bluuebunny/crossref_metadata_2025_split huggingface dataset:
Structural insights into tetraspanin CD9 function
Authors: Umeda Rie , Satouh Yuhkoh , Takemoto Mizuki , Nakada-Nakura Yoshiko , Liu Kehong , Yokoyama Takeshi , Shirouzu Mikako , Iwata So , Nomura Norimichi , Sato Ken , Ikawa Masahito , Nishizawa Tomohiro , Nureki Osamu 
Published: March 2020

AbstractTetraspanins play critical roles in various physiological processes, ranging from cell adhesion to virus infection. The members of the tetraspanin family have four membrane-spanning domains and short and large extracellular loops, and associate with a broad range of other functional proteins to exert cellular functions. Here we report the crystal structure of CD9 and the cryo-electron microscopic structure of CD9 in complex with its single membrane-spanning partner protein, EWI-2. The reversed cone-like molecular shape of CD9 generates membrane curvature in the crystalline lipid layers, which explains the CD9 localization in regions with high membrane curvature and its implications in membrane remodeling. The molecular interaction between CD9 and EWI-2 is mainly mediated through the small residues in the transmembrane region and protein/lipid interactions, whereas the fertilization assay revealed the critical involvement of the LEL region in the sperm-egg fusion, indicating the different dependency of each binding domain for other partner proteins.
Novel methods for global water safety monitoring: comparative analysis of low-cost, field-ready E. coli assays
Authors: Brown Joe , Bir Arjun , Bain Robert E. S. 
Published: March 2020

AbstractCurrent microbiological water safety testing methods are not feasible in many settings because of laboratory, cost, and other constraints, particularly in low-income countries where water quality monitoring is most needed to protect public health. We evaluated two promising E. coli methods that may have potential in at-scale global water quality monitoring: a modified membrane filtration test followed by incubation on pre-prepared plates with dehydrated culture medium (CompactDryTM), and 10 and 100 ml presence–absence tests using the open-source Aquatest medium (AT). We compared results to membrane filtration followed by incubation on MI agar as the standard test. We tested 315 samples in triplicate of drinking water in Bangalore, India, where E. coli counts by the standard method ranged from non-detect in 100 ml samples to TNTC (>200). Results suggest high sensitivity and specificity for E. coli detection of candidate tests compared with the standard method: sensitivity and specificity of the 100 ml AT test was 97% and 96% when incubated for 24 h at standard temperature and 97% and 97% when incubated 48 h at ambient temperatures (mean: 27 °C). Sensitivity and specificity of the CompactDryTM test was >99 and 97% when incubated for 24 h at standard temperature and >99 and 97% when incubated 48 h at ambient temperatures. Good agreement between these candidate tests compared with the reference method suggests they are suitable for E. coli monitoring to indicate water safety.
The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization
Authors: Du Kang , Stöck Matthias , Kneitz Susanne , Klopp Christophe , Woltering Joost M. , Adolfi Mateus Contar , Feron Romain , Prokopov Dmitry , Makunin Alexey , Kichigin Ilya , Schmidt Cornelia , Fischer Petra , Kuhl Heiner , Wuertz Sven , Gessner Jörn , Kloas Werner , Cabau Cédric , Iampietro Carole , Parrinello Hugues , Tomlinson Chad , Journot Laurent , Postlethwait John H. , Braasch Ingo , Trifonov Vladimir , Warren Wesley C. , Meyer Axel , Guiguen Yann , Schartl Manfred 
Published: March 2020

AbstractSturgeons seem to be frozen in time. The archaic characteristics of this ancient fish lineage place it in a key phylogenetic position at the base of the ~30,000 modern teleost fish species. Moreover, sturgeons are notoriously polyploid, providing unique opportunities to investigate the evolution of polyploid genomes. We assembled a high-quality chromosome-level reference genome for the sterlet, Acipenser ruthenus. Our analysis revealed a very low protein evolution rate that is at least as slow as in other deep branches of the vertebrate tree, such as that of the coelacanth. We uncovered a whole-genome duplication that occurred in the Jurassic, early in the evolution of the entire sturgeon lineage. Following this polyploidization, the rediploidization of the genome included the loss of whole chromosomes in a segmental deduplication process. While known adaptive processes helped conserve a high degree of structural and functional tetraploidy over more than 180 million years, the reduction of redundancy of the polyploid genome seems to have been remarkably random.
Modelling the electric field in reactors yielding cold atmospheric–pressure plasma jets
Authors: Vafeas P. , Papadopoulos P. K. , Vafakos G. P. , Svarnas P. , Doschoris M. 
Published: March 2020

