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long non coded rna mrna

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https://www.readbyqxmd.com/read/28209301/iswi-atp-dependent-remodeling-of-nucleoplasmic-%C3%AF-speckles-in-the-brain-of-drosophila-melanogaster
#1
Luca Lo Piccolo, Andrea Attardi, Rosa Bonaccorso, Lorenzo Li Greci, Giorgio Giurato, Antonia Maria Rita Ingrassia, Maria Cristina Onorati
Heterogeneous nuclear ribonucleoproteins (hnRNPs) belong to the RNA-binding proteins family. They are involved in processing heterogeneous nuclear RNAs (hnRNAs) into mature mRNAs. These proteins participate in every step of mRNA cycle, such as mRNA export, localization, translation, stability and alternative splicing. At least 14 major hnRNPs, which have structural and functional homologues in mammals, are expressed in Drosophila melanogaster. Until now, six of these hnRNPs are known to be nucleus-localized and associated with the long non-coding RNA (lncRNA) heat shock responsive ω (hsrω) in the omega speckle compartments (ω-speckles)...
December 22, 2016: Journal of Genetics and Genomics, Yi Chuan Xue Bao
https://www.readbyqxmd.com/read/28207735/long-non-coding-rna-hotair-inhibits-mir-17-5p-to-regulate-osteogenic-differentiation-and-proliferation-in-non-traumatic-osteonecrosis-of-femoral-head
#2
Biaofang Wei, Wei Wei, Baoxiang Zhao, Xiaxia Guo, Song Liu
BACKGROUND AND AIM: The biological functions of non-coding RNAs (ncRNAs) have been widely identified in many human diseases. In the present study, the relationship between long non-coding RNA HOTAIR and microRNA-17-5p (miR-17-5p) and their roles in osteogenic differentiation and proliferation in non-traumatic osteonecrosis of femoral head (ONFH) were investigated. METHODS: The expression levels of HOTAIR and miR-17-5p in the mesenchymal stem cells (MSCs) derived from patients with non-traumatic ONFH and osteoarthritis (OA) were examined by real-time PCR...
2017: PloS One
https://www.readbyqxmd.com/read/28202123/-expression-of-long-non-coding-rna-nanci-in-lung-tissues-of-neonatal-mice-with-hyperoxia-induced-lung-injury-and-its-regulatory-effect-on-nkx2-1
#3
Yuan Zhang, Huai-Ping Cheng, Tian-Ping Bao, Xiu-Gui Wang, Zhao-Fang Tian
OBJECTIVE: To investigate the expression of long non-coding RNA NANCI in lung tissues of neonatal mice with hyperoxia-induced lung injury and its regulatory effect on NKX2.1. METHODS: A total of 48 neonatal C57BL/6J mice were randomly divided into an air group and a hyperoxia group, with 24 mice in each group. Each group was further divided into 7-day, 14-day, and 21-day subgroups, with 8 mice in each subgroup. The mice in the air group were fed in the indoor environment (FiO(2)=21%) and those in the hyperoxia group were fed in a high-oxygen box (oxygen concentration: >95%)...
February 2017: Zhongguo Dang Dai Er Ke za Zhi, Chinese Journal of Contemporary Pediatrics
https://www.readbyqxmd.com/read/28196303/the-long-noncoding-rna-schlah-suppresses-metastasis-of-hepatocellular-carcinoma-through-interacting-with-fus
#4
Zhouhong Ge, Zhuoan Cheng, Xinrong Yang, Xisong Huo, Ning Wang, Hui Wang, Cun Wang, Dishui Gu, Fangyu Zhao, Ming Yao, Jia Fan, Wenxin Qin
Emerging evidence has indicated that deregulation of long non-coding RNAs (lncRNAs) can contribute to the progression and metastasis of human cancer, including hepatocellular carcinoma (HCC). However, the roles of most lncRNAs in HCC remain largely unknown. Here we found a long noncoding RNA termed SchLAH (seven chromosome locus associated with HCC; also called BC035072) was generally downregulated in HCC. Low expression of SchLAH was significantly correlated with shorter overall survival of HCC patients. In vitro and in vivo assays indicated that overexpression of SchLAH inhibited the migration and lung metastasis of HCC cells...
