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https://www.readbyqxmd.com/read/28523539/the-role-of-noncoding-rnas-in-neurodevelopmental-disorders-the-case-of-rett-syndrome
#1
Aida Obiols-Guardia, Sònia Guil
Current technologies have demonstrated that only a small fraction of our genes encode for protein products. The vast majority of the human transcriptome corresponds to noncoding RNA (ncRNA) of different size, localization, and expression profile. Despite the fact that a biological function remains yet to be determined for most ncRNAs, growing evidence points to their crucial regulatory roles at all stages in gene expression regulation, including transcriptional and posttranscriptional control, so that proper cell homeostasis seems to depend largely on a variety of ncRNA-mediated regulatory networks...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28521327/epigenomics-pharmacoepigenomics-and-personalized-medicine-in-cervical-cancer
#2
Shama Prasada Kabekkodu, Sanjiban Chakrabarty, Supriti Ghosh, Angela Brand, Kapaettu Satyamoorthy
Epigenomics encompasses the study of genome-wide changes in DNA methylation, histone modifications and noncoding RNAs leading to altered transcription, chromatin structure, and posttranscription RNA processing, respectively, resulting in an altered rate of gene expression. The role of epigenetic modifications facilitating human diseases is well established. Previous studies have identified histone and cytosine code during normal and pathological conditions with special emphasis on how these modifications regulate transcriptional events...
May 19, 2017: Public Health Genomics
https://www.readbyqxmd.com/read/28521011/translation-initiation-events-on-structured-eukaryotic-mrnas-generate-gene-expression-noise
#3
Estelle Dacheux, Naglis Malys, Xiang Meng, Vinoy Ramachandran, Pedro Mendes, John Eg McCarthy
Gene expression stochasticity plays a major role in biology, creating non-genetic cellular individuality and influencing multiple processes, including differentiation and stress responses. We have addressed the lack of knowledge about posttranscriptional contributions to noise by determining cell-to-cell variations in the abundance of mRNA and reporter protein in yeast. Two types of structural element, a stem-loop and a poly(G) motif, not only inhibit translation initiation when inserted into an mRNA 5΄ untranslated region, but also generate noise...
May 17, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28520992/interplay-between-mir-574-3p-and-hnrnp-l-regulates-vegfa-mrna-translation-and-tumorigenesis
#4
Peng Yao, Jiangbin Wu, Daniel Lindner, Paul L Fox
MicroRNAs (miRNAs) and heterogeneous nuclear ribonucleoproteins (hnRNPs) are families of sequence-specific, posttranscriptional modulators of gene expression. Despite extensive mechanistic and functional studies on both regulatory classes, the interactions and crosstalk between them are largely unexplored. We have reported that competition between miR-297 and hnRNP L to bind a 3΄UTR-localized CA-rich element (CARE) of VEGFA mRNA regulates its translation. Here, we show that translation of VEGFA mRNA in human myeloid cells is dictated by a bi-directional interaction between miR-574-3p, a CA-rich microRNA, and hnRNP L...
May 17, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28516515/interaction-of-lincrna-ror-and-p53-mir-145-correlates-with-lung-cancer-stem-cell-signatures
#5
Fan Xia, Ye Xiong, Qiang Li
ROR is one of large intergenic non-coding RNAs (lincRNAs) and acts as a strong negative regulator of p53 and a sponge for miR-145 to regulate diverse cancer progression. However, the interaction of ROR, p53 and miR-145 in lung cancer and its correlation with lung cancer stem cell (LCSC) signatures were not fully understood. Here, qRT-PCR analysis revealed that p53 and ROR were upregulated while miR-145 was downregulated in non-small cell lung cancer (NSCLC) tissues and LCSCs compared to their paired adjacent normal tissues and lung cancer cells (LCCs)...
