An Aluminum Enhanced Cloud in a CIV Absorber at z = 1.94

In the z=1.94 CIV absorption line system in the spectrum of quasar Q1222+228 (z_em=2.04), we find two clouds which have contrasting physical conditions, although they are only at a 17 km/s velocity separation. In the first cloud SiII, SiIV, and CII are detected, and AlII and AlIII column density limits in conjunction with photoionization models allow us to infer that this cloud has a large Si abundance and a small Al abundance relative to a solar abundance pattern. This pattern resembles that of Galactic metal-poor halo stars, which must have formed from such high redshift gas. The second cloud, in contrast, has detected AlII and AlIII (also SiIV and CII), but no detected SiII. We demonstrate, using photoionization models, that Al/Si must be greater than (Al/Si)_Sun in this unusual cloud. Such a ratio is not found in absorption profiles looking through Milky Way gas. It cannot be explained by dust depletion since Al depletes more severely than Si. Comparing to other Al-rich environments, we speculate about the processes and conditions that could give rise to this abundance pattern.Comment: 10 pages, 2 figures, AASTEX (aaspp4), to be published in ApJ

Diversifying bioenergy crops increases yield and yield stability by reducing weed abundance

Relationships between species diversity, productivity, temporal stability of productivity, and plant invasion have been well documented in grasslands, and these relationships could translate to improved agricultural sustainability. However, few studies have explored these relationships in agricultural contexts where fertility and weeds are managed. Using 7 years of biomass yield and species composition data from 12 species mixture treatments varying in native species diversity, we found that species richness increased yield and interannual yield stability by reducing weed abundance. Stability was driven by yield as opposed to temporal variability of yield. Nitrogen fertilization increased yield but at the expense of yield stability. We show how relationships between diversity, species asynchrony, invasion, productivity, and stability observed in natural grasslands can extend into managed agricultural systems. Increasing bioenergy crop diversity can improve farmer economics via increased yield, reduced yield variability, and reduced inputs for weed control, thus promoting perennial vegetation on agricultural lands

Comprehensive Structure and Functional Adaptations of the Yeast Nuclear Pore Complex [preprint]

Nuclear Pore Complexes (NPCs) mediate the nucleocytoplasmic transport of macromolecules. Here we provide a structure of the yeast NPC in which the inner ring is resolved by cryo-EM at - helical resolution to show how flexible connectors tie together different structural and functional layers in the spoke. These connectors are targets for phosphorylation and regulated disassembly in cells with an open mitosis. Moreover, some nucleoporin pairs and karyopherins have similar interaction motifs, which suggests an evolutionary and mechanistic link between assembly and transport. We also provide evidence for three major NPC variants that foreshadow functional specializations at the nuclear periphery. Cryo-electron tomography extended these studies to provide a comprehensive model of the in situ NPC with a radially-expanded inner ring. Our model reveals novel features of the central transporter and nuclear basket, suggests a role for the lumenal ring in restricting dilation and highlights the structural plasticity required for transport by the NPC

Topoisomerase II inhibitors induce DNA damage-dependent interferon responses circumventing Ebola virus immune evasion

Ebola virus (EBOV) protein VP35 inhibits production of interferon alpha/beta (IFN) by blocking RIG-I-like receptor signaling pathways, thereby promoting virus replication and pathogenesis. A high-throughput screening assay, developed to identify compounds that either inhibit or bypass VP35 IFN-antagonist function, identified five DNA intercalators as reproducible hits from a library of bioactive compounds. Four, including doxorubicin and daunorubicin, are anthracycline antibiotics that inhibit topoisomerase II and are used clinically as chemotherapeutic drugs. These compounds were demonstrated to induce IFN responses in an ATM kinase-dependent manner and to also trigger the DNA-sensing cGAS-STING pathway of IFN induction. These compounds also suppress EBOV replication in vitro and induce IFN in the presence of IFN-antagonist proteins from multiple negative-sense RNA viruses. These findings provide new insights into signaling pathways activated by important chemotherapy drugs and identify a novel therapeutic approach for IFN induction that may be exploited to inhibit RNA virus replication

The diastereoselective Meth-Cohn epoxidation of camphor-derived vinyl sulfones

Some camphor-derived vinyl sulfones bearing oxygen functionality at the allylic position have been synthesized and their nucleophilic epoxidation reactions under Meth-Cohn conditions have been explored. The γ-oxygenated camphor-derived vinyl sulfones underwent mildly diastereoselective nucleophilic epoxidation reactions, affording the derived sulfonyloxiranes in up to 5.8:1 dr. The observed diastereoselectivities were sensitive to the reaction conditions employed. In contrast, no stereoselectivity was observed in the nucleophilic epoxidation of the corresponding γ-oxygenated isobornyl vinyl sulfone. A tentative mechanism has been proposed to explain the origins of the diastereoselectivit

AR2, a novel automatic muscle artifact reduction software method for ictal EEG interpretation: Validation and comparison of performance with commercially available software.

Objective: To develop a novel software method (AR2) for reducing muscle contamination of ictal scalp electroencephalogram (EEG), and validate this method on the basis of its performance in comparison to a commercially available software method (AR1) to accurately depict seizure-onset location. Methods: A blinded investigation used 23 EEG recordings of seizures from 8 patients. Each recording was uninterpretable with digital filtering because of muscle artifact and processed using AR1 and AR2 and reviewed by 26 EEG specialists. EEG readers assessed seizure-onset time, lateralization, and region, and specified confidence for each determination. The two methods were validated on the basis of the number of readers able to render assignments, confidence, the intra-class correlation (ICC), and agreement with other clinical findings. Results: Among the 23 seizures, two-thirds of the readers were able to delineate seizure-onset time in 10 of 23 using AR1, and 15 of 23 using AR2 (

Supramolecular clustering of the cardiac sodium channel Nav1.5 in HEK293F cells, with and without the auxiliary β3-subunit.

