Macrophages trajectories smoothing by evolving curves

When analyzing cell trajectories, we often have to deal with noisy data due to the random motion of the cells and possible imperfections in cell center detection. To smooth these trajectories, we present a mathematical model and numerical method based on evolving open-plane curve approach in the Lagrangian formulation. The model contains two terms: the first is the smoothing term given by the influence of local curvature, while the other attracts the curve to the original trajectory. We use the flowing finite volume method to discretize the advection-diffusion partial differential equation. The PDE includes the asymptotically uniform tangential redistribution of curve grid points. We present results for macrophage trajectory smoothing and define a method to compute the cell velocity for the discrete points on the smoothed curve

Removal of Pb(II) from aqueous solution by a zeolite–nanoscale zero-valent iron composite

The effectiveness of nanoscale zero-valent iron (nZVI) to remove heavy metals from water is reduced by its low durability, poor mechanical strength, and tendency to form aggregates. A composite of zeolite and nanoscale zero-valent iron (Z–nZVI) overcomes these problems and shows good potential to remove Pb from water. FTIR spectra support nZVI loading onto the zeolite and reduced Fe0 oxidation in the Z–nZVI composite. Scanning electron micrographs show aggregation was eliminated and transmission electron micrographs show well-dispersed nZVI in chain-like structures within the zeolite matrix. The mean surface area of the composite was 80.37 m2/g, much greater than zeolite (1.03 m2/g) or nZVI (12.25 m2/g) alone, as determined by BET-N2 measurement. More than 96% of the Pb(II) was removed from 100 mL of solution containing 100 mg Pb(II)/L within 140 min of mixing with 0.1 g Z–nZVI. Tests with solution containing 1000 mg Pb(II)/L suggested that the capacity of the Z–nZVI is about 806 mg Pb(II)/g. Energy-dispersive X-ray spectroscopy showed the presence of Fe in the composite; X-ray diffraction confirmed formation and immobilization of Fe0 and subsequent sorption and reduction of some of the Pb(II) to Pb0. The low quantity of Pb(II) recovered in water-soluble and Ca(NO3)2-extractable fractions indicate low bioavailability of the Pb(II) removed by the composite. Results support the potential use of the Z–nZVI composite in permeable reactive barriers

Removal of Pb(II) from aqueous solution by a zeolite–nanoscale zero-valent iron composite

The effectiveness of nanoscale zero-valent iron (nZVI) to remove heavy metals from water is reduced by its low durability, poor mechanical strength, and tendency to form aggregates. A composite of zeolite and nanoscale zero-valent iron (Z–nZVI) overcomes these problems and shows good potential to remove Pb from water. FTIR spectra support nZVI loading onto the zeolite and reduced Fe0 oxidation in the Z–nZVI composite. Scanning electron micrographs show aggregation was eliminated and transmission electron micrographs show well-dispersed nZVI in chain-like structures within the zeolite matrix. The mean surface area of the composite was 80.37 m2/g, much greater than zeolite (1.03 m2/g) or nZVI (12.25 m2/g) alone, as determined by BET-N2 measurement. More than 96% of the Pb(II) was removed from 100 mL of solution containing 100 mg Pb(II)/L within 140 min of mixing with 0.1 g Z–nZVI. Tests with solution containing 1000 mg Pb(II)/L suggested that the capacity of the Z–nZVI is about 806 mg Pb(II)/g. Energy-dispersive X-ray spectroscopy showed the presence of Fe in the composite; X-ray diffraction confirmed formation and immobilization of Fe0 and subsequent sorption and reduction of some of the Pb(II) to Pb0. The low quantity of Pb(II) recovered in water-soluble and Ca(NO3)2-extractable fractions indicate low bioavailability of the Pb(II) removed by the composite. Results support the potential use of the Z–nZVI composite in permeable reactive barriers

A physical map of Brassica oleracea shows complexity of chromosomal changes following recursive paleopolyploidizations

