Protonation dynamics of the extracellular and cytoplasmic surface of bacteriorhodopsin in the purple membrane.

The dynamics of proton binding to the extracellular and the cytoplasmic surfaces of the purple membrane were measured by laser-induced proton pulses. Purple membranes, selectively labeled by fluorescein at Lys-129 of bacteriorhodopsin, were pulsed by protons released in the aqueous bulk from excited pyranine (8-hydroxy-1,3,6-pyrenetrisulfonate) and the reaction of protons with the indicators was measured. Kinetic analysis of the data imply that the two faces of the membrane differ in their buffer capacities and in their rates of interaction with bulk protons. The extracellular surface of the purple membrane contains one anionic proton binding site per protein molecule with pK = 5.1. This site is within a Coulomb cage radius (approximately 15 A) from Lys-129. The cytoplasmic surface of the purple membrane bears 4-5 protonable moieties (pK = 5.1) that, due to close proximity, function as a common proton binding site. The reaction of the proton with this cluster is at a very fast rate (3.10(10) M-1.s-1). The proximity between the elements is sufficiently high that even in 100 mM NaCl they still function as a cluster. Extraction of the chromophore retinal from the protein has a marked effect on the carboxylates of the cytoplasmic surface, and two to three of them assume positions that almost bar their reaction with bulk protons. The protonation dynamics determined at the surface of the purple membrane is of relevance both for the vectorial proton transport mechanism of bacteriorhodopsin and for energy coupling, not only in halobacteria, but also in complex chemiosmotic systems such as mitochondrial and thylakoid membranes.

A hyperphosphorylated form of the large subunit of RNA polymerase II is associated with splicing complexes and the nuclear matrix.

A hyperphosphorylated form of the largest subunit of RNA polymerase II (pol IIo) is associated with the pre-mRNA splicing process. Pol IIo was detected in association with a subset of small nuclear ribonucleoprotein particle and Ser-Arg protein splicing factors and also with pre-mRNA splicing complexes assembled in vitro. A subpopulation of pol IIo was localized to nuclear "speckle" domains enriched in splicing factors, indicating that it may also be associated with RNA processing in vivo. Moreover, pol IIo was retained in a similar pattern following in situ extraction of cells and was quantitatively recovered in the nuclear matrix fraction. The results implicate nuclear matrix-associated hyperphosphorylated pol IIo as a possible link in the coordination of transcription and splicing processes.

The nature of LINER galaxies: Ubiquitous hot old stars and rare accreting black holes

Context. Galaxies, which often contain ionised gas, sometimes also exhibit a so-called low-ionisation nuclear emission line region (LINER). For 30 years, this was attributed to a central mass-accreting supermassive black hole (more commonly known as active galactic nucleus, AGN) of low luminosity, making LINER galaxies the largest AGN sub-population, which dominate in numbers over higher luminosity Seyfert galaxies and quasars. This, however, poses a serious problem. While the inferred energy balance is plausible, many LINERs clearly do not contain any other independent signatures of an AGN. Aims. Using integral field spectroscopic data from the CALIFA survey, we compare the observed radial surface brightness profiles with what is expected from illumination by an AGN. Methods. Essential for this analysis is a proper extraction of emission lines, especially weak lines, such as Balmer H beta lines, which are superposed on an absorption trough. To accomplish this, we use the GANDALF code, which simultaneously fits the underlying stellar continuum and emission lines. Results. For 48 galaxies with LINER-like emission, we show that the radial emission-line surface brightness profiles are inconsistent with ionisation by a central point-source and hence cannot be due to an AGN alone. Conclusions. The most probable explanation for the excess LINER-like emission is ionisation by evolved stars during the short but very hot and energetic phase known as post-AGB. This leads us to an entirely new interpretation. Post-AGB stars are ubiquitous and their ionising effect should be potentially observable in every galaxy with the gas present and with stars older than ~1 Gyr unless a stronger radiation field from young hot stars or an AGN outshines them. This means that galaxies with LINER-like emission are not a class defined by a property but rather by the absence of a property. It also explains why LINER emission is observed mostly in massive galaxies with old stars and little star formation.

