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https://www.readbyqxmd.com/read/29236247/5-bromouridine-ip-chase-bric-seq-to-determine-rna-half-lives
#1
Toshimichi Yamada, Naoto Imamachi, Rena Onoguchi-Mizutani, Katsutoshi Imamura, Yutaka Suzuki, Nobuyoshi Akimitsu
Analysis of RNA stability at genome-wide level is an advanced method in RNA biology that examines the half-life of each transcript. In particular, a pulse-labeling method using uridine analogs enables the determination of half-life of each transcript under physiologically undisturbed conditions. The technique involves pulse labeling of endogenous RNAs in mammalian cells with 5'-bromouridine (BrU), followed by measuring the chronological decrease of BrU-labeled RNAs using deep sequencing (BRIC-seq). Here, we describe a detailed protocol and technical tips for BRIC-seq...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29236127/-basic-knowledge-on-the-efficacy-of-hearing-aids-depending-on-the-type-of-hearing-impairment-for-ear-nose-throat-specialists
#2
REVIEW
T Steffens, S C Marcrum
For Ear, Nose & Throat specialists, the physiological and psychoacoustical deficits related to hearing impairment and the compensatory capabilities of hearing aids are topics of prime importance. In conductive hearing loss, the foremost deficit is decreased audibility, for which hearing aids can compensate almost entirely through the use of level independent gain. In the instance of sensorineural hearing loss, however, the irreversible loss of outer and inner hair cells causes a distorted sound perception, which is particularly troublesome when trying to understand speech in noisy environments...
December 13, 2017: HNO
https://www.readbyqxmd.com/read/29236119/estimation-of-the-bioaccessibility-and-bioavailability-of-fe-mn-cu-and-zn-in-chinese-vegetables-using-the-in-vitro-digestion-caco-2-cell-model-the-influence-of-gut-microbiota
#3
Xiaolin Cai, Xiaochen Chen, Naiyi Yin, Huili Du, Guoxin Sun, Lihong Wang, Yudong Xu, Yuqing Chen, Yanshan Cui
The influence of the human gut microbiota on the bioaccessibility and bioavailability of trace elements in vegetables has barely been studied. An in vitro digestion model combining the physiologically based extraction test (PBET) and the Simulator of Human Intestinal Microbial Ecosystem (SHIME) was applied. Results showed that the gut microbiota increased the bioaccessibility of iron (Fe) in ten test vegetables by 1.3-1.8 times, but reduced the bioaccessibility of manganese (Mn), copper (Cu), and zinc (Zn) in vegetables in the colon phase by 3...
December 13, 2017: Food & Function
https://www.readbyqxmd.com/read/29236063/recent-advances-in-the-role-of-slc39a-zip-zinc-transporters-in-vivo
#4
REVIEW
Teruhisa Takagishi, Takafumi Hara, Toshiyuki Fukada
Zinc (Zn), which is an essential trace element, is involved in numerous mammalian physiological events; therefore, either a deficiency or excess of Zn impairs cellular machineries and influences physiological events, such as systemic growth, bone homeostasis, skin formation, immune responses, endocrine function, and neuronal function. Zn transporters are thought to mainly contribute to Zn homeostasis within cells and in the whole body. Recent genetic, cellular, and molecular studies of Zn transporters highlight the dynamic role of Zn as a signaling mediator linking several cellular events and signaling pathways...
December 13, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29235714/formate-hydrogenlyase-and-formate-secretion-ameliorate-h2-inhibition-in-the-hyperthermophilic-archaeon-thermococcus-paralvinellae
#5
Begüm D Topçuoğlu, Cem Meydan, Roberto Orellana, James F Holden
Some hyperthermophilic heterotrophs in the genus Thermococcus produce H2 in the absence of S° and have up to seven hydrogenases, but their combined physiological roles are unclear. Here, we show which hydrogenases in Thermococcus paralvinellae are affected by added H2 during growth without S°. Growth rates and steady-state cell concentrations decreased while formate production rates increased when T. paralvinallae was grown in a chemostat with 65 µM of added H2(aq) . Differential gene expression analysis using RNA-Seq showed consistent expression of six hydrogenase operons with and without added H2 ...
