect to their medium. By modeling the bacterium as an interconnection of subsystems, the problem is written as a non-smooth convex optimization problem equivalent to a Linear Programming feasibility problem. We then obtain a new method, called Resource Balance Analysis (RBA), predicting the distribution of the available resources in the medium among the various cellular subsystems. Beyond its predictive capability, the proposed approach grasps some fundamental aspects of the bacterium physiology by including a refined model. This method reveals the existence of an intrinsic bottleneck in the system resource distribution of the bacterium, leading to the existence of a structural limitation of its growth rate which can be predicted. RBA is also able to predict the configuration of the metabolic network for a given medium at steady-state regimen which nicely fits the available experimental results for the gram-positive model bacterium Bacillus subtilis.     

Exact solution of a plastic hollow sphere with a Mises–Schleicher matrix

In this paper we establish the exact solution for a hollow sphere with a rigid-plastic pressure-sensitive matrix and subjected to hydrostatic tension or compression. The matrix is assumed to obey to a parabolic Mises–Schleicher criterion. The closed-form expressions of the velocity field and of the stress field are provided. These exact solutions, expressed by means of the Lambert W function, allow to assess and discuss existing results.     

Assessing the effect of nutrient mitigation measures in the watersheds of the Southern Bight of the North Sea

The Seine, Somme, and Scheldt Rivers (France, Belgium, and Netherlands) are the major delivering rivers flowing into the continental coastal zone of the Southern Bight of the North Sea, an area regularly affected by eutrophication problems. In the present work, the Seneque-Riverstrahler model was implemented in a multi-regional case study in order to test several planned mitigation measures aimed at limiting stream nutrient contamination and restoring balanced nutrient ratios at the coastal zone.This modeling approach, which is spatially distributed at the basin scale, allows assessing the impact of any change in human activities, which widely differ over the three basins. Here, we define realistic scenarios based on currently proposed measures to reduce point and non-point sources, such as the upgrading of wastewater treatment, the introduction of catch crops, and the development of extensive farming. An analysis of the current situation showed that a 47-72% reduction in P point-source emissions within the three basins could be reached if the intended P treatment was generalized to the largest treatment plants. However, only an overall 14-23% reduction in N could be achieved at the outlet of the three basins, by combining improved wastewater treatment and land use with management measures aimed at regulating agricultural practices. Nonetheless, in spite of these efforts, N will still be exported in large excess with respect to the equilibrium defined by the Redfield ratios, even in the most optimistic hypothesis describing the long-term response of groundwater nitrate concentrations.A comprehensive assessment of these mitigation measures supports the need for additional reductions of nutrient losses from agriculture to control harmful algae development. It also stresses the relevance of this mechanistic approach, in which nutrient transfers from land to sea can be calculated, as an integrated strategy to test policy recommendations.     

The effects of withholding feed and water on carcass shrinkage and meat quality in beef cattle

Eighty beef crossbred steers with an average weight of 493 kg (4·66 kg SD) were allocated at random to one of five treatments to assess the effects of withholding feed and water on carcass shrinkage and meat quality. The five treatments were: slaughter from the feedlot (T1); and 12, 24, 36 and 48 h periods without feed and water prior to slaughter (T2-5).Weights were taken of the live animal and the carcass to monitor shrinkage along with relevant meat quality measurements. There were no treatment differences (P > 0·05) in initial farm weight, but plant weight shrinkage increased from 31gkg(-1) for T1 to 106 g kg(-1) for T5. Warm carcass weight decreased (P < 0·05) from 278·8 kg for T1, to 270·7 kg for T3 and 261·9 kg for T5. Liver, alimentary tract components, hide and head decreased as a proportion of farm weight as time without feed and water increased. Muscle pH at 6 days post mortem was increased (P < 0·05) in T3-5 compared to T1, with the result that muscle colour became darker, and steaks had less drip loss. Shear values increased (P < 0·05) from 6·3 kg in T1 to 7·7 kg in T4 and T5 indicating an increase in muscle toughness as time without feed and water increased. It was concluded that steers lose live weight rapidly within the first 24 h without feed and water, and that these relatively short periods of time (24 h) can have detrimental effects on carcass shrinkage and muscle quality.