Walker-like domain wall breakdown in layered antiferromagnets driven by staggered spin–orbit fields

Funder: STSM grant: COST Action CA17123AbstractWithin linear continuum theory, no magnetic texture can propagate faster than the maximum group velocity of the spin waves. Here, by atomistic spin dynamics simulations and supported by analytical theory, we report that a strongly non-linear transient regime due to the appearance of additional magnetic textures results in the breaking of the Lorentz translational invariance. This dynamical regime is akin to domain wall Walker-breakdown in ferromagnets and involves the nucleation of an antiferromagnetic domain wall pair. While one of the nucleated domain walls is accelerated beyond the magnonic limit, the remaining pair remains static. Under large spin–orbit fields, a cascade of multiple generation and recombination of domain walls are obtained. This result may clarify recent experiments on current pulse induced shattering of large domain structures into small fragmented domains and the subsequent slow recreation of large-scale domains.</jats:p

The evolution and distribution of phage ST160 within Salmonella enterica serotype Typhimurium

Salmonellosis is an internationally important disease of mammals and birds. Unique epidemics in New Zealand in the recent past include two Salmonella serovars: Salmonella enterica subsp. enterica serovar Typhimurium definitive type (DT) 160 (S. Typhimurium DT160) and S. Brandenburg. Although not a major threat internationally, in New Zealand S. Typhimurium DT160 has been the most common serovar isolated from humans, and continues to cause significant losses in wildlife. We have identified DNA differences between the first New Zealand isolate of S. Typhimurium DT160 and the genome-sequenced strain, S. Typhimurium LT2. All the differences could be accounted for in one cryptic phage ST64B, and one novel P22-like phage, ST160. The majority of the ST160 genome is almost identical to phage SE1 but has two regions not found in SE1 which are identical to the P22-like phage ST64T, suggesting that ST160 evolved from SE1 via two recombination events with ST64T. All of the New Zealand isolates of DT160 were identical indicating the clonal spread of this particular Salmonella. Some overseas isolates of S. Typhimurium DT160 differed from the New Zealand strain and contained SE1 phage rather than ST160. ST160 was also identified in New Zealand isolates of S. Typhimurium DT74 and S. Typhimurium RDNC-April06 and in S. Typhimurium DT160 isolates from the USA. The emergence of S. Typhimurium DT160 as a significant pathogen in New Zealand is postulated to have occurred due to the sensitivity of the Salmonella strains to the ST160 phage when S. Typhimurium DT160 first arrived. © 2010 Cambridge University Press

Giant localised spin-Peltier effect due to ultrafast domain wall motion in antiferromagnetic metals

AbstractSpin thermo-electric phenomena have attracted wide attention recently, e.g., the spin Peltier effect—heat generation by magnonic spin currents. Here, we find that the spin Peltier effect also manifests as a heat wave accompanying fast moving magnetic textures. High speed and extreme magnetic excitation localisation are paramount for efficient transfer of energy from the spin-degrees of freedom to electrons and lattice. While satisfying both conditions is subject to severe restrictions in ferromagnets, we find that domain walls in antiferromagnets can overcome these limitations due to their ultrahigh mobility and ultra-small widths originating from the relativistic contraction. To illustrate our findings, we show that electric current driven domain wall motion in the antiferromagnetic metal Mn2Au can carry a localised heat wave with temperature up to 1 K. Since domain walls are localised magnetic objects, this effect has the potential for nanoscale heating sensing and functionalities.</jats:p

Giant localised spin-Peltier effect due to ultrafast domain wall motion in antiferromagnetic metals

AbstractSpin thermo-electric phenomena have attracted wide attention recently, e.g., the spin Peltier effect—heat generation by magnonic spin currents. Here, we find that the spin Peltier effect also manifests as a heat wave accompanying fast moving magnetic textures. High speed and extreme magnetic excitation localisation are paramount for efficient transfer of energy from the spin-degrees of freedom to electrons and lattice. While satisfying both conditions is subject to severe restrictions in ferromagnets, we find that domain walls in antiferromagnets can overcome these limitations due to their ultrahigh mobility and ultra-small widths originating from the relativistic contraction. To illustrate our findings, we show that electric current driven domain wall motion in the antiferromagnetic metal Mn2Au can carry a localised heat wave with temperature up to 1 K. Since domain walls are localised magnetic objects, this effect has the potential for nanoscale heating sensing and functionalities.</jats:p

