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https://www.readbyqxmd.com/read/29331492/prognostic-value-of-the-expression-of-dna-repair-related-biomarkers-mediated-by-alcohol-in-gastric-cancer-patients
#1
Yiyin Zhang, Hongyang Wu, Feng Yang, Jie Ning, Min Li, Chenchen Zhao, Shuping Zhong, Kangsheng Gu, Hua Wang
Alcohol consumption likely induces gastric carcinogenesis through deregulation of RNA polymerase (Pol) III genes and oxidative damage. Transcription factor IIB-related factor 1 (BRF1) overexpression alleviates RNA Pol III transcription inhibition through breast cancer susceptibility gene 1 (BRCA1). Myeloperoxidase (MPO) involvement in cancer is induced by alcohol-mediated oxidative damage. BRCA1/2 and MPO play key roles in DNA repair. BRCA1 and BRCA2 exert different roles in homologous recombination repair...
January 5, 2018: American Journal of Pathology
https://www.readbyqxmd.com/read/29330301/genetic-control-of-predominantly-error-free-replication-through-an-acrolein-derived-minor-groove-dna-adduct
#2
Jung-Hoon Yoon, Richard P Hodge, Linda C Hackfeld, Jeseong Park, Jayati Roy Choudhury, Satya Prakash, Louise Prakash
Acrolein, an α, β unsaturated aldehyde, is generated in vivo as the end product of lipid peroxidation and from metabolic oxidation of polyamines, and it is an ubiquitous environmental pollutant. The reaction of acrolein with the N2 of guanine in DNA leads to the formation of γ-hydroxy-1-N2-propano-2' deoxyguanosine (γ-HOPdG) which can exist in DNA in a ring-closed or a ring-opened form. Here we identify the translesion synthesis (TLS) DNA polymerases (Pols) which conduct replication through the permanently ring-opened reduced form of γ-HOPdG [(r) γ-HOPdG] and show that replication through this adduct is mediated via Rev1/Polη, Polι/Polκ, and Polθ dependent pathways, respectively...
January 12, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29329336/effective-dispersal-and-density-dependence-in-mesophotic-macroalgal-forests-insights-from-the-mediterranean-species-cystoseira-zosteroides
#3
Pol Capdevila, Cristina Linares, Eneko Aspillaga, Joan Lluís Riera, Bernat Hereu
Dispersal and recruitment are fundamental processes for population recovery following disturbances in sessile species. While both processes are well understood for many terrestrial species, they still remain poorly resolved for some macroalgal species. Here we experimentally investigated the effective dispersal and recruit survival of a mesophotic Mediterranean fucoid, Cystoseira zosteroides. In three isolated populations, four sets of settlement collectors were placed at increasing distances (from 0 to 10 m) and different orientations (North, South, East and West)...
2018: PloS One
https://www.readbyqxmd.com/read/29328783/signaling-to-and-from-the-rna-polymerase-iii-transcription-and-processing-machinery
#4
Ian M Willis, Robyn D Moir
RNA polymerase (Pol) III has a specialized role in transcribing the most abundant RNAs in eukaryotic cells, transfer RNAs (tRNAs), along with other ubiquitous small noncoding RNAs, many of which have functions related to the ribosome and protein synthesis. The high energetic cost of producing these RNAs and their central role in protein synthesis underlie the robust regulation of Pol III transcription in response to nutrients and stress by growth regulatory pathways. Downstream of Pol III, signaling impacts posttranscriptional processes affecting tRNA function in translation and tRNA cleavage into smaller fragments that are increasingly attributed with novel cellular activities...
January 12, 2018: Annual Review of Biochemistry
https://www.readbyqxmd.com/read/29328645/assessing-intermolecular-interactions-in-guest-free-clathrate-hydrate-systems
#5
Iván León-Merino, Raúl Rodríguez-Segundo, Daniel J Arismendi-Arrieta, Rita Prosmiti
Recently, empty hydrate structures sI, sII, sH and others have been proposed as low-density ice structures by both experimental observations and computer simulations. Some of them have been synthesized in the laboratory and motivates to reexamine the stability of such guest-free clathrate structures. Using empirical and ab initio-based water models, as well as dispersion-corrected density functional theory approaches, we predict their stability, including cooperative many-body effects, in comparison with reference data from converged wavefunction-based DF-MP2 electronic structure calculations...