May 18, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28512645/regulation-of-discrete-functional-responses-by-syk-and-src-family-tyrosine-kinases-in-human-neutrophils
#6
Thornin Ear, Olga Tatsiy, Frédérick L Allard, Patrick P McDonald
Neutrophils play a critical role in innate immunity and also influence adaptive immune responses. This occurs in good part through their production of inflammatory and immunomodulatory cytokines, in conjunction with their prolonged survival at inflamed foci. While a picture of the signaling machinery underlying these neutrophil responses is now emerging, much remains to be uncovered. In this study, we report that neutrophils constitutively express various Src family isoforms (STKs), as well as Syk, and that inhibition of these protein tyrosine kinases selectively hinders inflammatory cytokine generation by acting posttranscriptionally...
2017: Journal of Immunology Research
https://www.readbyqxmd.com/read/28511796/attenuation-of-deregulated-mir-369-3p-expression-sensitizes-non-small-cell-lung-cancer-cells-to-cisplatin-via-modulation-of-the-nucleotide-sugar-transporter-slc35f5
#7
Guang-Jun Hao, Yan-Hui Ding, Hui Wen, Xiao-Feng Li, Wei Zhang, Hu-Yan Su, Dong-Mei Liu, Nian-Lin Xie
Deregulation of the microRNAs (miRNAs), a cluster of important posttranscriptional regulators, has been frequently associated with lung cancer (LCa). However, the emerging mechanism for how miRNAs is linked causally in the development of LCa chemoresistance is poorly understood. Herein, we established for the time the up-regulation of miR-369-3p in cisplatin (DDP)-resistant nonsmall cell lung cancer (NSCLC) tissues and cells. Its deregulation was found to be correlated to the magnitude of malignancy in well-characterized LCa cells...
May 13, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28510781/5-azacytidine-mediated-reactivation-of-silenced-transgenes-in-potato-solanum-tuberosum-at-the-whole-plant-level
#8
Dimitrij Tyč, Eva Nocarová, Lenka Sikorová, Lukáš Fischer
Transient 5-azacytidine treatment of leaf explants from potato plants with transcriptionally silenced transgenes allows de novo regeneration of plants with restored transgene expression at the whole plant level. Transgenes introduced into plant genomes frequently become silenced either at the transcriptional or the posttranscriptional level. Transcriptional silencing is usually associated with DNA methylation in the promoter region. Treatments with inhibitors of maintenance DNA methylation were previously shown to allow reactivation of transcriptionally silenced transgenes in single cells or tissues, but not at the whole plant level...
May 16, 2017: Plant Cell Reports
https://www.readbyqxmd.com/read/28510455/clinically-relevant-multidrug-transporters-are-regulated-by-micrornas-along-the-human-intestine
#9
Henrike Bruckmueller, Paul Martin, Meike Kaehler, Sierk Haenisch, Marek Ostrowski, Marek Drozdzik, Werner Siegmund, Ingolf Cascorbi, Stefan Oswald
Intestinal drug transporters are crucial determinants for absorption and oral bioavailability of drugs. In healthy tissue donators, a recent study revealed profound discrepancies between mRNA expression and protein abundance as well as differences in the protein content between small and large intestine for clinically relevant multidrug transporters as the ATP binding cassette transporter subfamily B member 1 (ABCB1) and subfamily C member 3 (ABCC3) and the solute carrier family 15 member 1 (SLC15A1, PEPT1)...
May 16, 2017: Molecular Pharmaceutics
https://www.readbyqxmd.com/read/28509355/lon-protease-modulates-virulence-traits-in-erwinia-amylovora-by-directly-monitoring-major-regulators-and-indirectly-through-the-rcs-and-gac-csr-regulatory-systems
#10
Jae Hoon Lee, Veronica Ancona, Youfu Zhao
Lon, an ATP-dependent protease in bacteria, influences diverse cellular processes by degrading damaged, misfolded and short-lived regulatory proteins. In this study, we characterized the effects of lon mutation and determined the molecular mechanisms underlying Lon-mediated virulence regulation in Erwinia amylovora, an enterobacterial pathogen of apple. E. amylovora depends on the type III secretion system (T3SS) and the exopolysaccharide (EPS) amylovoran to cause disease. Our results showed that mutation of the lon gene led to overproduction of amylovoran, increased T3SS gene expression and non-motile phenotype...
