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https://www.readbyqxmd.com/read/28527430/bjerrum-pairs-in-ionic-solutions-a-poisson-boltzmann-approach
#1
Ram M Adar, Tomer Markovich, David Andelman
Ionic solutions are often regarded as fully dissociated ions dispersed in a polar solvent. While this picture holds for dilute solutions, at higher ionic concentrations, oppositely charged ions can associate into dimers, referred to as Bjerrum pairs. We consider the formation of such pairs within the nonlinear Poisson-Boltzmann framework and investigate their effects on bulk and interfacial properties of electrolytes. Our findings show that pairs can reduce the magnitude of the dielectric decrement of ionic solutions as the ionic concentration increases...
May 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28526129/electrostatics-of-patchy-surfaces
#2
REVIEW
Ram M Adar, David Andelman, Haim Diamant
In the study of colloidal, biological and electrochemical systems, it is customary to treat surfaces, macromolecules and electrodes as homogeneously charged. This simplified approach is proven successful in most cases, but fails to describe a wide range of heterogeneously charged surfaces commonly used in experiments. For example, recent experiments have revealed a long-range attraction between overall neutral surfaces, locally charged in a mosaic-like structure of positively and negatively charged domains ("patches")...
April 7, 2017: Advances in Colloid and Interface Science
https://www.readbyqxmd.com/read/28520888/traffic-congestion-as-a-risk-factor-for-mortality-in-near-road-communities-a-case-crossover-study
#3
Meredith Pedde, Adam A Szpiro, Sara D Adar
Existing epidemiological research on traffic largely neglects localized fluctuations. We leveraged finely-resolved congestion data to investigate short-term associations with mortality in near-road communities. We identified all non-accidental, cardiovascular, cerebrovascular, and respiratory deaths (2009-2013) within 1 km of a Puget Sound highway. Using a case-crossover design, we examined the association between congestion 0-150, 151-300, and 301-1000 m upwind of a decedent's home and mortality, adjusting for meteorology, holidays, and flu...
May 18, 2017: American Journal of Epidemiology
https://www.readbyqxmd.com/read/28502110/a-novel-frameshift-mutation-of-the-adar1-gene-in-a-chinese-patient-with-dyschromatosis-symmetrica-hereditaria-and-the-dermoscopic-features
#4
Cheng Chi, Yixin Luo, Jie Liu
Dyschromatosis symmetrica hereditaria (DSH), which characterized by hyper- or hypopigmented macules on the dorsal aspect of distal extremities and freckle-like macules on the face, is a rare pigmented genodermatosis that usually restricted to the skin. Generally, DSH is considered autosomal dominant, and adenosine deaminase acting on the RNA-1 (ADAR1) gene is one of the responsible genes [1]. ADAR catalyses adenosine-to-inosine (A-to-I) editing of dsRNA substrates, which plays an important role in posttranscriptional regulatory processes...
May 14, 2017: Journal of the European Academy of Dermatology and Venereology: JEADV
https://www.readbyqxmd.com/read/28486975/evidence-for-transcriptome-wide-rna-editing-among-sus-scrofa-pre-1-sine-elements
#5
Scott A Funkhouser, Juan P Steibel, Ronald O Bates, Nancy E Raney, Darius Schenk, Catherine W Ernst
BACKGROUND: RNA editing by ADAR (adenosine deaminase acting on RNA) proteins is a form of transcriptional regulation that is widespread among humans and other primates. Based on high-throughput scans used to identify putative RNA editing sites, ADAR appears to catalyze a substantial number of adenosine to inosine transitions within repetitive regions of the primate transcriptome, thereby dramatically enhancing genetic variation beyond what is encoded in the genome. RESULTS: Here, we demonstrate the editing potential of the pig transcriptome by utilizing DNA and RNA sequence data from the same pig...
