Spatial and temporal variation in population genetic structure of wild Nile tilapia (Oreochromis niloticus) across Africa

Background: Reconstructing the evolutionary history of a species is challenging. It often depends not only on the past biogeographic and climatic events but also the contemporary and ecological factors, such as current connectivity and habitat heterogeneity. In fact, these factors might interact with each other and shape the current species distribution. However, to what extent the current population genetic structure reflects the past and the contemporary factors is largely unknown. Here we investigated spatio-temporal genetic structures of Nile tilapia (Oreochromis niloticus) populations, across their natural distribution in Africa. While its large biogeographic distribution can cause genetic differentiation at the paleo-biogeographic scales, its restricted dispersal capacity might induce a strong genetic structure at micro-geographic scales. Results: Using nine microsatellite loci and 350 samples from ten natural populations, we found the highest genetic differentiation among the three ichthyofaunal provinces and regions (Ethiopian, Nilotic and Sudano-Sahelian) (R(ST) = 0.38 - 0.69). This result suggests the predominant effect of paleo-geographic events at macro-geographic scale. In addition, intermediate divergences were found between rivers and lakes within the regions, presumably reflecting relatively recent interruptions of gene flow between hydrographic basins (R(ST) = 0.24 - 0.32). The lowest differentiations were observed among connected populations within a basin (R(ST) = 0.015 in the Volta basin). Comparison of temporal sample series revealed subtle changes in the gene pools in a few generations (F = 0 - 0.053). The estimated effective population sizes were 23 - 143 and the estimated migration rate was moderate (m similar to 0.094 - 0.097) in the Volta populations. Conclusions: This study revealed clear hierarchical patterns of the population genetic structuring of O. niloticus in Africa. The effects of paleo-geographic and climatic events were predominant at macro-geographic scale, and the significant effect of geographic connectivity was detected at micro-geographic scale. The estimated effective population size, the moderate level of dispersal and the rapid temporal change in genetic composition might reflect a potential effect of life history strategy on population dynamics. This hypothesis deserves further investigation. The dynamic pattern revealed at micro-geographic and temporal scales appears important from a genetic resource management as well as from a biodiversity conservation point of view.

MODELING FUNCTIONAL DATA WITH SPATIALLY HETEROGENEOUS SHAPE CHARACTERISTICS

We propose a novel class of models for functional data exhibiting skewness or other shape characteristics that vary with spatial or temporal location. We use copulas so that the marginal distributions and the dependence structure can be modeled independently. Dependence is modeled with a Gaussian or t-copula, so that there is an underlying latent Gaussian process. We model the marginal distributions using the skew t family. The mean, variance, and shape parameters are modeled nonparametrically as functions of location. A computationally tractable inferential framework for estimating heterogeneous asymmetric or heavy-tailed marginal distributions is introduced. This framework provides a new set of tools for increasingly complex data collected in medical and public health studies. Our methods were motivated by and are illustrated with a state-of-the-art study of neuronal tracts in multiple sclerosis patients and healthy controls. Using the tools we have developed, we were able to find those locations along the tract most affected by the disease. However, our methods are general and highly relevant to many functional data sets. In addition to the application to one-dimensional tract profiles illustrated here, higher-dimensional extensions of the methodology could have direct applications to other biological data including functional and structural MRI.

Inverse modelling of the 14C bomb pulse in stalagmites to constrain the dynamics of soil carbon cycling at selected European cave sites

The decomposition of soil organic matter (SOM) is temperature dependent, but its response to a future warmer climate remains equivocal. Enhanced rates of decomposition of SOM under increased global temperatures might cause higher CO2 emissions to the atmosphere, and could therefore constitute a strong positive feedback. The magnitude of this feedback however remains poorly understood, primarily because of the difficulty in quantifying the temperature sensitivity of stored, recalcitrant carbon that comprises the bulk (>90%) of SOM in most soils. In this study we investigated the effects of climatic conditions on soil carbon dynamics using the attenuation of the 14C ‘bomb’ pulse as recorded in selected modern European speleothems. These new data were combined with published results to further examine soil carbon dynamics, and to explore the sensitivity of labile and recalcitrant organic matter decomposition to different climatic conditions. Temporal changes in 14C activity inferred from each speleothem was modelled using a three pool soil carbon inverse model (applying a Monte Carlo method) to constrain soil carbon turnover rates at each site. Speleothems from sites that are characterised by semi-arid conditions, sparse vegetation, thin soil cover and high mean annual air temperatures (MAATs), exhibit weak attenuation of atmospheric 14C ‘bomb’ peak (a low damping effect, D in the range: 55–77%) and low modelled mean respired carbon ages (MRCA), indicating that decomposition is dominated by young, recently fixed soil carbon. By contrast, humid and high MAAT sites that are characterised by a thick soil cover and dense, well developed vegetation, display the highest damping effect (D = c. 90%), and the highest MRCA values (in the range from 350 ± 126 years to 571 ± 128 years). This suggests that carbon incorporated into these stalagmites originates predominantly from decomposition of old, recalcitrant organic matter. SOM turnover rates cannot be ascribed to a single climate variable, e.g. (MAAT) but instead reflect a complex interplay of climate (e.g. MAAT and moisture budget) and vegetation development.

