Convergent evolution of dim light vision in owls and deep-diving whales.

Animals with enhanced dim-light sensitivity are at higher risk of light-induced retinal degeneration when exposed to bright light conditions.1,2,3,4 This trade-off is mediated by the rod photoreceptor sensory protein, rhodopsin (RHO), and its toxic vitamin A chromophore by-product, all-trans retinal.5,6,7,8 Rod arrestin (Arr-1) binds to RHO and promotes sequestration of excess all-trans retinal,9,10 which has recently been suggested as a protective mechanism against photoreceptor cell death.2,11 We investigated Arr-1 evolution in animals at high risk of retinal damage due to periodic bright-light exposure of rod-dominated retinas. Here, we find the convergent evolution of enhanced Arr-1/RHO all-trans-retinal sequestration in owls and deep-diving whales. Statistical analyses reveal a parallel acceleration of Arr-1 evolutionary rates in these lineages, which is associated with the introduction of a rare Arr-1 mutation (Q69R) into the RHO-Arr-1 binding interface. Using in vitro assays, we find that this single mutation significantly enhances RHO-all-trans-retinal sequestration by ∼30%. This functional convergence across 300 million years of evolutionary divergence suggests that Arr-1 and RHO may play an underappreciated role in the photoprotection of the eye, with potentially vast clinical significance.

Lean tissue mass measurements by dual-energy X-ray absorptiometry and associations with strength and functional outcome measures in facioscapulohumeral muscular dystrophy.

Facioscapulohumeral muscular dystrophy (FSHD) is a slowly progressive disease of skeletal muscle. Dual energy X-ray absorptiometry (DEXA) is a widely available, cost-effective and sensitive technique for measuring whole body and regional lean tissue mass and has been used in prior clinical trials in neuromuscular diseases. The Clinical Trial Readiness to Solve Barriers to Drug Development in FSHD (ReSolve) study is a prospective, longitudinal, observational multisite study. We obtained concurrent DEXA scans and functional outcome measurements in 185 patients with FSHD at the baseline visit. We determined the associations between lean tissue mass in the upper and lower extremities and corresponding clinical outcome measures. There were moderate correlations between upper and lower extremity lean tissue mass and their corresponding strengths and function. Lean tissue mass obtained by DEXA scan may be useful as a biomarker in future clinical trials in FSHD.

Human neutrophils compromise the restoration-tooth interface.

Neutrophils, cells of the innate immune system, enter the mouth and release factors that are hypothesized to contribute to the degradation of tooth dentin, methacrylate resin composites, and adhesives at the restoration-tooth-dentin interface. The objectives were to characterize neutrophils' degradation towards resin composite, self-etch (SE) and total-etch (TE) adhesives, SE and TE resin-dentin interfaces and to identify proteins that could contribute to the degradation process. Neutrophils' degradation of cured resin composite, and SE and TE adhesives, was quantified by measuring the specific resin degradation by-product, bishydroxy-propoxy-phenyl-propane (bisHPPP), released after 30 days incubation of the materials with the cells. Neutrophils' degradative effect on resin-dentin interfaces was examined by recording the interfacial fracture toughness (FT), and surface analysis of the fracture mode following incubation of SE and TE miniature short-rod (mini-SR) specimens with the cells. Neutrophils increased degradation of polymerized resin composite, and TE adhesive, but not SE adhesive over 30 days (p < 0.05). Incubation of SE and TE resin-dentin interfaces with neutrophils led to a reduction in FT over time (p < 0.05). The effect was more pronounced for TE interfaces. Neutrophils also affected the fracture mode of SE and TE resin-dentin interfaces. Several proteins that could contribute to the degradative activity of neutrophils, including Neutrophil collagenase (MMP-8), Matrix metalloproteinase- 9 (MMP-9), Cathepsin G, Neutrophil- gelatinase associated lipocalin (NGAL) and Myeloperoxidase, were isolated. The ability of neutrophils to degrade resin, tooth dentin, and reduce the bond strength of resin-dentin interfaces suggest neutrophils' potential role in primary and recurrent caries and dental restoration failure.

The role of ecological factors in shaping bat cone opsin evolution.

Bats represent one of the largest and most striking nocturnal mammalian radiations, exhibiting many visual system specializations for performance in light-limited environments. Despite representing the greatest ecological diversity and species richness in Chiroptera, Neotropical lineages have been undersampled in molecular studies, limiting the potential for identifying signatures of selection on visual genes associated with differences in bat ecology. Here, we investigated how diverse ecological pressures mediate long-term shifts in selection upon long-wavelength (Lws) and short-wavelength (Sws1) opsins, photosensitive cone pigments that form the basis of colour vision in most mammals, including bats. We used codon-based likelihood clade models to test whether ecological variables associated with reliance on visual information (e.g. echolocation ability and diet) or exposure to varying light environments (e.g. roosting behaviour and foraging habitat) mediated shifts in evolutionary rates in bat cone opsin genes. Using additional cone opsin sequences from newly sequenced eye transcriptomes of six Neotropical bat species, we found significant evidence for different ecological pressures influencing the evolution of the cone opsins. While Lws is evolving under significantly lower constraint in highly specialized high-duty cycle echolocating lineages, which have enhanced sonar ability to detect and track targets, variation in Sws1 constraint was significantly associated with foraging habitat, exhibiting elevated rates of evolution in species that forage among vegetation. This suggests that increased reliance on echolocation as well as the spectral environment experienced by foraging bats may differentially influence the evolution of different cone opsins. Our study demonstrates that different ecological variables may underlie contrasting evolutionary patterns in bat visual opsins, and highlights the suitability of clade models for testing ecological hypotheses of visual evolution.

