Overcoming barriers to membrane protein structure determination

After decades of slow progress, the pace of research on membrane protein structures is beginning to quicken thanks to various improvements in technology, including protein engineering and microfocus X-ray diffraction. Here we review these developments and, where possible, highlight generic new approaches to solving membrane protein structures based on recent technological advances. Rational approaches to overcoming the bottlenecks in the field are urgently required as membrane proteins, which typically comprise ~30% of the proteomes of organisms, are dramatically under-represented in the structural database of the Protein Data Bank.

State-of-the-art of fast pyrolysis in IEA bioenergy member countries

Fast pyrolysis of biomass is becoming increasingly important in some member countries of the International Energy Agency (IEA). Six countries have joined the IEA Task 34 of the Bioenergy Activity: Canada, Finland, Germany, Netherlands, UK, and USA. The National Task Leaders give an overview of the current activities in their countries both on research, pilot and demonstration level. © 2012 Elsevier Ltd.

Accuracy and optimal sampling in Monte Carlo solution of population balance equations

Implementation of a Monte Carlo simulation for the solution of population balance equations (PBEs) requires choice of initial sample number (N0), number of replicates (M), and number of bins for probability distribution reconstruction (n). It is found that Squared Hellinger Distance, H2, is a useful measurement of the accuracy of Monte Carlo (MC) simulation, and can be related directly to N0, M, and n. Asymptotic approximations of H2 are deduced and tested for both one-dimensional (1-D) and 2-D PBEs with coalescence. The central processing unit (CPU) cost, C, is found in a power-law relationship, C= aMNb0, with the CPU cost index, b, indicating the weighting of N0 in the total CPU cost. n must be chosen to balance accuracy and resolution. For fixed n, M × N0 determines the accuracy of MC prediction; if b > 1, then the optimal solution strategy uses multiple replications and small sample size. Conversely, if 0 < b < 1, one replicate and a large initial sample size is preferred. © 2015 American Institute of Chemical Engineers AIChE J, 61: 2394–2402, 2015

Physical oceanography during POLARSTERN cruise ARK-XIX/4b

Exchanges between the North Atlantic and the Arctic Ocean result in the most dramatic water mass conversions in the World Ocean: warm and saline Atlantic waters, flowing through the Nordic Seas into the Arctic Ocean, are modified by cooling, freezing and melting to become shallow fresh waters, ice and saline deep waters. The outflow from the Nordic Seas to the south provides the initial driving of the global thermohaline circulation cell. Knowledge of these fluxes and understanding of the modification processes is a major prerequisite for the quantification of the rate of overturning within the large circulation cells of the Arctic and the Atlantic Oceans, and is also a basic requirement for understanding the role of these ocean areas in climate variability on interannual to decadal time scales. The Fram Strait represents the only deep connection between the Arctic Ocean and the Nordic Seas. Just as the freshwater transport from the Arctic Ocean is of major influence on convection in the Nordic Seas and further south, the transport of warm and saline Atlantic water affects the water mass characteristics in the Arctic Ocean which has consequences for the internal circulation and possibly influences also ice and atmosphere. The West Spitsbergen Current carrying Atlantic Water northward. The East Greenland Current, carrying water from the Arctic Ocean southwards has a concentrated core above the continental slope. It is our aim to measure the oceanic fluxes through Fram Strait and to determine their variability in seasonal to decadal time scales. 53 CTD profiles were taken at 51 stations. Two CTD systems from Sea-Bird Electronics Inc SBE911+ were used. Mainly SN 561 with duplicate T and C sensors (temperature sensors SBE3, SN 2685 and 2678, conductivity sensors SBE4, SN 2325 and 2618 and pressure sensor Digiquartz 410K-105 SN 75659) was in service. For the control of the temperature sensors a SBE35 RT digital reversing thermometer, SN 27 was applied. The CTD was connected to a SBE32 Carousel Water Sampler, SN 273 (24 12-liter bottles). For 3 CTD-Stations (726-3, 727-1, 728-1) the Sea-Bird 911+ probe SN 485 was used with temperature sensor SBE3 SN 2460, conductivity sensor SBE4 SN 2054, pressure sensor Digiquartz 410K SN 68997 and the SBE32 Carousel Water Sampler SN 202. Additionally Benthos Altimeters Model 2110-2, SN 189 and SN 208 and Wetlabs C-Star Transmissiometers SN 403 and SN 267 were mounted on the carousels. During the cruise a total number of 184 water samples were analysed with a Guildline Autosal 8400B salinometer, and IAPSO standard seawater batch number P141, K=0.99993. 20 salinity samples were brought back to AWI for onshore analysis. The CTD sensors were calibrated before and after the cruise by Sea-Bird Electronics.

