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Circular rna

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https://www.readbyqxmd.com/read/28812395/current-research-on-circular-rnas-associated-with-colorectal-cancer
#1
Penghui Wang, Xiaodong He
Representing a novel type of endogenous noncoding RNAs, circular RNAs (circRNAs) have recently gained much attention for their involvement in multiple biological processes. CircRNAs are ubiquitously expressed in eukaryotic cells and modulate gene expression by acting as sponges of microRNAs (miRNAs) or other proteins, such as RNA-binding proteins (RBPs). Due to their unique structure, circRNAs are more stable than linear RNAs. Expression profiles of circRNAs are associated with clinicopathological characteristics of colorectal cancer patients, such as differentiation, TNM classification and distant metastasis...
August 16, 2017: Scandinavian Journal of Gastroenterology
https://www.readbyqxmd.com/read/28811754/comparative-genome-analysis-of-rathayibacter-tritici-ncppb-1953-with-rathayibacter-toxicus-strains-can-facilitate-studies-on-mechanisms-of-nematode-association-and-host-infection
#2
Jungwook Park, Pyeong An Lee, Hyun-Hee Lee, Kihyuck Choi, Seon-Woo Lee, Young-Su Seo
Rathayibacter tritici, which is a Gram positive, plant pathogenic, non-motile, and rod-shaped bacterium, causes spike blight in wheat and barley. For successful pathogenesis, R. tritici is associated with Anguina tritici, a nematode, which produces seed galls (ear cockles) in certain plant varieties and facilitates spread of infection. Despite significant efforts, little research is available on the mechanism of disease or bacteria-nematode association of this bacterium due to lack of genomic information. Here, we report the first complete genome sequence of R...
August 2017: Plant Pathology Journal
https://www.readbyqxmd.com/read/28806644/effects-of-the-fluorine-substituent-positions-of-the-intercalating-ligands-on-the-binding-behavior-and-third-strand-stabilization-of-two-ru-ii-complexes-toward-poly-u-%C3%A2-poly-a-poly-u-triplex-rna
#3
Mengna Peng, Wen Ni, Lifeng Tan
Two new Ru(II) polypyridyl complexes containing fluorine substituents, [Ru(bpy)2(o-fpip)](2+) (Ru1, bpy=2,2'-bipyridine, o-fpip=2-(2-fluorophenyl)imidazo[4,5-f] [1,10]phenanthroline) and [Ru(bpy)2(p-fpip)](2+) (Ru2, p-fpip=2-(4-fluorophenyl)imidazo[4,5-f] [1,10]phenanthroline) have been synthesized as binders for poly(U)•poly(A)∗poly(U) triplex RNA. The binding of the two complexes with the triplex RNA has been investigated by spectroscopic methods and viscosity measurements. Analysis of the electronic absorption spectra indicates that the association of intercalating Ru2 with the triplex RNA is greater than that of Ru1, which is also supported by spectroscopic titrations and viscosity measurements...
August 8, 2017: Journal of Inorganic Biochemistry
https://www.readbyqxmd.com/read/28803498/screening-circular-rna-related-to-chemotherapeutic-resistance-in-breast-cancer
#4
Danfeng Gao, Xiufen Zhang, Beibei Liu, Dong Meng, Kai Fang, Zijian Guo, Lihua Li
AIM: We aimed to identify circular RNAs (circRNAs) associated with breast cancer chemoresistance. MATERIALS & METHODS: CircRNA microarray expression profiles were obtained from Adriamycin (ADM) resistant MCF-7 breast cancer cells (MCF-7/ADM) and parental MCF-7 cells and were validated using quantitative real-time reverse transcription PCR. The expression data were analyzed bioinformatically. RESULTS: We detected 3093 circRNAs and identified 18 circRNAs that are differentially expressed between MCF-7/ADM and MCF-7 cells; after validating by quantitative real-time reverse transcription PCR, we predicted the possible miRNAs and potential target genes of the seven upregulated circRNAs using TargetScan and miRanda...
August 14, 2017: Epigenomics
https://www.readbyqxmd.com/read/28802063/hepatitis-b-virus-pregenomic-rna-in-hepatocellular-carcinoma-a-nosological-and-prognostic-determinant
#5
Boris Halgand, Christophe Desterke, Lise Rivière, Guillaume Fallot, Mylène Sebagh, Julien Calderaro, Paulette Bioulac-Sage, Christine Neuveut, Marie-Annick Buendia, Didier Samuel, Cyrille Féray
Hepatitis B virus (HBV) is a major cause of hepatocellular carcinoma (HCC). However, very little is known about the replication of HBV in HCC tissues. PATIENTS AND METHODS: We analysed viral and cellular parameters in HCC (T) and non-tumor liver (NT) samples from 99 HBsAg-positive, virologically suppressed patients treated by tumour resection or liver transplantation. We examined total HBV DNA and RNA as well as covalently closed circular DNA (cccDNA) and pregenomic RNA (pgRNA), which are considered as markers of active HBV replication...