May 9, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28484266/rna-editing-signature-during-myeloid-leukemia-cell-differentiation
#6
C Rossetti, E Picardi, M Ye, G Camilli, A M D'Erchia, L Cucina, F Locatelli, L Fianchi, L Teofili, G Pesole, A Gallo, R Sorrentino
ADARs are key proteins for hematopoietic stem cell self-renewal and for survival of differentiating progenitor cells. However, their specific role in myeloid cell maturation has been poorly investigated. Here, we show that ADAR1 is present at basal level in the primary myeloid leukemia cells obtained from patients at diagnosis as well as in myeloid U-937 and THP1 cell lines and its expression correlates with the editing levels. Upon phorbol-myristate acetate (PMA) or VitaminD3/GM-CSF-driven differentiation, both ADAR1 and ADAR2 enzymes are up-regulated, with a concomitant global increase of A-to-I RNA editing...
May 9, 2017: Leukemia: Official Journal of the Leukemia Society of America, Leukemia Research Fund, U.K
https://www.readbyqxmd.com/read/28482199/adar-deaminase-a-to-i-editing-of-dna-and-rna-moieties-of-rna-dna-hybrids-has-implications-for-the-mechanism-of-ig-somatic-hypermutation
#7
Edward J Steele, Robyn A Lindley
The implications are discussed of recently published biochemical studies on ADAR-mediated A-to-I DNA and RNA deamination at RNA:DNA hybrids. The significance of these data are related to previous work on strand-biased and codon-context mutation signatures in B lymphocytes and cancer genomes. Those studies have established that there are two significant strand biases at A:T and G:C base pairs, A-site mutations exceed T-site mutations (A>T) by 2.9 fold and G-site mutations exceed C-site mutations (G>C) by 1...
April 21, 2017: DNA Repair
https://www.readbyqxmd.com/read/28475458/mda5-associated-neuroinflammation-and-the-singleton-merten-syndrome-two-faces-of-the-same-type-i-interferonopathy-spectrum
#8
Insa Buers, Gillian I Rice, Yanick J Crow, Frank Rutsch
In 1973, Singleton and Merten described a new syndrome in 2 female probands with aortic and cardiac valve calcifications, early loss of secondary dentition, and widened medullary cavities of the phalanges. In 1984, Aicardi and Goutières defined a phenotype resembling congenital viral infection with basal ganglia calcification and increased protein content in the cerebrospinal fluid. Between 2006 and 2012, mutations in 6 different genes were described to be associated with Aicardi-Goutières syndrome, specifically-TREX1, RNASEH2A, RNASEH2B, RNASEH2C, ADAR, and SAMHD1...
May 2017: Journal of Interferon & Cytokine Research
https://www.readbyqxmd.com/read/28455960/a-to-i-rna-editing-of-blcap-lost-the-inhibition-to-stat3-activation-in-cervical-cancer
#9
Wen Chen, Wenrong He, Hongbing Cai, Bicheng Hu, Caishang Zheng, Xianliang Ke, Li Xie, Zhenhua Zheng, Xinxing Wu, Hanzhong Wang
Bladder cancer-associated protein (BLCAP) gene is a highly conserved gene with tumor-suppressor function in different carcinomas. It is also a novel ADAR-mediated editing substrate undergoes multiple A-to-I RNA editing events. Although the anti-tumorigenic role of BLCAP has been examined in preliminarily studies, the relationship between BLCAP function and A-to-I RNA editing in cervical carcinogenesis still require further exploration. Herein, we analyzed the coding sequence of BLCAP transcripts in 35 paired cervical cancer samples using high-throughput sequencing...
April 11, 2017: Oncotarget
https://www.readbyqxmd.com/read/28453786/a-to-i-rna-editing-in-the-earliest-diverging-eumetazoan-phyla
#10
Hagit T Porath, Amos Schaffer, Paulina Kaniewska, Shahar Alon, Eli Eisenberg, Joshua Rosenthal, Erez Y Levanon, Oren Levy
The highly conserved ADAR enzymes, found in all multicellular metazoans, catalyze the editing of mRNA transcripts by the deamination of adenosines to inosines. This type of editing has two general outcomes: site specific editing, which frequently leads to recoding, and clustered editing, which is usually found in transcribed genomic repeats. Here, for the first time we looked for both editing of isolated sites and clustered, non-specific sites in a basal metazoan, the coral Acropora millepora during spawning event, in order to reveal its editing pattern...
