On the bend number of circular-arc graphs as edge intersection graphs of paths on a grid

Golumbic, Lipshteyn and Stern \cite{Golumbic-epg} proved that every graph can be represented as the edge intersection graph of paths on a grid (EPG graph), i.e., one can associate with each vertex of the graph a nontrivial path on a rectangular grid such that two vertices are adjacent if and only if the corresponding paths share at least one edge of the grid. For a nonnegative integer $k$, $B_k$-EPG graphs are defined as EPG graphs admitting a model in which each path has at most $k$ bends. Circular-arc graphs are intersection graphs of open arcs of a circle. It is easy to see that every circular-arc graph is a $B_4$-EPG graph, by embedding the circle into a rectangle of the grid. In this paper, we prove that every circular-arc graph is $B_3$-EPG, and that there exist circular-arc graphs which are not $B_2$-EPG. If we restrict ourselves to rectangular representations (i.e., the union of the paths used in the model is contained in a rectangle of the grid), we obtain EPR (edge intersection of path in a rectangle) representations. We may define $B_k$-EPR graphs, $k\geq 0$, the same way as $B_k$-EPG graphs. Circular-arc graphs are clearly $B_4$-EPR graphs and we will show that there exist circular-arc graphs that are not $B_3$-EPR graphs. We also show that normal circular-arc graphs are $B_2$-EPR graphs and that there exist normal circular-arc graphs that are not $B_1$-EPR graphs. Finally, we characterize $B_1$-EPR graphs by a family of minimal forbidden induced subgraphs, and show that they form a subclass of normal Helly circular-arc graphs

Sensitivity Analysis and Quantification of the Role of Governing Transport Mechanisms and Parameters in a Gas Flow Model for Low-Permeability Porous Media

Recent models represent gas (methane) migration in low-permeability media as a weighted sum of various contributions, each associated with a given flow regime. These models typically embed numerous chemical/physical parameters that cannot be easily and unambiguously evaluated via experimental investigations. In this context, modern sensitivity analysis techniques enable us to diagnose the behavior of a given model through the quantification of the importance and role of model input uncertainties with respect to a target model output. Here, we rely on two global sensitivity analysis approaches and metrics (i.e., variance-based Sobol’ indices and moment-based AMA indices) to assess the behavior of a recent interpretive model that conceptualizes gas migration as the sum of a surface diffusion mechanism and two weighted bulk flow components. We quantitatively investigate the impact of (i) each uncertain model parameter and (ii) the type of their associated probability distribution on the evaluation of methane flow. We then derive the structure of an effective diffusion coefficient embedding all complex mechanisms of the model considered and allowing quantification of the relative contribution of each flow mechanism to the overall gas flow

An original deconvolution approach for oil production allocation based on geochemical fingerprinting

We tackle oil commingling scenarios and develop an original deconvolution approach for geochemical production allocation. This yields robust assessment of the proportions of oils forming a mixture originating from commingling oils associated with diverse reservoirs or, wells. Our study starts from considering that production allocation performed by means of geochemical fingerprinting is relevant in the context of modern and sustainable use of georesources, with the added benefit of favoring shared facilities and production equipment. A geochemical production allocation workflow is typically structured according to two steps: (i) determination of the chromatograms associated with the mixture (and eventually with each of the End Members, EMs, constituting the fluids in the mixture), and (ii) the use of a deconvolution algorithm to estimate the mass fraction of each EM. Concerning the latter step, we introduce an original approach and the ensuing deconvolution algorithm (hereafter termed PGM) that does not require additional laboratory efforts in comparison with traditional approaches. We also present extensions of widely used deconvolution algorithms, which we frame in a (stochastic) Monte Carlo context to improve their robustness and reliability. The new PGM approach is assessed jointly with a suite of typically used approaches and algorithms against new laboratory-based commingling scenarios. The latter are based on the design and introduction of a novel and low-cost experimental method. The results of the study (i) constitute a unique and rigorous comparison of the traditionally employed production allocation deconvolution algorithms, (ii) document the critical importance of the number of features of the chromatograms used during a quantitative deconvolution, and (iii) suggest that our new PGM approach is very robust and accurate compared to existing approaches

CX3CL1 reduces neurotoxicity and microglial activation in a rat model of Parkinson\u27s disease

