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https://www.readbyqxmd.com/read/28644873/circular-rna-expression-profiling-of-human-granulosa-cells-during-maternal-aging-reveals-novel-transcripts-associated-with-assisted-reproductive-technology-outcomes
#1
Jing Cheng, Jia Huang, Suzhen Yuan, Su Zhou, Wei Yan, Wei Shen, Yun Chen, Xi Xia, Aiyue Luo, Da Zhu, Shixuan Wang
Circular RNAs (circRNAs) are a unique class of endogenous RNAs which could be used as potential diagnostic and prognostic biomarkers of many diseases. Our study aimed to investigate circRNA profiles in human granulosa cells (GCs) during maternal aging and to uncover age-related circRNA variations that potentially reflect decreased oocyte competence. CircRNAs in GCs from in vitro fertilization (IVF) patients with young age (YA, ≤ 30 years) and advanced age (AA, ≥ 38 years) were profiled by microarray, and validated in 20 paired samples...
2017: PloS One
https://www.readbyqxmd.com/read/28637169/novel-molecules-lncrnas-trfs-and-circrnas-deciphered-from-next-generation-sequencing-rna-sequencing-computational-databases-and-tools
#2
A Saleembhasha, Seema Mishra
Powerful next-generation sequencing (NGS) technologies, more specifically RNA sequencing (RNA-seq), have been pivotal toward the detection and analysis and hypotheses generation of novel biomolecules, long noncoding RNAs (lncRNAs), tRNA-derived fragments (tRFs) and circular RNAs (circRNAs). Experimental validation of the occurrence of these biomolecules inside the cell has been reported. Their differential expression and functionally important role in several cancers types as well as other diseases such as Alzheimer's and cardiovascular diseases have garnered interest toward further studies in this research arena...
June 20, 2017: Briefings in Functional Genomics
https://www.readbyqxmd.com/read/28634583/circular-rnas-biogenesis-function-and-role-in-human-diseases
#3
REVIEW
John Greene, Anne-Marie Baird, Lauren Brady, Marvin Lim, Steven G Gray, Raymond McDermott, Stephen P Finn
Circular RNAs (circRNAs) are currently classed as non-coding RNA (ncRNA) that, unlike linear RNAs, form covalently closed continuous loops and act as gene regulators in mammals. They were originally thought to represent errors in splicing and considered to be of low abundance, however, there is now an increased appreciation of their important function in gene regulation. circRNAs are differentially generated by backsplicing of exons or from lariat introns. Unlike linear RNA, the 3' and 5' ends normally present in an RNA molecule have been joined together by covalent bonds leading to circularization...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28625552/coordinated-circrna-biogenesis-and-function-with-nf90-nf110-in-viral-infection
#4
Xiang Li, Chu-Xiao Liu, Wei Xue, Yang Zhang, Shan Jiang, Qing-Fei Yin, Jia Wei, Run-Wen Yao, Li Yang, Ling-Ling Chen
Circular RNAs (circRNAs) generated via back-splicing are enhanced by flanking complementary sequences. Expression levels of circRNAs vary under different conditions, suggesting participation of protein factors in their biogenesis. Using genome-wide siRNA screening that targets all human unique genes and an efficient circRNA expression reporter, we identify double-stranded RNA-binding domain containing immune factors NF90/NF110 as key regulators in circRNA biogenesis. NF90/NF110 promote circRNA production in the nucleus by associating with intronic RNA pairs juxtaposing the circRNA-forming exon(s); they also interact with mature circRNAs in the cytoplasm...
June 12, 2017: Molecular Cell
https://www.readbyqxmd.com/read/28625551/sensing-self-and-foreign-circular-rnas-by-intron-identity
#5
Y Grace Chen, Myoungjoo V Kim, Xingqi Chen, Pedro J Batista, Saeko Aoyama, Jeremy E Wilusz, Akiko Iwasaki, Howard Y Chang
Circular RNAs (circRNAs) are single-stranded RNAs that are joined head to tail with largely unknown functions. Here we show that transfection of purified in vitro generated circRNA into mammalian cells led to potent induction of innate immunity genes and confers protection against viral infection. The nucleic acid sensor RIG-I is necessary to sense foreign circRNA, and RIG-I and foreign circRNA co-aggregate in cytoplasmic foci. CircRNA activation of innate immunity is independent of a 5' triphosphate, double-stranded RNA structure, or the primary sequence of the foreign circRNA...
