Valence Bond Entanglement and Fluctuations in Random Singlet Phases

The ground state of the uniform antiferromagnetic spin-1/2 Heisenberg chain can be viewed as a strongly fluctuating liquid of valence bonds, while in disordered chains these bonds lock into random singlet states on long length scales. We show that this phenomenon can be studied numerically, even in the case of weak disorder, by calculating the mean value of the number of valence bonds leaving a block of $L$ contiguous spins (the valence-bond entanglement entropy) as well as the fluctuations in this number. These fluctuations show a clear crossover from a small $L$ regime, in which they behave similar to those of the uniform model, to a large $L$ regime in which they saturate in a way consistent with the formation of a random singlet state on long length scales. A scaling analysis of these fluctuations is used to study the dependence on disorder strength of the length scale characterizing the crossover between these two regimes. Results are obtained for a class of models which include, in addition to the spin-1/2 Heisenberg chain, the uniform and disordered critical 1D transverse-field Ising model and chains of interacting non-Abelian anyons.Comment: 8 pages, 6 figure

Isolation of Agrobacterium vitis from grapevine propagating material by means of PCR after immunocapture cultivation

Research Not

Infinite-Randomness Fixed Points for Chains of Non-Abelian Quasiparticles

One-dimensional chains of non-Abelian quasiparticles described by $SU(2)_k$ Chern-Simons-Witten theory can enter random singlet phases analogous to that of a random chain of ordinary spin-1/2 particles (corresponding to $k \to \infty$). For $k=2$ this phase provides a random singlet description of the infinite randomness fixed point of the critical transverse field Ising model. The entanglement entropy of a region of size $L$ in these phases scales as $S_L \simeq \frac{\ln d}{3} \log_2 L$ for large $L$, where $d$ is the quantum dimension of the particles.Comment: 4 pages, 4 figure

Practically Useful: What the Rosetta Protein Modeling Suite Can Do for You

The objective of this review is to enable researchers to use the software package ROSETTA for biochemical and biomedicinal studies. We provide a brief review of the six most frequent research problems tackled with ROSETTA. For each of these six tasks, we provide a tutorial that illustrates a basic ROSETTA protocol. The ROSETTA method was originally developed for de novo protein structure prediction and is regularly one of the best performers in the community-wide biennial Critical Assessment of Structure Prediction. Predictions for protein domains with fewer than 125 amino acids regularly have a backbone root-mean-square deviation of better than 5.0 A ˚. More impressively, there are several cases in which ROSETTA has been used to predict structures with atomic level accuracy better than 2.5 A ˚. In addition to de novo structure prediction, ROSETTA also has methods for molecular docking, homology modeling, determining protein structures from sparse experimental NMR or EPR data, and protein design. ROSETTA has been used to accurately design a novel protein structure, predict the structure of protein-protein complexes, design altered specificity protein-protein and protein-DNA interactions, and stabilize proteins and protein complexes. Most recently, ROSETTA has been used to solve the X-ray crystallographic phase problem. ROSETTA is a unified software package for protein structure prediction and functional design. It has been used to predic

Mycofactocin Is Associated with Ethanol Metabolism in Mycobacteria

Tuberculosis is caused by Mycobacterium tuberculosis, and the increasing emergence of multidrug-resistant strains renders current treatment options ineffective. Although new antimycobacterial drugs are urgently required, their successful development often relies on complete understanding of the metabolic pathways—e.g., cholesterol assimilation—that are critical for persistence and for pathogenesis of M. tuberculosis. In this regard, mycofactocin (MFT) function appears to be important because its biosynthesis genes are predicted to be essential for M. tuberculosisin vitro growth in cholesterol. In determining the metabolic basis of this genetic requirement, our results unexpectedly revealed the essential function of MFT in ethanol metabolism. The metabolic dysfunction thereof was found to affect the mycobacterial growth in cholesterol which is solubilized by ethanol. This knowledge is fundamental in recognizing the bona fide function of MFT, which likely resembles the pyrroloquinoline quinone-dependent ethanol oxidation in acetic acid bacteria exploited for industrial production of vinegar.Mycofactocin (MFT) belongs to the class of ribosomally synthesized and posttranslationally modified peptides conserved in many Actinobacteria. Mycobacterium tuberculosis assimilates cholesterol during chronic infection, and its in vitro growth in the presence of cholesterol requires most of the MFT biosynthesis genes (mftA, mftB, mftC, mftD, mftE, and mftF), although the reasons for this requirement remain unclear. To identify the function of MFT, we characterized MFT biosynthesis mutants constructed in Mycobacterium smegmatis, M. marinum, and M. tuberculosis. We found that the growth deficit of mft deletion mutants in medium containing cholesterol—a phenotypic basis for gene essentiality prediction—depends on ethanol, a solvent used to solubilize cholesterol. Furthermore, functionality of MFT was strictly required for growth of free-living mycobacteria in ethanol and other primary alcohols. Among other genes encoding predicted MFT-associated dehydrogenases, MSMEG_6242 was indispensable for M. smegmatis ethanol assimilation, suggesting that it is a candidate catalytic interactor with MFT. Despite being a poor growth substrate, ethanol treatment resulted in a reductive cellular state with NADH accumulation in M. tuberculosis. During ethanol treatment, mftC mutant expressed the transcriptional signatures that are characteristic of respirational dysfunction and a redox-imbalanced cellular state. Counterintuitively, there were no differences in cellular bioenergetics and redox parameters in mftC mutant cells treated with ethanol. Therefore, further understanding of the function of MFT in ethanol metabolism is required to identify the cause of growth retardation of MFT mutants in cholesterol. Nevertheless, our results establish the physiological role of MFT and also provide new insights into the specific functions of MFT homologs in other actinobacterial systems