December 13, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/29235528/identification-of-newly-committed-pancreatic-cells-in-the-adult-mouse-pancreas
#6
Mairobys Socorro, Angela Criscimanna, Patricia Riva, Manuj Tandon, Krishna Prasadan, Ping Guo, Abhinav Humar, Sohail Z Husain, Steven D Leach, George K Gittes, Farzad Esni
Multipotent epithelial cells with high Aldehyde dehydrogenase activity have been previously reported to exist in the adult pancreas. However, whether they represent true progenitor cells remains controversial. In this study, we isolated and characterized cells with ALDH activity in the adult mouse or human pancreas during physiological conditions or injury. We found that cells with ALDH activity are abundant in the mouse pancreas during early postnatal growth, pregnancy, and in mouse models of pancreatitis and type 1 diabetes (T1D)...
December 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29235482/ratiometric-fluorescence-imaging-of-cell-surface-ph-by-poly-ethylene-glycol-phospholipid-conjugated-with-fluorescein-isothiocyanate
#7
Ryuichi Ohgaki, Yuji Teramura, Daichi Hayashi, Lili Quan, Suguru Okuda, Shushi Nagamori, Madoka Takai, Yoshikatsu Kanai
Various physiological and pathological processes are accompanied with the alteration of pH at extracellular juxtamembrane region. Accordingly, the methods to analyze the cell surface pH have been demanded in biological and medical sciences. In this study, we have established a novel methodology for cell surface pH imaging using poly(ethylene glycol)-phospholipid (PEG-lipid) as a core structure of ratiometric fluorescent probes. PEG-lipid is a synthetic amphiphilic polymer originally developed for the cell surface modification in transplantation therapy...
December 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29235444/contact-guidance-for-cardiac-tissue-engineering-using-3d-bioprinted-gelatin-patterned-hydrogel
#8
Ajay Tijore, Scott Alexander Irvine, Udi Sarig, Priyadarshini Mhaisalkar, Vrushali Baisane, Subbu S Venkatraman
Here, we have developed a 3D bioprinted microchanneled gelatin hydrogel that promotes human mesenchymal stem cell (hMSC) myocardial commitment and supports native cardiomyocytes (CMs) contractile functionality. Firstly, we studied the effect of bioprinted microchanneled hydrogel on the alignment, elongation, and differentiation of hMSC. Notably, the cells displayed well defined F-actin anisotropy and elongated morphology on the microchanneled hydrogel, hence showing the effects of topographical control over cell behavior...
December 13, 2017: Biofabrication
https://www.readbyqxmd.com/read/29235400/role-of-bevacizumab-in-the-management-of-the-patient-with-malignant-pleural-effusion-more-questions-than-answers
#9
Ralph Llewel Sabang, Deepthi Gandhiraj, Michael Fanucchi, Oleg Epelbaum
Malignant pleural effusion (MPE) is a feature of metastatic cancer that is associated with significant morbidity and healthcare costs. The typical current management of MPE involves the combination of systemic chemotherapy and mechanical intervention in the pleural space. Vascular endothelial growth factor (VEGF), an extremely potent inducer of vascular permeability, has been shown to mediate fluid formation in pleural malignancy. Therefore, bevacizumab, an inhibitor of VEGF activity, offers theoretical promise as a means of abolishing fluid formation in MPE...
December 13, 2017: Expert Review of Respiratory Medicine
https://www.readbyqxmd.com/read/29235283/-effect-of-proinflammatory-factors-tnf-%C3%AE-il-1%C3%AE-il-6-on-neuropathic-pain
#10
REVIEW
Qiu-Yue Li, Hai-Yu Xu, Hong-Jun Yang
Cytokines can be divided into two types: proinflammatory cytokines and anti-inflammatory cytokines. Proinflammatory cytokines are a kind of small molecular peptides synthesized and excreted by immune and non-immune cells, which can regulate a variety of physiological functions and play an important role in the process of trauma, pain and infection. Proinflammatory cytokines include TNF, IL-1, IL-6 and IL-8. More and more evidences suggest that proinflammatory cytokines(PICs), such as interleukin-1β(IL-1β), interleukin-6(IL-6) and tumor necrosis factor-α(TNF-α), are induced in the spinal cord(SC) and dorsal root ganglion (DRG) under various injury conditions, and contribute to pain hypersensitivity...