January 12, 2018: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/29328011/-is-there-quality-of-life-with-locked-in-syndrome
#6
S D Limburg, J Pols, M Limburg
A 57-year-old man developed a locked-in state due to a brain stem stroke. He communicated through eye movements. The team suggested treatment should be discontinued, as there was no perspective of improvement. The family was very upset because they experienced sufficient quality of life. We investigated what 'quality of life' means. The literature shows that severely ill and completely care-dependent patients may experience high quality of life; this is called the disability paradox. Patients and families evaluate quality of life by looking for positive things to live for...
2018: Nederlands Tijdschrift Voor Geneeskunde
https://www.readbyqxmd.com/read/29325134/continued-propagation-of-the-crf19_cpx-variant-among-hiv-positive-msm-patients-in-spain
#7
S Pérez-Parra, M Álvarez, J A Fernandez-Caballero, A B Pérez, J Santos, O Bisbal, A Aguilera, M Rivero, L García-Fraile, F García
Objectives: The HIV-1 CRF19_cpx genetic form has been recently associated with greater pathogenicity. We used CoRIS, a national cohort of 31 reference hospitals in Spain, to investigate the current epidemiological situation of this variant in Spain. Patients and methods: We analysed 4734 naive HIV-1-positive patients diagnosed during the 2007-15 period with an available pol gene sequence in the CoRIS resistance database. HIV-1 CRF19_cpx was ascribed through REGA3...
January 8, 2018: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/29322784/bioinformatic-analysis-of-changes-in-rna-polymerase-ii-transcription-stimulated-by-estradiol-in-mcf7-cells
#8
J Wu, Y Cai, G Zhao
Estradiol (E2) is the most potent estrogen and RNA polymerase II (Pol II) regulates a great mass of gene expression. This study was designed to illustrate the mechanisms of estrogen-dependent human breast cancer (BC) through Pol II. ChIP-seq data, DNase-seq data and other sequencing data of human BC MCF-7 cells were downloaded from Gene Expression Omnibus database. Each of these datasets included one control and one E2 treated sample. Sequence alignment was performed and Pol II factor binding signal was determined...
2018: Neoplasma
https://www.readbyqxmd.com/read/29322297/nuclear-distribution-of-the-trypanosoma-cruzi-rna-pol-i-subunit-rpa31-during-growth-and-metacyclogenesis-and-characterization-of-its-nuclear-localization-signal
#9
Israel Canela-Pérez, Imelda López-Villaseñor, Ana María Cevallos, Roberto Hernández
Trypanosoma cruzi is the aetiologic agent of Chagas disease. Our research group studies ribosomal RNA (rRNA) gene transcription and nucleolus dynamics in this species of trypanosomes. RPA31 is an essential subunit of RNA polymerase I (Pol I) whose presence is apparently restricted to trypanosomes. Using fluorescent-tagged versions of this protein (TcRPA31-EGFP), we describe its nuclear distribution during growth and metacyclogenesis. Our findings indicate that TcRPA31-EGFP alters its nuclear presence from concentrated nucleolar localization in exponentially growing epimastigotes to a dispersed granular distribution in the nucleoplasm of stationary epimastigotes and metacyclic trypomastigotes...
January 10, 2018: Parasitology Research
https://www.readbyqxmd.com/read/29321305/arabidopsis-rna-polymerase-v-mediates-enhanced-compaction-and-silencing-of-geminivirus-and-transposon-chromatin-during-host-recovery-from-infection
#10
Tami Coursey, Elizabeth Regedanz, David M Bisaro
Plants employ RNA-directed DNA methylation (RdDM) and dimethylation of histone 3 lysine 9 (H3K9me2) to silence geminiviruses and transposable elements (TEs). We previously showed that canonical RdDM (Pol IV-RdDM) involving RNA polymerases IV and V (Pol IV and Pol V) is required for Arabidopsis thaliana to recover from infection with Beet curly top virus lacking a suppressor protein that inhibits methylation (BCTV L2-). Recovery, which is characterized by reduced viral DNA levels and symptom remission, allows normal floral development...