AbstractThe behavior of the electric field in Cold Atmospheric–Pressure Plasma jets (CAPP jets) is important in many applications related to fundamental science and engineering, since it provides crucial information related to the characteristics of plasma. To this end, this study is focused on the analytic computation of the electric field in a standard plasma reactor system (in the absence of any space charge), considering the two principal configurations of either one–electrode or two–electrodes around a dielectric tube. The latter is considered of minor contribution to the field calculation that embodies the working gas, being an assumption for the current research. Our analytical technique employs the cylindrical geometry, properly adjusted to the plasma jet system, whereas handy subdomains separate the area of electric activity. Henceforth, we adapt the classical Maxwell’s potential theory for the calculation of the electric field, wherein standard Laplace’s equations are solved, supplemented by the appropriate boundary conditions and the limiting conduct at the exit of the nozzle. The theoretical approach matches the expected physics and captures the corresponding essential features in a fully three–dimensional fashion via the derivation of closed–form expressions for the related electrostatic fields as infinite series expansions of cylindrical harmonic eigenfunctions. The feasibility of our method for both cases of the described experimental setup is eventually demonstrated by efficiently incorporating the necessary numerical implementation of the obtained formulae. The analytical model is benchmarked against reported numerical results, whereas discrepancies are commented and prospective work is discussed.
The three-dimensional bone mass distribution of the posterior pelvic ring and its key role in transsacral screw placement
Authors: Thiesen Darius M. , Ntalos Dimitris , Berger-Groch Josephine , Petersik Andreas , Hofstätter Bernhard , Frosch Karl-Heinz , Hartel Maximilian J. 
Published: March 2020

AbstractTo optimize the placement of iliosacral screws in osteoporotic bone it is essential to know where to find the best purchase. The aim of this study was to determine and visualize the distribution of bone mass in the posterior pelvic ring by using a color-coded thermal map, to differentiate the bone distribution patterns in normal pelvises and in pelvises with impaired bone density and to identify zones in S1 and S2 with particularly good bone quality, in both healthy and osteoporotic pelvises. A total of 324 pelvises were included. The bone density of the posterior pelvic ring, the fifth lumbar vertebral body (L5) and screw corridors S1 and S2 were visualized. Each individual pelvis was measured with a 3D automated program. Two groups were selected - patients with mean bone density in L5 of ≤100 HU (group 1, n = 52) and those with mean bone density >100 HU (group 2, n = 272). Color-coded thermal maps are presented of the bone density distribution in the pelvises. Bone density in L5 correlated significantly with S1 and S2; bone density was significantly higher in the S1 than in the S2 corridor (p < 0.001). Bone was denser in the posterior and upper parts of the S1 body. Bone density was significantly lower in group 2 than in group 1 (p < 0.001). The color-coded “thermal” maps of bone mass distribution can help surgeons to decide where sacroiliac screws are likely to find optimal purchase.
Generation of novel genetically modified rats to reveal the molecular mechanisms of vitamin D actions
Authors: Nishikawa Miyu , Yasuda Kaori , Takamatsu Masashi , Abe Keisuke , Okamoto Kairi , Horibe Kyohei , Mano Hiroki , Nakagawa Kimie , Tsugawa Naoko , Hirota Yoshihisa , Horie Tetsuhiro , Hinoi Eiichi , Okano Toshio , Ikushiro Shinichi , Sakaki Toshiyuki 
Published: March 2020

AbstractRecent studies have suggested that vitamin D activities involve vitamin D receptor (VDR)-dependent and VDR-independent effects of 1α,25-dihydroxyvitamin D3 (1,25(OH)2D3) and 25-hydroxyvitamin D3 (25(OH)D3) and ligand-independent effects of the VDR. Here, we describe a novel in vivo system using genetically modified rats deficient in the Cyp27b1 or Vdr genes. Type II rickets model rats with a mutant Vdr (R270L), which recognizes 1,25(OH)2D3 with an affinity equivalent to that for 25(OH)D3, were also generated. Although Cyp27b1-knockout (KO), Vdr-KO, and Vdr (R270L) rats each showed rickets symptoms, including abnormal bone formation, they were significantly different from each other. Administration of 25(OH)D3 reversed rickets symptoms in Cyp27b1-KO and Vdr (R270L) rats. Interestingly, 1,25(OH)2D3 was synthesized in Cyp27b1-KO rats, probably by Cyp27a1. In contrast, the effects of 25(OH)D3 on Vdr (R270L) rats strongly suggested a direct action of 25(OH)D3 via VDR-genomic pathways. These results convincingly suggest the usefulness of our in vivo system.
Significance of Clostridium difficile in community-acquired diarrhea in a tertiary care center in Lebanon
Authors: Al Assaad Reem , Dakessian Alik , Bachir Rana , Bizri Abdul Rahman , El Sayed Mazen 
Published: March 2020

