Three-dimensional petrographical investigations on borehole rock samples: a comparison between X-ray computed- and neutron tomography

Technical difficulties associated with excavation works in tectonized geological settings are frequent. They comprise instantaneous and/or delayed convergence, sudden collapse of gallery roof and/or walls, outpouring of fault-filling materials and water inflows. These phenomena have a negative impact on construction sites and their safety. In order to optimize project success, preliminary studies on the reliability of rock material found on site are needed. This implies in situ investigations (surface mapping, prospective drilling, waterflow survey, etc.) as well as laboratory investigations on rock samples (permeability determination, moisture and water content, mineralogy, petrography, geochemistry, mechanical deformation tests, etc.). A set of multiple parameters are then recorded which permit better insight on site conditions and probable behavior during excavation. Because rock formations are by nature heterogeneous, many uncertainties remain when extrapolating large-scale behavior of the rock mass from analyses of samples order of magnitudes smaller. Indirect large-scale field investigations (e.g. geophysical prospecting) could help to better constrain the relationships between lithologies at depth. At a much smaller scale, indirect analytical methods are becoming more widely used for material investigations. We discuss in this paper X-ray computed tomography (XRCT) and neutron tomography (NT), showing promising results for 3D petrographical investigations of the internal structure of opaque materials. Both techniques record contrasts inside a sample, which can be interpreted and quantified in terms of heterogeneity. This approach has the advantage of combining genetic parameters (physico-chemical rock composition) with geometric parameters resulting from alteration or deformation processes (texture and structure). A critical analysis of such 3D analyses together with the results of mechanical tests could improve predictions of short- and long-term behavior of a rock unit. Indirect methods have the advantage of being non-destructive. However, as it is the case with large-scale geophysical surveying, XRCT and NT are affected by several error factors inherent to the interaction of a radiation modality (X-ray or neutron beam) with the atomic structure of the investigated materials. Recorded signals are therefore in particular cases not artifact-free and need to be corrected in a subsequent stage of data processin

DataSheet_1_The impact of COVID lockdown on glycaemic control in paediatric patients with type 1 diabetes: A systematic review and meta-analysis of 22 observational studies.pdf

IntroductionThe COVID lockdown has posted a great challenge to paediatric patients with type 1 diabetes (T1D) and their caregivers on the disease management. This systematic review and meta-analysis sought to compare the glycaemic control among paediatric patients with T1D (aged under 18 years) pre- during, and post-lockdown period.Methods and materialsWe did a systematic search of three databases (PubMed, Embase, and the WHO COVID‐19 Global literature) for the literature published between 1 Jan 2019 to 10 Sep 2022. Studies meeting the following inclusion criteria were eligible for this study: (1) a COVID-19 related study; (2) inclusion of children aged 18 years old or under with established T1D; (3) comparing the outcomes of interest during or after the COVID lockdown with that before the lockdown. Study endpoints included mean difference (MD) in HbA1c, blood glucose, time in range (TIR, 70-180 mg/dl), time above range (TAR, >180mg/dl), time below range (TBR,ResultsInitial search identified 4488 records and 22 studies with 2106 paediatric patients with T1D were included in the final analysis. Compared with pre-lockdown period, blood glucose was significantly decreased by 0.11 mmol/L (95%CI: -0.18, -0.04) during lockdown period and by 0.42 mmol/L (95%CI: -0.73, -0.11) after lockdown. The improvement was also found for TIR, TAR, TBR, and CV during and post-lockdown (all p valuesConclusionCompared with pre-lockdown period, there was significant improvement in T1D paediatric patients’ glucose metrics during and post-lockdown. The underlying reasons for this positive impact warrant further investigation to inform future paediatric diabetes management.Systematic Review Registrationhttps://www.crd.york.ac.uk/PROSPERO/, identifier CRD42022359213.</p

