Low temperature stimulates spatial molecular reprogramming of the Arabidopsis seed germination programme

The timing of the germination of seeds is highly responsive to inputs from the environment. Temperature plays a key role in the control of germination, with low temperatures acting to stimulate this developmental transition in many species. In Arabidopsis, extensive gene expression changes have been reported at the whole seed level in response to cold, while much less is known about their spatial distribution across the diverse cell types of the embryo. In this study we examined the spatiotemporal patterns of promoter activity and protein abundance for key gibberellic acid (GA) and abscisic acid (ABA) factors which regulate the decision to germinate both during a time course of germination and in response to cold. Low temperature stimulated the spatial relocalization of these factors to the vasculature. The response of these seeds to dormancy-breaking stratification treatments therefore stimulates the distribution of both positive (GA) and negatively acting (ABA) components to this same cell type. This altered spatial pattern persisted following the transfer of seeds to 22°C, as well as after their rehydration, indicating that this alteration is persistent. These observations suggest that the vasculature plays a role in the low temperature-mediated stimulation of germination in this species, while novel cell types are recruited to promote germination in response to stratification

Receipt, 31 December 1859

https://egrove.olemiss.edu/aldrichcorr_c/1187/thumbnail.jp

Indenture, Marshall County, MS 12 November 1855

https://egrove.olemiss.edu/aldrichcorr_c/1106/thumbnail.jp

Thermometry of Strongly Correlated Fermionic Quantum Systems using Impurity Probes

We study quantum impurity models as a platform for quantum thermometry. A single quantum spin-1/2 impurity is coupled to an explicit, structured, fermionic thermal environment which we refer to as the environment or bath. We critically assess the thermometric capabilities of the impurity as a probe, when its coupling to the environment is of Ising or Kondo exchange type. In the Ising case, we find sensitivity equivalent to that of an idealized two-level system, with peak thermometric performance obtained at a temperature that scales linearly in the applied control field, independent of the coupling strength and environment spectral features. By contrast, a richer thermometric response can be realized for Kondo impurities, since strong probe-environment entanglement can then develop. At low temperatures, we uncover a regime with a universal thermometric response that is independent of microscopic details, controlled only by the low-energy spectral features of the environment. The many-body entanglement that develops in this regime means that low-temperature thermometry with a weakly applied control field is inherently less sensitive, while optimal sensitivity is recovered by suppressing the entanglement with stronger fields.Comment: 16 pages, 5 figures. Close to published versio

Multiparameter critical quantum metrology with impurity probes

Quantum systems can be used as probes in the context of metrology for enhanced parameter estimation. In particular, the delicacy of critical systems to perturbations can make them ideal sensors. Arguably the simplest realistic probe system is a spin-1/2 impurity, which can be manipulated and measured in-situ when embedded in a fermionic environment. Although entanglement between a single impurity probe and its environment produces nontrivial many-body effects, criticality cannot be leveraged for sensing. Here we introduce instead the two-impurity Kondo (2IK) model as a novel paradigm for critical quantum metrology, and examine the multiparameter estimation scenario at finite temperature. We explore the full metrological phase diagram numerically and obtain exact analytic results near criticality. Enhanced sensitivity to the inter-impurity coupling driving a second-order phase transition is evidenced by diverging quantum Fisher information (QFI) and quantum signal-to-noise ratio (QSNR). However, with uncertainty in both coupling strength and temperature, the multiparameter QFI matrix becomes singular -- even though the parameters to be estimated are independent -- resulting in vanishing QSNRs. We demonstrate that by applying a known control field, the singularity can be removed and measurement sensitivity restored. For general systems, we show that the degradation in the QSNR due to uncertainties in another parameter is controlled by the degree of correlation between the unknown parameters.Comment: 19 pages, 9 figure

Iron fluorescence from within the innermost stable orbit of black hole accretion disks

