Prion-like domains as epigenetic regulators, scaffolds for subcellular organization, and drivers of neurodegenerative disease

Key challenges faced by all cells include how to spatiotemporally organize complex biochemistry and how to respond to environmental fluctuations. The budding yeast Saccharomyces cerevisiae harnesses alternative protein folding mediated by yeast prion domains (PrDs) for rapid evolution of new traits in response to environmental stress. Increasingly, it is appreciated that low complexity domains similar in amino acid composition to yeast PrDs (prion-like domains; PrLDs) found in metazoa have a prominent role in subcellular cytoplasmic organization, especially in relation to RNA homeostasis. In this review, we highlight recent advances in our understanding of the role of prions in enabling rapid adaptation to environmental stress in yeast. We also present the complete list of human proteins with PrLDs and discuss the prevalence of the PrLD in nucleic-acid binding proteins that are often connected to neurodegenerative disease, including: ataxin 1, ataxin 2, FUS, TDP-43, TAF15, EWSR1, hnRNPA1, and hnRNPA2. Recent paradigm-shifting advances establish that PrLDs undergo phase transitions to liquid states, which contribute to the structure and biophysics of diverse membraneless organelles. This structural functionality of PrLDs, however, simultaneously increases their propensity for deleterious protein-misfolding events that drive neurodegenerative disease. We suggest that even these PrLD-misfolding events are not irreversible and can be mitigated by natural or engineered protein disaggregases, which could have important therapeutic applications. This article is part of a Special Issue entitled SI:RNA Metabolism in Disease

Atmospheric neutron measurements with the SONTRAC science model

–The SOlar Neutron TRACking (SONTRAC) telescope was originally developed to measure the energy spectrum and incident direction of neutrons produced in solar flares, in the energy range 20 - 250 MeV. While developed primarily for solar physics, the SONTRAC detector may be employed in virtually any application requiring both energy measurement and imaging capabilities. The SONTRAC Science Model (SM) is presently being operated at the University of New Hampshire (UNH) as a ground-based instrument to investigate the energy spectrum, zenith and azimuth angle dependence of the cosmic-ray induced sea-level atmospheric neutron flux. SONTRAC measurements are based on the non-relativistic double scatter of neutrons off ambient protons within a block of scintillating fibers. Using the n-p elastic double-scatter technique, it is possible to uniquely determine the neutron’s energy and direction on an event-by-event basis. The 3D SM consists of a cube of orthogonal plastic scintillating fiber layers with 5 cm sides, read out by two CCD cameras. Two orthogonal imaging chains allow full 3D reconstruction of scattered proton tracks

Precision MARS{\tt MARS} Mass Reconstruction of Abell 2744: Synergizing the Largest Strong Lensing and Densest Weak Lensing Datasets from JWST

We present a new high-resolution free-form mass model of Abell 2744, combining both weak-lensing (WL) and strong-lensing (SL) datasets from JWST. The SL dataset comprises 286 multiple images, presenting the most extensive SL constraint to date for a single cluster. The WL dataset, employing photo-$z$ selection, yields a source density of ~ 350 arcmin$^{-2}$, marking the densest WL constraint ever. The combined mass reconstruction enables the highest-resolution mass map of Abell 2744 within the ~ 1.8 Mpc$\times$1.8 Mpc reconstruction region to date, revealing the isosceles triangular structure with two legs of ~ 1 Mpc and a base of ~ 0.6 Mpc. Although our algorithm MAximum-entropy ReconStruction (${\tt MARS}$) is entirely blind to the cluster galaxy distribution, the resulting mass reconstruction remarkably well traces the brightest cluster galaxies with the five strongest mass peaks coinciding with the five most luminous cluster galaxies. We do not detect any unusual mass peaks that are not traced by the cluster galaxies, unlike the findings in previous studies. Our mass model shows the smallest scatters of SL multiple images in both source (~0".05) and image (~0".1) planes, which are lower than the previous studies by a factor of ~ 4. Although ${\tt MARS}$ represents the mass field with an extremely large number of ~ 300,000 free parameters, it converges to a solution within a few hours thanks to our utilization of the deep learning technique. We make our mass and magnification maps publicly available.Comment: 27 pages, 19 figures, 3 tables, Submitted to Ap