AbstractClostridium difficile infection (CDI) is becoming a cause of community-acquired diarrhea. The aim is to describe (CDI) as a cause of acute diarrhea in patients presenting from the community to the Emergency Department (ED) of a tertiary care center in Lebanon. A retrospective study conducted in the ED at the American University of Beirut Medical Center (AUBMC). Adult patients presenting with the chief complaint of diarrhea and having positive CDI by stool laboratory testing (toxins A and B), during a three-year period were included. 125 patients with CDI were included. Average age was 61.43 (±20.42) with roughly equal sex prevalence. 30% (n = 36) of patients had neither antibiotic exposure nor recent hospitalization prior to current CDI. Mortality was 9.6% (n = 12), CDI was attributed as the cause in 16.7% (n = 2) and a contributing factor in 41.6% (n = 5). Recurrence within 3 months occurred in 9.6% (n = 11) in mainly those taking Proton Pump Inhibitors (PPIs) and having multiple co-morbidities. There is a high rate of community acquired CDI in Lebanon. Review of patients’ medications (PPIs and antibiotics) is crucial. More studies are needed to assess mortality associated with CDI and the outcome of coinfection with other enteric pathogens.
Genetic and genomic analysis for cocoon yield traits in silkworm
Authors: Fang Shou-Min , Zhou Qiu-Zhong , Yu Quan-You , Zhang Ze 
Published: March 2020

AbstractDomestic species provides a powerful model for examining genetic mechanisms in the evolution of yield traits. The domestic silkworm (Bombyx mori) is an important livestock species in sericulture. While the mechanisms controlling cocoon yield are largely unknown. Here, usingB. moriand its wild relativeB. mandarinaas intercross parents, 100 BC1individuals were sequenced by restriction site-associated DNA sequencing (RAD-Seq). The linkage map contained 9,632 markers was constructed. We performed high-resolution quantitative trait locus (QTL) mapping for four cocoon yield traits. A total of 11 QTLs were identified, including one yield-enhancing QTL from wild silkworm. By integrating population genomics and transcriptomic analysis with QTLs, some favourable genes were revealed, including 14 domestication-related genes and 71 differentially expressed genes (DEGs) in the fifth-instar larval silk gland transcriptome betweenB. moriandB. mandarina. The relationships between the expression of two important candidate genes (KWMTBOMO04917andKWMTBOMO12906) and cocoon yield were supported by quantitative real-time PCR (qPCR). Our results provide some new insights into the molecular mechanisms of complex yield traits in silkworm. The combined method might be an efficient approach for identifying putative causal genes in domestic livestock and wild relatives.
Inter-task transfer of prism adaptation depends on exposed task mastery
Authors: Fleury Lisa , Pastor Damien , Revol Patrice , Delporte Ludovic , Rossetti Yves 
Published: March 2020

AbstractThe sensorimotor system sets up plastic alterations to face new demands. Terms such as adaptation and learning are broadly used to describe a variety of processes underlying this aptitude. The mechanisms whereby transformations acquired to face a perturbation generalize to other situations or stay context-dependent remain weakly understood. Here, we compared the performance of hand pointing vs throwing to visual targets while facing an optical shift of the visual field (prismatic deviation). We found that the transfer of compensations was conditioned by the task performed during exposure to the perturbation: compensations transferred from pointing to throwing but not at all from throwing to pointing. Additionally, expertise on the task performed during exposure had a marked influence on the amount of transfer to the non-exposed task: throwing experts (dart players) remarkably transferred compensations to the pointing task. Our results reveal that different processes underlying these distinct transfer properties may be at work to face a given perturbation. Their solicitation depends on mastery for the exposed task, which is responsible for different patterns of inter-task transfer. An important implication is that transfer properties, and not only after-effects, should be included as a criterion for adaptation. At the theoretical level, we suggest that tasks may need to be mastered before they can be subjected to adaptation, which has new implications for the distinction between learning and adaptation.
Elevated levels of proinflammatory volatile metabolites in feces of high fat diet fed KK-Ay mice
Authors: Uchikawa Misaki , Kato Mai , Nagata Akika , Sanada Shunsuke , Yoshikawa Yuto , Tsunematsu Yuta , Sato Michio , Suzuki Takuji , Hashidume Tsutomu , Watanabe Kenji , Yoshikawa Yuko , Miyoshi Noriyuki 
Published: March 2020