On the mobility, membrane location and functionality of mechanosensitive channels in Escherichia coli

We thank Frans Bianchi and Franz Ho for assistance with molecular cloning, Tim Rasmussen for providing the pTRC-MscK plasmid, Andrew Robinson for providing the pBAD-mEos3.2 plasmid, Matthias Heinemann for assistance with the flow cytometry measurements, Paul Schavemaker for performing Smoldyn simulations and Michiel Punter for programming ImageJ plugins for PALM reconstructions and single-particle tracking. We thank Ian Booth for critical reading of the manuscript, and Christoffer Åberg and Matteo Gabba for valuable discussions. The authors would like to thank David Dryden and Marcel Reuter for performing preliminary experiments from which this work has been built. The work was funded by the EU FP7 ITN-network program NICHE.

La cérémonie d'alliance dans la Règle de la communauté de Qumrân (1QS i 1 - iii 12)

Mémoire numérisé par la Direction des bibliothèques de l'Université de Montréal.

Global surface net-radiation at 5 km from MODIS Terra

Reliable and fine resolution estimates of surface net-radiation are required for estimating latent and sensible heat fluxes between the land surface and the atmosphere. However, currently, fine resolution estimates of net-radiation are not available and consequently it is challenging to develop multi-year estimates of evapotranspiration at scales that can capture land surface heterogeneity and are relevant for policy and decision-making. We developed and evaluated a global net-radiation product at 5 km and 8-day resolution by combining mutually consistent atmosphere and land data from the Moderate Resolution Imaging Spectroradiometer (MODIS) on board Terra. Comparison with net-radiation measurements from 154 globally distributed sites (414 site-years) from the FLUXNET and Surface Radiation budget network (SURFRAD) showed that the net-radiation product agreed well with measurements across seasons and climate types in the extratropics (Wilmott’s index ranged from 0.74 for boreal to 0.63 for Mediterranean sites). Mean absolute deviation between the MODIS and measured net-radiation ranged from 38.0 ± 1.8 W∙m−2 in boreal to 72.0 ± 4.1 W∙m−2 in the tropical climates. The mean bias was small and constituted only 11%, 0.7%, 8.4%, 4.2%, 13.3%, and 5.4% of the mean absolute error in daytime net-radiation in boreal, Mediterranean, temperate-continental, temperate, semi-arid, and tropical climate, respectively. To assess the accuracy of the broader spatiotemporal patterns, we upscaled error-quantified MODIS net-radiation and compared it with the net-radiation estimates from the coarse spatial (1° × 1°) but high temporal resolution gridded net-radiation product from the Clouds and Earth’s Radiant Energy System (CERES). Our estimates agreed closely with the net-radiation estimates from the CERES. Difference between the two was less than 10 W•m−2 in 94% of the total land area. MODIS net-radiation product will be a valuable resource for the science community studying turbulent fluxes and energy budget at the Earth’s surface.

La cérémonie d'alliance dans la Règle de la communauté de Qumrân (1QS i 1 - iii 12)

Mémoire numérisé par la Direction des bibliothèques de l'Université de Montréal.

(Table 1) Concentrations of polybrominated diphenyl ethers in liver and plasma samples of ringed seals (Phoca hispida)

The present study investigated the concentrations and patterns of PBDEs and hydroxylated (OH) PBDE analogues in two ringed seal populations: less contaminated Svalbard and more contaminated Baltic Sea. Mean concentration of hepatic sum-PBDE, which was dominated by BDE47, was six times higher in the ringed seals from the Baltic Sea compared to the seals from Svalbard. BDE47/sum-PBDE was higher in the seals from Svalbard compared to that for Baltic seals, while the trend was opposite for BDE153 and 154. The geographical difference in contaminant pattern of PBDEs in ringed seals could be explained by biotransformation via oxidative metabolism and/or by dietary differences. OH-PBDEs were detectable in the majority of plasma samples from both locations, and dominated by bioaccumulation of naturally occurring congeners. Low levels of 3-OH-BDE47 and 4'-OH-BDE49 in the Baltic ringed seals suggested minor oxidative biotransformation of BDE47. In the Baltic seals, BDE153/sum-PBDEs and BDE154/sum-PBDEs increased and BDE28/sum-PBDE decreased with increasing sum-POP concentration, which suggests BDE153 and 154 are more persistent than BDE28. Contrasting diets of the ringed seals in these two locations may influence the PBDE congener pattern due to selective long-range transport and direct effluent emissions to Svalbard and the Baltic, respectively.