June 7, 2017: Molecular Cell
https://www.readbyqxmd.com/read/28624226/transcriptome-wide-investigation-of-mrna-circrna-in-mir-184-and-its-r-57c-u-mutant-type-treatment-of-human-lens-epithelial-cells
#6
Yueqiu Luo, Siyu Liu, Ke Yao
m-miR-184 (mutant miR-184, r.57c > u) appears in familial hereditary ocular diseases, including keratoconus, cataracts, EDICT (endothelial dystrophy, iris hypoplasia, congenital cataract, and stromal thinning) syndrome, severe keratoconus, and non-ectatic corneal thinning. The biological function of m-miR-184 in these ocular diseases remains unclear. With the emergence of high-throughput sequencing, it is now possible to discover many different biological components simultaneously. Using two different RNA libraries, we sequenced the complete transcriptome of HLE cells treated with miR-184, m-miR-184, and a negative control...
June 16, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28624198/emerging-roles-of-circrna-related-to-the-mechanical-stress-in-human-cartilage-degradation-of-osteoarthritis
#7
Qiang Liu, Xin Zhang, Xiaoqing Hu, Lan Yuan, Jin Cheng, Yanfang Jiang, Yingfang Ao
Circular RNAs (circRNAs) are involved in the development of various diseases; however, knowledge on circRNAs in osteoarthritis (OA) is limited. This study aims to identify circRNA expression in different regions affected by OA and to explore the function of mechanical stress-related circRNAs (circRNAs-MSR) in cartilage. Bioinformatics was employed to predict the interaction of circRNAs and mRNAs in the cartilage. Loss-of-function experiments for circRNAs-MSR were performed in vitro. A total of 104 circRNAs were differentially expressed in damaged versus intact cartilage...
June 16, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28622299/a-circular-rna-promotes-tumorigenesis-by-inducing-c-myc-nuclear-translocation
#8
Qi Yang, William W Du, Nan Wu, Weining Yang, Faryal Mehwish Awan, Ling Fang, Jian Ma, Xiangmin Li, Yan Zeng, Zhenguo Yang, Jun Dong, Azam Khorshidi, Burton B Yang
Circular RNAs (circRNAs) are a subclass of noncoding RNAs widely expressed in mammalian cells. We report here the tumorigenic capacity of a circRNA derived from angiomotin-like1 (circ-Amotl1). Circ-Amotl1 is highly expressed in patient tumor samples and cancer cell lines. Single-cell inoculations using circ-Amotl1-transfected tumor cells showed a 30-fold increase in proliferative capacity relative to control. Agarose colony-formation assays similarly revealed a 142-fold increase. Tumor-take rate in nude mouse xenografts using 6-day (219 cells) and 3-day (9 cells) colonies were 100%, suggesting tumor-forming potential of every cell...
June 16, 2017: Cell Death and Differentiation
https://www.readbyqxmd.com/read/28621679/circular-rnas-a-novel-type-of-biomarker-and-genetic-tools-in-cancer
#9
REVIEW
Yi-Neng Han, Sheng-Qiang Xia, Yuan-Yuan Zhang, Jun-Hua Zheng, Wei Li
Circular RNAs (circRNAs) are a novel type of universal and diverse endogenous noncoding RNAs (ncRNAs) and they form a covalently closed continuous loop without 5' or 3' tails unlike linear RNAs. Most circRNAs are presented with characteristics of abundance, stability, conservatism, and often exhibiting tissue/developmental-stage-specific expression. CircRNAs are generated either from exons or introns by back splicing or lariat introns. CircRNAs play important roles as miRNA sponges, gene transcription and expression regulators, RNA-binding protein (RBP) sponges and protein/peptide translators...
June 2, 2017: Oncotarget
https://www.readbyqxmd.com/read/28618429/microarray-expression-profile-of-circular-rnas-in-peripheral-blood-mononuclear-cells-from-rheumatoid-arthritis-patients
#10
Qingqing Ouyang, Jing Wu, Zhenlan Jiang, Jinjun Zhao, Ran Wang, Aiju Lou, Dingji Zhu, Guo-Ping Shi, Min Yang
BACKGROUND/AIMS: Circular RNAs (circRNAs) compose a large class of RNAs that can be used as biomarkers in clinical blood samples. This study aimed to determine the expression of circRNAs in peripheral blood mononuclear cells (PBMCs) from rheumatoid arthritis (RA) patients to identify novel biomarkers for RA screening. METHODS: We started with a microarray screening of circRNA changes in PBMCs from 5 RA patients and 5 healthy controls. We then confirmed the selected circRNA changes in PBMCs from 30 RA patients and 25 age- and sex-matched controls using the real-time quantitative reverse transcription-polymerase chain reaction (qRT-PCR)...