February 14, 2017: Cancer Science
https://www.readbyqxmd.com/read/28193161/systematic-comparison-of-lncrnas-with-protein-coding-mrnas-in-population-expression-and-their-response-to-environmental-change
#5
Qin Xu, Zhihong Song, Caiyun Zhu, Chengcheng Tao, Lifang Kang, Wei Liu, Fei He, Juan Yan, Tao Sang
BACKGROUND: Long non-coding RNA (lncRNA) is a class of non-coding RNA with important regulatory roles in biological process of organisms. The systematic comparison of lncRNAs with protein coding mRNAs in population expression and their response to environmental change are still poorly understood. Here we identified 17,610 lncRNAs and calculated their expression levels based on RNA-seq of 80 individuals of Miscanthus lutarioriparius from two environments, the nearly native habitats and transplanted field, respectively...
February 13, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/28187158/role-of-the-long-non-coding-rna-pvt1-in-the-dysregulation-of-the-cerna-cerna-network-in-human-breast-cancer
#6
Federica Conte, Giulia Fiscon, Matteo Chiara, Teresa Colombo, Lorenzo Farina, Paola Paci
Recent findings have identified competing endogenous RNAs (ceRNAs) as the drivers in many disease conditions, including cancers. The ceRNAs indirectly regulate each other by reducing the amount of microRNAs (miRNAs) available to target messenger RNAs (mRNAs). The ceRNA interactions mediated by miRNAs are modulated by a titration mechanism, i.e. large changes in the ceRNA expression levels either overcome, or relieve, the miRNA repression on competing RNAs; similarly, a very large miRNA overexpression may abolish competition...
2017: PloS One
https://www.readbyqxmd.com/read/28185365/circrnas-biogenesis-properties-roles-and-their-relationships-with-liver-diseases-running-title-circular-rnas-and-liver-diseases
#7
REVIEW
Ting Yao, Qingqing Chen, Liyun Fu, Junming Guo
Circular RNAs (circRNAs) are a class of new found RNA molecules that have a special covalent loop structure without 5' cap and 3' tail. Researchers have found that circRNAs may be generated by intron-pairing-driven or lariat-driven circularization. They are cleared up via extracellular vesicles. They have some advantages such as stable, conservation, tissue specificity and so on. By severing as sponge of microRNAs, interacting with long non-coding RNAs, mRNA, or proteins, circRNAs regulate gene expression at transcriptional and post-transcriptional levels and contribute carcinogenesis...
February 10, 2017: Hepatology Research: the Official Journal of the Japan Society of Hepatology
https://www.readbyqxmd.com/read/28166241/evolutionary-analysis-reveals-regulatory-and-functional-landscape-of-coding-and-non-coding-rna-editing
#8
Rui Zhang, Patricia Deng, Dionna Jacobson, Jin Billy Li
Adenosine-to-inosine RNA editing diversifies the transcriptome and promotes functional diversity, particularly in the brain. A plethora of editing sites has been recently identified; however, how they are selected and regulated and which are functionally important are largely unknown. Here we show the cis-regulation and stepwise selection of RNA editing during Drosophila evolution and pinpoint a large number of functional editing sites. We found that the establishment of editing and variation in editing levels across Drosophila species are largely explained and predicted by cis-regulatory elements...
February 6, 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28148795/hepatitis-b-virus-encoded-mirna-controls-viral-replication
#9
Xi Yang, Hongfeng Li, Huahui Sun, Hongxia Fan, Yaqi Hu, Min Liu, Xin Li, Hua Tang
: microRNAs (miRNAs) are a class of small single-stranded non-coding functional RNAs. Hepatitis B virus (HBV) is an enveloped DNA virus with virions and subviral forms of particles that lack a core. It was not known whether HBV encodes miRNAs. Here, we identified an HBV-encoded miRNA (called HBV-miR-3) by deep sequencing and northern blot. HBV-miR-3 is located at nts 373-393 of the HBV genome and was generated from 3.5Kb, 2,4Kb and 2.1Kb HBV in classic miRNA biogenesis (Drosha-Dicer dependent) manner...