Targeted Capture of Complete Coding Regions across Divergent Species.

Despite continued advances in sequencing technologies, there is a need for methods that can efficiently sequence large numbers of genes from diverse species. One approach to accomplish this is targeted capture (hybrid enrichment). While these methods are well established for genome resequencing projects, cross-species capture strategies are still being developed and generally focus on the capture of conserved regions, rather than complete coding regions from specific genes of interest. The resulting data is thus useful for phylogenetic studies, but the wealth of comparative data that could be used for evolutionary and functional studies is lost. Here, we design and implement a targeted capture method that enables recovery of complete coding regions across broad taxonomic scales. Capture probes were designed from multiple reference species and extensively tiled in order to facilitate cross-species capture. Using novel bioinformatics pipelines we were able to recover nearly all of the targeted genes with high completeness from species that were up to 200 myr divergent. Increased probe diversity and tiling for a subset of genes had a large positive effect on both recovery and completeness. The resulting data produced an accurate species tree, but importantly this same data can also be applied to studies of molecular evolution and function that will allow researchers to ask larger questions in broader phylogenetic contexts. Our method demonstrates the utility of cross-species approaches for the capture of full length coding sequences, and will substantially improve the ability for researchers to conduct large-scale comparative studies of molecular evolution and function.

The desired number of sexual partners as a function of gender, sexual risks, and the meaning of "ideal".

The present research investigated gender differences in the ideally desired number of sex partners, examining several different kinds of "ideals." In two separate samples, participants were a) first asked to report their ideal number of desired sex partners - identified as a Nonspecific Ideal; b) next, they responded after considering some of the health and social risks, and the opportunity limitations, associated with sexual activity--a Pragmatic Ideal; and c) finally, participants reported their ideal number of sex partners after imagining the removal of these risks and limitations--a Hedonic Ideal. For both samples, there were significant mean, but no median, gender differences for the Nonspecific Ideal, replicating what has been found in some previous research. However, when risks were explicitly identified (in the present Pragmatic and Hedonic Ideal conditions), significant mean and median gender differences emerged: typically, men desired multiple sex partners, whereas women were consistently interested in a single sex partner, regardless of the risks or opportunities involved.

Determination of the dynamic electrophoretic mobility of a spherical colloidal particle through a novel numerical solution of the electrokinetic equations.

The standard equations developed to describe the electrophoretic motion of a charged particle immersed in an electrolyte subjected to an oscillating electric field are solved numerically with a new technique suitable for stiff systems. The focus of this work is to use this solution to determine the dynamic particle mobility, one of several quantities that can be extracted from these equations. This solution is valid from low frequencies to indefinitely high frequencies and has no restriction on zeta potential, double-layer thickness, or electrolyte composition. The solution has been used to calculate the dynamic electrophoretic mobility of a particle for a wide range of double-layer thicknesses and zeta potentials. The solution agrees with analytic approximations obtained previously by other authors under the conditions of a thin double layer and low zeta potential. The results are also consistent with calculations valid at frequencies where the ion diffusion length extends a significant distance beyond the double layer as obtained by another numerical technique.

Calculation of the dynamic impedance of the double layer on a planar electrode by the theory of electrokinetics.

Applications of microelectromechanical systems in the biotechnological arena (bioMEMS) are a subject of great current interest. Accurate calculation of electric field distribution in these devices is essential to the understanding and design of processes such as dielectrophoresis and AC electroosmosis that drive MEMS-based devices. In this paper, we present the calculation of the electrical double-layer impedance (Z(el)) of an ideally polarizable plane electrode using the standard model of colloidal electrokinetics. The frequency variation of the electrical potential drop across the double layer above a planar electrode in a general electrolyte solution is discussed as a function of the electrode zeta potential zeta, the Debye length kappa(-1), the electrolyte composition and the bulk region thickness L.

Calculation of the electric polarizability of a charged spherical dielectric particle by the theory of colloidal electrokinetics.

Dielectrophoresis (DEP) is increasingly being explored as a means to manipulate or separate colloidal particles. The direction and strength of the DEP force depend strongly on the induced dipole strength, K, of a polarized particle, and predictions of DEP forces require carefully computed values for K. In this paper, we present the calculation of the dipole strength using the full electrokinetic theory of Mangelsdorf and White for both static and oscillating electric fields. The effects of particle zeta potential, radius, Debye length and electrolyte composition on the magnitude and sign of Re(K) are discussed. The full theory model is compared with the extended Maxwell-Wagner (EMW) model and the results show that the EMW model can fail to predict the full Re(K) variation with frequency, even predicting Re(K) with the incorrect sign depending on system parameters. A program for the dipole strength calculation shown in this paper is available from the authors.