Vimar Is a Novel Regulator of Mitochondrial Fission through Miro

<div><p>As fundamental processes in mitochondrial dynamics, mitochondrial fusion, fission and transport are regulated by several core components, including Miro. As an atypical Rho-like small GTPase with high molecular mass, the exchange of GDP/GTP in Miro may require assistance from a guanine nucleotide exchange factor (GEF). However, the GEF for Miro has not been identified. While studying mitochondrial morphology in <i>Drosophila</i>, we incidentally observed that the loss of <i>vimar</i>, a gene encoding an atypical GEF, enhanced mitochondrial fission under normal physiological conditions. Because Vimar could co-immunoprecipitate with Miro <i>in vitro</i>, we speculated that Vimar might be the GEF of Miro. In support of this hypothesis, a loss-of-function (LOF) <i>vimar</i> mutant rescued mitochondrial enlargement induced by a gain-of-function (GOF) <i>Miro</i> transgene; whereas a GOF <i>vimar</i> transgene enhanced <i>Miro</i> function. In addition, <i>vimar</i> lost its effect under the expression of a constitutively GTP-bound or GDP-bound Miro mutant background. These results indicate a genetic dependence of vimar on Miro. Moreover, we found that mitochondrial fission played a functional role in high-calcium induced necrosis, and a LOF <i>vimar</i> mutant rescued the mitochondrial fission defect and cell death. This result can also be explained by vimar's function through Miro, because Miro’s effect on mitochondrial morphology is altered upon binding with calcium. In addition, a <i>PINK1</i> mutant, which induced mitochondrial enlargement and had been considered as a <i>Drosophila</i> model of Parkinson’s disease (PD), caused fly muscle defects, and the loss of <i>vimar</i> could rescue these defects. Furthermore, we found that the mammalian homolog of Vimar, RAP1GDS1, played a similar role in regulating mitochondrial morphology, suggesting a functional conservation of this GEF member. The Miro/Vimar complex may be a promising drug target for diseases in which mitochondrial fission and fusion are dysfunctional.</p></div

The conserved role of RAP1GDS1 in mammalian cells.

<p>(<b>A</b>) Effect of RAP1GDS1 knock down on the mitochondrial morphology in HEK293T cells. The mitochondria in the cells that stably express the RAP1GDS1 shRNA are labeled with a transiently transfected MitoDsred expression vector. The cells were classified as tubular-shape or punctate-shape based on differences in their mitochondrial lengths. The ratio of punctate-shape mitochondria is shown in the right panel. The result showed that RAP1GDS1 shRNA had a trend to increase the punctate-shape mitochondria (not statistically different from the control shRNA). Trial N = 3, with 100 cells were quantified in each trial. (<b>B</b>) Effect of RAP1GDS1 knocking down on the mitochondrial fragmentation under calcium overload stress. The HEK293T cells were treated with 20 μM calcium ionophore (A23187) for 4 hours. The result showed that RAP1GDS1 shRNA reduced fragmented mitochondria upon calcium ionophore treatment. Trial N = 3, with 100 cells were quantified in each trial. (<b>C</b>) Effect of the RAP1GDS1 shRNA on calcium ionophore-induced necrosis. The HEK293T control and RAP1GDS1 shRNA stable cell lines were treated with 20 μM A23187 for 14 hours. Then, the cell death was quantified by the ATP assay. The result indicated that less cell death occurred in the RAP1GDS1 shRNA expressing cells. Trial N = 3. (<b>D</b>) Effect of the RAP1GDS1 shRNA on calcium ionophore-induced necrosis. The PI and DAPI staining patterns are shown. The red signals indicate the PI-positive cells and the blue channel indicates the DAPI staining. Trial N = 3. (<b>E</b>) Effect of the <i>Miro1</i> siRNA on calcium ionophore induced necrosis determined by the ATP assay. The <i>Miro1</i> siRNA was transiently transfected in HEK293T cells for 48 hours. Trial N = 3. (<b>F</b>) Effect of the <i>Miro1</i> siRNA on calcium ionophore induced necrosis determined by the PI staining assay. The PI and DAPI staining patterns are shown. The same result was observed as in <b>E</b>. Trial N = 3. (<b>G</b>) Co-Immunoprecipitation of RAP1GDS1 and Miro1. The proteins were collected from the HEK293T cells that expressed Flag-tagged RAP1GDS1 (Flag-RAP1GDS1) and HA-tagged Miro1 (HA-Miro1). The control IgG is shown as a negative control. The total protein input is shown as the protein loading control. Trial N = 3.</p

Vimar suppresses neuronal necrosis and muscle degeneration induced by the <i>Pink1</i> mutant.