Coproducing flood risk management through citizen involvement: insights from cross-country comparison in Europe

Across Europe, citizens are increasingly expected to participate in the implementation of flood risk management (FRM), by engaging in voluntary-based activities to enhance preparedness, implementing property-level measures, etc. While citizen participation in FRM decision-making is widely addressed in academic literature, citizens' involvement in the delivery of FRM measures is comparatively understudied. Drawing from public administration literature, this paper adopts the notion of 'co-production' as an analytical framework for studying the interaction between citizens and public authorities, from the decision making process through to the implementation of FRM in practice. The paper considers to what extent co-production is evident in selected EU Member States, drawing from research conducted within the EU project 'STAR-FLOOD'. On the basis of a cross-country comparison between Flanders (Belgium), England (UK), France, the Netherlands and Poland, this research highlights the varied forms of co-production and reflects on how these have been established within divergent settings. Co-production is most outspoken in discourse and practice in England, and is emergent in France and Flanders. By contrast, FRM in the Netherlands and Poland remains almost exclusively reliant on governmental protection measures and thereby consultation-based forms of co-production. Analysis reveals how these actions are motivated by different underlying rationales, which in turn shape the type of approaches and degree of institutionalization of co-production. In the Netherlands, co-production is primarily encouraged to increase societal resilience, while public authorities in the other countries use it as well to improve cost-efficiency and redistribute responsibilities to its beneficiaries

Breathing in Low Mass Galaxies: A Study of Episodic Star Formation

We simulate the collapse of isolated dwarf galaxies using SPH + N-Body simulations including a physically motivated description of the effects of supernova feedback. As the gas collapses and stars form, the supernova feedback disrupts enough gas to temporarily quench star formation. The gas flows outward into a hot halo, where it cools until star formation can continue once more and the cycle repeats. The star formation histories of isolated Local Group dwarf galaxies exhibit similar episodic bursts of star formation. We examine the mass dependence of the stellar velocity dispersions and find that they are no less than half the velocity of the halos measured at the virial radius.Comment: 5 pages, 3 figures, accepted ApJ. Full resolution figures and movies available at http://hpcc.astro.washington.edu/feedbac

A burst with double radio spectrum observed up to 212 GHz

We study a solar flare that occurred on September 10, 2002, in active region NOAA 10105 starting around 14:52 UT and lasting approximately 5 minutes in the radio range. The event was classified as M2.9 in X-rays and 1N in H\alpha. Solar Submillimeter Telescope observations, in addition to microwave data give us a good spectral coverage between 1.415 and 212 GHz. We combine these data with ultraviolet images, hard and soft X-rays observations and full-disk magnetograms. Images obtained from Ramaty High Energy Solar Spectroscopic Imaging data are used to identify the locations of X-ray sources at different energies and to determine the X-ray spectrum, while ultra violet images allow us to characterize the coronal flaring region. The magnetic field evolution of the active region is analyzed using Michelson Doppler Imager magnetograms. The burst is detected at all available radio-frequencies. X-ray images (between 12 keV and 300 keV) reveal two compact sources and 212 GHz data, used to estimate the radio source position, show a single compact source displaced by 25" from one of the hard X-ray footpoints. We model the radio spectra using two homogeneous sources, and combine this analysis with that of hard X-rays to understand the dynamics of the particles. Relativistic particles, observed at radio wavelengths above 50 GHz, have an electron index evolving with the typical soft-hard-soft behaviour.Comment: Submitted to Solar Physics, 20 pages, 8 fugure

Combining cytotoxicity assessment and Xenopus laevis phenotypic abnormality assay as a predictor of nanomaterial safety

The African clawed frog, Xenopus laevis, has been used as an efficient pre-clinical screening tool to predict drug safety during the early stages of the drug discovery process. X. laevis is a relatively inexpensive model that can be used in whole organism high-throughput assays whilst maintaining a high degree of homology to the higher vertebrate models often used in scientific research. Despite an ever-increasing volume of biomedical nanoparticles (NPs) in development, their unique physico-chemical properties challenge the use of standard toxicology assays. Here, we present a protocol that directly compares the sensitivity of X. laevis development as a tool to assess potential NP toxicity by observation of embryo phenotypic abnormalities/lethality after NP exposure to in vitro cytotoxicity obtained using mammalian cell lines. In combination with conventional cytotoxicity assays, the X. laevis phenotypic assay provides accurate data to efficiently assess the safety of a novel biomedical NP