A new approach to understanding fluid mixing in process-study models of stratified fluids

Copyright \ua9 2024 Samuel George Hartharn-Evans et al. While well-established energy-based methods of quantifying diapycnal mixing in process-study numerical models are often used to provide information about when mixing occurs, and how much mixing has occurred, describing how and where this mixing has taken place remains a challenge. Moreover, methods based on sorting the density field struggle when the model is under-resolved and when there is uncertainty as to the definition of the reference density when bathymetry is present. Here, an alternative method of understanding mixing is proposed. Paired histograms of user-selected variables (which we abbreviate USPs (user-controlled scatter plots)) are employed to identify mixing fluid and are then used to display regions of fluid in physical space that are undergoing mixing. This paper presents two case studies showcasing this method: shoaling internal solitary waves and a shear instability in cold water influenced by the nonlinearity of the equation of state. For the first case, the USP method identifies differences in the mixing processes associated with different internal solitary wave breaking types, including differences in the horizontal extent and advection of mixed fluid. For the second case, the method is used to identify how density and passive tracers are mixed within the core of the asymmetric cold-water Kelvin-Helmholtz instability

The effect of stochastic perturbations on plankton transport by internal solitary waves

Internal solitary and solitary-like waves are a commonly observed feature of density stratified natural waters, including lakes and the coastal ocean. Since such waves induce significant currents throughout the water column they can be responsible for significant transport of both passive and swimming biota. We consider simple models of moving zooplankton based on the Langevin equation. The small amplitude randomness significantly alters the nature of particle motion. In particular, passage through the wave leads to strongly non Gaussian particle distributions. When the plankton swims to return to its equilibrium photic level, a steady state that balances randomness, swimming and wave-induced motions is possible. We discuss possible implications of this steady state for organisms that feed on plankton

A multi-parent recombinant inbred line population of C. elegans allows identification of novel QTLs for complex life history traits

Background The nematode Caenorhabditis elegans has been extensively used to explore the relationships between complex traits, genotypes, and environments. Complex traits can vary across different genotypes of a species, and the genetic regulators of trait variation can be mapped on the genome using quantitative trait locus (QTL) analysis of recombinant inbred lines (RILs) derived from genetically and phenotypically divergent parents. Most RILs have been derived from crossing two parents from globally distant locations. However, the genetic diversity between local C. elegans populations can be as diverse as between global populations and could thus provide means of identifying genetic variation associated with complex traits relevant on a broader scale. Results To investigate the effect of local genetic variation on heritable traits, we developed a new RIL population derived from 4 parental wild isolates collected from 2 closely located sites in France: Orsay and Santeuil. We crossed these 4 genetically diverse parental isolates to generate a population of 200 multi-parental RILs and used RNA-seq to obtain sequence polymorphisms identifying almost 9000 SNPs variable between the 4 genotypes with an average spacing of 11 kb, doubling the mapping resolution relative to currently available RIL panels for many loci. The SNPs were used to construct a genetic map to facilitate QTL analysis. We measured life history traits such as lifespan, stress resistance, developmental speed, and population growth in different environments, and found substantial variation for most traits. We detected multiple QTLs for most traits, including novel QTLs not found in previous QTL analysis, including those for lifespan and pathogen responses. This shows that recombining genetic variation across C. elegans populations that are in geographical close proximity provides ample variation for QTL mapping. Conclusion Taken together, we show that using more parents than the classical two parental genotypes to construct a RIL population facilitates the detection of QTLs and that the use of wild isolates facilitates the detection of QTLs. The use of multi-parent RIL populations can further enhance our understanding of local adaptation and life history trade-offs

Block of NMDA receptor channels by endogenous neurosteroids: implications for the agonist induced conformational states of the channel vestibule

N-methyl-D-aspartate receptors (NMDARs) mediate synaptic plasticity, and their dysfunction is implicated in multiple brain disorders. NMDARs can be allosterically modulated by numerous compounds, including endogenous neurosteroid pregnanolone sulfate. Here, we identify the molecular basis of the use-dependent and voltage-independent inhibitory effect of neurosteroids on NMDAR responses. The site of action is located at the extracellular vestibule of the receptor's ion channel pore and is accessible after receptor activation. Mutations in the extracellular vestibule in the SYTANLAAF motif disrupt the inhibitory effect of negatively charged steroids. In contrast, positively charged steroids inhibit mutated NMDAR responses in a voltage-dependent manner. These results, in combination with molecular modeling, characterize structure details of the open configuration of the NMDAR channel. Our results provide a unique opportunity for the development of new therapeutic neurosteroid-based ligands to treat diseases associated with dysfunction of the glutamate system

Nonlinear interfacial waves in a constant-vorticity planar flow over variable depth

Exact Lagrangian in compact form is derived for planar internal waves in a two-fluid system with a relatively small density jump (the Boussinesq limit taking place in real oceanic conditions), in the presence of a background shear current of constant vorticity, and over arbitrary bottom profile. Long-wave asymptotic approximations of higher orders are derived from the exact Hamiltonian functional in a remarkably simple way, for two different parametrizations of the interface shape.Comment: revtex, 4.5 pages, minor corrections, summary added, accepted to JETP Letter

Anti-inflammatory and antioxidant effects of Tualang honey in alkali injury on the eyes of rabbits: Experimental animal study

<p>Abstract</p> <p>Background</p> <p>Alkali injury is one of the most devastating injuries to the eye. It results in permanent unilateral or bilateral visual impairment. Chemical eye injury is accompanied by an increase in the oxidative stress. Anti-inflammatory and antioxidant agents play a major role in the treatment of chemical eye injuries. The purpose of this study is to evaluate the anti-inflammatory (clinical and histopathological) and antioxidant effects of Tualang honey versus conventional treatment in alkali injury on the eyes of rabbits.</p> <p>Methods</p> <p>A preliminary study was carried out prior to the actual study to establish the alkali chemical injury on rabbit's cornea and we found that alkali chemical injury with 2 N NaOH showed severe clinical inflammatory features. In actual study, alkali injury with 2 N NaOH was induced in the right eye of 10 New Zealand White rabbits' cornea. The rabbits were divided into two groups, Group A was given conventional treatment and Group B was treated with both topical and oral Tualang honey. Clinical inflammatory features of the right eye were recorded at 12 hours, 24 hours, 72 hours, 5^thday and 7^thday post induction of alkali burn on the cornea. The histopathological inflammatory features of the right corneas of all rabbits were also evaluated on day-7. The level of total antioxidant status and lipid peroxidation products in the aqueous humour, vitreous humour and serum at day-7 were estimated biochemically. Fisher's Exact, Chi-Square and Mann-Whitney test were used to analyse the data.</p> <p>Results</p> <p>There was no statistically significant difference in clinical inflammatory features (p > 0.05) between honey treated and the conventional treated group at different times of examination. Histopathological examination of the cornea showed the number of polymorphonuclear leucocytes was below 50 for both groups (mild grade). There was also no significant difference in the level of total antioxidant status as well as lipid peroxidation products in aqueous humour (p = 0.117, p = 0.382 respectively), vitreous humour (p = 0.917, p = 0.248 respectively) and serum (p = 0.917, p = 0.332 respectively) between honey treated and the conventional treated group.</p> <p>Conclusion</p> <p>Tualang honey has almost the equal effects when compared with the conventional treatment in treating alkali injury on rabbit's eye. Future research with more number of rabbits and control group is warranted to explore the anti-inflammatory and antioxidant effects of Tualang honey.</p