A global analysis of protein expression profiles in Sinorhizobium meliloti: Discovery of new genes for nodule occupancy and stress adaptation

A proteomic examination of Sinorhizobium meliloti strain 1021 was undertaken using a combination of 2-D gel electrophoresis, peptide mass fingerprinting, and bioinformatics. Our goal was to identify (i) putative symbiosis- or nutrientstress-specific proteins, (ii) the biochemical pathways active under different conditions, (iii) potential new genes, and (iv) the extent of posttranslational modifications of S. meliloti proteins. In total, we identified the protein products of 810 genes (13.1% of the genome's coding capacity). The 810 genes generated 1,180 gene products, with chromosomal genes accounting for 78% of the gene products identified (18.8% of the chromosome's coding capacity). The activity of 53 metabolic pathways was inferred from bioinformatic analysis of proteins with assigned Enzyme Commission numbers. Of the remaining proteins that did not encode enzymes, ABC-type transporters composed 12.7% and regulatory proteins 3.4% of the total. Proteins with up to seven transmembrane domains were identified in membrane preparations. A total of 27 putative nodulespecific proteins and 35 nutrient-stress-specific proteins were identified and used as a basis to define genes and describe processes occurring in S. meliloti cells in nodules and under stress. Several nodule proteins from the plant host were present in the nodule bacteria preparations. We also identified seven potentially novel proteins not predicted from the DNA sequence. Post-translational modifications such as N-terminal processing could be inferred from the data. The posttranslational addition of UMP to the key regulator of nitrogen metabolism, PII, was demonstrated. This work demonstrates the utility of combining mass spectrometry with protein arraying or separation techniques to identify candidate genes involved in important biological processes and niche occupations that may be intransigent to other methods of gene expression profiling

The science program of the TCV tokamak: Exploring fusion reactor and power plant concepts

TCV is acquiring a new 1 MW neutral beam and 2 MW additional third-harmonic electron cyclotron resonance heating (ECRH) to expand its operational range. Its existing shaping and ECRH launching versatility was amply exploited in an eclectic 2013 campaign. A new sub-ms real-time equilibrium reconstruction code was used in ECRH control of NTMs and in a prototype shape controller. The detection of visible light from the plasma boundary was also successfully used in a position-control algorithm. A new bang-bang controller improved stability against vertical displacements. The RAPTOR real-time transport simulator was employed to control the current density profile using electron cyclotron current drive. Shot-by-shot internal inductance optimization was demonstrated by iterative learning control of the current reference trace. Systematic studies of suprathermal electrons and ions in the presence of ECRH were performed. The L-H threshold power was measured to be ∼50-75% higher in both H and He than D, to increase with the length of the outer separatrix, and to be independent of the current ramp rate. Core turbulence was found to decrease from positive to negative edge triangularity deep into the core. The geodesic acoustic mode was studied with multiple diagnostics, and its axisymmetry was confirmed by a full toroidal mapping of its magnetic component. A new theory predicting a toroidal rotation component at the plasma edge, driven by inhomogeneous transport and geodesic curvature, was tested successfully. A new high-confinement mode (IN-mode) was found with an edge barrier in density but not in temperature. The edge gradients were found to govern the scaling of confinement with current, power, density and triangularity. The dynamical interplay of confinement and magnetohydrodynamic modes leading to the density limit in TCV was documented. The heat flux profile decay lengths and heat load profile on the wall were documented in limited plasmas. In the snowflake (SF) divertor configuration the heat flux profiles were documented on all four strike points. SF simulations with the EMC3-EIRENE code, including the physics of the secondary separatrix, underestimate the flux to the secondary strike points, possibly resulting from steady-state E × B drifts. With neon injection, radiation in a SF was 15% higher than in a conventional divertor. The novel triple-null and X-divertor configurations were also achieved in TCV

Initial sequencing and analysis of the human genome

The human genome holds an extraordinary trove of information about human development, physiology, medicine and evolution. Here we report the results of an international collaboration to produce and make freely available a draft sequence of the human genome. We also present an initial analysis of the data, describing some of the insights that can be gleaned from the sequence

Runaway electron beam control

Post-disruption runaway electron (RE) beams in tokamaks with large current can cause deep melting of the vessel and are one of the major concerns for ITER operations. Consequently, a considerable effort is provided by the scientific community in order to test RE mitigation strategies. We present an overview of the results obtained at FTU and TCV controlling the current and position of RE beams to improve safety and repeatability of mitigation studies such as massive gas (MGI) and shattered pellet injections (SPI). We show that the proposed RE beam controller (REB-C) implemented at FTU and TCV is effective and that current reduction of the beam can be performed via the central solenoid reducing the energy of REs, providing an alternative/parallel mitigation strategy to MGI/SPI. Experimental results show that, meanwhile deuterium pellets injected on a fully formed RE beam are ablated but do not improve RE energy dissipation rate, heavy metals injected by a laser blow off system on low-density flat-top discharges with a high level of RE seeding seem to induce disruptions expelling REs. Instabilities during the RE beam plateau phase have shown to enhance losses of REs, expelled from the beam core. Then, with the aim of triggering instabilities to increase RE losses, an oscillating loop voltage has been tested on RE beam plateau phase at TCV revealing, for the first time, what seems to be a full conversion from runaway to ohmic current. We finally report progresses in the design of control strategies at JET in view of the incoming SPI mitigation experiments