<p>(<b>A</b>) Effect of the <i>Drp1</i> mutant on neuronal necrosis. The micrographs showed the live images from larval chordotonal neurons. The control (<i>Appl>GFP;tub-Gal80</i>^<i>ts</i>) displays the cell bodies of the wild type chordotonal neurons, which form a cluster containing 6 neurons. In the <i>AGG</i> background, the wild type (+/+) flies showed swollen cell bodies, weakened GFP intensity and neuronal cell loss; and these defects were rescued under the <i>Drp1</i> mutant (<i>Drp1</i>^<i>1</i>) background. The right panel shows the quantification of the cell loss. For all quantification of neuronal necrosis, trial N = 5, with 10–15 flies were examined in each trial in this figure. (<b>B</b>) Effect of the <i>Drp1</i> mutant on the survival of the <i>AG</i> adult flies. For all quantification of <i>AG</i> lethality, trial N = 3, with 100–150 flies were examined for each trial. (<b>C</b>) Effect of <i>vimar</i> mutant on neuronal necrosis. (<b>D</b>) Effect of the <i>vimar</i> mutant on the survival of the <i>AG</i> flies. (<b>E</b>) Effect of <i>vimar</i> overexpression on neuronal necrosis. (<b>F</b>) Effect of <i>vimar</i> overexpression on the survival of the <i>AG</i> flies. (<b>G</b>) Effect of <i>Miro</i> overexpression on neuronal necrosis. The result showed that <i>Miro</i> overexpression enhanced neuronal necrosis; and the <i>vimar</i> mutant had no rescue effect on this defect. (<b>H</b>) Effect of <i>Miro</i> overexpression on the survival of the <i>AG</i> flies. (<b>I</b>) Effect of the <i>vimar</i> mutant (<i>vimar</i>^{<i>k16722</i>}) on <i>PINK1</i> mutant induced mitochondrial defect. The live image showed the mitochondrial morphology in the <i>PINK1</i> mutant (<i>PINK1</i>^<i>5</i>) and under the <i>vimar</i> mutant background. Ten thoraces were analyzed for each genotype. (<b>J</b>) Effect of the <i>vimar</i> mutant (<i>vimar</i>^{<i>k16722</i>}) on the wing posture defect of the <i>PINK1</i> mutant (<i>PINK1</i>^<i>5</i>). Trial N = 3, with 100–150 flies were examined in each trial.</p

Interaction of vimar and Miro.

<p>(<b>A</b>) Co-Immunoprecipitation of vimar and Miro. The proteins were collected from the HEK293T cells that expressed both Flag-tagged Vimar (Flag-Vimar) and HA-tagged Miro (HA-Miro). Then, the proteins were precipitated with a HA (left panel) or Flag antibody (right panel). The control IgG is shown as a negative control. The total protein input is shown as the protein loading control. (<b>B</b>) An example of the defective wing posture. Compared to the control, overexpression of <i>Miro</i> in the adult flight muscle (<i>Mhc>Miro</i>) resulted in an upright fly wing posture. (<b>C</b>) Quantification of defective wing posture in the <i>Miro</i> overexpression background or in the <i>Mhc-Gal4</i> background. Trial N = 3, with 100–150 flies examined in each experiment. (<b>D</b>) Live imaging of the mitochondrial morphology in the fly flight muscle. The genotype of each fly muscle is labeled on the micrograph. Five thoraces were quantified for each genotype. (<b>E</b>) Quantification of defective wing posture in the Miro20V and Miro25N overexpression background. Trial N = 3, with 100–150 flies examined in each experiment. (<b>F</b>) Live imaging of the mitochondrial morphology in the fly flight muscle in the indicated genotypes. Five thoraces were quantified for each genotype.</p

A schematic model of Miro/vimar function on mitochondrial morphology.

