Structure of the PII signal transduction protein of Neisseria meningitidis at 1.85 Ȃ resolution

Copyright @ 2006 International Union of CrystallographyThe PII signal transduction proteins GlnB and GlnK are implicated in the regulation of nitrogen assimilation in Escherichia coli and other enteric bacteria. PII-like proteins are widely distributed in bacteria, archaea and plants. In contrast to other bacteria, Neisseria are limited to a single PII protein (NMB 1995), which shows a high level of sequence identity to GlnB and GlnK from Escherichia coli (73 and 62%, respectively). The structure of the PII protein from N. meningitidis (serotype B) has been solved by molecular replacement to a resolution of 1.85 Ȃ. Comparison of the structure with those of other PII proteins shows that the overall fold is tightly conserved across the whole population of related proteins, in particular the positions of the residues implicated in ATP binding. It is proposed that the Neisseria PII protein shares functions with GlnB/GlnK of enteric bacteria.This study is funded by the Medical Research Council UK and Europe (SPINE) consortium (European Commission Grant No. QLG2-CT-2002-00988)

Genomic Prediction of Testcross Performance in Canola (Brassica napus)

The work was funded by Deutsche Forschungsgemeinschaft (DFG) grant SN14/16-1 to RS and funding to RN, RS, and HJ from the European Union FP7 Marie Curie Initial Training Network INTERCROSSING

Pallasite paleomagnetism: Quiescence of a core dynamo

Recent paleomagnetic studies of two Main Group pallasites, the Imilac and Esquel, have found evidence for a strong, late-stage magnetic field on the parent body. It has been hypothesized that this magnetic field was generated by a core dynamo, driven by compositional convection during core solidification. Cooling models suggest that the onset of core solidification occurred ∼200 Ma after planetary accretion. Prior to core solidification, a core dynamo may have been generated by thermal convection; however a thermal dynamo is predicted to be short-lived, with a duration of ∼10 Ma to ∼40 Ma after planetary accretion. These models predict, therefore, a period of quiescence between the thermally driven dynamo and the compositionally driven dynamo, when no core dynamo should be active. To test this hypothesis, we have measured the magnetic remanence recorded by the Marjalahti and Brenham pallasites, which based on cooling-rate data locked in any magnetic field signals present ∼95 Ma to ∼135 Ma after planetary accretion, before core solidification began. The cloudy zone, a region of nanoscale tetrataenite islands within a Fe-rich matrix was imaged using X-ray photoemission electron microscopy. The recovered distribution of magnetisation within the cloudy zone suggests that the Marjalahti and Brenham experienced a very weak magnetic field, which may have been induced by a crustal remanence, consistent with the predicted lack of an active core dynamo at this time. We show that the transition from a quiescent period to an active, compositionally driven dynamo has a distinctive paleomagnetic signature, which may be a crucial tool for constraining the time of core solidification on differentiated bodies, including Earth.We acknowledge the Helmholtz-Zentrum Berlin for the use of the synchrotron radiation beam time at beamline UE49 of BESSY II. The research leading to these results has received funding from the European Research Council under the European Union’s Seventh Framework Programme (FP/2007-2013)/ERC grant agreement numbers 320750 and 312284, and the Natural Environment Research Council. We thank the Natural History Museum, London for samples.This is the final version of the article. It first appeared from Elsevier via https://doi.org/10.1016/j.epsl.2016.02.03

Effects of asymmetric contacts on single molecule conductances of HS(CH2)nCOOH in nano-electrical junctions

A scanning tunnelling microscope has been used to determine the conductance of single molecular wires with the configuration X-bridge-X, X-bridge-Y and Y-bridge-Y (X = thiol terminus and Y = COOH). We find that for molecular wires with mixed functional groups (X-bridge-Y) the single molecule conductance decreases with respect to the comparable symmetric molecules. These differences are confirmed by theoretical computations based on a combination of density functional theory and the non-equilibrium Green functions formalism. This study demonstrates that the apparent contact resistance, as well as being highly sensitive to the type of the anchoring group is also strongly influenced by contact-asymmetry of the single molecular junction which in this case decreases the transmission. This highlights that contact asymmetry is a significant factor to be considered when evaluating nano-electrical junctions incorporating single molecules