Multilingual extension of a temporal expression normalizer using annotated corpora

This paper presents the automatic extension to other languages of TERSEO, a knowledge-based system for the recognition and normalization of temporal expressions originally developed for Spanish. TERSEO was first extended to English through the automatic translation of the temporal expressions. Then, an improved porting process was applied to Italian, where the automatic translation of the temporal expressions from English and from Spanish was combined with the extraction of new expressions from an Italian annotated corpus. Experimental results demonstrate how, while still adhering to the rule-based paradigm, the development of automatic rule translation procedures allowed us to minimize the effort required for porting to new languages. Relying on such procedures, and without any manual effort or previous knowledge of the target language, TERSEO recognizes and normalizes temporal expressions in Italian with good results (72% precision and 83% recall for recognition).

Biodiversity of Archaea and floral of two inland saltern ecosystems in the Alto Vinalopó Valley, Spain

Background. The extraction of salt from seawater by means of coastal solar salterns is a very well-described process. Moreover, the characterization of these environments from ecological, biochemical and microbiological perspectives has become a key focus for many research groups all over the world over the last 20 years. In countries such as Spain, there are several examples of coastal solar salterns (mainly on the Mediterranean coast) and inland solar salterns, from which sodium chloride is obtained for human consumption. However, studies focused on the characterization of inland solar salterns are scarce and both the archaeal diversity and the plant communities inhabiting these environments remain poorly described. Results. Two of the inland solar salterns (termed Redonda and Penalva), located in the Alto Vinalopó Valley (Alicante, Spain), were characterized regarding their geological and physico-chemical characteristics and their archaeal and botanical biodiversity. A preliminary eukaryotic diversity survey was also performed using saline water. The chemical characterization of the brine has revealed that the salted groundwater extracted to fill these inland solar salterns is thalassohaline. The plant communities living in this environment are dominated by Sarcocornia fruticosa (L.) A.J. Scott, Arthrocnemum macrostachyum (Moris) K. Koch, Suaeda vera Forsk. ex Gmelin (Amaranthaceae) and several species of Limonium (Mill) and Tamarix (L). Archaeal diversity was analyzed and compared by polymerase chain reaction (PCR)-based molecular phylogenetic techniques. Most of the sequences recovered from environmental DNA samples are affiliated with haloarchaeal genera such as Haloarcula, Halorubrum, Haloquadratum and Halobacterium, and with an unclassified member of the Halobacteriaceae. The eukaryote Dunaliella was also present in the samples. Conclusions. To our knowledge, this study constitutes the first analysis centered on inland solar salterns located in the southeastern region of Spain. The results obtained revealed that the salt deposits of this region have marine origins. Plant communities typical of salt marshes are present in this ecosystem and members of the Halobacteriaceae family can be easily detected in the microbial populations of these habitats. Possible origins of the haloarchaea detected in this study are discussed.

A new algorithm to accelerate harmonic analysis of time series

The Lomb periodogram has been traditionally a tool that allows us to elucidate if a frequency turns out to be important for explaining the behaviour of a given time series. Many linear and nonlinear reiterative harmonic processes that are used for studying the spectral content of a time series take into account this periodogram in order to avoid including spurious frequencies in their models due to the leakage problem of energy from one frequency to others. However, the estimation of the periodogram requires long computation time that makes the harmonic analysis slower when we deal with certain time series. Here we propose an algorithm that accelerates the extraction of the most remarkable frequencies from the periodogram, avoiding its whole estimation of the harmonic process at each iteration. This algorithm allows the user to perform a specific analysis of a given scalar time series. As a result, we obtain a functional model made of (1) a trend component, (2) a linear combination of Fourier terms, and (3) the so-called mixed secular terms by reducing the computation time of the estimation of the periodogram.