June 15, 2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/28618205/reduced-expression-of-circrna-hsa_circ_0003159-in-gastric-cancer-and-its-clinical-significance
#11
Mengqian Tian, Ruoyu Chen, Tianwen Li, Bingxiu Xiao
BACKGROUND: Circular RNAs (circRNAs) play a crucial role in the occurrence of several diseases including cancers. However, little is known about circRNAs' diagnostic values for gastric cancer, one of the worldwide most common diseases of mortality. METHODS: The hsa_circ_0003159 levels in 108 paired gastric cancer tissues and adjacent non-tumorous tissues from surgical patients with gastric cancer were first detected by real-time quantitative reverse transcription-polymerase chain reaction...
June 15, 2017: Journal of Clinical Laboratory Analysis
https://www.readbyqxmd.com/read/28601598/deep-sequencing-reveals-a-global-reprogramming-of-lncrna-transcriptome-during-emt
#12
Jian-You Liao, Jue Wu, Yan-Jie Wang, Jie-Hua He, Wei-Xi Deng, KaiShun Hu, Yu-Chan Zhang, Yin Zhang, Haiyan Yan, Dan-Lan Wang, Qiang Liu, Mu-Sheng Zeng, H Phillip Koeffler, Erwei Song, Dong Yin
Several studies have shown that long non-coding RNAs (lncRNAs) may play an essential role in Epithelial-Mesenchymal Transition (EMT), which is an important step in tumor metastasis; however, little is known about the global change of lncRNA transcriptome during EMT. To investigate how lncRNA transcriptome alterations contribute to EMT progression regulation, we deep-sequenced the whole-transcriptome of MCF10A as the cells underwent TGF-β-induced EMT. RESULTS: Deep-sequencing results showed that the long RNA transcriptome of MCF10A had undergone global changes as early as 8h after treatment with TGF-β...
June 7, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28598284/the-circular-rna-landscape-of-periodontal-ligament-stem-cells-during-osteogenesis
#13
Yunfei Zheng, Xiaobei Li, Yiping Huang, Lingfei Jia, Weiran Li
BACKGROUND: The aim of the present study was to investigate the distinct expression pattern of circular RNAs (circRNAs) in periodontal ligament stem cells (PDLSCs) during osteogenesis. METHODS: PDLSCs were isolated and cultured in osteogenic medium. Total RNA from cells at Day 0 (D0), Day 3 (D3), Day 7 (D7), and Day 14 (D14) were extracted, and submitted to RNA-sequencing to detect the expression profiles of circRNAs, mRNAs, and microRNAs (miRNAs). Real-time quantitative reverse transcription-polymerase chain reaction (qRT-PCR) was performed to validate the expression of circRNAs and miRNAs...
June 9, 2017: Journal of Periodontology
https://www.readbyqxmd.com/read/28594838/a-comprehensive-overview-and-evaluation-of-circular-rna-detection-tools
#14
REVIEW
Xiangxiang Zeng, Wei Lin, Maozu Guo, Quan Zou
Circular RNA (circRNA) is mainly generated by the splice donor of a downstream exon joining to an upstream splice acceptor, a phenomenon known as backsplicing. It has been reported that circRNA can function as microRNA (miRNA) sponges, transcriptional regulators, or potential biomarkers. The availability of massive non-polyadenylated transcriptomes data has facilitated the genome-wide identification of thousands of circRNAs. Several circRNA detection tools or pipelines have recently been developed, and it is essential to provide useful guidelines on these pipelines for users, including a comprehensive and unbiased comparison...