Voltage-gated sodium channels comprise an ion-selective α-subunit and one or more associated β-subunits. The β3-subunit (encoded by the SCN3B gene) is an important physiological regulator of the heart-specific sodium channel, Nav1.5. We have previously shown that when expressed alone in HEK293F cells, the full-length β3-subunit forms trimers in the plasma membrane. We extend this result with biochemical assays and use the proximity ligation assay (PLA) to identify oligomeric β3-subunits, not just at the plasma membrane, but throughout the secretory pathway. We then investigate the corresponding clustering properties of the α-subunit and the effects upon these of the β3-subunits. The oligomeric status of the Nav1.5 α-subunit in vivo, with or without the β3-subunit, has not been previously investigated. Using super-resolution fluorescence imaging, we show that under conditions typically used in electrophysiological studies, the Nav1.5 α-subunit assembles on the plasma membrane of HEK293F cells into spatially localized clusters rather than individual and randomly dispersed molecules. Quantitative analysis indicates that the β3-subunit is not required for this clustering but β3 does significantly change the distribution of cluster sizes and nearest-neighbor distances between Nav1.5 α-subunits. However, when assayed by PLA, the β3-subunit increases the number of PLA-positive signals generated by anti-(Nav1.5 α-subunit) antibodies, mainly at the plasma membrane. Since PLA can be sensitive to the orientation of proteins within a cluster, we suggest that the β3-subunit introduces a significant change in the relative alignment of individual Nav1.5 α-subunits, but the clustering itself depends on other factors. We also show that these structural and higher-order changes induced by the β3-subunit do not alter the degree of electrophysiological gating cooperativity between Nav1.5 α-subunits. Our data provide new insights into the role of the β3-subunit and the supramolecular organization of sodium channels, in an important model cell system that is widely used to study Nav channel behavior.We would like to thank the Gurdon Institute Imaging Facility for use of their microscope and general assistance. This work was supported by a British Heart Foundation grant (PG/14/79/31102) to APJ and CLHH, The Wellcome Trust, award number: 105727/Z/14/Z to CLHH and a Medical Research Council grant (MR/K015591/1) to CLF, RAL, and STFC

Finite temperature theory of the trapped two dimensional Bose gas

We present a Hartree-Fock-Bogoliubov (HFB) theoretical treatment of the two-dimensional trapped Bose gas and indicate how semiclassical approximations to this and other formalisms have lead to confusion. We numerically obtain results for the fully quantum mechanical HFB theory within the Popov approximation and show that the presence of the trap stabilizes the condensate against long wavelength fluctuations. These results are used to show where phase fluctuations lead to the formation of a quasicondensate.Comment: 4 pages, 3 figure

On the persistence of Cenococcum geophilum ectomycorrhizas and its implications for forest carbon and nutrient cycles

a b s t r a c t The turnover of ectomycorrhizal (EM) fungal biomass represents an important litter input into forest biogeochemical cycles. Cenococcum geophilum is a nearly ubiquitous and often abundant EM fungus, making the turnover dynamics of this species relevant and important across forest ecosystems. To better understand the turnover dynamics of C. geophilum ectomycorrhizas we examined their persistence using minirhizotron imaging and vitality status using a fluorescein diacetate (FDA) stain and contrasted these results with ectomycorrhizas of other EM fungi. Ectomycorrhizas formed by C. geophilum persisted 4e10 times longer and exhibited contrasting seasonal patterns of vitality compared to ectomycorrhizas of other EM fungi. Together, this suggests that litter resulting from the death of C. geophilum ectomycorrhizas is relatively recalcitrant to decay and may disproportionately influence forest biogeochemical cycles by retarding the rate at which carbon and nutrients are cycled

A Public–Industry Partnership for Enhancing Corn Nitrogen Research and Datasets: Project Description, Methodology, and Outcomes

Due to economic and environmental consequences of N lost from fertilizer applications in corn (Zea mays L.), considerable public and industry attention has been devoted to the development of N decision tools. Needed are research and databases and associated metadata, at numerous locations and years to represent a wide geographic range of soil and weather scenarios, for evaluating tool performance. The goals of this research were to conduct standardized corn N rate response field studies to evaluate the performance of multiple public-domain N decision tools across diverse soils and environmental conditions, develop and publish new agronomic science for improved crop N management, and train new scientists. The geographic scope, scale, and unique collaborative arrangement warrant documenting details of this research. The objectives of this paper are to describe how the research was undertaken, reasons for the methods, and the project’s anticipated value. The project was initiated in a partnership between eight U.S. Midwest land-grant universities, USDA-ARS, and DuPont Pioneer. Research using a standardized protocol was conducted over the 2014 through 2016 growing seasons, yielding a total of 49 sites. Preliminary observations of soil and crop variables measured from each site revealed a magnitude of differences in soil properties (e.g., texture and organic matter) as well as differences in agronomic and economic responses to applied N. The project has generated a valuable dataset across a wide array of weather and soils that allows investigators to perform robust evaluation of N use in corn and N decision tools