AbstractWhen the microfloral composition deteriorates, it triggers low-level chronic inflammation associated with several lifestyle-related diseases including obesity and diabetic mellitus. Fecal volatile organic compounds (VOCs) have been found to differ in gastrointestinal diseases as well as intestinal infection. In this study, to evaluate a potential association between the pathogenesis of lifestyle-related diseases and VOCs in the intestinal tract, fecal VOCs from obese/diabetic KK-Ay mice (KK) or controls (C57BL/6J mice; BL) fed a normal or high fat diet (NFD or HFD) were investigated using headspace sampler-GC-EI-MS. Principal component analysis (PCA) of fecal VOC profiles clearly separated the experimental groups depending on the mouse lineage (KK vs BL) and the diet type (NFD vs HFD). 16 s rRNA sequencing revealed that the PCA distribution of VOCs was in parallel with the microfloral composition. We identified that some volatile metabolites including n-alkanals (nonanal and octanal), acetone and phenol were significantly increased in the HFD and/or KK groups. Additionally, these volatile metabolites induced proinflammatory activity in the RAW264 murine macrophage cell line indicating these bioactive metabolites might trigger low-level chronic inflammation. These results suggest that proinflammatory VOCs detected in HFD-fed and/or diabetic model mice might be novel noninvasive diagnosis biomarkers for diabetes.
Evaluation of new Corvis ST parameters in normal, Post-LASIK, Post-LASIK keratectasia and keratoconus eyes
Authors: Yang Kaili , Xu Liyan , Fan Qi , Gu Yuwei , Song Peng , Zhang Bo , Zhao Dongqing , Pang Chenjiu , Ren Shengwei 
Published: March 2020

AbstractThe aim of this study was to evaluate the distribution of new Corneal Visualisation Scheimpflug Technology (Corvis ST) parameters in normal, Post-laser in situ keratomileusis (LASIK), Post-LASIK keratectasia (KE) and keratoconus (KC) eyes, and explore the diagnostic ability of these parameters in distinguishing KE from LASIK eyes. Twenty-three normal eyes, 23 LASIK eyes, 23 KE eyes and 23 KC eyes were recruited in this study. The following new Corvis ST parameters were measured: Max Inverse Radius, deformation amplitude (DA) Ratio Max [2 mm], Pachy Slope, DA Ratio Max [1 mm], Ambrosio’s relational thickness horizontal (ARTh), Integrated Radius, stiffness parameter at first applanation (SP-A1) and Corvis biomechanical index (CBI). The general linear model, linear regression model, relation analysis and receiver operating characteristic (ROC) curve were performed. The Max Inverse Radius, DA Ratio Max [2 mm], Pachy Slope, DA Ratio Max [1 mm], Integrated Radius and CBI in LASIK eyes, KE eyes and KC eyes were higher than in normal eyes, while the ARTh and SP-A1 parameters were lower than in normal eyes. The KE eyes had higher Max Inverse Radius, DA Ratio Max [2 mm], Pachy Slope, DA Ratio Max [1 mm], Integrated Radius, and lower SP-A1 value than LASIK eyes (all P < 0.05). The central corneal thickness was related to the Pachy Slope (r = −0.485), ARTh (r = −0.766), SP-A1 (r = 0.618) in KE eyes (all P < 0.05). The area under the ROC curve of Integrated Radius, Max Inverse Radius, DA Ratio Max [2 mm] and SP-A1 were above 0.800 in identifying KE from LASIK eyes. Thus, the new Corvis ST parameters were different between LASIK and KE eyes, suggesting that they might be helpful in distinguishing KE eyes from LASIK eyes. However, a further multi-center and large sample study is necessary to confirm these findings.
Effects of corticosteroids on COPD lung macrophage phenotype and function
Authors: Higham Andrew , Scott Tom , Li Jian , Gaskell Rosemary , Dikwa Aisha Baba , Shah Rajesh , Montero-Fernandez M. Angeles , Lea Simon , Singh Dave 
Published: March 2020