Gateway state-mediated, long-range tunnelling in molecular wires

If the factors controlling the decay in single-molecule electrical conductance G with molecular length L could be understood and controlled, then this would be a significant step forward in the design of high-conductance molecular wires. For a wide variety of molecules conducting by phase coherent tunneling, conductance G decays with length following the relationship G = Aexp-\b{\eta}L. It is widely accepted that the attenuation coefficient \b{\eta} is determined by the position of the Fermi energy of the electrodes relative to the energy of frontier orbitals of the molecular bridge, whereas the terminal anchor groups which bind to the molecule to the electrodes contribute to the pre-exponential factor A. We examine this premise for several series of molecules which contain a central conjugated moiety (phenyl, viologen or {\alpha}-terthiophene) connected on either side to alkane chains of varying length, with each end terminated by thiol or thiomethyl anchor groups. In contrast with this expectation, we demonstrate both experimentally and theoretically that additional electronic states located on thiol anchor groups can significantly decrease the value of \b{eta}, by giving rise to resonances close to EF through coupling to the bridge moiety. This interplay between the gateway states and their coupling to a central conjugated moiety in the molecular bridges creates a new design strategy for realising higher-transmission molecular wires by taking advantage of the electrode-molecule interface properties

Aquaculture-derived trophic subsidy boosts populations of an ecosystem engineer

Environmental management of coastal aquaculture is focused on acute impacts of organic and nitrogenous wastes close to farms. However, the energy-rich trophic subsidy that aquaculture provides may create cascades with influences over broader spatial scales. In a fjord region with intensive fish farming, we tested whether an ecosystem engineer, the white urchin Gracilechinus acutus, was more abundant at aquaculture sites than control sites. Further, we tested whether diets influenced by aquaculture waste altered reproductive outputs compared with natural diets. Urchins formed barrens at aquaculture sites where they were 10 times more abundant (38 urchins m-2) than at control sites (4 urchins m-2). Urchins were on average 15 mm larger at control sites. In the laboratory, urchins fed aquafeed diets had 3 times larger gonad indices than urchins fed a natural diet. However, their reproduction was compromised. Eggs from females fed an aquafeed diet had 13% lower fertilisation success and 30% lower larval survival rates at 10 d compared with females fed a natural diet. A reproductive output model showed that enhanced numbers of 10 d old larvae produced by the dense aquaculture-associated aggregations of G. acutus will supersede any detrimental effects on reproduction, with larval outputs from aquaculture sites being on average 5 times greater than control sites. The results show that aquaculture waste can act as a trophic subsidy in fjord ecosystems, stimulating aggregations of urchins and promoting the formation of urchin barrens. Where finfish aquaculture is concentrated, combined effects on the wider environment may produce ecosystem-level consequences

Is thirty-seven years sufficient for full return of the ant biota following restoration?

