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Circular rna

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https://www.readbyqxmd.com/read/29353086/ruthenium-dendrimers-as-carriers-for-anticancer-sirna
#1
Sylwia Michlewska, Maksim Ionov, Marta Maroto-Díaz, Aleksandra Szwed, Aliaksei Ihnatsyeu-Kachan, Svetlana Loznikova, Dzmitry Shcharbin, Marek Maly, Rafael Gomez Ramirez, Francisco Javier de la Mata, Maria Bryszewska
Dendrimers, which are considered as one of the most promising tools in the field of nanobiotechnology due to their structural organization, showed a great potential in gene therapy, drug delivery, medical imaging and as antimicrobial and antiviral agents. This article is devoted to study interactions between new carbosilane-based metallodendrimers containing ruthenium and anti-cancer small interfering RNA (siRNA). Formation of complexes between anti-cancer siRNAs and Ru-based carbosilane dendrimers was evaluated by transmission electron microscopy, circular dichroism and fluorescence...
January 12, 2018: Journal of Inorganic Biochemistry
https://www.readbyqxmd.com/read/29353073/serum-hbv-dna-plus-rna-shows-superiority-in-reflecting-the-activity-of-intrahepatic-cccdna-in-treatment-na%C3%A3-ve-hbv-infected-individuals
#2
Hongxin Huang, Jie Wang, Weijie Li, Ran Chen, Xiangmei Chen, Fengmin Zhang, Dongping Xu, Fengmin Lu
BACKGROUND: Both serum hepatitis B virus (HBV) DNA and RNA can reflect intrahepatic covalently closed circular DNA (cccDNA) activity. However, correlations among viral markers haven't been fully explored. OBJECTIVES: Here we investigated the correlations between serum HBV RNA and other viral markers in acute hepatitis B patients and treatment-naïve chronic HBV-infected individuals. STUDY DESIGN: The serum viral markers of 19 acute hepatitis B patients and 84 treatment-naïve chronic HBV-infected individuals at different infection stages were quantified...
January 6, 2018: Journal of Clinical Virology: the Official Publication of the Pan American Society for Clinical Virology
https://www.readbyqxmd.com/read/29344130/potential-functions-and-implications-of-circular-rna-in-gastrointestinal-cancer
#3
Xiaoxia Ren, Yongxing Du, Lei You, Yupei Zhao
Circular RNAs (circRNAs) are a novel type of endogenous non-coding RNA that have gained attention from researchers for their involvement in multiple biological processes. circRNAs are ubiquitously expressed in eukaryotic cells and regulate gene expression at the transcriptional or post-transcriptional level by interacting with microRNAs (miRNAs) or other molecules. The present review provides an overview of circRNAs, as well as insights into their roles in the development and progression of gastrointestinal cancer...
December 2017: Oncology Letters
https://www.readbyqxmd.com/read/29343508/circular-rna-vma21-protects-against-intervertebral-disc-degeneration-through-targeting-mir-200c-and-x-linked-inhibitor-of-apoptosis-protein
#4
Xiaofei Cheng, Liang Zhang, Kai Zhang, Guoying Zhang, Ying Hu, Xiaojiang Sun, Changqing Zhao, Hua Li, Yan Michael Li, Jie Zhao
OBJECTIVES: Circular RNAs (circRNAs) have been proven to function as competing endogenous RNAs to interact with microRNAs (miRNAs) and influence the expression of miRNA target mRNAs. In this study, we investigated whether circRNAs could act as competing endogenous RNAs to regulate the pathological process of intervertebral disc degeneration (IVDD). METHODS: The role and mechanism of a circRNA, circVMA21, in IVDD were explored in nucleus pulposus (NP) cells and degenerative NP tissues from patients and rat models...