<p>In normal calcium conditions, the Miro/vimar complex promotes mitochondrial fission inhibition, and their GOF results in elongated mitochondria. Increased mitochondrial fusion is known to occur in the <i>PINK1</i> mutant flies, and this defect can be rescued by LOF Miro/vimar. In the high calcium state, the Miro/vimar complex promotes mitochondrial fragmentation, which accelerates neuronal necrosis. Regardless of the intracellular calcium level, vimar enhances the function of Miro, because vimar is likely the GEF to promote Miro's GTP/GDP exchange.</p

<i>Drosophila vimar</i> affects mitochondrial morphology under normal conditions.

<p>(<b>A</b>) <b>a-e</b>, Live imaging of the mitochondrial morphology in the flight muscle of adult flies. The mitochondria are labeled with <i>UAS-mitoGFP</i> driven by <i>Mhc-Gal4</i> (<i>Mhc>mitoGFP</i>). The genotype is indicated on each micrograph. <b>f</b>, To quantify the mitochondrial size, the averaged mitochondrial size of the control (+/+) is set as 1, and the relative ratios of the other genotypes to the control are shown. Five thoraces from each genotype were quantified. Bar graphs throughout all figures are means ± SD. The white bar represents the control, the gray bar represents no statistical different from the control, and the black bar represents significantly different from the control. * for p<0.05; ** for p<0.01; ***for p<0.001. (<b>B</b>) Mitochondrial distribution and morphology in larval oenocytes. <b>a</b>, The mitochondria are labeled with <i>PromE(800)> mitoGFP</i>. <b>b-e</b>, The effects of <i>Khc</i>, <i>Milton</i>, <i>Miro</i> and <i>vimar RNAi</i> are shown. The dotted red lines denote the cell boundaries, which were determined by the mitoGFP background. <b>a'-e'</b>, Enlarged view of the white box labeled area in the upper panel. <b>f</b>, To quantify the mitochondrial length, the averaged mitochondrial length of the control (+/+) is set as 1, and the relative ratios of the other genotypes to the control are shown. Mitochondrial length of five oenocytes was quantified per genotype and shown as means ± SD. (<b>C</b>) Live imaging of mitochondria in eye disc after knocking down <i>vimar</i> by <i>GMR>mitoGFP</i>. Three eye discs were analyzed for each genotype. (<b>D</b>) Effect of <i>vimar</i> on mitochondrial transport. The mitochondria are labeled with mitoGFP (<i>CCAP>mitoGFP</i>), and their movements in the axons were recorded and transformed into kymographs. Mitochondria motion in ten axons from five larvae was analyzed for each genotype. The quantification is shown on the bar graph. (<b>E</b>) Subcellular vimar protein distribution by protein fractionation. The proteins from adult thoraces (<i>Mhc>MitoGFP</i>) were separated into cytosolic and crude mitochondrial fractions. The vimar protein enrichment was analyzed by immunobloting with the anti-vimar antibody. The mitoGFP protein was detected by the anti-GFP antibody; and β-actin is a cytosolic protein.</p

Comparative transcriptomics in : a global view of environmental modulation of gene expression-4

<p><b>Copyright information:</b></p><p>Taken from "Comparative transcriptomics in : a global view of environmental modulation of gene expression"</p><p>http://www.biomedcentral.com/1471-2180/7/96</p><p>BMC Microbiology 2007;7():96-96.</p><p>Published online 29 Oct 2007</p><p>PMCID:PMC2231364.</p><p></p>7 contain 1.0, 0.7, 0.4, 0.1 and 0 μg of the recombinant Fur protein. In (A) – (I), an arrow and an asterisk indicate the probe (free) and the Fur-probe complex (bound), respectively

Comparative transcriptomics in : a global view of environmental modulation of gene expression-5

<p><b>Copyright information:</b></p><p>Taken from "Comparative transcriptomics in : a global view of environmental modulation of gene expression"</p><p>http://www.biomedcentral.com/1471-2180/7/96</p><p>BMC Microbiology 2007;7():96-96.</p><p>Published online 29 Oct 2007</p><p>PMCID:PMC2231364.</p><p></p>s show the transcriptional changes of the virulence genes, where columns represent different microarray experiments, and rows represent genes. Color intensities denote logratios as follows: green, negative; black, zero; red, positive; gray, missing data