Textural Characterization of Micro- and Mesoporous Carbons Using Combined Gas Adsorption and n-Nonane Preadsorption

Porous carbon and carbide materials with different structures were characterized using adsorption of nitrogen at 77.4 K before and after preadsorption of n-nonane. The selective blocking of the microporosity with n-nonane shows that ordered mesoporous silicon carbide material (OM-SiC) is almost exclusively mesoporous whereas the ordered mesoporous carbon CMK-3 contains a significant amount of micropores (25%). The insertion of micropores into OM-SiC using selective extraction of silicon by hot chlorine gas leads to the formation of ordered mesoporous carbide-derived carbon (OM-CDC) with a hierarchical pore structure and significantly higher micropore volume as compared to CMK-3, whereas a CDC material from a nonporous precursor is exclusively microporous. Volumes of narrow micropores, calculated by adsorption of carbon dioxide at 273 K, are in linear correlation with the volumes blocked by n-nonane. Argon adsorption measurements at 87.3 K allow for precise and reliable calculation of the pore size distribution of the materials using density functional theory (DFT) methods.

d15N of lipids in marine animals of the Dutch Wadden Sea

Lipid extraction of biomass prior to stable isotope analysis is known to cause variable changes in the stable nitrogen isotopic composition (d15N) of residual biomass. However, the underlying factors causing these changes are not yet clear. Here we address this issue by comparing the d15N of bulk and residual biomass of several marine animal tissues (fish, crab, cockle, oyster, and polychaete), as well as the d15N of the extracted lipids. As observed previously, lipid extraction led to a variable offset in d15N of biomass (differences ranging from -2.3 to +1.8 per mil). Importantly, the total lipid extract (TLE) was highly depleted in 15N compared to bulk biomass, and also highly variable (differences ranging from -14 to +0.7 per mil). The TLE consisted mainly of phosphatidylcholines, a group of lipids with one nitrogen atom in the headgroup. To elucidate the cause for the 15N-depletion in the TLE, the d15N of amino acids was determined, including serine because it is one of the main sources of nitrogen to N-containing lipids. Serine d15N values differed by -7 to +2 per mil from bulk biomass d15N, and correlated well with the 15N depletion in TLEs. On average, serine was less depleted (-3 per mil) than the TLE (-7 per mil), possibly due to fractionation during biosynthesis of N-containing headgroups, or that other nitrogen-containing compounds, such as urea and choline, or recycled nitrogen contribute to the nitrogen isotopic composition of the TLE. The depletion in 15N of the TLE relative to biomass increased with the trophic level of the organisms.

(Table T1) Trace element concentration and isotopic composition of pore waters from ODP Leg 168 sites

Pore water was collected from each of 10 sites during Ocean Drilling Program (ODP) Leg 168 on the eastern flank of the Juan de Fuca Ridge. These ten sites delineate a transect perpendicular to the present ridge axis and span a crustal age of 0.86-3.59 Ma. At nine of the ten sites the entire sediment section, which ranged from 41.3 to 613.8 m thick, was cored and attempts were made to recover at least one whole round of sediment per section of core for extraction of pore water. Several (2-5) whole-round sediment samples were taken from the uppermost and lowermost cores to constrain the chemical gradient near the sediment/water and sediment/basalt interfaces, respectively. Pore water was extracted from whole-round sediment core sections by squeezing only the most pristine sediment in a titanium squeezer designed by Manheim and Sayles (1974). Two additional water samples were collected in situ using the water-sampler temperature probe (WSTP; Barnes, 1988, doi:10.2973/odp.proc.ir.110.104.1988). Both of these samples were collected in the cased section of the open borehole from ODP Hole 1026B. Formation fluids were flowing up the cased hole into the overlying deep seawater (Fisher et al., 1997, doi:10.1029/97GL01286). Detailed descriptions of the sampling methods that were used to collect fluids are given by the Shipboard Scientific Party (Davis, Fisher, Firth, et al., 1997, doi:10.2973/odp.proc.ir.168.1997).

Extrication methods and ambulance operational guidelines. Part II, ambulance operational guidelines. Final report. Volume 2 of 2.

National Highway Safety Bureau, Washington, D.C.

Feasibility study of ballistic cutting of vehicle structures. Final report.

National Highway Safety Bureau, Washington, D.C.

Extrication methods and ambulance operational guidelines. Part 1: extrication methods. Final report. Volume 1 of 2.

National Highway Safety Bureau, Washington, D.C.

The medical consequences of car crashes: an automobile crash trauma study. Final report. Volume III.

National Highway Traffic Safety Administration, Washington, D.C.

Revision of NHTSA curriculum packages. Final report.

National Highway Traffic Safety Administration, Washington, D.C.

The metallurgy of quicksilver,

First edition, May, 1925. cf. verso of t.-p.