August 12, 2017: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/28798046/loss-of-a-mammalian-circular-rna-locus-causes-mirna-deregulation-and-affects-brain-function
#6
Monika Piwecka, Petar Glažar, Luis R Hernandez-Miranda, Sebastian Memczak, Susanne A Wolf, Agnieszka Rybak-Wolf, Andrei Filipchyk, Filippos Klironomos, Cledi Alicia Cerda Jara, Pascal Fenske, Thorsten Trimbuch, Vera Zywitza, Mireya Plass, Luisa Schreyer, Salah Ayoub, Christine Kocks, Ralf Kühn, Christian Rosenmund, Carmen Birchmeier, Nikolaus Rajewsky
Hundreds of circular RNAs (circRNAs) are highly abundant in mammalian brain, with oftentimes conserved expression. Here, we show that the circRNA Cdr1as is massively bound by miR-7 and miR-671 in the human and mouse brain. When the Cdr1as locus was removed from the mouse genome, knockout animals displayed impaired sensorimotor gating, a deficit in the ability to filter out unnecessary information associated with neuropsychiatric disorders. Electrophysiological recordings revealed dysfunctional synaptic transmission...
August 10, 2017: Science
https://www.readbyqxmd.com/read/28797959/c-terminal-residues-of-rice-translin-are-essential-for-octamer-formation-and-nucleic-acid-binding
#7
Alka Gupta, Anuradha Nair, Anand Ballal, Rajani Kant Chittela
Translin is a DNA/RNA binding protein involved in DNA repair and RNA metabolism. Previously, we had shown that rice translin (221 amino acids) exhibits biochemical activities similar to that of the human translin protein. Here we report the role of the C-terminal random coil in rice translin function by analyzing truncation (after 215(th) residue, Tra - 215) and substitution mutant proteins (Ser216Ala, Lys217Ala, Gln218Ala, Glu219Ala). Circular Dichroism (CD) analysis of Tra-215 showed deviations in comparison to Tra-WT...
August 4, 2017: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/28795385/hsa_circ_0045714-regulates-chondrocyte-proliferation-apoptosis-and-extracellular-matrix-synthesis-by-promoting-the-expression-of-mir-193b-target-gene-igf1r
#8
Bao-Feng Li, Ying Zhang, Jin Xiao, Fei Wang, Mei Li, Xiao-Ze Guo, Hui-Bin Xie, Hong Xia, Bei Chen
In recent years, some studies have been made on the effects of circular RNA (circRNA) in osteoarthritis (OA) and so on; however, its mechanisms remain to be further explored. Studies have shown that tumor necrosis factor-alpha can inhibit hsa_circ_0045714 expression in chondrocytes so as to upregulate miR-193b expression. Dual-luciferase reporter assay showed that insulin-like growth factor 1 receptor (IGF1R) is a key target gene of miR-193b. Hsa_circ_0045714 over-expression does not influence miR-193b expression, but can inhibit its transcriptional activity, thereby upregulating IGF1R expression...
August 9, 2017: Human Cell
https://www.readbyqxmd.com/read/28794202/circhipk3-sponges-mir-558-to-suppress-heparanase-expression-in-bladder-cancer-cells
#9
Yawei Li, Fuxin Zheng, Xingyuan Xiao, Fei Xie, Dan Tao, Chao Huang, Dong Liu, Miao Wang, Liang Wang, Fuqing Zeng, Guosong Jiang
Increasing evidences suggest that circular RNAs (circRNAs) exert crucial functions in regulating gene expression. In this study, we perform RNA-seq and identify 6,154 distinct circRNAs from human bladder cancer and normal bladder tissues. We find that hundreds of circRNAs are significantly dysregulated in human bladder cancer tissues. We further show that circHIPK3, also named bladder cancer-related circular RNA-2 (BCRC-2), is significantly down-regulated in bladder cancer tissues and cell lines, and negatively correlates with bladder cancer grade, invasion as well as lymph node metastasis, respectively...