January 17, 2018: Annals of the Rheumatic Diseases
https://www.readbyqxmd.com/read/29343298/circular-rnas-biogenesis-expression-and-their-potential-roles-in-reproduction
#5
REVIEW
Guobo Quan, Julang Li
Unlike other non-coding RNAs (ncRNAs), circular RNA (circRNA) is generally presented as a covalently linked circle lacking both a 5' cap and a 3' tail. circRNAs were thought to be spliced intermediates, byproducts, or products of abnormal RNA splicing events. However, the high-throughput sequencing technology coupled with bioinformatics has recently uncovered thousands of endogenous circRNAs in cells of many different species. These circRNAs show various features, such as abundant expression, evolutionary conservation, cell- or tissue-specific expression, and a higher resistance to degradation caused by exonuclease or ribonuclease (RNase), suggesting their potentially biological significance...
January 17, 2018: Journal of Ovarian Research
https://www.readbyqxmd.com/read/29337065/downregulated-circular-rna-hsa_circ_0001649-regulates-proliferation-migration-and-invasion-in-cholangiocarcinoma-cells
#6
Yi Xu, Yue Yao, Xiangyu Zhong, Kaiming Leng, Wei Qin, Lijun Qu, Yunfu Cui, Xingming Jiang
Cholangiocarcinoma (CCA) is one of the most aggressive malignancies with increasing worldwide incidence and is characterized by unfavorable prognosis due to its early invasive characteristics and poor response to chemotherapy or radiotherapy. Accumulating evidence has indicated that aberrantly expressed circular RNAs (circRNAs) are involved in cancer development and progression. However, their clinical values and biological roles in CCA remain unclear. Hsa_circ_0001649, a novel cancer-related circRNA, has been previously reported to be downregulated in hepatocellular carcinoma and gastric cancer...
January 11, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29337055/a-novel-circular-rna-hsa_circ_0046701-promotes-carcinogenesis-by-increasing-the-expression-of-mir-142-3p-target-itgb8-in-glioma
#7
Guobin Li, Haiying Yang, Kun Han, Dezhang Zhu, Peng Lun, Yan Zhao
In the present study, we identified a novel circular RNA (circRNA), hsa_circ_0046701, in glioma cells. We measured the expression of hsa_circ_0046701 using qRT-PCR in glioma tissues and cell lines, and explored its functions using 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide, colony formation, and Transwell assays. Luciferase reporter assays were performed to validate the correlation between microRNA miR-142-3p and hsa_circ_0046701 or integrin subunit beta 8 (ITGB8). The results showed that hsa_circ_0046701 was significantly upregulated in glioma tissues and cell lines, and knockdown of hsa_circ_0046701 inhibited cell proliferation and invasion...
January 11, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29334789/circular-rna-expression-in-ovarian-endometriosis
#8
Licong Shen, Yu Zhang, Wenjun Zhou, Zheng Peng, Xiaxia Hong, Yi Zhang
AIM: Circular RNAs (circRNAs) with miRNA response elements (MREs) could function as competing endogenous RNA (ceRNA) in regulating gene expression. This study was carried out to identify the expression profile and role of circRNAs in endometriosis. MATERIALS & METHODS: Microarray assay was performed in four paired ovarian endometriomas and eutopic endometrium, followed by quantitative real-time RT-PCR in 24 paired samples. Bioinformatical algorithms were used to predict MREs, as well as ceRNA and KEGG pathway analysis...
January 16, 2018: Epigenomics
https://www.readbyqxmd.com/read/29334253/circular-rna-expression-in-extracellular-vesicles-isolated-from-serum-of-patients-with-endometrial-cancer
#9
Hanzi Xu, Zhen Gong, Yang Shen, Yichen Fang, Shanliang Zhong
AIM: We aimed to explore the roles of circular RNAs (circRNAs) in extracellular vesicles (EVs) isolated from serum of patients with endometrial cancer. MATERIALS & METHODS: EVs were isolated from serum samples of three patients with stage III adenocarcinoma aged 50-60 years and three matched healthy controls. RNA was extracted from the EVs and analyzed using RNA-seq technique. RESULTS: We got 209 upregulated circRNAs and 66 downregulated circRNAs...