April 8, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28398248/adar1-and-microrna-a-hidden-crosstalk-in-cancer
#11
REVIEW
Charles J Cho, Seung-Jae Myung, Suhwan Chang
The evolution of cancer cells is believed to be dependent on genetic or epigenetic alterations. However, this concept has recently been challenged by another mode of nucleotide alteration, RNA editing, which is frequently up-regulated in cancer. RNA editing is a biochemical process in which either Adenosine or Cytosine is deaminated by a group of RNA editing enzymes including ADAR (Adenosine deaminase; RNA specific) or APOBEC3B (Apolipoprotein B mRNA Editing Enzyme Catalytic Subunit 3B). The result of RNA editing is usually adenosine to inosine (A-to-I) or cytidine to uridine (C-to-U) transition, which can affect protein coding, RNA stability, splicing and microRNA-target interactions...
April 11, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28395340/testicular-adenosine-to-inosine-rna-editing-in-the-mouse-is-mediated-by-adarb1%C3%A2-%C3%A2
#12
Elizabeth M Snyder, Konstantin Licht, Robert E Braun
Adenosine to inosine (A-to-I) RNA editing occurs in a wide range of tissues and cell types and can be catalyzed by one of the two adenosine deaminase acting on double-stranded RNA enzymes, ADAR and ADARB1. Editing can impact both coding and noncoding regions of RNA, and in higher organisms has been proposed to function in adaptive evolution. Neither the prevalence of A-to-I editing nor the role of either ADAR or ADARB1 has been examined in the context of germ cell development in mammals. Computational analysis of whole testis and cell-type specific RNA-sequencing data followed by molecular confirmation demonstrated that A-to-I RNA editing occurs in both the germ line and in somatic Sertoli cells in two targets, Cog3 and Rpa1...
January 1, 2017: Biology of Reproduction
https://www.readbyqxmd.com/read/28391001/three-dimensional-mitral-valve-morphology-and-age-related-trends-children-and-young-adults-with-structurally-normal-hearts-using-transthoracic-echocardiography
#13
Matthew A Jolley, Sunil J Ghelani, Adi Adar, David M Harrild
BACKGROUND: The mitral valve has a complex three-dimensional (3D) morphology that is incompletely described by two-dimensional echocardiography (echo). Three-dimensional echo provides a more robust tool to analyze the mitral valve. The shape of the mitral annulus and leaflets, and differences with age, have not been described by 3D echo in normal children. Our objective was to characterize and quantify the 3D mitral valve morphology in children with normal transthoracic echocardiograms over a broad spectrum of age and to identify differences in valve shape with age...
April 6, 2017: Journal of the American Society of Echocardiography
https://www.readbyqxmd.com/read/28367755/the-impact-of-nanoparticles-on-aerobic-degradation-of-municipal-solid-waste
#14
Senem Yazici Guvenc, Burcu Alan, Elanur Adar, Mehmet Sinan Bilgili
The amount of nanoparticles released from industrial and consumer products has increased rapidly in the last decade. These products may enter landfills directly or indirectly after the end of their useful life. In order to determine the impact of TiO2 and Ag nanoparticles on aerobic landfilling processes, municipal solid waste was loaded to three pilot-scale aerobic landfill bioreactors (80 cm diameter and 350 cm height) and exposed to TiO2 (AT) and Ag (AA) nanoparticles at total concentrations of 100 mg kg(-1) of solid waste...
April 2017: Waste Management & Research
https://www.readbyqxmd.com/read/28355180/dhx9-suppresses-rna-processing-defects-originating-from-the-alu-invasion-of-the-human-genome
#15
Tuğçe Aktaş, İbrahim Avşar Ilık, Daniel Maticzka, Vivek Bhardwaj, Cecilia Pessoa Rodrigues, Gerhard Mittler, Thomas Manke, Rolf Backofen, Asifa Akhtar
Transposable elements are viewed as 'selfish genetic elements', yet they contribute to gene regulation and genome evolution in diverse ways. More than half of the human genome consists of transposable elements. Alu elements belong to the short interspersed nuclear element (SINE) family of repetitive elements, and with over 1 million insertions they make up more than 10% of the human genome. Despite their abundance and the potential evolutionary advantages they confer, Alu elements can be mutagenic to the host as they can act as splice acceptors, inhibit translation of mRNAs and cause genomic instability...