August 9, 2017: EMBO Reports
https://www.readbyqxmd.com/read/28789987/regulation-of-splicing-and-circularisation-of-rna-in-epithelial-mesenchymal-plasticity
#10
REVIEW
Daniel P Neumann, Gregory J Goodall, Philip A Gregory
Interconversions between epithelial and mesenchymal states, often referred to as epithelial mesenchymal transition (EMT) and its reverse MET, play important roles in embryonic development and are recapitulated in various adult pathologies including cancer progression. These conversions are regulated by complex transcriptional and post-transcriptional mechanisms including programs of alternative splicing which are orchestrated by specific splicing factors. This review will focus on the latest developments in our understanding of the splicing factors regulating epithelial mesenchymal plasticity associated with cancer progression and the induction of pluripotency, including potential roles for circular RNAs (circRNAs) which have been recently implicated in these processes...
August 5, 2017: Seminars in Cell & Developmental Biology
https://www.readbyqxmd.com/read/28789596/circular-rna-hsa_circ_0001564-facilitates-tumorigenesis-of-osteosarcoma-via-sponging-mir-29c-3p
#11
Ji-Feng Li, Yu-Ze Song
Circular RNAs are a novel type of non-coding RNAs generated from back splicing, which has been verified to mediate multiple tumorigenesis. However, the role of circular RNA in osteosarcoma is still unclear. In this study, we preliminarily screened the circular RNAs expression profiles in osteosarcoma and investigated the potential regulation mechanism. The circular RNAs expression profiles in osteosarcoma were screened using circular RNA microarray analysis, and results showed that there were 1152 circular RNAs upregulated and 915 circular RNAs downregulated in tumor tissue compared to adjacent tissue...
August 2017: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
https://www.readbyqxmd.com/read/28783761/classification-of-the-pospiviroidae-based-on-their-structural-hallmarks
#12
Tamara Giguère, Jean-Pierre Perreault
The simplest known plant pathogens are the viroids. Because of their non-coding single-stranded circular RNA genome, they depend on both their sequence and their structure for both a successful infection and their replication. In the recent years, important progress in the elucidation of their structures was achieved using an adaptation of the selective 2'-hydroxyl acylation analyzed by primer extension (SHAPE) protocol in order to probe viroid structures in solution. Previously, SHAPE has been adapted to elucidate the structures of all of the members of the family Avsunviroidae, as well as those of a few members of the family Pospiviroidae...
2017: PloS One
https://www.readbyqxmd.com/read/28777011/hsa-circrna11783-2-in-peripheral-blood-is-correlated-with-coronary-artery-disease-and-type-2-diabetes-mellitus
#13
Xuejie Li, Zhenzhou Zhao, Dongdong Jian, Wentao Li, Haiyu Tang, Muwei Li
OBJECTIVE: The purpose of this study was to identify the expression characteristics of circular RNAs in the peripheral blood of coronary artery disease patients and type 2 diabetes mellitus patients. METHODS: Circular RNA in the peripheral blood from 6 control individuals, 6 coronary artery disease patients, 6 type 2 diabetes mellitus patients and 6 coronary artery disease combined with type 2 diabetes mellitus patients was collected for microarray analysis, and a further independent cohort consisting of 20 normal individuals, 20 type 2 diabetes mellitus subjects and 20 coronary artery disease subjects was used to verify the expression of five circular RNAs chosen for further analysis...
August 1, 2017: Diabetes & Vascular Disease Research
https://www.readbyqxmd.com/read/28774651/microarray-profiling-of-circular-rnas-and-the-potential-regulatory-role-of-hsa_circ_0071410-in-the-activated-human-hepatic-stellate-cell-induced-by-irradiation
#14
Yuhan Chen, Baoying Yuan, Zhifeng Wu, Yinying Dong, Li Zhang, Zhaochong Zeng
Radiation-induced liver fibrosis (RILF) is considered as a major complication of radiation therapy for liver cancer. Circular RNA (circRNA) has been recently identified as a functional noncoding RNA involving in various biological processes. However, the expression pattern and regulatory capacity of circRNA in the irradiated hepatic stellate cell (HSC), the main fibrogenic cell type, still remain unclear. A circRNA microarray was used to identify circRNA expression profiles in irradiated and normal HSC. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) was performed to confirm the dysregulated circRNAs...