BACKGROUND: Parkinson\u27s disease is characterized by a progressive loss of dopaminergic neurons in the substantia nigra. The cause of the neurodegeneration is unknown. Neuroinflammation has been clearly shown in Parkinson\u27s disease and may be involved in the progressive nature of the disease. Microglia are capable of producing neuronal damage through the production of bioactive molecules such as cytokines, as well as reactive oxygen species (ROS), and nitric oxide (NO). The inflammatory response in the brain is tightly regulated at multiple levels. One form of immune regulation occurs via neurons. Fractalkine (CX3CL1), produced by neurons, suppresses the activation of microglia. CX3CL1 is constitutively expressed. It is not known if addition of exogenous CX3CL1 beyond otherwise physiologically normal levels could decrease microglia activation and thereby minimize the secondary neurodegeneration following a neurotoxic insult. METHODS: The intrastriatal 6-hydroxydopamine (6-OHDA) rat model of Parkinson disease, was used to test the hypothesis that exogenous CX3CL1 could be neuroprotective. Treatment with recombinant CX3CL1 was delivered to the striatum by an osmotic minipump for 28 days beginning 7 days after the initial insult. Unbiased stereological methods were used to quantify the lesion size in the striatum, the amount of neuronal loss in the substantia nigra, and the amount of microglia activation. RESULTS: As hypothesized, CX3CL1 was able to suppress this microglia activation. The reduced microglia activation was found to be neuroprotective as the CX3CL1 treated rats had a smaller lesion volume in the striatum and importantly significantly fewer neurons were lost in the CX3CL1 treated rats. CONCLUSION: These findings demonstrated that CX3CL1 plays a neuroprotective role in 6-OHDA-induced dopaminergic lesion and it might be an effective therapeutic target for many neurodegenerative diseases, including Parkinson disease and Alzheimer disease, where inflammation plays an important role

CX3CL1 reduces neurotoxicity and microglial activation in a rat model of Parkinson\u27s disease

BACKGROUND: Parkinson\u27s disease is characterized by a progressive loss of dopaminergic neurons in the substantia nigra. The cause of the neurodegeneration is unknown. Neuroinflammation has been clearly shown in Parkinson\u27s disease and may be involved in the progressive nature of the disease. Microglia are capable of producing neuronal damage through the production of bioactive molecules such as cytokines, as well as reactive oxygen species (ROS), and nitric oxide (NO). The inflammatory response in the brain is tightly regulated at multiple levels. One form of immune regulation occurs via neurons. Fractalkine (CX3CL1), produced by neurons, suppresses the activation of microglia. CX3CL1 is constitutively expressed. It is not known if addition of exogenous CX3CL1 beyond otherwise physiologically normal levels could decrease microglia activation and thereby minimize the secondary neurodegeneration following a neurotoxic insult. METHODS: The intrastriatal 6-hydroxydopamine (6-OHDA) rat model of Parkinson disease, was used to test the hypothesis that exogenous CX3CL1 could be neuroprotective. Treatment with recombinant CX3CL1 was delivered to the striatum by an osmotic minipump for 28 days beginning 7 days after the initial insult. Unbiased stereological methods were used to quantify the lesion size in the striatum, the amount of neuronal loss in the substantia nigra, and the amount of microglia activation. RESULTS: As hypothesized, CX3CL1 was able to suppress this microglia activation. The reduced microglia activation was found to be neuroprotective as the CX3CL1 treated rats had a smaller lesion volume in the striatum and importantly significantly fewer neurons were lost in the CX3CL1 treated rats. CONCLUSION: These findings demonstrated that CX3CL1 plays a neuroprotective role in 6-OHDA-induced dopaminergic lesion and it might be an effective therapeutic target for many neurodegenerative diseases, including Parkinson disease and Alzheimer disease, where inflammation plays an important role

Hydrogen bonds in the binding of some polyphenols from Quebracho (Schinopsis spp.) to soybean meal protein under in vitro ruminal conditions

The extent of binding to soya protein of a commercial tannin (Quebracho), its ethyl acetate extract, the major putative compound (fisetinidol-(4,8)-cathequin-(6,4)-fisetinidol), and the acetylated and methylated derivatives of the major latter was evaluated incubating them with soybean meal under in vitro ruminal conditions for 48h. The protein binding activity was estimated measuring changes in ammonia concentration when the tannin was incubated with soybean meal at a proportion of 8% of the dry weight. As compared to soybean meal alone (control), ammonia concentration decreased by 19, 27, and 31% for quebracho, the ethyl acetate extract of quebracho and the major compound, respectively, indicating concentration of the protein binding activity. Acetylation or methylation of the major compound resulted in corresponding decreases in the concentration of ammonia by 21 and 6%. This suggested that as the possibility of hydrogen bond formation decreases (being less with methylation than with acetylation), the binding to the protein is reduced but is not eliminated completely. Therefore, our hypothesis is that the main interactions between fisetinidol-(4,8)-cathequin-(6,4)-fisetinidol and soybean protein in an in vitro ruminal system are hydrogen bonds and that only a few hydrophobic interactions are present

Estimates of biomass and potential yield for the deep-water red crab, Chaceon affinis and the toothed rock crab, Cancer bellianus (Decapoda: Brachyura) off the Azores (Mid-North Atlantic)

