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https://www.readbyqxmd.com/read/28653981/the-role-of-replication-associated-repair-factors-on-r-loops
#1
REVIEW
Vaibhav Bhatia, Emilia Herrera-Moyano, Andrés Aguilera, Belén Gómez-González
The nascent RNA can reinvade the DNA double helix to form a structure termed the R-loop, where a single-stranded DNA (ssDNA) is accompanied by a DNA-RNA hybrid. Unresolved R-loops can impede transcription and replication processes and lead to genomic instability by a mechanism still not fully understood. In this sense, a connection between R-loops and certain chromatin markers has been reported that might play a key role in R-loop homeostasis and genome instability. To counteract the potential harmful effect of R-loops, different conserved messenger ribonucleoprotein (mRNP) biogenesis and nuclear export factors prevent R-loop formation, while ubiquitously-expressed specific ribonucleases and DNA-RNA helicases resolve DNA-RNA hybrids...
June 27, 2017: Genes
https://www.readbyqxmd.com/read/28653781/differential-expression-profile-of-long-non-coding-rna-in-cardiomyocytes-autophagy-induced-by-angiotensin-ii
#2
Ying Gu, Fan Yang, Ru-Ming Xu, Yun-Yan Zhang, Yang Li, Su-Xuan Liu, Guan-Xin Zhang, Guo-Kun Wang, Li-Ping Ma
Autophagy is a ubiquitous intracellular process for cellular homeostasis maintainance by recycling damaged protein and organelles. Dysregulation of cardiomyocytes autophagic activity is implicated in various heart diseases. Recent studies had demonstrated long non-coding RNAs (lncRNAs) played crucial roles on modulation of autophagic activity. In this study, we first established an angiotensin II-induced autophagy model on neonatal rat cardiomyocytes. Western blot assay confirmed that the expression of Beclin 1 and the conversion of soluble LC3-I to lipid bound LC3-II were significantly increased at 12h after angiotensin II stimulation, but the cardiomyocytes surface area and hypertrophic markers expression had no significant change...
June 27, 2017: Cell Biology International
https://www.readbyqxmd.com/read/28653759/trends-in-socioeconomic-inequalities-in-oral-health-among-15-year-old-danish-adolescents-during-1995-2013-a-nationwide-register-based-repeated-cross-sectional-study
#3
Kaushik Sengupta, Lisa Bøge Christensen, Laust Hvas Mortensen, Lene Theil Skovgaard, Ingelise Andersen
BACKGROUND: Scandinavian welfare states, despite having better population oral health than less egalitarian societies, are characterized by ubiquitous social gradients and large relative socioeconomic inequalities in oral health. However, trends in these inequalities among Scandinavian children and adolescents have not been studied in detail. OBJECTIVES: To describe the associations between socioeconomic position (SEP) and oral health in adolescents and to investigate the trends in these associations between 1995 and 2013...
June 27, 2017: Community Dentistry and Oral Epidemiology
https://www.readbyqxmd.com/read/28653173/human-metaplastic-breast-carcinoma-and-decorin
#4
Pia Boström, Annele Sainio, Natalja Eigėlienė, Anne Jokilammi, Klaus Elenius, Ilkka Koskivuo, Hannu Järveläinen
Metaplastic breast carcinoma (MBC) is a rare subtype of invasive breast cancer and has poor prognosis. In general, cancers are heterogeneous cellular masses comprised of different cell types and their extracellular matrix (ECM). However, little is known about the composition of the ECM and its constituents in MBC. Decorin is a ubiquitous ECM macromolecule known of its oncosuppressive activity. As such, it provides an intriguing molecule in the development of novel therapeutics for different malignancies such as MBC...
June 26, 2017: Cancer Microenvironment: Official Journal of the International Cancer Microenvironment Society
https://www.readbyqxmd.com/read/28653068/targeting-heparin-and-heparan-sulfate-protein-interactions
#5
REVIEW
Ryan J Weiss, Jeffrey D Esko, Yitzhak Tor
Heparin and heparan sulfate glycosaminoglycans are long, linear polysaccharides that are made up of alternating dissacharide sequences of sulfated uronic acid and amino sugars. Unlike heparin, which is only found in mast cells, heparan sulfate is ubiquitously expressed on the cell surface and in the extracellular matrix of all animal cells. These negatively-charged glycans play essential roles in important cellular functions such as cell growth, adhesion, angiogenesis, and blood coagulation. These biomolecules are also involved in pathophysiological conditions such as pathogen infection and human disease...
