Phase domain walls in weakly nonlinear deep water surface gravity waves

We report a theoretical derivation, an experimental observation and a numerical validation of nonlinear phase domain walls in weakly nonlinear deep water surface gravity waves. The domain walls presented are connecting homogeneous zones of weakly nonlinear plane Stokes waves of identical amplitude and wave vector but differences in phase. By exploiting symmetry transformations within the framework of the nonlinear Schrödinger equation we demonstrate the existence of exact analytical solutions representing such domain walls in the weakly nonlinear limit. The walls are in general oblique to the direction of the wave vector and stationary in moving reference frames. Experimental and numerical studies confirm and visualize the findings. Our present results demonstrate that nonlinear domain walls do exist in the weakly nonlinear regime of general systems exhibiting dispersive waves

Scattering of matter waves in spatially inhomogeneous environments

We study scattering of quasi-one-dimensional matter waves at an interface of two spatial domains, one with repulsive and one with attractive interatomic interactions. It is shown that the incidence of a Gaussian wave packet from the repulsive to the attractive region gives rise to generation of a soliton train.More specifically, the number of emergent solitons can be controlled, e.g., by the variation of the amplitude or the width of the incoming wave packet. Furthermore, we study the reflectivity of a soliton incident from the attractive region to the repulsive one. We find the reflection coefficient numerically and employ analytical methods, which treat the soliton as a particle (for moderate and large amplitudes) or a quasilinear wave packet (for small amplitudes), to determine the critical soliton momentum (as a function of the soliton amplitude) for which total reflection is observed

Accurate determination of marker location within whole-brain microscopy images

High-resolution whole-brain microscopy provides a means for post hoc determination of the location of implanted devices and labelled cell populations that are necessary to interpret in vivo experiments designed to understand brain function. Here we have developed two plugins (brainreg and brainreg-segment) for the Python-based image viewer napari, to accurately map any object in a common coordinate space. We analysed the position of dye-labelled electrode tracks and two-photon imaged cell populations expressing fluorescent proteins. The precise location of probes and cells were physiologically interrogated and revealed accurate segmentation with near-cellular resolution

Dark Solitons Near Potential and Nonlinearity Steps

We study dark solitons near potential and nonlinearity steps and combinations thereof, forming rectangular barriers. This setting is relevant to the contexts of atomic Bose-Einstein condensates (where such steps can be realized by using proper external fields) and nonlinear optics (for beam propagation near interfaces separating optical media of different refractive indices). We use perturbation theory to develop an equivalent particle theory, describing the matter-wave or optical soliton dynamics as the motion of a particle in an effective potential. This Newtonian dynamical problem provides information for the soliton statics and dynamics, including scenarios of reflection, transmission, or quasi-trapping at such steps. The case of multiple such steps and its connection to barrier potentials is also touched upon. Our analytical predictions are found to be in very good agreement with the corresponding numerical results

The Anopheles gambiae Odorant Binding Protein 1 (AgamOBP1) Mediates Indole Recognition in the Antennae of Female Mosquitoes

Haematophagous insects are frequently carriers of parasitic diseases, including malaria. The mosquito Anopheles gambiae is the major vector of malaria in sub-Saharan Africa and is thus responsible for thousands of deaths daily. Although the role of olfaction in A. gambiae host detection has been demonstrated, little is known about the combinations of ligands and odorant binding proteins (OBPs) that can produce specific odor-related responses in vivo. We identified a ligand, indole, for an A. gambiae odorant binding protein, AgamOBP1, modeled the interaction in silico and confirmed the interaction using biochemical assays. RNAi-mediated gene silencing coupled with electrophysiological analyses confirmed that AgamOBP1 binds indole in A. gambiae and that the antennal receptor cells do not respond to indole in the absence of AgamOBP1. This case represents the first documented instance of a specific A. gambiae OBP–ligand pairing combination, demonstrates the significance of OBPs in odor recognition, and can be expanded to the identification of other ligands for OBPs of Anopheles and other medically important insects

Dark soliton scattering in symmetric and asymmetric double potential barriers

The file attached to this record is the author's final peer reviewed version. The Publisher's final version can be found by following the DOI link.Motivated by the recent theoretical study of (bright) soliton diode effects in systems with multiple scatterers, as well as by experimental investigations of soliton-impurity interactions, we consider some prototypical case examples of interactions of dark solitons with a pair of scatterers. In a way fundamentally opposite to the case of bright solitons (but consonant to their “anti-particle character”), we find that dark solitons accelerate as they pass the first barrier and hence cannot be trapped by a second equal-height barrier. A pair of unequal barriers may lead to reflection from the second one, however trapping in the inter-barrier region cannot occur. We also give some examples of dynamical adjusting of the barriers to trap the dark soliton in the inter-barrier region, yet we show that this can only occur over finite time horizons, with the dark soliton always escaping eventually, contrary again to what is potentially the case with bright solitons