AbstractThe numbers of macrophages are increased in the lungs of chronic obstructive pulmonary disease (COPD) patients. COPD lung macrophages have reduced ability to phagocytose microbes and efferocytose apoptotic cells. Inhaled corticosteroids (ICSs) are widely used anti-inflammatory drugs in COPD; however, their role beyond suppression of cytokine release has not been explored in COPD macrophages. We have examined the effects of corticosteroids on COPD lung macrophage phenotype and function.Lung macrophages from controls and COPD patients were treated with corticosteroids; effects on gene and protein expression of CD163, CD164, CD206, MERTK, CD64, CD80 and CD86 were studied. We also examined the effect of corticosteroids on the function of CD163, MERTK and cluster of differentiation 64 (CD64).Corticosteroid increased CD163, CD164, CD206 and MERTK expression and reduced CD64, CD80 and CD86 expression. We also observed an increase in the uptake of the haemoglobin–haptoglobin complex (CD163) from 59 up to 81% and an increase in efferocytosis of apoptotic neutrophils (MERTK) from 15 up to 28% following corticosteroid treatment. We observed no effect on bacterial phagocytosis.Corticosteroids alter the phenotype and function of COPD lung macrophages. Our findings suggest mechanisms by which corticosteroids exert therapeutic benefit in COPD, reducing iron available for bacterial growth and enhancing efferocytosis.
An inducible intestinal epithelial cell-specific NHE3 knockout mouse model mimicking congenital sodium diarrhea
Authors: Xue Jianxiang , Thomas Linto , Tahmasbi Maryam , Valdez Alexandria , Dominguez Rieg Jessica A. , Fenton Robert A. , Rieg Timo 
Published: March 2020

Abstract
The sodium–hydrogen exchanger isoform 3 (NHE3, SLC9A3) is abundantly expressed in the gastrointestinal tract and is proposed to play essential roles in Na+ and fluid absorption as well as acid–base homeostasis. Mutations in the SLC9A3 gene can cause congenital sodium diarrhea (CSD). However, understanding the precise role of intestinal NHE3 has been severely hampered due to the lack of a suitable animal model. To navigate this problem and better understand the role of intestinal NHE3, we generated a tamoxifen-inducible intestinal epithelial cell-specific NHE3 knockout mouse model (NHE3IEC-KO). Before tamoxifen administration, the phenotype and blood parameters of NHE3IEC-KO were unremarkable compared with control mice. After tamoxifen administration, NHE3IEC-KO mice have undetectable levels of NHE3 in the intestine. NHE3IEC-KO mice develop watery, alkaline diarrhea in combination with a swollen small intestine, cecum and colon. The persistent diarrhea results in higher fluid intake. After 3 weeks, NHE3IEC-KO mice show a ∼25% mortality rate. The contribution of intestinal NHE3 to acid–base and Na+ homeostasis under normal conditions becomes evident in NHE3IEC-KO mice that have metabolic acidosis, lower blood bicarbonate levels, hyponatremia and hyperkalemia associated with drastically elevated plasma aldosterone levels. These results demonstrate that intestinal NHE3 has a significant contribution to acid–base, Na+ and volume homeostasis, and lack of intestinal NHE3 has consequences on intestinal structural integrity. This mouse model mimics and explains the phenotype of individuals with CSD carrying SLC9A3 mutations.
Auf der Suche nach Objektivität – das Reflexologie-Konzept als Versuch einer mechanistischen Seelenkunde
Authors: Engmann Birk 
Published: March 2020

ZusammenfassungMit der Reflexologie entstand in den ersten drei Jahrzehnten des 20. Jahrhunderts in Russland ein eigenständiges, Universalität beanspruchendes Konzept, welches sowohl psychische Störungen, psychisches Normalerleben als auch massenpsychologische Phänomene erklären sollte. Es beeinflusste den Behaviorismus und war wie jener eine Antwort auf die Suche nach einer objektiven Methode der Untersuchung psychischer Vorgänge. Wichtige Protagonisten waren Vladimir Michajlovič Bechterev und Naum Efimovič Išlondskij (Ischlondsky), deren Schriften internationale Verbreitung fanden.