June 27, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/28652575/two-step-synthesis-of-chiral-fused-tricyclic-scaffolds-from-phenols-via-desymmetrization-on-nickel
#6
Ravindra Kumar, Yoichi Hoshimoto, Eri Tamai, Masato Ohashi, Sensuke Ogoshi
Tricyclic furan derivatives with multiple chiral centers are ubiquitous in natural products. Construction of such tricyclic scaffolds in a stereocontrolled, step-economic, and atom-economic manner is a key challenge. Here we show a nickel-catalyzed highly enantioselective synthesis of hydronaphtho[1,8-bc]furans with five contiguous chiral centers via desymmetrization of alkynyl-cyclohexadienone by oxidative cyclization and following formal [4 + 2] cycloaddition processes. Alkynyl-cyclohexadienone was synthesized in one step from easily accessible phenols...
June 26, 2017: Nature Communications
https://www.readbyqxmd.com/read/28652301/stand-alone-eal-domain-proteins-form-a-distinct-subclass-of-eal-proteins-involved-in-regulation-of-cell-motility-and-biofilm-formation-in-enterobacteria
#7
Youssef El Mouali, Hyunhee Kim, Irfan Ahmad, Annelie Brauner, Ying Liu, Mikael Skurnik, Michael Y Galperin, Ute Römling
The second messenger cyclic di-GMP is almost ubiquitous among bacteria and so are the cyclic di-GMP turnover proteins, which mediate the transition between motility and sessility. EAL domain proteins have been characterized as cyclic di-GMP-specific phosphodiesterases. While most EAL domain proteins contain additional, usually N-terminal, domains, there is a distinct family of proteins within stand-alone EAL domains, exemplified by Salmonella enterica serovar Typhimurium proteins STM3611 (YhjH/PdeH), a c-di-GMP-specific phosphodiesterase, and the enzymatically inactive STM1344 (YdiV/CdgR) and STM1697, which regulate bacterial motility through interaction with the flagella master regulator FlhDC...
June 26, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28651374/cd70-a-novel-target-of-car-t-cell-therapy-for-gliomas
#8
Linchun Jin, Haitao Ge, Yu Long, Changlin Yang, Yifan Emily Chang, Luyan Mu, Elias J Sayour, Gabriel De Leon, Qiong J Wang, James C Yang, Paul S Kubilis, Hongbo Bao, Songsong Xia, Dunyue Lu, Yingjun Kong, Li Hu, Yujiao Shang, Chencheng Jiang, Jing Nie, Shimin Li, Yunhe Gu, Jiahang Sun, Duane A Mitchell, Zhiguo Lin, Jianping Huang
Background: Cancer immunotherapy represents a promising treatment approach for malignant-gliomas, but is hampered by the limited number of ubiquitously expressed tumor antigens and the profoundly immunosuppressive tumor microenvironment. We identified CD70 as a novel immunosuppressive ligand and glioma target. Methods: Normal tissues derived from 52 different organs, and primary and recurrent low-grade gliomas (LGGs) and glioblastomas (GBMs) were thoroughly evaluated for CD70 gene and protein expression...
June 23, 2017: Neuro-oncology
https://www.readbyqxmd.com/read/28651318/fate-of-polycyclic-aromatic-hydrocarbons-from-the-north-pacific-to-the-arctic-field-measurements-and-fugacity-model-simulation
#9
Hongwei Ke, Mian Chen, Mengyang Liu, Meng Chen, Mengshan Duan, Peng Huang, Jiajun Hong, Yan Lin, Shayen Cheng, Xuran Wang, Mengxue Huang, Minggang Cai
Polycyclic aromatic hydrocarbons (PAHs) have accumulated ubiquitously inArctic environments, where re-volatilization of certain organic pollutants as a result of climate change has been observed. To investigate the fate of semivolatile organic compounds in the Arctic, dissolved PAHs in the surface seawaters from the temperate Pacific Ocean to the Arctic Ocean, as well as a water column in the Arctic Ocean, were collected during the 4th Chinese National Arctic Research Expedition in summer 2010. The total concentrations of seven dissolved PAHs in surface water ranged from 1...
June 16, 2017: Chemosphere
https://www.readbyqxmd.com/read/28651051/molecular-precision-at-micrometer-length-scales-hierarchical-assembly-of-dna-protein-nanostructures
#10
Daniel Schiffels, Veronika A Szalai, J Alexander Liddle
Robust self-assembly across length scales is a ubiquitous feature of biological systems, but remains challenging for synthetic structures. Taking a cue from biology - where disparate molecules work together to produce large, functional assemblies - we demonstrate how to engineer microscale structures with nanoscale features: Our self-assembly approach begins by using DNA polymerase to controllably create double-stranded DNA (dsDNA) sections on a single-stranded template. The single-stranded DNA (ssDNA) sections are then folded into a mechanically flexible skeleton by the origami method...