January 15, 2018: Epigenomics
https://www.readbyqxmd.com/read/29333615/circular-rna-hsa_circ_0000567-can-be-used-as-a-promising-diagnostic-biomarker-for-human-colorectal-cancer
#10
Jianjun Wang, Xiaomin Li, Linming Lu, Lei He, Haoran Hu, Zengxiang Xu
BACKGROUND: Recent studies have revealed that circular RNAs are involved in the biological process of some kinds of human cancers. However, little is known about their diagnostic values and functions in colorectal cancer (CRC). METHODS: The expression levels of hsa_circ_0000567 in 102 paired CRC tissues and adjacent noncancerous tissues, 5 CRC cell lines, and a normal colorectal epithelial cell line were detected by quantitative real-time polymerase chain reaction (qRT-PCR)...
January 15, 2018: Journal of Clinical Laboratory Analysis
https://www.readbyqxmd.com/read/29330104/circular-rna-an-emerging-non-coding-rna-as-a-regulator-and-biomarker-in-cancer
#11
Bing Chen, Shenglin Huang
Circular RNA (circRNA) is a type of covalently closed non-coding RNA that may regulate gene expression in eukaryotes. The recent application of high-throughput RNA sequencing and bioinformatics approaches has revealed a large number of circRNAs in human cells. Emerging evidence indicates that many circRNAs have cell-type specific expression and are linked to physiological development and various diseases. Specially, circRNAs can either serve as oncogenic stimuli or tumor suppressors in cancer. circRNAs have also been shown to be enriched and stable in extracellular fluid, indicating the potential of circRNAs as cancer biomarkers...
January 9, 2018: Cancer Letters
https://www.readbyqxmd.com/read/29330047/an-intrinsically-disordered-domain-in-polaribacter-irgensii-kopri-22228-cspb-confers-extraordinary-freeze-tolerance
#12
Youn Hong Jung, Ji-Hyun Uh, Kyunghee Lee, Hana Im
Organisms living in extremely cold environments possess mechanisms to survive low temperatures. Among the known cold-induced genes, cold-shock proteins (Csps) are the most prominent. A csp-homologous gene, cspBPi, has been cloned from the Arctic bacterium Polaribacter irgensii KOPRI 22228, and overexpression of this gene greatly increased the freezing tolerance of its host. This protein consists of a unique N-terminal domain and a well conserved C-terminal cold shock domain. To elucidate the detailed mechanisms involved in the extraordinary freeze-tolerance conferred by CspBPi, we identified the responsible domain by mutational analysis...
January 9, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29327503/noncoding-rnas-in-alzheimer-s-disease
#13
REVIEW
M Laura Idda, Rachel Munk, Kotb Abdelmohsen, Myriam Gorospe
Alzheimer's disease (AD) is a progressive neurodegenerative disorder and the main cause of dementia among the elderly worldwide. Despite intense efforts to develop drugs for preventing and treating AD, no effective therapies are available as yet, posing a growing burden at the personal, medical, and socioeconomic levels. AD is characterized by the production and aggregation of amyloid β (Aβ) peptides derived from amyloid precursor protein (APP), the presence of hyperphosphorylated microtubule-associated protein Tau (MAPT), and chronic inflammation leading to neuronal loss...
