Regulatory RNAs: A Universal Language for Inter-Domain Communication

In eukaryotes, microRNAs (miRNAs) have roles in development, homeostasis, disease and the immune response. Recent work has shown that plant and mammalian miRNAs also mediate cross-kingdom and cross-domain communications. However, these studies remain controversial and are lacking critical mechanistic explanations. Bacteria do not produce miRNAs themselves, and therefore it is unclear how these eukaryotic RNA molecules could function in the bacterial recipient. In this review, we compare and contrast the biogenesis and functions of regulatory RNAs in eukaryotes and bacteria. As a result, we discovered several conserved features and homologous components in these distinct pathways. These findings enabled us to propose novel mechanisms to explain how eukaryotic miRNAs could function in bacteria. Further understanding in this area is necessary to validate the findings of existing studies and could facilitate the use of miRNAs as novel tools for the directed remodelling of the human microbiota.     

The control of sea lice in Atlantic salmon by selective breeding

Sea lice threaten the welfare of farmed Atlantic salmon and the sustainability of fish farming across the world. Chemical treatments are the major method of control but drug resistance means that alternatives are urgently needed. Selective breeding can be a cheap and effective alternative. Here, we combine experimental trials and diagnostics to provide a practical protocol for quantifying resistance to sea lice. We then combined quantitative genetics with epidemiological modelling to make the first prediction of the response to selection, quantified in terms of reduced need for chemical treatments. We infected over 1400 young fish with Lepeophtheirus salmonis, the most important species in the Northern Hemisphere. Mechanisms of resistance were expressed early in infection. Consequently, the number of lice per fish and the ranking of families were very similar at 7 and 17 days post infection, providing a stable window for assessing susceptibility to infection. The heritability of lice numbers within this time window was moderately high at 0.3, confirming that selective breeding is viable. We combined an epidemiological model of sea lice infection and control on a salmon farm with genetic variation in susceptibility among individuals. We simulated 10 generations of selective breeding and examined the frequency of treatments needed to control infection. Our model predicted that substantially fewer chemical treatments are needed to control lice outbreaks in selected populations and chemical treatment could be unnecessary after 10 generations of selection. Selective breeding for sea lice resistance should reduce the impact of sea lice on fish health and thus substantially improve the sustainability of Atlantic salmon production.     

Development and optimisation of a defined high cell density yeast medium

Saccharomyces cerevisiae cells grown in a small volume of chemically defined media neither reach the desired cell density nor grow at a fast enough rate to scale down the volume and increase the sample number of classical biochemical assays, as the detection limit of the readout often requires a high number of cells as an input. To ameliorate this problem, we developed and optimised a new high cell density (HCD) medium for S. cerevisiae. Starting from a widely used synthetic medium composition, we systematically varied the concentrations of all components without the addition of other compounds. We used response surface methodology to develop and optimise the five components of the medium: glucose, yeast nitrogen base, amino acids, monosodium glutamate, and inositol. We monitored growth, cell number, and cell size to ensure that the optimisation was towards a greater density of cells rather than just towards an increase in biomass (i.e., larger cells). Cells grown in the final medium, HCD, exhibit growth more similar to the complex medium yeast extract peptone dextrose (YPD) than to the synthetic defined (SD) medium. Whereas the final cell density of HCD prior to the diauxic shift is increased compared with YPD and SD about threefold and tenfold, respectively. We found normal cell-cycle behaviour throughout the growth phases by monitoring DNA content and protein expression using fluorescent reporters. We also ensured that HCD media could be used with a variety of strains and that they allow selection for all common yeast auxotrophic markers.     

Lateral, local and distortional buckling of I-beams

A theoretical study of the elastic buckling modes of I-section beams under various loading conditions is presented.

The analysis is based on energy considerations and the energy equations governing instability are derived using plate theory to allow for distortion of the cross-section. The resulting analysis is able to predict lateral, local and distortional buckling modes.

The results are compared with classical lateral buckling solutions based on beam theory.     