Introduction: An assessment of whether rehabilitated mine sites have resulted in natural or novel ecosystems requires monitoring over considerable periods of time or the use of space-for-time substitution (chronosequence) approaches. Methods: To provide an assessment of ecosystem recovery in areas mined for bauxite in 1975, the ant fauna of one area planted with Eucalyptus resinifera, one seeded with mixed native species, one topsoiled but unrestored, and a forest reference was subjected to a ‘long-term’ study by sampling monthly and latterly annually between 1976 and 1989 using pitfall traps. These plots were resampled in 2012. A companion ‘short-term’ chronosequence study was performed in 1979 in 28 bauxite mines of various ages and restored by a range of different methods, plus three forest references. In order to examine the assertion that the observed differences between restored areas and forest references will lessen with time, sampling using comparable methods was repeated in 2012 in seven of the original plots, representing progressive advances in rehabilitation technology: planted pines; planted eastern states eucalypts; planted native eucalypts; planted eucalypts over seeded understorey; and planted eucalypts on fresh, double-stripped topsoil, plus two forest reference sites. Results: Ant and other invertebrate richness in the long-term study was initially superior in the seeded plot, with little difference between the planted and unplanted plots. It was concluded that although composition of the ant fauna had converged on that of the forest over the 14-year period, differences still persisted.The 2012 resampling revealed that ant species richness and composition had deteriorated in the seeded plot, while values in the unplanted plot, which now supported naturally colonised trees and an understorey, had increased. Differences between all rehabilitated plots and forest still persisted. As with the long-term study, the rate of fauna return and the type of ants present in the short-term study plots differed with the method of rehabilitation used, and, in 1979, no plots had converged on the forest in terms of the ant assemblage. By 2012 ant richness increased, and more so with each advance in rehabilitation technology, except for seeding, in which the understorey had collapsed. Double-stripping of topsoil resulted in the greatest improvements in ant species richness, although none of the areas had converged on the forest reference areas in terms of assemblage composition or ant functional group profiles. Furthermore, assemblage composition in the forest had changed over time, possibly due to reductions in rainfall, which further complicates rehabilitation objectives. Conclusions: It is concluded that although rehabilitation can achieve its objective of restoring diversity, the original assemblage has still not been achieved after 37 years, suggesting that a degree of novelty has been introduced into these older-style rehabilitated areas. The company’s current rehabilitation practices reflect multiple advances in their approach, lending optimism that current restoration may achieve something close to the original ecosystem, an outcome that can only be verified by extended studies like the one described here

Field Response of Magnetic Vortices in Dusty Olivine From the Semarkona Chondrite

Recent paleomagnetic studies have constrained the strength and longevity of the magnetic field generated by the solar nebula, which has broad implications for the early evolution of the solar system. Paleomagnetic evidence was recorded by nanoscale iron inclusions in olivine crystals in the Semarkona LL 3.0 chondrite. These dusty olivines, have been shown to be credible carriers of ancient magnetic remanence. The small scale of the iron inclusions presents several challenges for defining their fundamental magnetic properties. Here we present the first correlative study of the response of these magnetic structures under applied laboratory fields. Results show that the majority of particles are in a single‐vortex state and exhibit stable magnetic behavior in applied fields up to 200 mT. Experimental observations using Lorentz microscopy and magnetic transmission X‐ray microscopy are shown to compare well with the results of finite‐element micromagnetic simulations derived from 3D models of the particles obtained using electron tomography. This correlative approach may be used to characterize the fundamental magnetic behavior of many terrestrial and extraterrestrial paleomagnetic carriers in the single‐ to multi‐vortex size range, which represent the vast majority of stable magnetic carriers in rocks and meteorites.ERC Grant Agreement No. 32075

A new cell primo-culture method for freshwater benthic diatom communities

A new cell primo-culture method was developed for the benthic diatom community isolated from biofilm sampled in rivers. The approach comprised three steps: (1) scraping biofilm from river pebbles, (2) diatom isolation from biofilm, and (3) diatom community culture. With a view to designing a method able to stimulate the growth of diatoms, to limit the development of other microorganisms, and to maintain in culture a community similar to the original natural one, different factors were tested in step 3: cell culture medium (Chu No 10 vs Freshwater “WC” medium modified), cell culture vessel, and time of culture. The results showed that using Chu No 10 medium in an Erlenmeyer flask for cell culture was the optimal method, producing enough biomass for ecotoxicological tests as well as minimising development of other microorganisms. After 96 h of culture, communities differed from the original communities sampled in the two rivers studied. Species tolerant of eutrophic or saprobic conditions were favoured during culture. This method of diatom community culture affords the opportunity to assess, in vitro, the effects of different chemicals or effluents (water samples andindustrial effluents) on diatom communities, as well as on diatom cells, from a wide range of perspectives