The fluorescent iron Ka line is a powerful observational probe of the inner regions of black holes accretion disks. Previous studies have assumed that only material outside the radius of marginal stability can contribute to the observed line emission. Here, we show that fluorescence by material inside the radius of marginal stability, which is in the process of spiralling towards the event horizon, can have a observable influence on the iron line profile and equivalent width. For concreteness, we consider the case of a geometrically thin accretion disk, around a Schwarzschild black hole, in which fluorescence is excited by an X-ray source placed at some height above the disk and on the axis of the disk. Fully relativistic line profiles are presented for various source heights and efficiencies. It is found that the extra line flux generally emerges in the extreme red wing of the iron line, due to the large gravitational redshift experienced by photons from the region within the radius of marginal stability. We apply our models to the variable iron line seen in the ASCA spectrum of the Seyfert nucleus MCG-6-30-15. It is found that the change in the line profile, equivalent width, and continuum normalization, can be well explained as being due to a change in the height of the source above the disk. We discuss the implications of these results for distinguishing rapidly-rotating black holes from slowly rotating holes using iron line diagnostics.Comment: 20 pages, LaTeX. Accepted for publication in Astrophysical Journal. Figures 3 to 7 replaced with corrected versions (previous figures affected by calculational error). Some changes in the best fitting parameter

Preparation and characterization of avenin-enriched oat protein by chill precipitation for feeding trials in celiac disease

The safety of oats for people with celiac disease remains unresolved. While oats have attractive nutritional properties that can improve the quality and palatability of the restrictive, low fiber gluten-free diet, rigorous feeding studies to address their safety in celiac disease are needed. Assessing the oat prolamin proteins (avenins) in isolation and controlling for gluten contamination and other oat components such as fiber that can cause non-specific effects and symptoms is crucial. Further, the avenin should contain all reported immunogenic T cell epitopes, and be deliverable at a dose that enables biological responses to be correlated with clinical effects. To date, isolation of a purified food-grade avenin in sufficient quantities for feeding studies has not been feasible. Here, we report a new gluten isolation technique that enabled 2 kg of avenin to be extracted from 400 kg of wheat-free oats under rigorous gluten-free and food grade conditions. The extract consisted of 85% protein of which 96% of the protein was avenin. The concentration of starch (1.8% dry weight), β-glucan (0.2% dry weight), and free sugars (1.8% dry weight) were all low in the final avenin preparation. Other sugars including oligosaccharides, small fructans, and other complex sugars were also low at 2.8% dry weight. Liquid chromatography tandem mass spectrometry (LC-MS/MS) analysis of the proteins in these preparations showed they consisted only of oat proteins and were uncontaminated by gluten containing cereals including wheat, barley or rye. Proteomic analysis of the avenin enriched samples detected more avenin subtypes and fewer other proteins compared to samples obtained using other extraction procedures. The identified proteins represented five main groups, four containing known immune-stimulatory avenin peptides. All five groups were identified in the 50% (v/v) ethanol extract however the group harboring the epitope DQ2.5-ave-1b was less represented. The avenin-enriched protein fractions were quantitatively collected by reversed phase HPLC and analyzed by MALDI-TOF mass spectrometry. Three reverse phase HPLC peaks, representing ~40% of the protein content, were enriched in proteins containing DQ2.5-ave-1a epitope. The resultant high quality avenin will facilitate controlled and definitive feeding studies to establish the safety of oat consumption by people with celiac disease

Photoreversible interconversion of a phytochrome photosensory module in the crystalline state.

A major barrier to defining the structural intermediates that arise during the reversible photointerconversion of phytochromes between their biologically inactive and active states has been the lack of crystals that faithfully undergo this transition within the crystal lattice. Here, we describe a crystalline form of the cyclic GMP phosphodiesterases/adenylyl cyclase/FhlA (GAF) domain from the cyanobacteriochrome PixJ in Thermosynechococcus elongatus assembled with phycocyanobilin that permits reversible photoconversion between the blue light-absorbing Pb and green light-absorbing Pg states, as well as thermal reversion of Pg back to Pb. The X-ray crystallographic structure of Pb matches previous models, including autocatalytic conversion of phycocyanobilin to phycoviolobilin upon binding and its tandem thioether linkage to the GAF domain. Cryocrystallography at 150 K, which compared diffraction data from a single crystal as Pb or after irradiation with blue light, detected photoconversion product(s) based on Fobs - Fobs difference maps that were consistent with rotation of the bonds connecting pyrrole rings C and D. Further spectroscopic analyses showed that phycoviolobilin is susceptible to X-ray radiation damage, especially as Pg, during single-crystal X-ray diffraction analyses, which could complicate fine mapping of the various intermediate states. Fortunately, we found that PixJ crystals are amenable to serial femtosecond crystallography (SFX) analyses using X-ray free-electron lasers (XFELs). As proof of principle, we solved by room temperature SFX the GAF domain structure of Pb to 1.55-Å resolution, which was strongly congruent with synchrotron-based models. Analysis of these crystals by SFX should now enable structural characterization of the early events that drive phytochrome photoconversion