<p>Abstract</p> <p>Background</p> <p>Evolution of the Brassica species has been recursively affected by polyploidy events, and comparison to their relative, <it>Arabidopsis thaliana</it>, provides means to explore their genomic complexity.</p> <p>Results</p> <p>A genome-wide physical map of a rapid-cycling strain of <it>B. oleracea </it>was constructed by integrating high-information-content fingerprinting (HICF) of Bacterial Artificial Chromosome (BAC) clones with hybridization to sequence-tagged probes. Using 2907 contigs of two or more BACs, we performed several lines of comparative genomic analysis. Interspecific DNA synteny is much better preserved in euchromatin than heterochromatin, showing the qualitative difference in evolution of these respective genomic domains. About 67% of contigs can be aligned to the Arabidopsis genome, with 96.5% corresponding to euchromatic regions, and 3.5% (shown to contain repetitive sequences) to pericentromeric regions. Overgo probe hybridization data showed that contigs aligned to Arabidopsis euchromatin contain ~80% of low-copy-number genes, while genes with high copy number are much more frequently associated with pericentromeric regions. We identified 39 interchromosomal breakpoints during the diversification of <it>B. oleracea </it>and <it>Arabidopsis thaliana</it>, a relatively high level of genomic change since their divergence. Comparison of the <it>B. oleracea </it>physical map with Arabidopsis and other available eudicot genomes showed appreciable 'shadowing' produced by more ancient polyploidies, resulting in a web of relatedness among contigs which increased genomic complexity.</p> <p>Conclusions</p> <p>A high-resolution genetically-anchored physical map sheds light on Brassica genome organization and advances positional cloning of specific genes, and may help to validate genome sequence assembly and alignment to chromosomes.</p> <p>All the physical mapping data is freely shared at a WebFPC site (<url>http://lulu.pgml.uga.edu/fpc/WebAGCoL/brassica/WebFPC/</url>; Temporarily password-protected: account: pgml; password: 123qwe123.</p

A comprehensive characterization of the caspase gene family in insects from the order Lepidoptera

<p>Abstract</p> <p>Background</p> <p>The cell suicide pathway of apoptosis is a necessary event in the life of multicellular organisms. It is involved in many biological processes ranging from development to the immune response. Evolutionarily conserved proteases, called caspases, play a central role in regulating apoptosis. Reception of death stimuli triggers the activation of initiator caspases, which in turn activate the effector caspases. In Lepidoptera, apoptosis is crucial in processes such as metamorphosis or defending against baculovirus infection. The discovery of p35, a baculovirus protein inhibiting caspase activity, has led to the characterization of the first lepidopteran caspase, Sf-Caspase-1. Studies on Sf-Caspase-1 mode of activation suggested that apoptosis in Lepidoptera requires a cascade of caspase activation, as demonstrated in many other species.</p> <p>Results</p> <p>In order to get insights into this gene family in Lepidoptera, we performed an extensive survey of lepidopteran-derived EST datasets. We identified 66 sequences distributed among 27 species encoding putative caspases. Phylogenetic analyses showed that Lepidoptera possess at least 5 caspases, for which we propose a unified nomenclature. According to homology to their <it>Drosophila </it>counterparts and their primary structure, we determined that Lep-Caspase-1, -2 and -3 are putative effector caspases, whereas Lep-Caspase-5 and -6 are putative initiators. The likely function of Lep-Caspase-4 remains unclear. Lep-Caspase-2 is absent from the silkworm genome and appears to be noctuid-specific, and to have arisen from a tandem duplication of the Caspase-1 gene. In the tobacco hawkmoth, 3 distinct transcripts encoding putative Caspase-4 were identified, suggesting at least 2 duplication events in this species.</p> <p>Conclusions</p> <p>The basic repertoire of five major types of caspases shared among Lepidoptera seems to be smaller than for most other groups studied to date, but gene duplication still plays a role in lineage-specific increases in diversity, just as in Diptera and mammals.</p

Intracardiac Echocardiogram: Feasibility, Efficacy, and Safety for Guidance of Transcatheter Multiple Atrial Septal Defects Closure

We aimed to determine the feasibility, efficacy, success, and safety of intracardiac echocardiography (ICE) in transcatheter multiple atrial septal defect (ASD) closure. Of 185 patients with multiple ASDs who underwent transcatheter closure, 140 (76%) patients who weighed p 7 mm was high, and more cases required ≥2 devices in the 3D TEE group than those in the ICE group (p p p = 0.0005). No difference in the complete closure rate and complications was observed. ICE-guided transcatheter and 3D TEE were feasible, safe, and effective in successful multiple ASD device closures, especially for young children and patients at high risk under general anesthesia

Macrophage image segmentation by Thresholding and subjective surface Method

International audienceWe introduce two level-set method approaches to segmentation of 2D macrophage images. The first one is based on the Otsu thresholding and the second one on the information entropy thresholding, both followed by the classical subjective surface (SUBSURF) method. Results of both methods are compared with the semi-automatic Lagrangian method in which the segmentation curve evolves along the edge of the macrophage and it is controlled by an expert user. We present the comparison of all three methods with respect to the Hausdorff distance of resulting segmentation curves and we compare also their perimeter and enclosed area. We show that accuracy of the automatic SUBSURF method is comparable to the results of the semi-automatic Lagrangian segmentation

Macrophage image segmentation by Thresholding and subjective surface Method

International audienc