January 10, 2018: Journal of Virology
https://www.readbyqxmd.com/read/29320736/the-rna-polymerase-ii-factor-rpap1-is-critical-for-mediator-driven-transcription-and-cell-identity
#11
Cian J Lynch, Raquel Bernad, Isabel Calvo, Sandrina Nóbrega-Pereira, Sergio Ruiz, Nuria Ibarz, Ana Martinez-Val, Osvaldo Graña-Castro, Gonzalo Gómez-López, Eduardo Andrés-León, Vladimir Espinosa Angarica, Antonio Del Sol, Sagrario Ortega, Oscar Fernandez-Capetillo, Enrique Rojo, Javier Munoz, Manuel Serrano
The RNA polymerase II-associated protein 1 (RPAP1) is conserved across metazoa and required for stem cell differentiation in plants; however, very little is known about its mechanism of action or its role in mammalian cells. Here, we report that RPAP1 is essential for the expression of cell identity genes and for cell viability. Depletion of RPAP1 triggers cell de-differentiation, facilitates reprogramming toward pluripotency, and impairs differentiation. Mechanistically, we show that RPAP1 is essential for the interaction between RNA polymerase II (RNA Pol II) and Mediator, as well as for the recruitment of important regulators, such as the Mediator-specific RNA Pol II factor Gdown1 and the C-terminal domain (CTD) phosphatase RPAP2...
January 9, 2018: Cell Reports
https://www.readbyqxmd.com/read/29317694/murine-splenic-b-cells-express-corticotropin-releasing-hormone-receptor-2-that-affect-their-viability-during-a-stress-response
#12
Guillaume Harlé, Sandra Kaminski, David Dubayle, Jean-Pol Frippiat, Armelle Ropars
Chronic stress is now recognized as a risk factor for disease development and/or exacerbation. It has been shown to affect negatively the immune system and notably the humoral immune response. Corticotropin-releasing hormone (CRH) is known to play a crucial role in stress response. CRH receptors are expressed on different immune cells such as granulocytes, monocytes and T cells. However, up to now, no CRH receptor has been described on B cells which are key players of the humoral immune response. In order to highlight new pathways by which stress may impact immunity, we investigated the role of CRH in B cells...
January 9, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29316208/effect-of-bone-sialoprotein-coated-three-dimensional-printed-calcium-phosphate-scaffolds-on-primary-human-osteoblasts
#13
Anja Klein, Andreas Baranowski, Ulrike Ritz, Hermann Götz, Sascha Heinemann, Stefan Mattyasovszky, Pol M Rommens, Alexander Hofmann
The combination of the two techniques of rapid prototyping 3D-plotting and bioactive surface functionalization is presented, with emphasis on the in vitro effect of Bone Sialoprotein (BSP) on primary human osteoblasts (hOBs). Our primary objective was to demonstrate the BSP influence on the expression of distinctive osteoblast markers in hOBs. Secondary objectives included examinations of the scaffolds' surface and the stability of BSP-coating as well as investigations of cell viability and proliferation. 3D-plotted calcium phosphate cement (CPC) scaffolds were coated with BSP via physisorption...
January 9, 2018: Journal of Biomedical Materials Research. Part B, Applied Biomaterials
https://www.readbyqxmd.com/read/29313808/regulation-of-trna-gene-transcription-by-the-chromatin-structure-and-nucleosome-dynamics
#14
REVIEW
Ashutosh Shukla, Purnima Bhargava
The short, non-coding genes transcribed by the RNA polymerase (pol) III, necessary for survival of a cell, need to be repressed under the stress conditions in vivo. The pol III-transcribed genes have adopted several novel chromatin-based regulatory mechanisms to their advantage. In the budding yeast, the sub-nucleosomal size tRNA genes are found in the nucleosome-free regions, flanked by positioned nucleosomes at both the ends. With their chromosomes-wide distribution, all tRNA genes have a different chromatin context...
December 4, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29313114/bladder-cancer-local-staging-multiparametric-mri-performance-following-transurethral-resection
#15
Christian B van der Pol, Atul B Shinagare, Sree Harsha Tirumani, Mark A Preston, Mark G Vangel, Stuart G Silverman
PURPOSE: To evaluate the performance of multiparametric MRI (mpMRI) for the local staging of bladder cancer following transurethral resection of bladder tumor. METHODS: This Institutional Review Board-approved, retrospective study identified 45 patients with pathology-proven bladder cancer who underwent transurethral resection followed by mpMRI between August 2011 and October 2016. Two radiologists reviewed each MRI independently and assigned T and N stage. Sensitivity, specificity, positive predictive value (PPV), negative predictive value (NPV), and accuracy were calculated for the presence of muscle invasion (T2 or higher), peri-vesical invasion (T3 or higher), and regional nodal disease compared to findings at cystectomy as the reference standard...
