Interactive Regulation of Dissolved Copper Toxicity by an Estuarine Microbial Community

Cultured marine microorganisms under copper stress produce extracellular compounds having a high affinity for copper (copper-complexing ligands). These ligands are similar in binding strength to those found in natural waters, but few studies have examined the relationship between copper, copper-complexing ligand concentrations, and natural microbial populations. A series of in situ experiments in the Elizabeth River, Virginia, revealed that an intact estuarine microbial community responded to copper stress by production of extracellular, high-affinity copper-complexing ligands. The rate of ligand production was dependent on copper concentration and resulted in a reduction of the concentration of free cupric ions, Cu2+, by more than three orders of magnitude during a 2-week period in one experiment. We believe that this interactive response to copper stress represents a feedback system through which microbial communities can potentially buffer dissolved Cu2+ ion concentrations, thereby regulating copper bioavailability and toxicity

Dinámicas de fotoinhibición y reorganización pigmentaria bajo ciclos de luz/oscuridad como mecanismos de fotoprotección en Porphyra umbilicales frente a los efectos dañinos de la radiación ultravioleta

Porphyra umbilicalis L. Kutzing collected from the upper intertidal zone at Helgoland, North Sea, was exposed to different spectral ranges of UV radiation under both 12/12 h light/dark cycles and continuous irradiation. In light/dark cycles, oscillations of the optimal quantum yield (Fv /Fm) were observed during the experiments, reaching maximal values at the end of the light phase followed by lower values during the dark phase. Decreased Fv /Fm was observed in thalli illuminated with photosynthetic active radiation (PAR) plus UV-A and PAR+UV-A+UV-B, compared with the PAR control, indicating a certain degree of UV-induced photoinhibition. In addition, a decrease in the percentage of change of the linear initial slope and maximum electron transport rate (ETR) estimated from ETR vs. irradiance curves was induced by UV radiation during the light phase. Recovery during the 12 h dark phase was almost completed in UV-A treated plants. PAR+UV-A seemed not to affect the photosynthesis, measured as O2 production. However, a decrease in O2 production was observed in the PAR+UV-A+UV-B treatment, but it recovered to initial values after 48 h of culture. No changes in total content of photosynthetic pigments were observed. However, thallus absorptance and the in vivo absorption cross-section in the PAR range (400-700 nm) normalised to Chl a (a* parameter) fluctuated during light/dark cycles and were positively correlated with changes in the optimum quantum yield, thus indicating that daily pigment reorganisation in the light-harvesting complex may play a key role in the photosynthetic performance of the algae. Both UV-A and UV-B treatments under continuous irradiation induced a significant reduction in the optimal quantum yield, ETR efficiency and photosynthetic oxygen production during the first 36 h to values around 30% of the initial ones. Thus, different protective mechanisms against UV stress can be observed in P. umbilicalis: dynamic photoinhibition when UVA is combined with PAR, followed by full recovery of photosynthesis during the dark phase, and a more pronounced photoinhibition under UV-B, with only partial recovery after longer time periods, in which photosynthetic pigment reorganisation plays an important role.Talos del alga roja Porphyra umbilicales L. Kutzing fueron cultivados bajo diferentes condiciones espectrales de radiación ultravioleta en condiciones de ciclos de luz/oscuridad de 12 horas y bajo luz continua. El rendimiento cuántico óptimo (Fv /Fm), estimado a través de la fluorescencia de la clorofila a del fotosistema II, evolucionó con oscilaciones en los ciclos de luz/oscuridad, con valores máximos al final de cada fase de luz seguida de valores bajos a lo largo de la fase de oscuridad. Los cultivos iluminados bajo radiación fotosintéticamente activa (PAR)+UV-A y la PAR+UV-A+UV-B disminuyeron los valores de la relación (Fv /Fm) respecto a los cultivos bajo PAR. Los cultivos bajo radiación UV provocaron además una caída, durante la fase de luz, tanto de la pendiente inicial como de los valores máximos de la tasa de transporte electrónico (ETR) estimados a partir de las curvas ETR vs. irradiancia. En el caso de los cultivos bajo PAR + UV-A la recuperación de los valores fotosintéticos fue casi completa durante la fase de oscuridad. Dicho tratamiento no afectó a la producción fotosintética de O2 mientras que el cultivo bajo PAR+UV-A+UV-B disminuyó significativamente dicha tasa, la cual recuperó los valores iniciales tras 48 h de cultivo. No se observaron cambios en el contenido total de los pigmentos fotosintéticos. No obstante, los ciclos de luz/oscuridad afectaron tanto a la absorptancia de los talos como a los valores de corte transversal in vivo en el rango del PAR (400-700 podría implicar un papel clave en el mantenimiento de la actividad fotosintética del alga. En cambio, el cultivo de los talos en luz continua bajo los tratamientos de radiación UV-A y UV-B provocó una disminución del rendimiento cuántico óptimo, de la eficiencia del ETR y de la tasa fotosintética por producción de oxígeno durante las primeras 36 h llegando a valores del 30% de los valores iniciales. Por tanto, diferentes mecanismos están implicados en la protección frente al estrés por radiación ultravioleta en P. umbilicales; un mecanismo de fotoinhibición dinámica cuando el UV-A se combina con el PAR, el cual es seguido por una recuperación completa de los parámetros fotosintéticos durante la posterior fase de oscuridad, y una fotoinhibición más patente en el caso del cultivo bajo UV-B, la cual se recupera sólo parcialmente tras un período largo. En ambos casos, la reorganización de los pigmentos fotosintéticos juega un papel fundamental en dicha recuperación

