Interactions between temperature and energy supply drive microbial communities in hydrothermal sediment

Temperature and bioavailable energy control the distribution of life on Earth, and interact with each other due to the dependency of biological energy requirements on temperature. Here we analyze how temperature-energy interactions structure sediment microbial communities in two hydrothermally active areas of Guaymas Basin. Sites from one area experience advective input of thermogenically produced electron donors by seepage from deeper layers, whereas sites from the other area are diffusion-dominated and electron donor-depleted. In both locations, Archaea dominate at temperatures >45 °C and Bacteria at temperatures <10 °C. Yet, at the phylum level and below, there are clear differences. Hot seep sites have high proportions of typical hydrothermal vent and hot spring taxa. By contrast, high-temperature sites without seepage harbor mainly novel taxa belonging to phyla that are widespread in cold subseafloor sediment. Our results suggest that in hydrothermal sediments temperature determines domain-level dominance, whereas temperature-energy interactions structure microbial communities at the phylum-level and below

Whole-genome sequencing reveals host factors underlying critical COVID-19

Critical COVID-19 is caused by immune-mediated inflammatory lung injury. Host genetic variation influences the development of illness requiring critical care1 or hospitalization2,3,4 after infection with SARS-CoV-2. The GenOMICC (Genetics of Mortality in Critical Care) study enables the comparison of genomes from individuals who are critically ill with those of population controls to find underlying disease mechanisms. Here we use whole-genome sequencing in 7,491 critically ill individuals compared with 48,400 controls to discover and replicate 23 independent variants that significantly predispose to critical COVID-19. We identify 16 new independent associations, including variants within genes that are involved in interferon signalling (IL10RB and PLSCR1), leucocyte differentiation (BCL11A) and blood-type antigen secretor status (FUT2). Using transcriptome-wide association and colocalization to infer the effect of gene expression on disease severity, we find evidence that implicates multiple genes—including reduced expression of a membrane flippase (ATP11A), and increased expression of a mucin (MUC1)—in critical disease. Mendelian randomization provides evidence in support of causal roles for myeloid cell adhesion molecules (SELE, ICAM5 and CD209) and the coagulation factor F8, all of which are potentially druggable targets. Our results are broadly consistent with a multi-component model of COVID-19 pathophysiology, in which at least two distinct mechanisms can predispose to life-threatening disease: failure to control viral replication; or an enhanced tendency towards pulmonary inflammation and intravascular coagulation. We show that comparison between cases of critical illness and population controls is highly efficient for the detection of therapeutically relevant mechanisms of disease

Phenylglyoxal-based visualization of citrullinated proteins on Western blots

Contains fulltext : 152578.pdf (publisher's version ) (Open Access)Citrullination is the conversion of peptidylarginine to peptidylcitrulline, which is catalyzed by peptidylarginine deiminases. This conversion is involved in different physiological processes and is associated with several diseases, including cancer and rheumatoid arthritis. A common method to detect citrullinated proteins relies on anti-modified citrulline antibodies directed to a specific chemical modification of the citrulline side chain. Here, we describe a versatile, antibody-independent method for the detection of citrullinated proteins on a membrane, based on the selective reaction of phenylglyoxal with the ureido group of citrulline under highly acidic conditions. The method makes use of 4-azidophenylglyoxal, which, after reaction with citrullinated proteins, can be visualized with alkyne-conjugated probes. The sensitivity of this procedure, using an alkyne-biotin probe, appeared to be comparable to the antibody-based detection method and independent of the sequence surrounding the citrulline

Introducing IT-Based environmental simulation courses at Slovak technical universities

Since the 1995/96 academic year, four Slovak universities (Slovak Technical University Bratislava, Technical University Kosice, Slovak Agricultural University Nitra and Technical University Zvolen) in cooperation with two EU universities (University of Strathclyde Glasgow and Eindhoven University of Technology) have prepared IT- based environmental simulation courses in the framework of the TEMPUS Structural Joint European Project S_JEP 09909-95. This project aims to develop and introduce building performance simulation courses that are integrated and highly interdisciplinary in their content, involving architecture, building engineering, environmental engineering and mechanical engineering. To achieve this aim, course materials are made available through the World Wide Web. In addition, the project required the establishment of IT laboratories, development of new courses, staff retraining, and collaboration with local industrial partners. This paper presents current results of TEMPUS project which is funded through European Training Foundation in Torino