January 9, 2018: Abdominal Radiology
https://www.readbyqxmd.com/read/29304767/mlh1-93%C3%A2-g-a-polymorphism-is-associated-with-mlh1-promoter-methylation-and-protein-loss-in-dysplastic-sessile-serrated-adenomas-with-brafv600e-mutation
#16
Lochlan J Fennell, Saara Jamieson, Diane McKeone, Tracie Corish, Megan Rohdmann, Tori Furner, Mark Bettington, Cheng Liu, Futoshi Kawamata, Catherine Bond, Jolieke Van De Pols, Barbara Leggett, Vicki Whitehall
BACKGROUND: Sessile serrated adenomas with BRAF mutation progress rapidly to cancer following the development of dysplasia (SSAD). Approximately 75% of SSADs methylate the mismatch repair gene MLH1, develop mismatch repair deficiency and the resultant cancers have a good prognosis. The remaining SSADs and BRAF mutant traditional serrated adenomas (TSA) develop into microsatellite stable cancers with a poor prognosis. The reason for this dichotomy is unknown. In this study, we assessed the genotypic frequency of the MLH1-93 polymorphism rs1800734 in SSADs and TSAs to determine if the uncommon variant A allele predisposes to MLH1 promoter hypermethylation...
January 5, 2018: BMC Cancer
https://www.readbyqxmd.com/read/29304333/tyrosine-1-of-rna-polymerase-ii-ctd-controls-global-termination-of-gene-transcription-in-mammals
#17
Nilay Shah, Muhammad Ahmad Maqbool, Yousra Yahia, Amal Zine El Aabidine, Cyril Esnault, Ignasi Forné, Tim-Michael Decker, David Martin, Roland Schüller, Stefan Krebs, Helmut Blum, Axel Imhof, Dirk Eick, Jean-Christophe Andrau
The carboxy-terminal domain (CTD) of RNA polymerase (Pol) II is composed of a repetition of YSPTSPS heptads and functions as a loading platform for protein complexes that regulate transcription, splicing, and maturation of RNAs. Here, we studied mammalian CTD mutants to analyze the function of tyrosine1 residues in the transcription cycle. Mutation of 3/4 of the tyrosine residues (YFFF mutant) resulted in a massive read-through transcription phenotype in the antisense direction of promoters as well as in the 3' direction several hundred kilobases downstream of genes...
January 4, 2018: Molecular Cell
https://www.readbyqxmd.com/read/29301983/insights-into-the-effect-of-minor-groove-interactions-and-metal-cofactors-on-mutagenic-replication-by-human-dna-polymerase-%C3%AE
#18
Myong-Chul Koag, Seongmin Lee
DNA polymerases accommodate various base pair conformations in the event of incorrect insertions. In particular, Watson-Crick-like dG:dTTP base pair has been observed at the insertion site of human DNA polymerase β (pol β). A potential factor contributing to the diverse conformations of base pair mismatches is minor groove interactions. To gain insight into the effect of minor groove interactions on base pair conformations, we generated an Asn279Ala polβ mutant that cannot make minor groove contacts with incoming nucleotide...
January 4, 2018: Biochemical Journal
https://www.readbyqxmd.com/read/29297185/seasonal-trends-in-hypertension-in-poland-evidence-from-google-search-engine-query-data
#19
Anna E Płatek, Janusz Sierdziński, Bartosz Krzowski, Filip M Szymański
BACKGROUND: Various conditions including arterial hypertension exhibit seasonal trends in their occurrence and magnitude. Those trends correspond to an interest exhibited in the number of Internet searches for the specific conditions per month. AIM: The aim of the study was to show seasonal trends in the hypertension prevalence in Poland related to the data from Google Trends tool. METHODS: Internet search engine query data were retrieved from Google Trends from January 2008 to November 2017...
January 3, 2018: Kardiologia Polska
https://www.readbyqxmd.com/read/29294588/-analysis-on-hiv-1-subtypes-and-transmission-clusters-in-newly-reported-hiv-aids-cases-in-yiwu-zhejiang-province-2016
#20
J F Zhang, J M Yao, Q Fan, W J Chen, X H Pan, X B Ding, J Z Yang, T Fu
Objective: To understand the characteristics of distribution on HIV-1 subtypes and the transmission clusters in Yiwu in Zhejiang province. Methods: A cross-sectional study of molecular epidemiology was carried out on newly reported HIV/AIDS cases in Yiwu. RNA was extracted from 168 plasma samples, followed by RT-PCR and nest-PCR for pol gene amplification, sequencing, phylogenetic tree construction used for analyzing the subtypes and transmission clusters. Mutations on drug resistance was analyzed by CPR 6...
December 10, 2017: Zhonghua Liu Xing Bing Xue za Zhi, Zhonghua Liuxingbingxue Zazhi
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