June 26, 2017: ACS Nano
https://www.readbyqxmd.com/read/28651000/assessing-the-impact-of-benzo-a-pyrene-on-marine-mussels-application-of-a-novel-targeted-low-density-microarray-complementing-classical-biomarker-responses
#11
Mohamed Banni, Susanna Sforzini, Volker M Arlt, Audrey Barranger, Lorna J Dallas, Caterina Oliveri, Yann Aminot, Beniamina Pacchioni, Caterina Millino, Gerolamo Lanfranchi, James W Readman, Michael N Moore, Aldo Viarengo, Awadhesh N Jha
Despite the increasing use of mussels in environmental monitoring and ecotoxicological studies, their genomes and gene functions have not been thoroughly explored. Several cDNA microarrays were recently proposed for Mytilus spp., but putatively identified partial transcripts have rendered the generation of robust transcriptional responses difficult in terms of pathway identification. We developed a new low density oligonucleotide microarray with 465 probes covering the same number of genes. Target genes were selected to cover most of the well-known biological processes in the stress response documented over the last decade in bivalve species at the cellular and tissue levels...
2017: PloS One
https://www.readbyqxmd.com/read/28650753/lower-extremity-infections-caused-by-serratia-marcescens-a-report-of-three-cases-and-a-literature-review
#12
Luis Marin, Raymond Rowan, Ana Mantilla, Bamidele Olupona, Ann MacIntyre
Serratia marcescens is a ubiquitous, facultatively anaerobic, gram-negative bacillus that has been cited to cause infection in immunocompromised populations. In the literature, S marcescens infections of the lower extremity have presented as granulomatous ulceration, abscess, bullous cellulitis, and necrotizing fasciitis. Herein we present a series of three cases of lower-extremity infections in which S marcescens was the sole or a contributing pathogen. We discuss the commonalities of these three cases as well as with those previously cited...
May 2017: Journal of the American Podiatric Medical Association
https://www.readbyqxmd.com/read/28649985/attenuation-of-rna-polymerase-ii-pausing-mitigates-brca1-associated-r-loop-accumulation-and-tumorigenesis
#13
Xiaowen Zhang, Huai-Chin Chiang, Yao Wang, Chi Zhang, Sabrina Smith, Xiayan Zhao, Sreejith J Nair, Joel Michalek, Ismail Jatoi, Meeghan Lautner, Boyce Oliver, Howard Wang, Anna Petit, Teresa Soler, Joan Brunet, Francesca Mateo, Miguel Angel Pujana, Elizabeth Poggi, Krysta Chaldekas, Claudine Isaacs, Beth N Peshkin, Oscar Ochoa, Frederic Chedin, Constantine Theoharis, Lu-Zhe Sun, Tyler J Curiel, Richard Elledge, Victor X Jin, Yanfen Hu, Rong Li
Most BRCA1-associated breast tumours are basal-like yet originate from luminal progenitors. BRCA1 is best known for its functions in double-strand break repair and resolution of DNA replication stress. However, it is unclear whether loss of these ubiquitously important functions fully explains the cell lineage-specific tumorigenesis. In vitro studies implicate BRCA1 in elimination of R-loops, DNA-RNA hybrid structures involved in transcription and genetic instability. Here we show that R-loops accumulate preferentially in breast luminal epithelial cells, not in basal epithelial or stromal cells, of BRCA1 mutation carriers...
June 26, 2017: Nature Communications
https://www.readbyqxmd.com/read/28649667/impact-of-protein-kinase-ck2-inhibitors-on-proliferation-and-differentiation-of-neural-stem-cells
#14
Melanie Bender, Lisa Schwind, David Grundmann, Monika Martin, Markus Klotz, Claudia Götz, Mathias Montenarh, Karl-Herbert Schäfer
BACKGROUND: Protein kinases play central roles in cell and tissue development. Protein kinase CK2, an ubiquitously expressed serine/threonine kinase has severe impacts on embryo- and spermatogenesis. Since its role in neurogenesis has so far only been investigated in very few studies, we analysed the role of CK2 in neural stem cells by using two specific inhibitors. METHODS: Neural stem cells were isolated from the subventricular zone of neonatal mice, using a neurosphere approach...