Antireflection coatings optimized for single-cycle THz pulses

We show that a single-layer antireflection coating on a THz source of high refractive index can substantially increase the transmission of emitted THz pulses. Calculations indicate that the optimum coating thickness depends on the exact shape of the generated THz waveform and whether the transmitted waveform is to be optimized for the highest peak (temporal) amplitude, peak spectral amplitude, or pulse energy. We experimentally demonstrate a 15% increase in peak amplitude, a 33% increase in peak spectral amplitude, and a 48% increase in energy for a 100 μm thick fused silica AR coating on a lithium niobate crystal used as THz emitter.

THE EFFECT OF RELAXIN ON BIOCHEMICAL AND MORPHOLOGICAL PARAMETERS OF RAT MYOMETRIAL CELLS IN CULTURE (CYCLIC-AMP, CELL SHAPE CHANGE)

Relaxin is able to inhibit spontaneous, oxytocin-and prostaglandin-driven uterine contractions. The intracellular mechanism of action of relaxin on uterine relaxation had previously been studied using isometrically suspended uterine strips. Since uterine strips contain stroma as well as myometrium, the changes in biochemical parameters induced by relaxin treatment may not occur in the same cell types responsible for the physical changes. In these studies, cultures of enriched populations of rat myometrial cells were used to investigate the effect of relaxin on biochemical and morphological parameters which are related to relaxation.^ Under optimal culture conditions (initial plating density 1 - 1.5 x 10('6)cells/ml, 3 ml/35 mm dish, 2 days culture), enzymatically isolated rat myometrial cells were able to respond to relaxin with cAMP elevation. Relaxin elevated cAMP levels in the presence but not the absence of 0.1 mM methylisobutylxanthine or 0.4 um forskolin in a time- and concentration-dependent manner. In contrast, isoproterenol was able to elevate cAMP levels in the presence and absence of 0.1 mM methylisobutylxanthine.^ Oxytocin treatment caused a decrease in mean cell length and area of myometrial cells in culture which could be considered analogous to contraction. Under optimal culture conditions, relaxin increased myometrial cell length and area (i.e. analogous to relaxation) of oxytocin-treated cells in a time- and concentration-dependent manner. Other relaxants such as isoproterenol and dibutyryl cAMP also increased cell length and area of oxytocin - treated myometrial cells in culture.^ Under optimal culture conditions, relaxin decreased myosin light chain kinase activity in a time-and concentration-dependent manner by increasing the K(,50) of the enzyme for calmodulin (CaM), i.e. decreasing the affinity of the enzyme for CaM. The decrease in the affinity of myosin light chain kinase for CaM may be due to the phosphorylation of the enzyme by cAMP-dependent protein kinase. Relaxin also decreased the Ca('2+)(.)CaM-independent myosin light chain kinase activity to a lesser extent than that of the Ca('2+)(.)CaM-dependent enzyme activity. This was not attributable to a decrease in the affinity of the enzyme for myosin in myometrial cells in culture, in contrast to the finding of such a change following relaxin treatment of uterine strips. Further studies are required to clarify this point.^ There was a temporal association between the effects of relaxin on elevation of cAMP levels in the presence of 0.4 uM forskolin, increase in cell length and decrease in myosin light chain kinase activity. . . . (Author's abstract exceeds stipulated maximum length. Discontinued here with permission of author.) UMI ^

Variación temporal y espacial de parches, corredores y matriz en un humedal ("mallín") del centro-oeste de la provincia de Neuquén

Los procesos naturales, como las actividades humanas, cambian los paisajes. Esta realidad no es ajena a los humedales (mallines) en Patagonia. Los mallines son importantes ecosistemas naturales que sirven como recurso forrajero para la ganadería extensiva. Los mismos representan el 4 de la superficie patagónica. Los períodos húmedos y secos modifican la dinámica hidrológica del mallín. Esto repercute en la evolución de los parches, corredores y matriz, que se agrava con la actividad antrópica. En una secuencia temporal se puede apreciar la fragmentación del hábitat: en la variación y tamaño del número de parches, su forma, conectividad y aislamiento, que entre otros factores inciden sobre numerosos procesos ecológicos. El conocimiento de la dinámica temporal y espacial de los parches, corredores y matriz entre un período húmedo y uno seco en un humedal permite la planificación del uso del recurso vegetación, ya que los patrones espaciales controlan fuertemente sus movimientos, flujos y cambios.