October 2017: Zhongguo Zhong Yao za Zhi, Zhongguo Zhongyao Zazhi, China Journal of Chinese Materia Medica
https://www.readbyqxmd.com/read/29235173/type-iv-secretion-in-gram-negative-and-gram-positive-bacteria
#11
REVIEW
Elisabeth Grohmann, Peter J Christie, Gabriel Waksman, Steffen Backert
Type IV secretion systems (T4SSs) are versatile multiprotein nanomachines spanning the entire bacterial cell envelope in Gram-negative and Gram-positive bacteria. They play important roles through the contact-dependent secretion of effector molecules into eukaryotic hosts and conjugative transfer of mobile DNA elements as well as contact-independent exchange of DNA with the extracellular milieu. In the last few years, many details on the molecular mechanisms of T4SSs have been elucidated. Exciting structures of T4SS complexes from Escherichia coli plasmids R388 and pKM101, Helicobacter pylori and Legionella pneumophila have been solved...
December 13, 2017: Molecular Microbiology
https://www.readbyqxmd.com/read/29235148/structural-analysis-of-protein-tyrosine-phosphatase-1b-reveals-potentially-druggable-allosteric-binding-sites
#12
Ammu Prasanna Kumar, Minh N Nguyen, Chandra Verma, Suryani Lukman
Catalytic proteins such as human protein tyrosine phosphatase 1B (PTP1B), with conserved and highly polar active sites, warrant the discovery of druggable non-active sites, such as allosteric sites, and potentially, therapeutic small molecules that can bind to these sites. Catalyzing the dephosphorylation of numerous substrates, PTP1B is physiologically important in intracellular signal transduction pathways in diverse cell types and tissues. Aberrant PTP1B is associated with obesity, diabetes, cancers, and neurodegenerative disorders...
December 13, 2017: Proteins
https://www.readbyqxmd.com/read/29235095/immune-cells-regulate-vegf-signaling-via-release-of-vegf-and-antagonistic-soluble-vegf-receptor-1
#13
Timm Hoeres, Martin Wilhelm, Manfred Smetak, Elisabeth Holzmann, Gundula Schulze-Tanzil, Josef Birkmann
Vascular endothelial growth factor (VEGF) is an important regulator of physiological and pathological angiogenesis. Beside malignant and stromal cells, local immune cells shape VEGF signaling in the tumor microenvironment. Aminobisphosphonates like zoledronic acid (Zol) are drugs known to inhibit osteoclast activity and bone resorption, but also have immunomodulatory and anti-tumor effects. These properties have previously been linked to the downregulation of VEGF and interference with tumor neo-angiogenesis...
December 13, 2017: Clinical and Experimental Immunology
https://www.readbyqxmd.com/read/29234933/micrornas-and-metastasis-small-rnas-play-big-roles
#14
Jongchan Kim, Fan Yao, Zhenna Xiao, Yutong Sun, Li Ma
MicroRNAs (miRNAs) are small non-coding RNAs regulating post-transcriptional gene expression. They play important roles in many biological processes under physiological or pathological conditions, including development, metabolism, tumorigenesis, metastasis, and immune response. Over the past 15 years, significant insights have been gained into the roles of miRNAs in cancer. Depending on the cancer type, miRNAs can act as oncogenes, tumor suppressors, or metastasis regulators. In this review, we focus on the role of miRNAs as components of molecular networks regulating metastasis...
December 12, 2017: Cancer Metastasis Reviews
https://www.readbyqxmd.com/read/29234889/translaminar-circuits-formed-by-the-pyramidal-cells-in-the-superficial-layers-of-cat-visual-cortex
#15
German Koestinger, Kevan A C Martin, Elisha S Rusch
Pyramidal cells in the superficial layers of the neocortex provide a major excitatory projection to layer 5, which contains the pyramidal cells that project to subcortical motor-related targets. Both structurally and functionally rather little is known about this interlaminar pathway, especially in higher mammals. Here, we made sparse ultrastructural reconstructions of the projection to layer 5 of three pyramidal neurons from layer 3 in cat V1 whose morphology, physiology, and synaptic connections with layers 2 and 3 were known...