Available information on the deep-water red crab, Chaceon affinis and the toothed rock crab, Cancer bellianus, resulting from exploratory research surveys and commercial fishing experiments carried out in the Azorean Exclusive Economic Zone (EEZ), were summarized to estimate the biomass and potential yield (Maximum Sustainable Yield – MSY) for both fishery resources. The fishery potential was estimated through empirical methods usually applied when available information is scarce in line with the precautionary approach principle. Results suggest modest MSY values (considered as precautionary Total Allowable Catch – TAC), around 2,205 t for the deep-water red crab (2,159 t year-1 at seamounts and 46 t year-1 at coastal areas), and 471 t for the toothed rock crab (281 t year-1 at offshore seamounts and 189 t year-1 at coastal areas). Considering the limited available data and high uncertainty associated with these estimations, it is suggested that only a reduced number of vessels should be allowed to fish in the aggregated areas, namely coastal and seamount areas. The exploitation of these resources should be started in a very limited way followed by an ad hoc observer programme, aiming to collect reliable data that will allow, if it is the case, to raise in the future the exploitation level in a gradual and sustainable way.Régis Santos was supported by the IMAR Institute of Marine Research, through a post-doc fellowship (ref. IMAR/DEMERSAIS/001-2018). Wendell Silva was funded by the IMAR Instituto do Mar, through a scholarship (ref. IMAR/UNI/MAR/04292/2013 MARE/001-2018). Ana Novoa-Pabon was funded by an FCT Ph.D. fellowship (ref. SFRH/BD/124720/2016).info:eu-repo/semantics/publishedVersio

Estimates of biomass and potential yield for the deep-water red crab, Chaceon affinis and the toothed rock crab, Cancer bellianus (Decapoda: Brachyura) off the Azores (Mid-North Atlantic)

Available information on the deep-water red crab, Chaceon affinis and the toothed rock crab, Cancer bellianus, resulting from exploratory research surveys and commercial fishing experiments carried out in the Azorean Exclusive Economic Zone (EEZ), were summarized to estimate the biomass and potential yield (Maximum Sustainable Yield – MSY) for both fishery resources. The fishery potential was estimated through empirical methods usually applied when available information is scarce in line with the precautionary approach principle. Results suggest modest MSY values (considered as precautionary Total Allowable Catch – TAC), around 2,205 t for the deep-water red crab (2,159 t year-1 at seamounts and 46 t year-1 at coastal areas), and 471 t for the toothed rock crab (281 t year-1 at offshore seamounts and 189 t year-1 at coastal areas). Considering the limited available data and high uncertainty associated with these estimations, it is suggested that only a reduced number of vessels should be allowed to fish in the aggregated areas, namely coastal and seamount areas. The exploitation of these resources should be started in a very limited way followed by an ad hoc observer programme, aiming to collect reliable data that will allow, if it is the case, to raise in the future the exploitation level in a gradual and sustainable way.Régis Santos was supported by the IMAR Institute of Marine Research, through a post-doc fellowship (ref. IMAR/DEMERSAIS/001-2018). Wendell Silva was funded by the IMAR Instituto do Mar, through a scholarship (ref. IMAR/UNI/MAR/04292/2013 MARE/001-2018). Ana Novoa-Pabon was funded by an FCT Ph.D. fellowship (ref. SFRH/BD/124720/2016).info:eu-repo/semantics/publishedVersio

Ecosystem physio-phenology revealed using circular statistics

Quantifying responses of vegetation phenology to climate variability is a key prerequisite to predict shifts in how ecosystem dynamics due to climate change. So far, many studies have focused on responses of classical phenological events (e.g. budburst or flowering) to climatic variability for individual species. Comparatively little is known on physio-phenological events such as the timing of the maximum gross primary production (DOYGPPmax). However, understanding this type of physio-phenological phenomena is an essential element in predicting the response of the terrestrial carbon cycle to climate variability. In this study, we aim to understand how DOYGPPmax depends on climate drivers across 52 eddy-covariance (EC) sites in the FLUXNET network for different regions of the world. Most phenological studies rely on linear methods that cannot be generalized across both hemispheres and therefore do not allow for deriving general rules that can be applied for future predictions. Here we explore a new class of circular-linear (here called circular) regression approach that may show a path ahead. Circular regression allows relating circular variables (in our case phenological events) to linear predictor variables (e.g. climate conditions). As a proof of concept, we compare the performance of linear and circular regression to recover original coefficients of a predefined circular model on artificial and EC data. We then quantify the sensitivity of DOYGPPmax to air temperature, short-wave incoming radiation, precipitation and vapor pressure deficit using circular regressions. Finally, we evaluate the predictive power of the regression models for different vegetation types. Our results show that the DOYGPPmax of each FLUXNET site has a unique signature of climatic sensitivities. Overall radiation and temperature are the most relevant controlling factors of DOYGPPmax across sites. The circular approach gives us new insights at the site level. In a Mediterranean shrub-land, for instance, we find that the two growing seasons are controlled by different climatic factors. Although the sensitivity of the DOYGPPmax to the climate drivers is very site specific, it is possible to extrapolate the circular regression model across vegetation types. From a methodological point of view, our results reveal that circular regression is a robust alternative to conventional phenological analytic frameworks. In particular global analyses can benefit, where phase shifts play a role or double peaked growing seasons may occur