Principles of organic contaminant behavior during artificial recharge

The behavior of a variety of organic contaminants having low molecular weight has been observed during groundwater recharge with reclaimed water. The evidence is site-specific, but is believed to have broader implications regarding the general behavior of organic contaminants in groundwater. The movement of specific contaminants such as chloroform and chlorobenzene is retarded with respect to that of a conservative tracer such as chloride. The measured retardation factors are approximately 3 and 35 for chloroform and chlorobenzene, respectively. The retardation is caused by the sorption of the solute, apparently by the organic constituents of the soil material. The magnitude of the retardation factor of an organic solute can be predicted approximately from knowledge of the organic carbon content of the aquifer material and the octanol-water partition coefficient of the solute. Sorption also contributes to attenuation (damping) of concentration fluctuations. It is shown that the degree of attenuation depends strongly on the retardation factor, the distance traveled, and the hydrogeologic characteristics of the aquifer. There is evidence of biodegradation of organic solutes in the vicinity of the recharge well.     

Continuous water treatment by adsorption and electrochemical regeneration

This study describes a process for water treatment by continuous adsorption and electrochemical regeneration using an air-lift reactor. The process is based on the adsorption of dissolved organic pollutants onto an adsorbent material (a graphite intercalation compound, Nyex^®1000) and subsequent electrochemical regeneration of the adsorbent leading to oxidation of the adsorbed pollutant. Batch experiments were carried out to determine the adsorption kinetics and equilibrium isotherm for adsorption of a sample contaminant, the organic dye Acid Violet 17. The adsorbent circulation rate, the residence time distribution (RTD) of the reactor, and treatment by continuous adsorption and electrochemical regeneration were studied to investigate the process performance. The RTD behaviour could be approximated as a continuously stirred tank. It was found that greater than 98% removal could be achieved for continuous treatment by adsorption and electrochemical regeneration for feed concentrations of up to 300 mg L⁻¹. A steady state model has been developed for the process performance, assuming full regeneration of the adsorbent in the electrochemical cell. Experimental data and modelled predictions (using parameters for the adsorbent circulation rate, adsorption kinetics and isotherm obtained experimentally) of the dye removal achieved were found to be in good agreement.     

Isoniazid poisoning: Pharmacokinetics and effect of hemodialysis in a massive ingestion

Isoniazid is a rare overdose that causes seizures and there is limited evidence to guide treatment. We report a 20‐year‐old female migrant who presented with recurrent seizures after ingesting 25 g of isoniazid. She was treated with activated charcoal, repeated doses of midazolam for the seizures, and given multiple doses of pyridoxine (14 mg), limited by availability. She was admitted to intensive care, and 5.5 hours post‐ingestion, she was commenced on continuous veno‐venous hemodiafiltration (CVVHDF). She was extubated after 24 hours and CVVHDF was ceased 6 hours later (30 hours post‐overdose). Her renal function remained normal and her initial lactate was the highest at 2.3. She made a full recovery. Five plasma samples were collected before, during, and after CVVHDF, and isoniazid was quantified with liquid chromatography‐tandem mass spectrometry. A pharmacokinetic analysis of time‐isoniazid concentration data was fitted to a two‐compartment model with first‐order input (with fixed k_a) with the effect of CVVHDF modeled as a time‐dependent covariate. This suggested that there was initially good clearance with CVVHDF (4 times endogenous clearance), which rapidly declined within hours.     

Shear-induced migration and axial development of particles in channel flows of non-Brownian suspensions

We present an experimental study on the shear-induced migration and axial development of particles in the channel flows of non-Brownian suspensions. The suspending fluid is Newtonian. We investigate fracturing flows with a Hele-Shaw type scaling through building a unique channel setup and an advanced optical system. The local particle concentration profiles are measured via the refractive-index matching technique for a wide range of bulk volume fraction, that is, . Simultaneously, the particle image velocimetry is performed to determine the velocity profile of the particle phase. We compare our experimental results with the available two-phase continuum frameworks and show discrepancies and similarities in the fully developed and axial development of the solid volume fraction profiles. We discuss directions in which the continuum frameworks require improvements.