A delayed antioxidant response in heat-stressed cells expressing a non-DNA binding HSF1 mutant

To assess the consequences of inactivation of heat shock factor 1 (HSF1) during aging, we analyzed the effect of HSF1 K80Q, a mutant unable to bind DNA, and of dnHSF1, a mutant lacking the activation domain, on the transcriptome of cells 6 and 24 h after heat shock. The primary response to heat shock (6 h recovery), of which 30 % was HSF1-dependent, had decayed 24 h after heat shock in control cells but was extended in HSF1 K80Q and dnHSF1 cells. Comparison with literature data showed that even the HSF1 dependent primary stress response is largely cell specific. HSF1 K80Q, but not HSF1 siRNA-treated, cells showed a delayed stress response: an increase in transcript levels of HSF1 target genes 24 h after heat stress. Knockdown of NRF2, but not of ATF4, c-Fos or FosB, inhibited this delayed stress response. EEF1D_L siRNA inhibited both the delayed and the extended primary stress responses, but had off target effects. In control cells an antioxidant response (ARE binding, HMOX1 mRNA levels) was detected 6 h after heat shock; in HSF1 K80Q cells this response was delayed to 24 h and the ARE complex had a different mobility. Inactivation of HSF1 thus affects the timing and nature of the antioxidant response and NRF2 can activate at least some HSF1 target genes in the absence of HSF1 activity. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s12192-012-0400-0) contains supplementary material, which is available to authorized users

Introducing IT-Based environmental simulation courses at Slovak technical universities

Since the 1995/96 academic year, four Slovak universities (Slovak Technical University Bratislava, Technical University Kosice, Slovak Agricultural University Nitra and Technical University Zvolen) in cooperation with two EU universities (University of Strathclyde Glasgow and Eindhoven University of Technology) have prepared IT- based environmental simulation courses in the framework of the TEMPUS Structural Joint European Project S_JEP 09909-95. This project aims to develop and introduce building performance simulation courses that are integrated and highly interdisciplinary in their content, involving architecture, building engineering, environmental engineering and mechanical engineering. To achieve this aim, course materials are made available through the World Wide Web. In addition, the project required the establishment of IT laboratories, development of new courses, staff retraining, and collaboration with local industrial partners. This paper presents current results of TEMPUS project which is funded through European Training Foundation in Torino

Aerosol fluxes and particle growth above managed grassland

Particle deposition velocities (11–3000 nm diameter) measured above grassland by eddy covariance during the EU GRAMINAE experiment in June 2000 averaged 0.24 and 0.03 mm s−1 to long (0.75 m) and short (0.07 m) grass, respectively. After fertilisation with 108 kg N ha−1 as calcium ammonium nitrate, sustained apparent upward fluxes of particles were observed. Analysis of concentrations and fluxes of potential precursor gases, including NH3, HNO3, HCl and selected VOCs, shows that condensation of HNO3 and NH3 on the surface of existing particles is responsible for this effect. A novel approach is developed to derive particle growth rates at the field scale, from a combination of measurements of vertical fluxes and particle size-distributions. For the first 9 days after fertilization, growth rates of 11 nm particles of 7.04 nm hr−1 and 1.68 nm hr−1 were derived for day and night-time conditions, respectively. This implies total NH4NO3 production rates of 1.11 and 0.44 μg m−3 h−1, respectively. The effect translates into a small error in measured ammonia fluxes (0.06% day, 0.56% night) and a large error in NH4+ and NO3− aerosol fluxes of 3.6% and 10%, respectively. By converting rapidly exchanged NH3 and HNO3 into slowly depositing NH4NO3, the reaction modifies the total N budget, though this effect is small (<1% for the 10 days following fertilization), as NH3 emission dominates the net flux. It is estimated that 3.8% of the fertilizer N was volatilised as NH3, of which 0.05% re-condensed to form NH4NO3 particles within the lowest 2 m of the surface layer. This surface induced process would at least scale up to a global NH4NO3 formation of ca. 0.21 kt N yr−1 from NH4NO3 fertilisers and potentially 45 kt N yr−1 from NH3 emissions in general. [Abstract from: http://www.biogeosciences.net/6/1627/2009/bg-6-1627-2009.html