April 6, 2017: Nature
https://www.readbyqxmd.com/read/28346055/a-to-i-editing-in-disease-is-not-fake-news
#16
Prajakta Bajad, Michael F Jantsch, Liam Keegan, Mary O'Connell
Adenosine deaminases acting on RNA (ADARs) are zinc-containing enzymes that deaminate adenosine bases to inosines within dsRNA regions in transcripts. In short, structured dsRNA hairpins individual adenosine bases may be targeted specifically and edited with up to one hundred percent efficiency, leading to the production of alternative protein variants. However, the majority of editing events occur within longer stretches of dsRNA formed by pairing of repetitive sequences. Here, many different adenosine bases are potential targets but editing efficiency is usually much lower...
March 27, 2017: RNA Biology
https://www.readbyqxmd.com/read/28327234/it-is-not-all-about-mating-attractiveness-predicts-partner-value-across-multiple-relationship-domains
#17
Adar B Eisenbruch, Aaron W Lukaszewski, James R Roney
An account of the "beauty premium" based only on mating motivations overlooks adaptationist models of social valuation that have broader explanatory power. We suggest a broader approach based on evolved preferences for attractive partners in multiple cooperative domains (not just mating), which accounts for many observations of attractiveness-based preferential treatment more comfortably than does the target article's mating-specific account.
January 2017: Behavioral and Brain Sciences
https://www.readbyqxmd.com/read/28278381/alternative-splicing-of-stat3-is-affected-by-rna-editing
#18
Lior Goldberg, Mor Abutbul-Amitai, Gideon Paret, Yael Nevo-Caspi
A-to-I RNA editing, carried out by adenosine deaminase acting on RNA (ADAR) enzymes, is an epigenetic phenomenon of posttranscriptional modifications on pre-mRNA. RNA editing in intronic sequences may influence alternative splicing of flanking exons. We have previously shown that conditions that induce editing result in elevated expression of signal transducer and activator of transcription 3 (STAT3), preferentially the alternatively-spliced STAT3β isoform. Mechanisms regulating alternative splicing of STAT3 have not been elucidated...
May 2017: DNA and Cell Biology
https://www.readbyqxmd.com/read/28275585/mutational-pressure-in-zika-virus-local-adar-editing-areas-associated-with-pauses-in-translation-and-replication
#19
Vladislav V Khrustalev, Tatyana A Khrustaleva, Nitin Sharma, Rajanish Giri
Zika virus (ZIKV) spread led to the recent medical health emergency of international concern. Understanding the variations in virus system is of utmost need. Using available complete sequences of ZIKV we estimated directions of mutational pressure along the length of consensus sequences of three lineages of the virus. Results showed that guanine usage is growing in ZIKV RNA plus strand due to adenine to guanine transitions, while adenine usage is growing due to cytosine to adenine transversions. Especially high levels of guanine have been found in two-fold degenerated sites of certain areas of RNA plus strand with high amount of secondary structure...
2017: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/28273401/hemostatic-abnormalities-in-dogs-with-naturally-occurring-heatstroke
#20
Yaron Bruchim, Efrat Kelmer, Adar Cohen, Carolina Codner, Gilad Segev, Itamar Aroch
OBJECTIVE: To investigate hemostatic analyte abnormalities and their association with mortality in dogs with naturally occurring heatstroke. DESIGN: Prospective observational study. SETTING: University teaching hospital. ANIMALS: Thirty client-owned dogs with naturally occurring heatstroke. INTERVENTIONS: None. MEASUREMENTS AND MAIN RESULTS: Citrated and EDTA blood samples were collected at presentation and at 4, 12, 24, 36, and 48 hours postpresentation (PP)...
May 2017: Journal of Veterinary Emergency and Critical Care
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