Taylor dispersion of gyrotactic swimming micro-organisms in a linear flow

The theory of generalized Taylor dispersion for suspensions of Brownian particles is developed to study the dispersion of gyrotactic swimming micro-organisms in a linear shear flow. Such creatures are bottom-heavy and experience a gravitational torque which acts to right them when they are tipped away from the vertical. They also suffer a net viscous torque in the presence of a local vorticity field. The orientation of the cells is intrinsically random but the balance of the two torques results in a bias toward a preferred swimming direction. The micro-organisms are sufficiently large that Brownian motion is negligible but their random swimming across streamlines results in a mean velocity together with diffusion. As an example, we consider the case of vertical shear flow and calculate the diffusion coefficients for a suspension of the alga <i>Chlamydomonas nivalis</i>. This rational derivation is compared with earlier approximations for the diffusivity

Linking mineralisation process and sedimentary product in terrestrial carbonates using a solution thermodynamic approach

Determining the processes which generate terrestrial carbonate deposits (tufas, travertines and to a lesser extent associated chemical sediments such as calcretes and speleothems) is a long-standing problem. Precipitation of mineral products from solution reflects a complex combination of biological, equilibrium and kinetic processes, and the different morphologies of carbonate sediment produced by different processes have yet to be clearly demarked. Building on the groundbreaking work of previous authors, we propose that the underlying control on the processes leading to the deposition of these products can be most parsimoniously understood from the thermodynamic properties of their source solutions. Here, we report initial observations of the differences in product generated from spring and lake systems spanning a range of temperature–supersaturation space. We find that at high supersaturation, biological influences are masked by high rates of physico-chemical precipitation, and sedimentary products from these settings infrequently exhibit classic "biomediated" fabrics such as clotted micrite. Likewise, at high temperature (>40 °C) exclusion of vascular plants and complex/diverse biofilms can significantly inhibit the magnitude of biomediated precipitation, again impeding the likelihood of encountering the "bio-type" fabrics. <br></br> Conversely, despite the clear division in product between extensive tufa facies associations and less spatially extensive deposits such as oncoid beds, no clear division can be identified between these systems in temperature–supersaturation space. We reiterate the conclusion of previous authors, which demonstrate that this division cannot be made on the basis of physico-chemical characteristics of the solution alone. We further provide a new case study of this division from two adjacent systems in the UK, where tufa-like deposition continuous on a metre scale is happening at a site with lower supersaturation than other sites exhibiting only discontinuous (oncoidal) deposition. However, a strong microbiological division is demonstrated between these sites on the basis of suspended bacterial cell distribution, which reach a prominent maximum where tufa-like deposits are forming. <br></br> We conclude that at high supersaturation, the thermodynamic properties of solutions provide a highly satisfactory means of linking process and product, raising the opportunity of identifying water characteristics from sedimentological/petrological characteristics of ancient deposits. At low supersaturation, we recommend that future research focuses on geomicrobiological processes rather than the more traditional, inorganic solution chemistry approach dominant in the past

Instability modes and transition of pulsatile stenotic flow: pulse-period dependence

Accepted versio

Interaction of temperature, salinity and extracellular polymeric substances controls trace element incorporation into tufa calcite

The influence of extracellular polymeric substances on carbonate mineral growth in natural settings remains one of the most poorly understood contributors to the growth of non-marine carbonate sediments. The influences of these materials are complicated by their association with living cells creating local microenvironments via metabolism and enzyme production, and by our uncertainty about the extracellular polymeric substances materials themselves. Different mixtures of extracellular polymeric substance molecules may behave in different ways, and differences in the local physical environment may alter how the mixtures influence mineral formation, and even result in different patterns of polymerization. Here, the influence of extracellular polymeric substances on calcite precipitation rate and Mg/Cacalcite in the absence of cells is investigated using extracts of extracellular polymeric substances from temperate fluvial tufa biofilm. The influence is complex, with the concentration of extracellular polymeric substances in solution altering deposition rate and trace element incorporation. Moreover, the results show interaction of the presence/absence of extracellular polymeric substances and both temperature and salinity. However, despite extracting extracellular polymeric substances from the same parent sample, a uniform influence was not found in these experiments, implying that the mixture is sufficiently variable within a sample for microenvironments within the biofilm to either promote or inhibit mineralization. As sedimentologists, we can no longer take the view that extracellular polymeric substances are a bystander material, or that they have a single set of coherent and predictable or intuitive influences. Rather, the emphasis must be on investigating the specific mixtures present in nature, and their complex and dynamic interaction with both mineral surfaces and hydrochemical conditions