Community next steps for making globally unique identifiers work for biocollections data

Biodiversity data is being digitized and made available online at a rapidly increasing rate but current practices typically do not preserve linkages between these data, which impedes interoperation, provenance tracking, and assembly of larger datasets. For data associated with biocollections, the biodiversity community has long recognized that an essential part of establishing and preserving linkages is to apply globally unique identifiers at the point when data are generated in the field and to persist these identifiers downstream, but this is seldom implemented in practice. There has neither been coalescence towards one single identifier solution (as in some other domains), nor even a set of recommended best practices and standards to support multiple identifier schemes sharing consistent responses. In order to further progress towards a broader community consensus, a group of biocollections and informatics experts assembled in Stockholm in October 2014 to discuss community next steps to overcome current roadblocks. The workshop participants divided into four groups focusing on: identifier practice in current field biocollections; identifier application for legacy biocollections; identifiers as applied to biodiversity data records as they are published and made available in semantically marked-up publications; and cross-cutting identifier solutions that bridge across these domains. The main outcome was consensus on key issues, including recognition of differences between legacy and new biocollections processes, the need for identifier metadata profiles that can report information on identifier persistence missions, and the unambiguous indication of the type of object associated with the identifier. Current identifier characteristics are also summarized, and an overview of available schemes and practices is provided

Study of the volume and spin collapse in orthoferrite LuFeO_3 using LDA+U

Rare earth (R) orthoferrites RFeO_3 exhibit large volume transitions associated with a spin collapse. We present here ab initio calculations on LuFeO_3. We show that taking into account the strong correlation among the Fe-3d electrons is necessary. Indeed, with the LDA+U method in the Projector Augmented Wave (PAW), we are able to describe the isostructural phase transition at 50 GPa, as well as a volume discontinuity of 6.0% at the transition and the considerable reduction of the magnetic moment on the Fe ions. We further investigate the effect of the variation of U and J and find a linear dependence of the transition pressure on these parameters. We give an interpretation for the non-intuitive effect of J. This emphasizes the need for a correct determination of these parameters especially when the LDA+U is applied to systems (e.g in geophysical investigations) where the transition pressure is a priori unknown

Traumatic brain injury leads to alterations in contusional cortical miRNAs involved in dementia

There is compelling evidence that head injury is a significant environmental risk factor for Alzheimer's disease (AD) and that a history of traumatic brain injury (TBI) accelerates the onset of AD. Amyloid-β plaques and tau aggregates have been observed in the post-mortem brains of TBI patients; however, the mechanisms leading to AD neuropathology in TBI are still unknown. In this study, we hypothesized that focal TBI induces changes in miRNA expression in and around affected areas, resulting in the altered expression of genes involved in neurodegeneration and AD pathology. For this purpose, we performed a miRNA array in extracts from rats subjected to experimental TBI, using the controlled cortical impact (CCI) model. In and around the contusion, we observed alterations of miRNAs associated with dementia/AD, compared to the contralateral side. Specifically, the expression of miR-9 was significantly upregulated, while miR-29b, miR-34a, miR-106b, miR-181a and miR-107 were downregulated. Via qPCR, we confirmed these results in an additional group of injured rats when compared to naïve animals. Interestingly, the changes in those miRNAs were concomitant with alterations in the gene expression of mRNAs involved in amyloid generation and tau pathology, such as β-APP cleaving enzyme (BACE1) and Glycogen synthase-3-β (GSK3β). In addition increased levels of neuroinflammatory markers (TNF-α), glial activation, neuronal loss, and tau phosphorylation were observed in pericontusional areas. Therefore, our results suggest that the secondary injury cascade in TBI affects miRNAs regulating the expression of genes involved in AD dementia

