Spreading of a density front in the K\"untz-Lavall\'ee model of porous media

We analyze spreading of a density front in the K\"untz-Lavall\'ee model of porous media. In contrast to previous studies, where unusual properties of the front were attributed to anomalous diffusion, we find that the front evolution is controlled by normal diffusion and hydrodynamic flow, the latter being responsible for apparent enhancement of the front propagation speed. Our finding suggests that results of several recent experiments on porous media, where anomalous diffusion was reported based on the density front propagation analysis, should be reconsidered to verify the role of a fluid flow

Assessing the accuracy of intracameral phenylephrine preparation in cataract surgery

Purpose: Unpreserved phenylephrine is often used as an off-licence intracameral surgical adjunct during cataract surgery to assist with pupil dilation and/or stabilise the iris in floppy iris syndrome. It can be delivered as a neat 0.2 ml bolus of either 2.5 or 10% strength, or in a range of ad-hoc dilutions. We wished to assess the accuracy of intracameral phenylephrine preparation in clinical practice. Methods: Phenylephrine 0.2 ml was analysed both neat (2.5 and 10%) and in diluted form (ratio of 1:1 and 1:3). Samples were analysed using the validated spectrophotometric method. Results: A total of 36 samples were analysed. The standard curve showed linearity for phenylephrine (R2 = 0.99). Wide variability was observed across all dilution groups. There was evidence of significant differences in the percentage deviations from intended results between dilutions (p < 0.001). Mean percentage deviation for 1:3 dilution was significantly greater than neat (p = 0.003) and 1:1 dilution (p = 0.001). There was no evidence of a significant difference between 1:1 and neat (p = 0.827). Conclusions: Current ad-hoc dilution methods used to prepare intracameral phenylephrine are inaccurate and highly variable. Small volume 1 ml syringes should not be used for mixing or dilution of drug. Commercial intracameral phenylephrine products would address dosage concerns and could improve surgical outcomes in cases of poor pupil dilation and/or floppy iris syndrome

A model for reactive porous transport during re-wetting of hardened concrete

A mathematical model is developed that captures the transport of liquid water in hardened concrete, as well as the chemical reactions that occur between the imbibed water and the residual calcium silicate compounds residing in the porous concrete matrix. The main hypothesis in this model is that the reaction product -- calcium silicate hydrate gel -- clogs the pores within the concrete thereby hindering water transport. Numerical simulations are employed to determine the sensitivity of the model solution to changes in various physical parameters, and compare to experimental results available in the literature.Comment: 30 page

Disruption of Trichoderma reesei cre2, encoding an ubiquitin C-terminal hydrolase, results in increased cellulase activity

The electronic version of this article is the complete one and can be found online at: http://www.biomedcentral.com/1472-6750/11/103Background: The filamentous fungus Trichoderma reesei (Hypocrea jecorina) is an important source of cellulases for use in the textile and alternative fuel industries. To fully understand the regulation of cellulase production in T. reesei, the role of a gene known to be involved in carbon regulation in Aspergillus nidulans, but unstudied in T. reesei, was investigated. Results: The T. reesei orthologue of the A. nidulans creB gene, designated cre2, was identified and shown to be functional through heterologous complementation of a creB mutation in A. nidulans. A T. reesei strain was constructed using gene disruption techniques that contained a disrupted cre2 gene. This strain, JKTR2-6, exhibited phenotypes similar to the A. nidulans creB mutant strain both in carbon catabolite repressing, and in carbon catabolite derepressing conditions. Importantly, the disruption also led to elevated cellulase levels. Conclusions: These results demonstrate that cre2 is involved in cellulase expression. Since the disruption of cre2 increases the amount of cellulase activity, without severe morphological affects, targeting creB orthologues for disruption in other industrially useful filamentous fungi, such as Aspergillus oryzae, Trichoderma harzianum or Aspergillus niger may also lead to elevated hydrolytic enzyme activity in these species.Jai A Denton and Joan M Kell

Transport time scales in soil erosion modelling

Unlike sediment transport in rivers, erosion of agricultural soil must overcome its cohesive strength to move soil particles into suspension. Soil particle size variability also leads to fall velocities covering many orders of magnitude, and hence to different suspended travel distances in overland flow. Consequently, there is a large range of inherent time scales involved in transport of eroded soil. For conditions where there is a constant rainfall rate and detachment is the dominant erosion mechanism, we use the Hairsine-Rose (HR) model to analyze these timescales, to determine their magnitude (bounds) and to provide simple approximations for them. We show that each particle size produces both fast and slow timescales. The fast timescale controls the rapid adjustment away from experimental initial conditions – this happens so quickly that it cannot be measured in practice. The slow time scales control the subsequent transition to steady state and are so large that true steady state is rarely achieved in laboratory experiments. Both the fastest and slowest time scales are governed by the largest particle size class. Physically, these correspond to the rate of vertical movement between suspension and the soil bed, and the time to achieve steady state, respectively. For typical distributions of size classes, we also find that there is often a single dominant time scale that governs the growth in the total mass of sediment in the non-cohesive deposited layer. This finding allows a considerable simplification of the HR model leading to analytical expressions for the evolution of suspended and deposited layer concentrations

Infiltration in soils with a saturated surface

Key Points Analytic description of infiltration in soils Comparison of constant flux and saturated surface infiltration Linking infiltration to soil/water properties An earlier infiltration equation relied on curve fitting of infiltration data for the determination of one of the parameters, which limits its usefulness in practice. This handicap is removed here, and the parameter is now evaluated by linking it directly to soil-water properties. The new predictions of infiltration using this evaluation are quite accurate. Positions and shapes of soil-water profiles are also examined in detail and found to be predicted analytically with great precision

A Deubiquitylating Complex Required for Neosynthesis of a Yeast Mitochondrial ATP Synthase Subunit

The ubiquitin system is known to be involved in maintaining the integrity of mitochondria, but little is known about the role of deubiquitylating (DUB) enzymes in such functions. Budding yeast cells deleted for UBP13 and its close homolog UBP9 displayed a high incidence of petite colonies and slow respiratory growth at 37°C. Both Ubp9 and Ubp13 interacted directly with Duf1 (DUB-associated factor 1), a WD40 motif-containing protein. Duf1 activates the DUB activity of recombinant Ubp9 and Ubp13 in vitro and deletion of DUF1 resulted in the same respiratory phenotype as the deletion of both UBP9 and UBP13. We show that the mitochondrial defects of these mutants resulted from a strong decrease at 37°C in the de novo biosynthesis of Atp9, a membrane-bound component of ATP synthase encoded by mitochondrial DNA. The defect appears at the level of ATP9 mRNA translation, while its maturation remained unchanged in the mutants. This study describes a new role of the ubiquitin system in mitochondrial biogenesis