Variación temporal y espacial de parches, corredores y matriz en un humedal ("mallín") del centro-oeste de la provincia de Neuquén

Los procesos naturales, como las actividades humanas, cambian los paisajes. Esta realidad no es ajena a los humedales (mallines) en Patagonia. Los mallines son importantes ecosistemas naturales que sirven como recurso forrajero para la ganadería extensiva. Los mismos representan el 4 de la superficie patagónica. Los períodos húmedos y secos modifican la dinámica hidrológica del mallín. Esto repercute en la evolución de los parches, corredores y matriz, que se agrava con la actividad antrópica. En una secuencia temporal se puede apreciar la fragmentación del hábitat: en la variación y tamaño del número de parches, su forma, conectividad y aislamiento, que entre otros factores inciden sobre numerosos procesos ecológicos. El conocimiento de la dinámica temporal y espacial de los parches, corredores y matriz entre un período húmedo y uno seco en un humedal permite la planificación del uso del recurso vegetación, ya que los patrones espaciales controlan fuertemente sus movimientos, flujos y cambios.

Variación temporal y espacial de parches, corredores y matriz en un humedal ("mallín") del centro-oeste de la provincia de Neuquén

Los procesos naturales, como las actividades humanas, cambian los paisajes. Esta realidad no es ajena a los humedales (mallines) en Patagonia. Los mallines son importantes ecosistemas naturales que sirven como recurso forrajero para la ganadería extensiva. Los mismos representan el 4 de la superficie patagónica. Los períodos húmedos y secos modifican la dinámica hidrológica del mallín. Esto repercute en la evolución de los parches, corredores y matriz, que se agrava con la actividad antrópica. En una secuencia temporal se puede apreciar la fragmentación del hábitat: en la variación y tamaño del número de parches, su forma, conectividad y aislamiento, que entre otros factores inciden sobre numerosos procesos ecológicos. El conocimiento de la dinámica temporal y espacial de los parches, corredores y matriz entre un período húmedo y uno seco en un humedal permite la planificación del uso del recurso vegetación, ya que los patrones espaciales controlan fuertemente sus movimientos, flujos y cambios.

Utilización del "dfot heat pulse method" para el estudio del bulbo mojado en goteros

Aunque se conocen muchos métodos precisos para medidas de humedad puntuales, hasta hace muy poco, no existían métodos in situ para la medida del contenido de humedad a escala de metros o de kilómetros, importantes cuando pensamos a nivel de cuenca hidrográfica. La fibra óptica ha sido muy utilizada en el área de las comunicaciones. Sin embargo, entre sus aplicaciones más recientes, destaca la de su uso para medir la temperatura incluso en grandes distancias (hasta 10 km) y con una alta frecuencia temporal, lo que ha abierto un amplio abanico de posibilidades muy importantes en el seguimiento medioambiental (Selker et al. 2006a; 2006b, Tyler et al. 2008; Westhoff et al., 2007; Freifeld et al., 2008). La precisión en la medida puede alcanzar ± 0,2ºC en una distancia de ± 25 cm. El método utilizado en los ensayos explicados en esta comunicación es el denominado “Distributed Fiber Optic Temperature Measurement” (medida distribuida de la temperatura con fibra óptica) o DFOT, que consiste en emitir un impulso óptico con láser y medir en el tiempo la señal reflejada en diferentes puntos de la fibra. Este método se ha utilizado en el estudio de filtraciones de minas abandonadas (Selker et al. 2006a) y en proyectos relacionados con el cambio climático, como en el estudio del deshielo en glaciares y balances hídricos en pequeñas cuencas (Selker et al. 2006b). Además, en medios porosos, se ha usado, con buenos resultados para la detección de rotura de diques en presas (Perzlmaier et al. 2004a y 2004b) y para la detección de entrada de agua en vertederos urbanos con cubierta vegetal (Weiss, 2003b). Imhoff et al. (2006) en su revisión de técnicas de medidas de contenido de agua en el suelo destaca el uso del “DFOT heat pulse method” (método DFOT del pulso de calor).