May 16, 2017: Molecular Plant Pathology
https://www.readbyqxmd.com/read/28504646/the-rna-binding-protein-tristetraprolin-schedules-apoptosis-of-pathogen-engaged-neutrophils-during-bacterial-infection
#11
Florian Ebner, Vitaly Sedlyarov, Saren Tasciyan, Masa Ivin, Franz Kratochvill, Nina Gratz, Lukas Kenner, Andreas Villunger, Michael Sixt, Pavel Kovarik
Protective responses against pathogens require a rapid mobilization of resting neutrophils and the timely removal of activated ones. Neutrophils are exceptionally short-lived leukocytes, yet it remains unclear whether the lifespan of pathogen-engaged neutrophils is regulated differently from that in the circulating steady-state pool. Here, we have found that under homeostatic conditions, the mRNA-destabilizing protein tristetraprolin (TTP) regulates apoptosis and the numbers of activated infiltrating murine neutrophils but not neutrophil cellularity...
May 15, 2017: Journal of Clinical Investigation
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
#12
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/28500896/a-microrna-ubiquitin-ligase-feedback-loop-regulates-slug-mediated-invasion-in-breast-cancer
#13
Rajesh Kumar Manne, Yashika Agrawal, Anil Bargale, Asha Patel, Debasish Paul, Neha Anilkumar Gupta, Srikanth Rapole, Vasudevan Seshadri, Deepa Subramanyam, Praveenkumar Shetty, Manas Kumar Santra
The transformation of a normal cell to cancer requires the derail of multiple pathways. Normal signaling in a cell is regulated at multiple stages by the presence of feedback loops, calibration of levels of proteins by their regulated turnover, and posttranscriptional regulation, to name a few. The tumor suppressor protein FBXO31 is a component of the SCF E3 ubiquitin ligase and is required to arrest cells at G1 following genotoxic stresses. Due to its growth-suppression activity, it is underexpressed in many cancers...
May 9, 2017: Neoplasia: An International Journal for Oncology Research
https://www.readbyqxmd.com/read/28500720/casting-away-the-shadows-elucidating-the-role-of-light-mediated-posttranscriptional-control-in-plants
#14
REVIEW
Carlos E Hernando, Carolina Garcia, Julieta L Mateos
Light signals trigger precise changes in gene expression networks that activate distinctive developmental programs in plants. The transcriptome is shaped at different stages, both by the regulation of gene expression and also by posttranscriptional mechanisms that alter the sequence or abundance of the transcripts generated. Posttranscriptional mechanisms have attracted much interest in recent years with the advent of high-throughput technologies and bioinformatics tools. One such posttranscriptional process, alternative splicing, increases proteome diversity without increasing gene number by changing the function of individual proteins, while another, miRNA-mediated gene silencing, fine-tunes the amount of mRNA produced...
May 2017: Photochemistry and Photobiology
https://www.readbyqxmd.com/read/28499417/genome-wide-characterization-and-expression-analyses-of-superoxide-dismutase-sod-genes-in-gossypium-hirsutum
#15
Wei Wang, Xiaopei Zhang, Fenni Deng, Rui Yuan, Fafu Shen
BACKGROUND: Superoxide dismutases (SODs) are a key antioxidant enzyme family, which have been implicated in protecting plants against the toxic effects of reactive oxygen species. Despite current studies have shown that the gene family are involved in plant growth and developmental processes and biotic and abiotic stress responses, little is known about its functional role in upland cotton. RESULTS: In the present study, we comprehensively analyzed the characteristics of the SOD gene family in upland cotton (Gossypium hirsutum)...
May 12, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28497120/analysis-of-light-and-carbon-specific-transcriptomes-implicates-a-class-of-g-protein-coupled-receptors-in-cellulose-sensing
#16
Eva Stappler, Christoph Dattenböck, Doris Tisch, Monika Schmoll
In fungi, most metabolic processes are subject to regulation by light. Trichoderma reesei is adapted to degradation of plant cell walls and regulates production of the required enzymes in a manner dependent on the nutrient source and the light status. Here we investigated the interrelated relevance of two regulation levels of the transcriptome of T. reesei: light regulation and carbon source-dependent control. We show that the carbon source (cellulose, lactose, sophorose, glucose, or glycerol) is the major source of variation, with light having a modulating effect on transcript regulation...