June 2017: Heliyon
https://www.readbyqxmd.com/read/28649635/gravireceptors-in-eukaryotes-a-comparison-of-case-studies-on-the-cellular-level
#15
Donat-P Häder, Markus Braun, Daniela Grimm, Ruth Hemmersbach
We have selected five evolutionary very different biological systems ranging from unicellular protists via algae and higher plants to human cells showing responses to the gravity vector of the Earth in order to compare their graviperception mechanisms. All these systems use a mass, which may either by a heavy statolith or the whole content of the cell heavier than the surrounding medium to operate on a gravireceptor either by exerting pressure or by pulling on a cytoskeletal element. In many cases the receptor seems to be a mechanosensitive ion channel activated by the gravitational force which allows a gated ion flux across the membrane when activated...
2017: NPJ Microgravity
https://www.readbyqxmd.com/read/28649423/ubiquitous-overexpression-of-the-dna-repair-factor-dprp19-reduces-dna-damage-and-extends-drosophila-life-span
#16
Kathrin Garschall, Hanna Dellago, Martina Gáliková, Markus Schosserer, Thomas Flatt, Johannes Grillari
Mechanisms that ensure and maintain the stability of genetic information are fundamentally important for organismal function and can have a large impact on disease, aging, and life span. While a multi-layered cellular apparatus exists to detect and respond to DNA damage, various insults from environmental and endogenous sources continuously affect DNA integrity. Over time this can lead to the accumulation of somatic mutations, which is thought to be one of the major causes of aging. We have previously found that overexpression of the essential human DNA repair and splicing factor SNEV, also called PRP19 or hPso4, extends replicative life span of cultured human endothelial cells and impedes accumulation of DNA damage...
2017: NPJ Aging and Mechanisms of Disease
https://www.readbyqxmd.com/read/28649409/bacillus-subtilis-utilizes-the-dna-damage-response-to-manage-multicellular-development
#17
Kevin Gozzi, Carly Ching, Srinand Paruthiyil, Yinjuan Zhao, Veronica Godoy-Carter, Yunrong Chai
Bacteria switch between free-living and a multicellular state, known as biofilms, in response to cellular and environmental cues. It is important to understand how these cues influence biofilm development as biofilms are not only ubiquitous in nature but are also causative agents of infectious diseases. It is often believed that any stress triggers biofilm formation as a means of bacterial protection. In this study, we propose a new mechanism for how cellular and environmental DNA damage may influence biofilm formation...
2017: NPJ Biofilms and Microbiomes
https://www.readbyqxmd.com/read/28649348/no-evidence-for-adaptation-to-local-rhizobial-mutualists-in-the-legume-medicago-lupulina
#18
Tia L Harrison, Corlett W Wood, Isabela L Borges, John R Stinchcombe
Local adaptation is a common but not ubiquitous feature of species interactions, and understanding the circumstances under which it evolves illuminates the factors that influence adaptive population divergence. Antagonistic species interactions dominate the local adaptation literature relative to mutualistic ones, preventing an overall assessment of adaptation within interspecific interactions. Here, we tested whether the legume Medicago lupulina is adapted to the locally abundant species of mutualistic nitrogen-fixing rhizobial bacteria that vary in frequency across its eastern North American range...
June 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28649233/microbial-community-response-to-terrestrially-derived-dissolved-organic-matter-in-the-coastal-arctic
#19
Rachel E Sipler, Colleen T E Kellogg, Tara L Connelly, Quinn N Roberts, Patricia L Yager, Deborah A Bronk
Warming at nearly twice the global rate, higher than average air temperatures are the new 'normal' for Arctic ecosystems. This rise in temperature has triggered hydrological and geochemical changes that increasingly release carbon-rich water into the coastal ocean via increased riverine discharge, coastal erosion, and the thawing of the semi-permanent permafrost ubiquitous in the region. To determine the biogeochemical impacts of terrestrially derived dissolved organic matter (tDOM) on marine ecosystems we compared the nutrient stocks and bacterial communities present under ice-covered and ice-free conditions, assessed the lability of Arctic tDOM to coastal microbial communities from the Chukchi Sea, and identified bacterial taxa that respond to rapid increases in tDOM...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28649045/roles-of-phytoplankton-and-macrophyte-derived-dissolved-organic-matter-in-sulfamethazine-adsorption-on-goethite
#20
Leilei Bai, Chicheng Cao, Chunliu Wang, Changhui Wang, Hui Zhang, Helong Jiang
Phytoplankton-derived dissolved organic matter (PDOM) and macrophyte-derived dissolved organic matter (MDOM) exist ubiquitously in eutrophic freshwater lakes. To understand the heterogeneous roles of individual fluorescent DOM components in the adsorption of antibiotics onto sediment minerals, the adsorptive fractionation of DOM on goethite (α-FeOOH) and its interaction with sulfamethazine (SMT) were investigated using fluorescence excitation-emission matrix combined with parallel factor analysis (EEM-PARAFAC)...
June 22, 2017: Environmental Pollution
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