ClgR regulation of chaperone and protease systems is essential for Mycobacterium tuberculosis parasitism of the macrophage

Chaperone and protease systems play essential roles in cellular homeostasis and have vital functions in controlling the abundance of specific cellular proteins involved in processes such as transcription, replication, metabolism and virulence. Bacteria have evolved accurate regulatory systems to control the expression and function of chaperones and potentially destructive proteases. Here, we have used a combination of transcriptomics, proteomics and targeted mutagenesis to reveal that the clp gene regulator (ClgR) of Mycobacterium tuberculosis activates the transcription of at least ten genes, including four that encode protease systems (ClpP1/C, ClpP2/C, PtrB and HtrA-like protease Rv1043c) and three that encode chaperones (Acr2, ClpB and the chaperonin Rv3269). Thus, M. tuberculosis ClgR controls a larger network of protein homeostatic and regulatory systems than ClgR in any other bacterium studied to date. We demonstrate that ClgR-regulated transcriptional activation of these systems is essential for M. tuberculosis to replicate in macrophages. Furthermore, we observe that this defect is manifest early in infection, as M. tuberculosis lacking ClgR is deficient in the ability to control phagosome pH 1 h post-phagocytosis

Mycobacterium tuberculosis and the host response

Mycobacterium tuberculosis remains a leading cause of morbidity and mortality worldwide. Advances reported at a recent international meeting highlight insights and controversies in the genetics of M. tuberculosis and the infected host, the nature of protective immune responses, adaptation of the bacillus to host-imposed stresses, animal models, and new techniques

Influence of organic and mineral amendments on soil microbial properties and processes

Microbial diversity in soils is considered important for maintaining sustainability of agricultural production systems. However, the links between microbial diversity and ecosystem processes are not well understood. This study was designed to gain better understanding of the effects of short-term management practices on the microbial community and how changes in the microbial community affect key soil processes. The effects of different forms of nitrogen (N) on soil biology and N dynamics was determined in two soils with organic and conventional management histories that varied in soil microbial properties but had the same fertility. The soils were amended with equal amounts of N (100 kg ha−1) in organic (lupin, Lupinus angustifolius L.) and mineral form (urea), respectively. Over a 91-day period, microbial biomass C and N, dehydrogenase enzyme activity, community structure of pseudomondas (sensu stricto), actinomycetes and α proteobacteria (by denaturing gradient gel electrophoresis (DGGE) following PCR amplification of 16S rDNA fragments) and N mineralisation were measured. Lupin amendment resulted in a two- to five-fold increase in microbial biomass and enzyme activity, while these parameters did not differ significantly between the urea and control treatments. The PCR–DGGE analysis showed that the addition of mineral and organic compounds had an influence on the microbial community composition in the short term (up to 10 days) but the effects were not sustained over the 91-day incubation period. Microbial community structure was strongly influenced by the presence or lack of substrate, while the type of amendment (organic or mineral) had an effect on microbial biomass size and activity. These findings show that the addition of green manures improved soil biology by increasing microbial biomass and activity irrespective of management history, that no direct relationship existed among microbial structure, enzyme activity and N mineralisation, and that microbial community structure (by PCR–DGGE) was more strongly influenced by inherent soil and environmental factors than by short-term management practices

Effects of past and current management practices on crop yield and nitrogen leaching - a comparison of organic and conventional cropping systems

Farming practices can have significant effects on important soil processes, including nitrogen (N) dynamics and nitrate leaching. A lysimeter experiment was conducted to determine differences in N leaching resulting from past and current crop management practices. Intact monolith lysimeters (50 cm diam. × 70 cm deep) were taken from sites of the same soil type that had either been under long-term organic or conventional crop management. These were then managed according to established organic and conventional practices over 2 1/2 years using the same crop rotation (barley (Hordeum vulgare L.), maize (Zea mays L.), rape (Brassica napus L. ssp. oleifera) plus a lupin green manure (Lupinus angustifolius L.)) and two fertiliser regimes, resulting in four treatments based on soil management history and current fertilisation strategy. Dry matter yield of each crop was determined after harvest and leachates were collected after significant rainfall events and analysed for total mineral N concentrations. Mineral fertilisation had a clear positive effect on yields of the first crop, whereas there were no considerable differences between treatments for the last crop owing to a significant positive effect of green manure incorporation on yields. Although there was a trend of lower mineral N leaching from organically fertilised soils (organic management: 24.2 kg N ha–1; conventional management: 28.6), differences in N losses were not statistically significant between treatments. This shows that under the experimental conditions, leaching losses and crop yields were more strongly influenced by crop rotation and green manuring than by the presence or absence of mineral fertilisation. Overall, the study highlights the benefits of including a green manure in the crop rotation of any farming system

Effects of past and current management practices on crop yield and nitrogen leaching - a comparison of organic and conventional cropping systems