May 2017: MSphere
https://www.readbyqxmd.com/read/28493303/comprehensive-profiling-of-rhizome-associated-alternative-splicing-and-alternative-polyadenylation-in-moso-bamboo-phyllostachys-edulis
#17
Taotao Wang, Huiyuan Wang, Dawei Cai, Yubang Gao, Hangxiao Zhang, Yongsheng Wang, Chentao Lin, Liuyin Ma, Lianfeng Gu
Moso bamboo (Phyllostachys edulis) represents one of the fastest-spreading plants in the world, due in part to their well-developed rhizomes system. However, the post-transcriptional mechanism has not been comprehensively studied for the development of rhizome system in bamboo. We therefore used a combination of single-molecule long-read sequencing technology and polyadenylation site sequencing (PAS-seq) to re-annotate the bamboo genome, and genome-wide identify alternative splicing (AS) and alternative polyadenylation (APA) in the rhizomes system...
May 10, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28492808/famlf-is-a-target-of-mir-181b-in-burkitt-lymphoma
#18
J G Li, Y Ding, Y M Huang, W L Chen, L L Pan, Y Li, X L Chen, Y Chen, S Y Wang, X N Wu
Burkitt lymphoma (BL) is a highly malignant non-Hodgkin's lymphoma that is closely related to the abnormal expression of genes. Familial acute myelogenous leukemia related factor (FAMLF; GenBank accession No. EF413001.1) is a novel gene that was cloned by our research group, and miR-181b is located in the intron of the FAMLF gene. To verify the role of miR-181b and FAMLF in BL, RNAhybrid software was used to predict target site of miR-181b on FAMLF and real-time quantitative PCR (RQ-PCR) was used to detect expression of miR-181b and FAMLF in BL patients, Raji cells and unaffected individuals...
May 4, 2017: Brazilian Journal of Medical and Biological Research, Revista Brasileira de Pesquisas Médicas e Biológicas
https://www.readbyqxmd.com/read/28490743/allelic-imbalance-of-somatic-mutations-in-cancer-genomes-and-transcriptomes
#19
Je-Keun Rhee, Sejoon Lee, Woong-Yang Park, Young-Ho Kim, Tae-Min Kim
Somatic mutations in cancer genomes often show allelic imbalance (AI) of mutation abundance between the genome and transcriptome, but there is not yet a systematic understanding of AI. In this study, we performed large-scale DNA and RNA AI analyses of >100,000 somatic mutations in >2,000 cancer specimens across five tumor types using the exome and transcriptome sequencing data of the Cancer Genome Atlas consortium. First, AI analysis of nonsense mutations and frameshift indels revealed that nonsense-mediated decay is typical in cancer genomes, and we identified the relationship between the extent of AI and the location of mutations in addition to the well-recognized 50-nt rules...
May 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28487381/improved-microrna-suppression-by-wpre-linked-tough-decoy-microrna-sponges
#20
Anne Kruse Hollensen, Rune Thomsen, Rasmus O Bak, Charlotte Christie Petersen, Eva Reumert Ermegaard, Lars Aagaard, Christian Kroun Damgaard, Jacob Giehm Mikkelsen
Our genes are posttranscriptionally regulated by microRNAs (miRNAs) inducing translational suppression and degradation of targeted mRNAs. Strategies to inhibit miRNAs in a spatiotemporal manner in a desired cell type or tissue, or at a desired developmental stage, can be crucial for understanding miRNA function and for pushing forward miRNA suppression as a feasible rationale for genetic treatment of disease. For such purposes, RNA polymerase II (RNApolII)-transcribed Tough Decoy (TuD) miRNA inhibitors are particularly attractive...
May 9, 2017: RNA
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