December 12, 2017: Brain Structure & Function
https://www.readbyqxmd.com/read/29234114/probing-the-requirement-for-cd38-in-retinoic-acid-induced-hl-60-cell-differentiation-with-a-small-molecule-dimerizer-and-genetic-knockout
#16
Robert J MacDonald, Jonathan H Shrimp, Hong Jiang, Lu Zhang, Hening Lin, Andrew Yen
CD38 is an ectoenzyme and receptor with key physiological roles. It metabolizes NAD+ to adenosine diphosphate ribose (ADPR) and cyclic ADPR, regulating several processes including calcium signalling. CD38 is both a positive and negative prognostic indicator in leukaemia. In all-trans retinoic acid (RA)-induced differentiation of acute promyelocytic leukaemia and HL-60 cells, CD38 is one of the earliest and most prominently upregulated proteins known. CD38 overexpression enhances differentiation, while morpholino- and siRNA-induced knockdown diminishes it...
December 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29234102/endometrial-apoptosis-and-neutrophil-infiltration-during-menstruation-exhibits-spatial-and-temporal-dynamics-that-are-recapitulated-in-a-mouse-model
#17
Gregory M Armstrong, Jacqueline A Maybin, Alison A Murray, Moira Nicol, Catherine Walker, Philippa T K Saunders, Adriano G Rossi, Hilary O D Critchley
Menstruation is characterised by synchronous shedding and restoration of tissue integrity. An in vivo model of menstruation is required to investigate mechanisms responsible for regulation of menstrual physiology and to investigate common pathologies such as heavy menstrual bleeding (HMB). We hypothesised that our mouse model of simulated menstruation would recapitulate the spatial and temporal changes in the inflammatory microenvironment of human menses. Three regulatory events were investigated: cell death (apoptosis), neutrophil influx and cytokine/chemokine expression...
December 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29234037/dynamic-regulation-of-trek1-gating-by-polycystin-2-via-a-filamin-a-mediated-cytoskeletal-mechanism
#18
Steven Li Fraine, Amanda Patel, Fabrice Duprat, Reza Sharif-Naeini
Mechanosensing is essential for several physiological functions including touch and pain sensations, osmoregulation, and controlling the myogenic tone of resistance arteries. Understanding how mechanosensitive ion channels (MSCs) are gated can provide important information regarding these processes. We have previously demonstrated that during pathological conditions such as polycystic kidney disease, polycystin 2 (TRPP2) inhibits the activity of potassium-selective MSCs through a filamin A-mediated cytoskeletal effect, and renders tubular epithelial cells susceptible to apoptosis...
December 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29234010/loss-of-the-molecular-clock-in-myeloid-cells-exacerbates-t-cell-mediated-cns-autoimmune-disease
#19
Caroline E Sutton, Conor M Finlay, Mathilde Raverdeau, James O Early, Joseph DeCourcey, Zbigniew Zaslona, Luke A J O'Neill, Kingston H G Mills, Annie M Curtis
The transcription factor BMAL1 is a core component of the molecular clock, regulating biological pathways that drive 24 h (circadian) rhythms in behaviour and physiology. The molecular clock has a profound influence on innate immune function, and circadian disruption is linked with increased incidence of multiple sclerosis (MS). However, the mechanisms underlying this association are unknown. Here we show that BMAL1 and time-of-day regulate the accumulation and activation of various immune cells in a CNS autoimmune disease model, experimental autoimmune encephalomyelitis (EAE)...
December 12, 2017: Nature Communications
https://www.readbyqxmd.com/read/29233890/phosphate-pi-regulated-heterodimerization-of-the-high-affinity-sodium-dependent-pi-transporters-pit1-slc20a1-and-pit2-slc20a2-underlies-extracellular-pi-sensing-independently-of-pi-uptake
#20
Nina Bon, Greig Couasnay, Annabelle Bourgine, Sophie Sourice, Sarah Beck-Cormier, Jérôme Guicheux, Laurent Beck
Extracellular phosphate (Pi) can act as a signaling molecule that directly alters gene expression and cellular physiology. The ability of cells or organisms to detect changes in extracellular Pi levels implies the existence of a Pi-sensing mechanism that signals to the body or individual cell. However, unlike in prokaryotes, yeasts, and plants, the molecular players involved in Pi sensing in mammals remain unknown. In this study, we investigated the involvement of the high-affinity, Na-dependent Pi transporters PiT1 and PiT2 in mediating Pi signaling in skeletal cells...
December 12, 2017: Journal of Biological Chemistry
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