Viscoelastic secondary flows in serpentine channels

AbstractWe report the results of a detailed numerical investigation of inertialess viscoelastic fluid flow through three-dimensional serpentine (or wavy) channels of varying radius of curvature and aspect ratio using the Oldroyd-B model. The results reveal the existence of a secondary flow which is absent for the equivalent Newtonian fluid flow. The secondary flow arises due to the curvature of the geometry and the streamwise first normal–stress differences generated in the flowing fluid and can be thought of as the viscoelastic equivalent of Dean vortices. The effects of radius of curvature, aspect ratio and solvent-to-total viscosity ratio on the strength of the secondary flow are investigated. The secondary flow strength is shown to be a function of a modified Deborah number over a wide parameter range

Near-wake characteristics of a model horizontal axis tidal stream turbine

The results of a detailed experimental investigation of the near-wake (up to seven turbine diameters downstream) of a model horizontal axis tidal turbine (HATT) device in a large-scale recirculating water channel facility are reported. An Acoustic Doppler Velocimeter is used to provide detailed three-dimensional mean and turbulent flow field information at five different depths across the full width of the channel downstream of the turbine, giving the most complete three-dimensional velocities and Reynolds normal and shear stress data set yet available. In addition the Reynolds-stress anisotropy tensor is used to illustrate the degree of anisotropy of the Reynolds stress within the turbine's wake. These results reveal the strongly anisotropic nature of the near-wake turbulence suggesting isotropic turbulence models should not be used to model near-wake dynamics. Finally the power-law decay rates of the maximum normalised turbulent kinetic energy differ significantly from those found downstream of grids, meshes or perforated disks, suggesting that previous modelling approaches, which neglected swirl effects and modelled the turbine by absorption discs, may significantly over predict the turbulent kinetic energy decay rate of HATT wakes

Next-Generation Sequencing-Based Approaches for Mutation Mapping and Identification in Caenorhabditis elegans

The use of next-generation sequencing (NGS) has revolutionized the way phenotypic traits are assigned to genes. In this review, we describe NGS-based methods for mapping a mutation and identifying its molecular identity, with an emphasis on applications in Caenorhabditis elegans. In addition to an overview of the general principles and concepts, we discuss the main methods, provide practical and conceptual pointers, and guide the reader in the types of bioinformatics analyses that are required. Owing to the speed and the plummeting costs of NGS-based methods, mapping and cloning a mutation of interest has become straightforward, quick, and relatively easy. Removing this bottleneck previously associated with forward genetic screens has significantly advanced the use of genetics to probe fundamental biological processes in an unbiased manner

A fln-2 mutation affects lethal pathology and lifespan in C. elegans

Differences in genetic background in model organisms can have complex effects on phenotypes of interest. We previously reported a difference in hermaphrodite lifespan between two wild-type lines widely used by C. elegans researchers (N2 hermaphrodite and male stocks). Here, using pathology-based approaches and genome sequencing, we identify the cause of this difference as a nonsense mutation in the filamin gene fln-2 in the male stock, which reduces early mortality caused by pharyngeal infection. We show how fln-2 variation explains previous discrepancies involving effects of sir-2.1 (sirtuin deacetylase) on ageing, and show that in a fln-2(+) background, sir-2.1 over-expression causes an FUDR (DNA synthesis inhibitor)-dependent reduction in pharyngeal infection and increase in lifespan. In addition we show how fln-2 variation confounds effects on lifespan of daf-2 (insulin/IGF-1 signalling), daf-12 (steroid hormone signalling), and eat-2 (putative dietary restriction). These findings underscore the importance of identifying and controlling genetic background variation

C. elegans mutant identification with a one-step whole-genome-sequencing and SNP mapping strategy.

Whole-genome sequencing (WGS) is becoming a fast and cost-effective method to pinpoint molecular lesions in mutagenized genetic model systems, such as Caenorhabditis elegans. As mutagenized strains contain a significant mutational load, it is often still necessary to map mutations to a chromosomal interval to elucidate which of the WGS-identified sequence variants is the phenotype-causing one. We describe here our experience in setting up and testing a simple strategy that incorporates a rapid SNP-based mapping step into the WGS procedure. In this strategy, a mutant retrieved from a genetic screen is crossed with a polymorphic C. elegans strain, individual F2 progeny from this cross is selected for the mutant phenotype, the progeny of these F2 animals are pooled and then whole-genome-sequenced. The density of polymorphic SNP markers is decreased in the region of the phenotype-causing sequence variant and therefore enables its identification in the WGS data. As a proof of principle, we use this strategy to identify the molecular lesion in a mutant strain that produces an excess of dopaminergic neurons. We find that the molecular lesion resides in the Pax-6/Eyeless ortholog vab-3. The strategy described here will further reduce the time between mutant isolation and identification of the molecular lesion