Automated cell tracking using StarDist and TrackMate [version 1; peer review: awaiting peer review]

The ability of cells to migrate is a fundamental physiological process involved in embryonic development, tissue homeostasis, immune surveillance, and wound healing. Therefore, the mechanisms governing cellular locomotion have been under intense scrutiny over the last 50 years. One of the main tools of this scrutiny is live-cell quantitative imaging, where researchers image cells over time to study their migration and quantitatively analyze their dynamics by tracking them using the recorded images. Despite the availability of computational tools, manual tracking remains widely used among researchers due to the difficulty setting up robust automated cell tracking and large-scale analysis. Here we provide a detailed analysis pipeline illustrating how the deep learning network StarDist can be combined with the popular tracking software TrackMate to perform 2D automated cell tracking and provide fully quantitative readouts. Our proposed protocol is compatible with both fluorescent and widefield images. It only requires freely available and open-source software (ZeroCostDL4Mic and Fiji), and does not require any coding knowledge from the users, making it a versatile and powerful tool for the field. We demonstrate this pipeline's usability by automatically tracking cancer cells and T cells using fluorescent and brightfield images. Importantly, we provide, as supplementary information, a detailed step-by-step protocol to allow researchers to implement it with their images

Hydrotropism: analysis of the root response to a moisture gradient

Hydrotropism is a genuine response of roots to a moisture gradient to avoid drought. An experimental system for the induction of hydrotropic root response in petri dishes was designed by pioneering groups in the field. This system uses split agar plates containing an osmolyte only in a region of the plate in order to generate a water potential gradient. Arabidopsis seedlings are placed on the MS agar plate so that their root tips are near the junction between plain MS medium and the region supplemented with the osmolyte. This elicits a hydrotropic response in Arabidopsis roots that can be measured as the root curvature angle

MHC immunoevasins: protecting the pathogen reservoir in infection

Alteration of antigen recognition by T cells as result of insufficient major histocompatibility complex (MHC)-dependent antigen-presenting function has been observed in many cases of infections, particularly in in vitro systems. To hide themselves from an efficient immune response, pathogens may act on MHC-related functions at three levels: (i) by limiting the number of potential antigens that can be presented to naive T cells; (ii) by synthesizing proteins which directly affect MHC cell-surface expression; and (iii) by altering the normal intracellular pathway of peptide loading on MHC. Here, we review examples of pathogens' action on each single step of MHC function and we suggest that the result of these often synergistic actions is both a limitation of the priming of naive T cells and, more importantly, a protection of the pathogen's reservoir from the attack of primed T cells. The above mechanisms may also generate a skewing effect on immune effector mechanisms, which helps preserving the reservoir of infection from sterilization by the immune system

Does oral sodium bicarbonate therapy improve function and quality of life in older patients with chronic kidney disease and low-grade acidosis (the BiCARB trial)? Study protocol for a randomized controlled trial

Date of acceptance: 01/07/2015 © 2015 Witham et al. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Acknowledgements UK NIHR HTA grant 10/71/01. We acknowledge the financial support of NHS Research Scotland in conducting this trial.Peer reviewedPublisher PD

Emergence of terpene cyclization in Artemisia annua

The emergence of terpene cyclization was critical to the evolutionary expansion of chemical diversity yet remains unexplored. Here we report the first discovery of an epistatic network of residues that controls the onset of terpene cyclization in Artemisia annua. We begin with amorpha-4,11-diene synthase (ADS) and (E)-b-farnesene synthase (BFS), a pair of terpene synthases that produce cyclic or linear terpenes, respectively. A library of B27,000 enzymes is generated by breeding combinations of natural amino-acid substitutions from the cyclic into the linear producer. We discover one dominant mutation is sufficient to activate cyclization, and together with two additional residues comprise a network of strongly epistatic interactions that activate, suppress or reactivate cyclization. Remarkably, this epistatic network of equivalent residues also controls cyclization in a BFS homologue from Citrus junos. Fitness landscape analysis of mutational trajectories provides quantitative insights into a major epoch in specialized metabolism