Pulse shortening of gain switched single mode semiconductor lasers using a variable delay interferometer

We propose a pulse shaping and shortening technique for pulses generated from gain switched single mode semiconductor lasers, based on a Mach Zehnder interferometer with variable delay. The spectral and temporal characteristics of the pulses obtained with the proposed technique are investigated with numerical simulations. Experiments are performed with a Distributed Feedback laser and a Vertical Cavity Surface Emitting Laser, emitting at 1.5 µm, obtaining pulse duration reduction of 25-30%. The main asset of the proposed technique is that it can be applied to different devices and pulses, taking advantage of the flexibility of the gain switching technique.

Periodic time-domain modulation for the electrically tunable control of optical pulse train envelope and repetition rate multiplication

An electrically tunable system for the control of optical pulse sequences is proposed and demonstrated. It is based on the use of an electrooptic modulator for periodic phase modulation followed by a dispersive device to obtain the temporal Talbot effect. The proposed configuration allows for repetition rate multiplication with different multiplication factors and with the simultaneous control of the pulse train envelope by simply changing the electrical signal driving the modulator. Simulated and experimental results for an input optical pulse train of 10 GHz are shown for different multiplication factors and envelope shapes.

Temporal self-imaging effect for periodically modulated trains of pulses

In this paper, the mathematical description of the temporal selfimaging effect is studied, focusing on the situation in which the train of pulses to be dispersed has been previously periodically modulated in phase and amplitude. It is demonstrated that, for each input pulse and for some specific values of the chromatic dispersion, a subtrain of optical pulses is generated whose envelope is determined by the Discrete Fourier Transform of the modulating coefficients. The mathematical results are confirmed by simulations of various examples and some limits on the realization of the theory are commented.

Pulse phase-coherent timing and spectroscopy of CXOU J164710.2−45521 outbursts

We present a long-term phase-coherent timing analysis and pulse-phase resolved spectroscopy for the two outbursts observed from the transient anomalous X-ray pulsar CXOU J164710.2−455216. For the first outburst we used 11 Chandra and XMM–Newton observations between 2006 September and 2009 August, the longest baseline yet for this source. We obtain a coherent timing solution with P = 10.61065583(4) s, Ṗ = 9.72(1) × 10−13 s s−1 and P̈ = –1.05(5) × 10−20 s s−2. Under the standard assumptions this implies a surface dipolar magnetic field of ∼1014 G, confirming this source as a standard B magnetar. We also study the evolution of the pulse profile (shape, intensity and pulsed fraction) as a function of time and energy. Using the phase-coherent timing solution we perform a phase-resolved spectroscopy analysis, following the spectral evolution of pulse-phase features, which hints at the physical processes taking place on the star. The results are discussed from the perspective of magnetothermal evolution models and the untwisting magnetosphere model. Finally, we present similar analysis for the second, less intense, 2011 outburst. For the timing analysis we used Swift data together with 2 XMM–Newton and Chandra pointings. The results inferred for both outbursts are compared and briefly discussed in a more general framework.

Spatial and temporal variation in algal-assemblage structure in isolated dryland river waterholes, Cooper Creek and Warrego River, Australia

The scale at which algal biodiversity is partitioned across the landscape, and the biophysical processes and biotic interactions which shape these communities in dryland river refugia was studied on two occasions from 30 sites in two Australian dryland rivers. Despite the waterholes studied having characteristically high levels of abiogenic turbidity, a total of 186 planktonic microalgae, 253 benthic diatom and 62 macroalgal species were recorded. The phytoplankton communities were dominated by flagellated cryptophytes, euglenophytes and chlorophytes, the diatom communities by cosmopolitan taxa known to tolerate wide environmental conditions, and the macroalgal communities by filamentous cyanobacteria. All algal communities showed significant differences between catchments and sampling times, with a suite of between 5 and 12 taxa responsible for similar to 50% of the observed change. In general, algal assemblage patterns were poorly correlated with the measured environmental variables. Phytoplankton and diatom assemblage patterns were weakly correlated with several waterhole geomorphic measures, whereas macroalgal assemblage patterns showed some association with variability in ionic concentration.

Variability in heart rate estimates from different pulse oximeters

Since its introduction, pulse oximetry has become a conventional clinical measure. Besides being arterial blood oxygen saturation (SpO2) measure, pulse oximeters can be used for other cardiovascular measurements, like heart rate (HR) estimations, derived from its photo plethysmographic (PPG) signals. The temporal coherence of the PPG signals and thereby HR estimates are heavily dependent on its minimal phase variability. A Masimo SET Rad-9TM, Novametrix Oxypleth and a custom designed PPG system were investigated for their relative phase variation. R-R intervals from electro-cardiogram (ECG) were recorded concurrently as reference. PPG signals obtained from the 3 systems were evaluated by comparing their respective beat-to-beat (B-B) intervals with the corresponding R-R estimates during a static test. For their relative B-B comparison to the ECG, Novametrix system differed 0.680.52% (p