July 31, 2017: Gene
https://www.readbyqxmd.com/read/28766295/inducible-expression-of-eukaryotic-circular-rnas-from-plasmids
#15
Deirdre C Tatomer, Dongming Liang, Jeremy E Wilusz
Thousands of eukaryotic protein-coding genes are noncanonically spliced to generate circular RNAs. Because they have covalently linked ends, circular RNAs are resistant to degradation by exonucleases and some accumulate to higher levels than their associated linear mRNAs. The functions of most circular RNAs are still unknown, but recent work has revealed key insights into how the pre-mRNA splicing machinery catalyzes backsplicing. Exons that circularize are often flanked by intronic repeat sequences that are complementary to one another, and backsplicing is triggered when these repeats base pair and bring the intervening splice sites into close proximity...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28765045/androgen-responsive-circular-rna-circsmarca5-is-up-regulated-and-promotes-cell-proliferation-in-prostate-cancer
#16
Zhe Kong, Xuechao Wan, Yalong Zhang, Pu Zhang, Yingyi Zhang, Xiaona Zhang, Xiaoxiang Qi, Hai Wu, Jianfeng Huang, Yao Li
Prostate cancer (PCa) is one of the most commonly diagnosed cancers in males worldwide. Circular RNA (circRNA) is a unique class of RNA transcribed by RNA polymerase II characterized by jointing 3' and 5' ends together via exon or intron circularization. However, the molecular functions of circRNAs in prostate cancer have rarely been explored. In present study, we found circ-SMARCA5 was up-regulated in prostate cancer samples compared to match normal tissues. We also observed circ-SMARCA5 expression was significantly induced after DHT treatment...
July 29, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28761373/chronic-constriction-injury-of-sciatic-nerve-changes-circular-rna-expression-in-rat-spinal-dorsal-horn
#17
Song Cao, Wenwen Deng, Ying Li, Bangyong Qin, Lin Zhang, Shouyang Yu, Peng Xie, Zhi Xiao, Tian Yu
BACKGROUND: Mechanisms of neuropathic pain are still largely unknown. Molecular changes in spinal dorsal horn may contribute to the initiation and development of neuropathic pain. Circular RNAs (circRNAs) have been identified as microRNA sponges and involved in various biological processes, but whether their expression profile changes in neuropathic pain condition is not reported. METHODS: To test whether neuropathic pain influences circRNA expression, we developed a sciatic chronic constriction injury (CCI) model in rats...
2017: Journal of Pain Research
https://www.readbyqxmd.com/read/28761361/circ-104916-is-downregulated-in-gastric-cancer-and-suppresses-migration-and-invasion-of-gastric-cancer-cells
#18
Jin Li, Li Zhen, Yan Zhang, Liying Zhao, Hao Liu, Danxian Cai, Hao Chen, Jiang Yu, Xiaolong Qi, Guoxin Li
Circular RNAs are a large class of noncoding RNA that have shown huge capabilities as gene regulators. Recent evidence suggest that circular RNAs are associated with many diseases, especially cancer. However, little attention has been focused on the expression and function of circular RNA in gastric cancer (GC). In this study, we demonstrate that the expression of circ-104916 is downregulated in GC tissues and cell lines. A lower expression of circ-104916 appeared in deeper invasion depth, higher tumor stage and more frequent lymphatic metastasis patients...
2017: OncoTargets and Therapy
https://www.readbyqxmd.com/read/28761319/the-expression-profile-of-developmental-stage-dependent-circular-rna-in-the-immature-rat-retina
#19
Junde Han, Lingqi Gao, Jing Dong, Jie Bai, Mazhong Zhang, Jijian Zheng
PURPOSE: Physiologic neuronal apoptosis, which facilitates the developmental maturation of the nervous system, is regulated by neuronal activity and gene expression. Circular RNA (circRNA), a class of non-coding RNA, regulates RNA and protein expression. As the relationship between circRNA and apoptosis is unknown, we explored changes in expression patterns of circRNA during physiologic neuronal apoptosis. METHODS: High-throughput sequencing was used to explore changes in the expression of circRNA in the postnatal developing rat retina...
2017: Molecular Vision
https://www.readbyqxmd.com/read/28751647/antiparallel-rna-g-quadruplex-formed-by-human-telomere-rna-containing-8-bromoguanosine
#20
Chao-Da Xiao, Takumi Ishizuka, Yan Xu
In this study, by combining nuclear magnetic resonance (NMR), circular dichroism (CD), liquid chromatography-electrospray ionization-mass spectrometry (LC-ESI-MS), and gel electrophoresis, we report an unusual topological structure of the RNA G-quadruplex motif formed by human telomere RNA r(UAGGGU) containing 8-bromoguanosine. Results showed that the RNA sequence formed an antiparallel tetramolecular G-quadruplex, in which each pair of diagonal strands run in opposite directions. Furthermore, guanosines were observed both in syn- and anti-conformations...
July 27, 2017: Scientific Reports
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