Life Stage, Gender and Movement of Blue Crabs (Callinectis sapidus) in Lake Mattamuskeet and Connecting Canals

In their ranges on east and south coasts of the Americas as well as their established invasions in the Adriatic and Baltic, blue crabs, Callinectis sapidus, inhabit estuaries, sounds and coastal oceans and are commercially and ecologically important. How crabs move in response to physical variables is important to management. We monitored life stages at canal control structures, assessed gender ratios with recreational crabbing, learned from crabbers, and studied movements of tagged crabs in a canal connecting Lake Mattamuskeet to the Pamlico sound.  Juveniles enter the lake  through two of 4 canals connecting to the sounds.  Females migrate out through one canal. The lake standing population is about 70% male.  Movements of 240 crabs in August 2012 and 102 crabs in October 2014 were quantified using RFID tags with co-located meteorological and oceanographic devices. Non-spawning females and males are nomadic.  Crabs released in the canal move in response to changes in water depth and go with the flow, toward the Pamlico Sound (summer 76% and fall 78%). What crabbers describe as a fall migration  appears to be concentration of crabs in warmer deeper canals and then southern movement with flow generated by strong north winds. To be effective, management strategies like migratory corridors require understanding of crab movements

Mobile Radar Observations of the Evolving Debris Field Compared with a Damage Survey of the Shawnee, Oklahoma, Tornado of 19 May 2013

AbstractA detailed damage survey is combined with high-resolution mobile, rapid-scanning X-band polarimetric radar data collected on the Shawnee, Oklahoma, tornado of 19 May 2013. The focus of this study is the radar data collected during a period when the tornado was producing damage rated EF3. Vertical profiles of mobile radar data, centered on the tornado, revealed that the radar reflectivity was approximately uniform with height and increased in magnitude as more debris was lofted. There was a large decrease in both the cross-correlation coefficient (ρhv) and differential radar reflectivity (ZDR) immediately after the tornado exited the damaged area rated EF3. Low ρhv and ZDR occurred near the surface where debris loading was the greatest. The 10th percentile of ρhv decreased markedly after large amounts of debris were lofted after the tornado leveled a number of structures. Subsequently, ρhv quickly recovered to higher values. This recovery suggests that the largest debris had been centrifuged or fallen out whereas light debris remained or continued to be lofted. Range–height profiles of the dual-Doppler analyses that were azimuthally averaged around the tornado revealed a zone of maximum radial convergence at a smaller radius relative to the leading edge of lofted debris. Low-level inflow into the tornado encountering a positive bias in the tornado-relative radial velocities could explain the existence of the zone. The vertical structure of the convergence zone was shown for the first time

An Unsplit Godunov Method for Ideal MHD via Constrained Transport in Three Dimensions

We present a single step, second-order accurate Godunov scheme for ideal MHD which is an extension of the method described by Gardiner & Stone (2005) to three dimensions. This algorithm combines the corner transport upwind (CTU) method of Colella for multidimensional integration, and the constrained transport (CT) algorithm for preserving the divergence-free constraint on the magnetic field. We describe the calculation of the PPM interface states for 3D ideal MHD which must include multidimensional ``MHD source terms'' and naturally respect the balance implicit in these terms by the ${\bf\nabla\cdot B}=0$ condition. We compare two different forms for the CTU integration algorithm which require either 6- or 12-solutions of the Riemann problem per cell per time-step, and present a detailed description of the 6-solve algorithm. Finally, we present solutions for test problems to demonstrate the accuracy and robustness of the algorithm.Comment: Extended version of the paper accepted for publication in JC