June 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28575165/genome-wide-profiling-of-sus-scrofa-circular-rnas-across-nine-organs-and-three-developmental-stages
#15
Guoming Liang, Yalan Yang, Guanglin Niu, Zhonglin Tang, Kui Li
The spatio-temporal expression patterns of Circular RNA (circRNA) across organs and developmental stages are critical for its function and evolution analysis. However, they remain largely unclear in mammals. Here, we comprehensively analysed circRNAs in nine organs and three skeletal muscles of Guizhou miniature pig (S. scrofa), a widely used biomedical model animal. We identified 5,934 circRNAs and analysed their molecular properties, sequence conservation, spatio-temporal expression pattern, potential function, and interaction with miRNAs...
May 29, 2017: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes
https://www.readbyqxmd.com/read/28571741/circular-rna-hsa_circ_0010729-regulates-vascular-endothelial-cell-proliferation-and-apoptosis-by-targeting-the-mir-186-hif-1%C3%AE-axis
#16
Rui-Ying Dang, Feng-Li Liu, Yan Li
Circular RNAs (circRNAs) are a group of non-protein-coding RNAs generated from back splicing. Emerging evidence has demonstrated its vital regulation on angiogenesis. However, the underlying mechanism responsible for circRNAs effects on vascular endothelial cells is still unclear. In the present study, we screened the expression profiles and investigated the physiological role of circRNAs in hypoxia-induced human umbilical vein endothelial cells (HUVECs). Using circRNA microarray analysis, we identified 36 circRNAs that were significantly dysregulated including 14 down-regulated circRNAs and 22 up-regulated with 2-fold change (P < 0...
May 29, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28544609/global-circular-rna-expression-profile-of-human-gastric-cancer-and-its-clinical-significance
#17
Yongfu Shao, Jinyun Li, Rongdan Lu, Tianwen Li, Yunben Yang, Bingxiu Xiao, Junming Guo
Circular RNAs (circRNAs) are a new class of noncoding RNAs. However, the expression profile and clinical significance of circRNAs in human gastric cancer is unclear. The global circRNA expression profile in human gastric cancer was measured by circRNA microarray. Hsa_circ_0014717, one of the most downregulated circRNAs in microarray, was selected as a targeted circRNA to explore its levels in gastric tissues and gastric juice. Freeze-thaw experiment and incubation experiment confirmed the stability of gastric juice circRNAs...
June 2017: Cancer Medicine
https://www.readbyqxmd.com/read/28538214/profiling-and-bioinformatic-analysis-of-circular-rna-expression-regulated-by-c-myc
#18
Qiheng Gou, Ke Wu, Jian-Kang Zhou, Yuxin Xie, Lunxu Liu, Yong Peng
The c-Myc transcription factor is involved in cell proliferation, cell cycle and apoptosis by activating or repressing transcription of multiple genes. Circular RNAs (circRNAs) are widely expressed non-coding RNAs participating in the regulation of gene expression. Using a high-throughput microarray assay, we showed that Myc regulates the expression of certain circRNAs. A total of 309 up- and 252 down-regulated circRNAs were identified. Among them, randomly selected 8 circRNAs were confirmed by real-time PCR...
May 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/28535767/circrna-functions-and-properties-of-a-novel-potential-biomarker-for-cancer
#19
REVIEW
Shujuan Meng, Hecheng Zhou, Ziyang Feng, Zihao Xu, Ying Tang, Peiyao Li, Minghua Wu
Circular RNAs, a novel class of endogenous noncoding RNAs, are characterized by their covalently closed loop structures without a 5' cap or a 3' Poly A tail. Although the mechanisms of circular RNAs' generation and function are not fully clear, recent research has shown that circular RNAs may function as potential molecular markers for disease diagnosis and treatment and play an important role in the initiation and progression of human diseases, especially in tumours. This review summarizes some information about categories, biogenesis, functions at the molecular level, properties of circular RNAs and the possibility of circular RNAs as biomarkers in cancers...
May 23, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28534714/profiling-and-bioinformatics-analyses-reveal-differential-circular-rna-expression-in-hypertensive-patients
#20
Na Wu, Ling Jin, Jun Cai
OBJECTIVES: CircRNAs, a novel class of noncoding RNAs, have been reported in many diseases. However, their role in hypertension remains unclear. Here, we aimed to determine the circRNA expression profile in hypertension patients and further construct a circRNA-miRNA-mRNA network for mechanism exploration. METHODS: Plasma circRNA expression profiles were screened by circRNA microarrays and verified by qRT-PCR method. CircRNA-miRNA-mRNA network was established to predict the circRNA targets...
May 23, 2017: Clinical and Experimental Hypertension: CHE
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