January 12, 2018: Wiley Interdisciplinary Reviews. RNA
https://www.readbyqxmd.com/read/29322452/identification-of-circrnas-for-mirna-targets-by-argonaute2-rna-immunoprecipitation-and-luciferase-screening-assays
#14
Yan Li, Bing Chen, Shenglin Huang
Circular RNAs from back-spliced exons (circRNAs) represent a novel class of widespread and endogenous RNAs in eukaryotes. circRNAs may bind to microRNAs (miRNAs) and inhibit the activity of miRNAs. Alternatively, miRNAs could also directly target circRNAs and regulate the expression of circRNAs. Here we describe the Argonaute2 (AGO2) RNA immunoprecipitation (RIP) and luciferase screening assays to identify the interaction between circRNAs and miRNAs. The AGO2 RIP assay evaluates the potential of the interaction between circRNAs and miRNAs...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29322451/discovering-circrna-microrna-interactions-from-clip-seq-data
#15
Xiao-Qin Zhang, Jian-Hua Yang
Circular RNAs (circRNAs) represent an abundant group of noncoding RNAs in eukaryotes and are emerging as important regulatory molecules in physiological and pathological processes. However, the precise mechanisms and functions of most of circRNAs remain largely unknown. In this chapter, we describe how to identify circRNA-microRNA interactions from Argonaute (AGO) cross-linking and immunoprecipitation followed by sequencing (CLIP-Seq) and RNA-Seq data using starBase platform and software. We developed three stand-alone computational software, including circSeeker, circAnno, and clipSearch, to identify and annotate circRNAs and their interactions with microRNAs (miRNAs)...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29322450/preparation-of-circular-rna-in-vitro
#16
Naoko Abe, Ayumi Kodama, Hiroshi Abe
This chapter describes a simple and straightforward way to obtain single-stranded circular RNA sequences in vitro. Linear RNA that is phosphorylated at the 5' end is first prepared by a chemical or enzymatic method, then circularized using ligase. The function of the prepared circular RNA molecule, such as an ability to induce translation, can then be investigated.
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29322449/synthesis-and-engineering-of-circular-rnas
#17
Sonja Petkovic, Sabine Müller
Circular RNAs (circRNAs) have been discovered in all kingdoms of life. They are produced from introns as well as from exons. However, strongest interest is in circRNAs that are transcribed and spliced from exons of protein and noncoding genes in eukaryotic cells including humans. Therefore, synthesis and engineering of circRNAs as models for structure and function studies are strongly required. In vitro, methods for RNA synthesis and circularization are available. Chemical synthesis allows for preparation of RNAs incorporating nonnatural nucleotides in small RNA segments, whereas enzymatic synthesis is advantageous for production of long RNAs, however, without the possibility for site-specific modification...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29322448/characterization-of-circular-rnas-circrna-associated-with-the-translation-machinery
#18
Deniz Bartsch, Anne Zirkel, Leo Kurian
A substantial proportion of the currently annotated genes in eukaryotes are proposed to function as RNA molecules (>200 bp) with no significant protein coding potential, currently classified as long noncoding RNAs (lncRNA). A distinct subgroup of lncRNAs is circular RNAs (circRNAs), which can be easily identified by unique junction reads, resulting from their biogenesis. CircRNAs are largely cytosolic and thought to either code for micro-peptides or facilitate gene regulation by sequestering microRNAs (miRNAs) or RNA-binding proteins (RBPs) from their targets...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29322447/characterization-of-circular-rna-concatemers
#19
Thomas B Hansen
Circular RNAs (circRNAs) constitute a novel subset in the fascinating world of noncoding RNA, and they are found in practically all eukaryotes. Most of them exhibit low expression levels but some are extremely abundant. Typically, circRNAs are studied by RT-PCR-based assays, but for certain types of analyses this technique is not suitable. Circular RNA with repetitive exons (circular concatemers) has been observed by us and others when transiently expressing circRNAs in cells, however techniques and assays to study these species have not been established...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29322445/northern-blot-analysis-of-circular-rnas
#20
Tim Schneider, Silke Schreiner, Christian Preußer, Albrecht Bindereif, Oliver Rossbach
Northern blotting enables the specific detection and characterization of RNA molecules. Recently, circular RNAs (circRNAs) were described as a new class of cell type-specific noncoding RNAs. With the discovery of many novel circRNAs on the basis of high-throughput sequencing and bioinformatics, a solid biochemical approach is required to directly detect and validate specific circRNA species. Here we give a detailed overview of how different Northern blot methods can be employed to validate specific circRNAs...
2018: Methods in Molecular Biology
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