Farming practices can have significant effects on important soil processes, including nitrogen (N) dynamics and nitrate leaching. A lysimeter experiment was conducted to determine differences in N leaching resulting from past and current crop management practices. Intact monolith lysimeters (50 cm diam. × 70 cm deep) were taken from sites of the same soil type that had either been under long-term organic or conventional crop management. These were then managed according to established organic and conventional practices over 2 1/2 years using the same crop rotation (barley (Hordeum vulgare L.), maize (Zea mays L.), rape (Brassica napus L. ssp. oleifera) plus a lupin green manure (Lupinus angustifolius L.)) and two fertiliser regimes, resulting in four treatments based on soil management history and current fertilisation strategy. Dry matter yield of each crop was determined after harvest and leachates were collected after significant rainfall events and analysed for total mineral N concentrations. Mineral fertilisation had a clear positive effect on yields of the first crop, whereas there were no considerable differences between treatments for the last crop owing to a significant positive effect of green manure incorporation on yields. Although there was a trend of lower mineral N leaching from organically fertilised soils (organic management: 24.2 kg N ha–1; conventional management: 28.6), differences in N losses were not statistically significant between treatments. This shows that under the experimental conditions, leaching losses and crop yields were more strongly influenced by crop rotation and green manuring than by the presence or absence of mineral fertilisation. Overall, the study highlights the benefits of including a green manure in the crop rotation of any farming system

Debris disk size distributions: steady state collisional evolution with P-R drag and other loss processes

We present a new scheme for determining the shape of the size distribution, and its evolution, for collisional cascades of planetesimals undergoing destructive collisions and loss processes like Poynting-Robertson drag. The scheme treats the steady state portion of the cascade by equating mass loss and gain in each size bin; the smallest particles are expected to reach steady state on their collision timescale, while larger particles retain their primordial distribution. For collision-dominated disks, steady state means that mass loss rates in logarithmic size bins are independent of size. This prescription reproduces the expected two phase size distribution, with ripples above the blow-out size, and above the transition to gravity-dominated planetesimal strength. The scheme also reproduces the expected evolution of disk mass, and of dust mass, but is computationally much faster than evolving distributions forward in time. For low-mass disks, P-R drag causes a turnover at small sizes to a size distribution that is set by the redistribution function (the mass distribution of fragments produced in collisions). Thus information about the redistribution function may be recovered by measuring the size distribution of particles undergoing loss by P-R drag, such as that traced by particles accreted onto Earth. Although cross-sectional area drops with 1/age^2 in the PR-dominated regime, dust mass falls as 1/age^2.8, underlining the importance of understanding which particle sizes contribute to an observation when considering how disk detectability evolves. Other loss processes are readily incorporated; we also discuss generalised power law loss rates, dynamical depletion, realistic radiation forces and stellar wind drag.Comment: Accepted for publication by Celestial Mechanics and Dynamical Astronomy (special issue on EXOPLANETS

Dynamic interactions in contentious episodes: social movements, industry, and political parties in the contention over Heathrow’s third runway

While the literature on dynamics of contention has proliferated, its focus on movement onset, mobilisation, and outcomes could be used to understand interactions between actors during episodes of contention. While the authors of Dynamics of Contention acknowledge the importance of these interactions, more insight is needed into what shapes these relations and how they change over time. Here, an attempt is made to test the dynamic model as it pertains to interactions, utilising the case of the proposed third runway at Heathrow airport, which included a variety of environmental campaigners, powerful corporations, political actors and parties, and a countermovement. The campaign is broken down into phases that represent the predominant interactions between actors, and the process of phase changes is explained using a process-tracing approach. The findings highlight the importance of cognitive mechanisms over objective factors. However, explanations offered by more static models retain some explanatory power and therefore should not be discarded altogether

Double-Spin Asymmetry in the Cross Section for Exclusive rho^0 Production in Lepton-Proton Scattering

Evidence for a positive longitudinal double-spin asymmetry = 0.24 +-0.11 (stat) +-0.02 (syst) in the cross section for exclusive diffractive rho^0(770) vector meson production in polarised lepton-proton scattering was observed by the HERMES experiment. The longitudinally polarised 27.56 GeV HERA positron beam was scattered off a longitudinally polarised pure hydrogen gas target. The average invariant mass of the photon-proton system has a value of = 4.9 GeV, while the average negative squared four-momentum of the virtual photon is = 1.7 GeV^2. The ratio of the present result to the corresponding spin asymmetry in inclusive deep-inelastic scattering is in agreement with an early theoretical prediction based on the generalised vector meson dominance model.Comment: 10 pages, 4 embedded figures, LaTe

The Q2Q^2-dependence of the generalised Gerasimov-Drell-Hearn integral for the deuteron, proton and neutron

The Gerasimov-Drell-Hearn (GDH) sum rule connects the anomalous contribution to the magnetic moment of the target nucleus with an energy-weighted integral of the difference of the helicity-dependent photoabsorption cross sections. The data collected by HERMES with a deuterium target are presented together with a re-analysis of previous measurements on the proton. This provides a measurement of the generalised GDH integral covering simultaneously the nucleon-resonance and the deep inelastic scattering regions. The contribution of the nucleon-resonance region is seen to decrease rapidly with increasing $Q^2$. The DIS contribution is sizeable over the full measured range, even down to the lowest measured $Q^2$. As expected, at higher $Q^2$ the data are found to be in agreement with previous measurements of the first moment of $g_1$. From data on the deuteron and proton, the GDH integral for the neutron has been derived and the proton--neutron difference evaluated. This difference is found to satisfy the fundamental Bjorken sum rule at $Q^2 = 5$ GeV$^2$.Comment: 12 pages, 10 figure