The heats of formation of the haloacetylenes XCCY [X, Y = H, F, Cl]: basis set limit ab initio results and thermochemical analysis

The heats of formation of haloacetylenes are evaluated using the recent W1 and W2 ab initio computational thermochemistry methods. These calculations involve CCSD and CCSD(T) coupled cluster methods, basis sets of up to spdfgh quality, extrapolations to the one-particle basis set limit, and contributions of inner-shell correlation, scalar relativistic effects, and (where relevant) first-order spin-orbit coupling. The heats of formation determined using W2 theory are: \hof(HCCH) = 54.48 kcal/mol, \hof(HCCF) = 25.15 kcal/mol, \hof(FCCF) = 1.38 kcal/mol, \hof(HCCCl) = 54.83 kcal/mol, \hof(ClCCCl) = 56.21 kcal/mol, and \hof(FCCCl) = 28.47 kcal/mol. Enthalpies of hydrogenation and destabilization energies relative to acetylene were obtained at the W1 level of theory. So doing we find the following destabilization order for acetylenes: FCCF $>$ ClCCF $>$ HCCF $>$ ClCCCl $>$ HCCCl $>$ HCCH. By a combination of W1 theory and isodesmic reactions, we show that the generally accepted heat of formation of 1,2-dichloroethane should be revised to -31.8$\pm$0.6 kcal/mol, in excellent agreement with a very recent critically evaluated review. The performance of compound thermochemistry schemes such as G2, G3, G3X and CBS-QB3 theories has been analyzed.Comment: Mol. Phys., in press (E. R. Davidson issue

Influence of flowing fluid property through an elastic tube on various deformations along the tube length

The study of fluid flow characteristics in collapsible elastic tubes is useful to understand biofluid mechanics encountered in the human body. The research work presented here is aimed at thoroughly investigating the influence of both Newtonian and/or non-Newtonian fluids (low and high shear thinning) during steady flow through an elastic tube on various tube deformations, which enables understanding of the interaction between wall motion, fluid flow, and intestinal transmembrane mass transfer as a crucial contribution to a mechanistic understanding of bioaccessibility/bioavailability. It is observed that for a given steady volume flow rate, the tube is buckled from an elliptical shape to a line or area contacted two lobes as the critical external pressure is increased. The downstream transmural pressure is found to get more negative than that at the upstream as the outlet pressure decreased due to stronger tube collapse resulting in a reduced cross-sectional area. The experimental results depict that the tube cross-sectional area decreased by only about a factor of one for PEG (polyethylene glycol) and about a factor of six for both CMC (carboxymethyl cellulose) and PAA (polyacrylamide) from the undeformed one under an applied external pressure of 105 mbar. The corresponding maximum velocity increased by a factor of two during steady flow of shear-thinning fluids. The shear-thinning behavior of both CMC and PAA solutions is clearly observed at a constant flow rate of 17 ml/s as the tube cross-sectional area decreased due to an increase in compressive transmural pressure. In addition, the viscosity of PAA is drastically decreased due to its high shear-thinning behavior than that of the CMC under the same applied external pressure

Model validation for a noninvasive arterial stenosis detection problem

Copyright @ 2013 American Institute of Mathematical SciencesA current thrust in medical research is the development of a non-invasive method for detection, localization, and characterization of an arterial stenosis (a blockage or partial blockage in an artery). A method has been proposed to detect shear waves in the chest cavity which have been generated by disturbances in the blood flow resulting from a stenosis. In order to develop this methodology further, we use both one-dimensional pressure and shear wave experimental data from novel acoustic phantoms to validate corresponding viscoelastic mathematical models, which were developed in a concept paper [8] and refined herein. We estimate model parameters which give a good fit (in a sense to be precisely defined) to the experimental data, and use asymptotic error theory to provide confidence intervals for parameter estimates. Finally, since a robust error model is necessary for accurate parameter estimates and confidence analysis, we include a comparison of absolute and relative models for measurement error.The National Institute of Allergy and Infectious Diseases, the Air Force Office of Scientific Research, the Deopartment of Education and the Engineering and Physical Sciences Research Council (EPSRC)