Relativistic hydrodynamics on spacelike and null surfaces: Formalism and computations of spherically symmetric spacetimes

We introduce a formulation of Eulerian general relativistic hydrodynamics which is applicable for (perfect) fluid data prescribed on either spacelike or null hypersurfaces. Simple explicit expressions for the characteristic speeds and fields are derived in the general case. A complete implementation of the formalism is developed in the case of spherical symmetry. The algorithm is tested in a number of different situations, predisposing for a range of possible applications. We consider the Riemann problem for a polytropic gas, with initial data given on a retarded/advanced time slice of Minkowski spacetime. We compute perfect fluid accretion onto a Schwarzschild black hole spacetime using ingoing null Eddington-Finkelstein coordinates. Tests of fluid evolution on dynamic background include constant density and TOV stars sliced along the radial null cones. Finally, we consider the accretion of self-gravitating matter onto a central black hole and the ensuing increase in the mass of the black hole horizon.Comment: 23 pages, 13 figures, submitted to Phys. Rev.

Numerical simulation of small perturbation on an accretion disk due to the collision of a star with the disk near the black hole

In this paper, perturbations of an accretion disk by a star orbiting around a black hole are studied. We report on a numerical experiment, which has been carried out by using a parallel-machine code originally developed by D\"{o}nmez (2004). An initially steady state accretion disk near a non-rotating (Schwarzschild) black hole interacts with a "star", modeled as an initially circular region of increased density. Part of the disk is affected by the interaction. In some cases, a gap develops and shock wave propagates through the disk. We follow the evolution for order of one dynamical period and we show how the non-axisymetric density perturbation further evolves and moves downwards where the material of the disk and the star become eventually accreted onto the central body. When the star perturbs the steady state accretion disk, the disk around the black hole is destroyed by the effect of perturbation. The perturbed accretion disk creates a shock wave during the evolution and it loses angular momentum when the gas hits on the shock waves. Colliding gas with the shock wave is the one of the basic mechanism of emitting the $X-$rays in the accretion disk. The series of supernovae occurring in the inner disk could entirely destroy the disk in that region which leaves a more massive black hole behind, at the center of galaxies.Comment: 20pages, 8 figures, accepted for publication in Astrophysics and Space Scienc

Three Dimensional Numerical General Relativistic Hydrodynamics I: Formulations, Methods, and Code Tests

This is the first in a series of papers on the construction and validation of a three-dimensional code for general relativistic hydrodynamics, and its application to general relativistic astrophysics. This paper studies the consistency and convergence of our general relativistic hydrodynamic treatment and its coupling to the spacetime evolutions described by the full set of Einstein equations with a perfect fluid source. The numerical treatment of the general relativistic hydrodynamic equations is based on high resolution shock capturing schemes. These schemes rely on the characteristic information of the system. A spectral decomposition for general relativistic hydrodynamics suitable for a general spacetime metric is presented. Evolutions based on three different approximate Riemann solvers coupled to four different discretizations of the Einstein equations are studied and compared. The coupling between the hydrodynamics and the spacetime (the right and left hand side of the Einstein equations) is carried out in a treatment which is second order accurate in {\it both} space and time. Convergence tests for all twelve combinations with a variety of test beds are studied, showing consistency with the differential equations and correct convergence properties. The test-beds examined include shocktubes, Friedmann-Robertson-Walker cosmology tests, evolutions of self-gravitating compact (TOV) stars, and evolutions of relativistically boosted TOV stars. Special attention is paid to the numerical evolution of strongly gravitating objects, e.g., neutron stars, in the full theory of general relativity, including a simple, yet effective treatment for the surface region of the star (where the rest mass density is abruptly dropping to zero).Comment: 45 pages RevTeX, 34 figure