A review of the second normal-stress difference; its importance in various flows, measurement techniques, results for various complex fluids and theoretical predictions

Shear flow is ubiquitous. Not only is it arguably the most widely-used deformation type to characterise complex fluids in rheological studies but also, in practice, the deformation most likely to occur in the great majority of flows, e.g. involving fluid transport through pipes or conduits. In steady simple shear flow the rheological properties of a complex fluid are completely characterised in just three material functions; the variation with shear rate of the shear viscosity and the so-called first and second normal-stress differences. Despite requiring only three material functions to be completely characterised, most shear-flow rheological characterisations are usually restricted simply to the shear viscosity and, at best, the variation of the first normal-stress difference N1 with shear rate. The second normal-stress difference N2 remains very much neglected. For dilute polymer solutions where this quantity may be negligibly small in comparison to the first normal-stress difference, such neglect is justified but for a whole range of complex fluids – indeed even polymer solutions outside of the dilute regime and especially melts – it is not clear that N2 may be safely disregarded. Indeed, in this review article we spotlight a number of flows where second normal-stress differences are of importance and potentially major consequence. Following this attention, we review the many experimental techniques which have been proposed for its measurement and survey the available literature for measurements of this quantity for various complex fluids including the aforementioned polymeric solutions, melts, liquid crystals, dense non-Brownian suspensions (both with Newtonian and complex fluid bases), semi-dilute wormlike micellar fluids and magnetorheological fluids. Theoretical predictions for N2 from various commonly-used continuum constitutive equations – primarily from the polymer literature – are also given and their asymptotic predictions at low and high shear rates compared. Finally, we end with a brief summary and outlook

A new viscoelastic benchmark flow: Stationary bifurcation in a cross-slot

AbstractIn this work we propose the cross-slot geometry as a candidate for a numerical benchmark flow problem for viscoelastic fluids. Extensive data of quantified accuracy is provided, obtained via Richardson extrapolation to the limit of infinite refinement using results for three different mesh resolutions, for the upper-convected Maxwell, Oldroyd-B and the linear form of the simplified Phan-Thien–Tanner constitutive models. Furthermore, we consider two types of flow geometry having either sharp or rounded corners, the latter with a radius of curvature equal to 5% of the channel’s width. We show that for all models the inertialess steady symmetric flow may undergo a bifurcation to a steady asymmetric configuration, followed by a second transition to time-dependent flow, which is in qualitative agreement with previous experimental observations for low Reynolds number flows. The critical Deborah number for both transitions is quantified and a set of standard parameters is proposed for benchmarking purposes

Influence of channel aspect ratio on the onset of purely-elastic flow instabilities in three-dimensional planar cross-slots

In this work, we perform creeping-flow simulations of upper-convected Maxwell and simplified Phan-Thien-Tanner fluids to study the purely-elastic steady bifurcation and transition to time-dependent flow in three-dimensional planar cross-slots. By analysing the flow in geometries with aspect ratios ranging from the near Hele-Shaw flow like limit, up to the very deep, two-dimensional limit, we are able to characterize the mechanism of the cross-slot bifurcation with significant detail. We conclude that the bifurcation mechanism is similar to a buckling instability, by which fluid is redirected via paths of least resistance, resulting in the emergence of peripheral stagnation points, above and below the central stagnation point. The intake of matter at the centre via the inlet axis is thus reduced, being compensated by fluid flowing through low resistance corridors along the central vertical axis, above and below the central point. Furthermore, we propose and locally compute a modified Pakdel-McKinley criterion, thereby producing a scalar stability field and suggesting emergent peripheral stagnation points also indirectly contribute to the onset of time-dependent flow. (c) 2015 The Authors. Published by Elsevier B.V