February 1, 2017: Journal of Virology
https://www.readbyqxmd.com/read/28145813/alteration-in-long-non-coding-rna-expression-after-traumatic-brain-injury-in-rats
#10
Chuan-Fang Wang, Cheng-Cheng Zhao, Wei-Ji Weng, Jin Lei, Yong Lin, Qing Mao, Guo-Yi Gao, Jun-Feng Feng, Ji-Yao Jiang
Traumatic brain injury (TBI) causes a primary insult and initiates a secondary injury cascade. The mechanisms underlying the secondary injury are multifactorial and may include the aberrant expression of long non-coding RNA (lncRNA) post-TBI. Here, lncRNA microarray analysis was performed to profile the altered lncRNAs in the rat hippocampus after TBI. A total of 271 lncRNA probe sets and 1046 mRNA probe sets were differentially expressed after TBI. Gene ontology analysis showed that the main components of the most significantly changed categories were inflammation, DNA transcription, apoptosis and necroptosis...
February 1, 2017: Journal of Neurotrauma
https://www.readbyqxmd.com/read/28143570/host-genetic-variation-in-mucosal-immunity-pathways-influences-the-upper-airway-microbiome
#11
Catherine Igartua, Emily R Davenport, Yoav Gilad, Dan L Nicolae, Jayant Pinto, Carole Ober
BACKGROUND: The degree to which host genetic variation can modulate microbial communities in humans remains an open question. Here, we performed a genetic mapping study of the microbiome in two accessible upper airway sites, the nasopharynx and the nasal vestibule, during two seasons in 144 adult members of a founder population of European decent. RESULTS: We estimated the relative abundances (RAs) of genus level bacteria from 16S rRNA gene sequences and examined associations with 148,653 genetic variants (linkage disequilibrium [LD] r (2) < 0...
February 1, 2017: Microbiome
https://www.readbyqxmd.com/read/28131827/long-noncoding-rna-bdnf-as-is-a-potential-biomarker-and-regulates-cancer-development-in-human-retinoblastoma
#12
Weiwei Shang, Yanyan Yang, Jingyi Zhang, Qizheng Wu
BACKGROUND: Long non-coding RNAs (lncRNA) have been shown to play important roles in human cancer. We examined expression, prognostic potential and functional roles of lncRNA, brain-derived neurotrophic factor antisense (BDNF-AS) in human retinoblastoma (RB). METHODS: BDNF-AS expression in RB tumors was characterized according to the clinicopathological parameters of patients. BDNF-AS mRNA level was compared between RB tumors and normal retinas, as well as RB cell lines and normal retinal epithelial cells...
January 25, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28125557/o-009-long-ncrna-landscape-in-the-ileum-of-treatment-na%C3%A3-ve-early-onset-crohn-disease
#13
Yael Haberman, Marina Ben-Shoshan, Ayelet Di-Segni, Phillip Dexheimer, Tzipi Klein, Batya Weiss, Thomas Walters, Robert Baldassano, Joshua Noe, James Markowitz, Mel Heyman, Joel Rosh, Anne Griffiths, Wallace Crandall, Bruce Aronow, Yair Anikster, Jeffrey Hyams, Subra Kugathasan, Lee Denson
BACKGROUND: Long non-coding RNAs (lncRNA) regulate gene transcription and diverse cellular functions. We have recently reported a core inflammatory and metabolic ileal gene signature in treatment naïve pediatric Crohn Disease (CD), but the potential role of lncRNA was not known. We hypothesized that differences in ileal lncRNA would be associated with differences in protein-coding gene expression, suggesting a role for lncRNA in regulating those gene signatures. METHODS: Poly-A selected RNA-seq and Ensembl annotation were used to define differentially expressed ileal genes with false discovery rate correction of 0...
February 2017: Inflammatory Bowel Diseases
https://www.readbyqxmd.com/read/28114126/expression-changes-of-long-noncoding-rna-in-the-process-of-endothelial-cell-activation
#14
Min Zhou, Wen-Jin Ding, Ying-Wei Chen, Feng Shen, Jun-Yi Zeng, Chun-Ying Qu, Yun-Feng Wei, Lei-Ming Xu
BACKGROUND: Endothelial cells have been shown to be in response to a variety of local and systemic stimuli, and are able to transition between quiescent and activated states. Endothelial cell activation is critical for the pathogenesis of various cardiovascular diseases. However, the expression changes of long non-coding RNAs (lncRNAs) are still unknown in the process of endothelial cell activation. Thus, this study was aimed to investigate expression changes of lncRNA before and after endothelial cell activation...
January 18, 2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/28108736/long-non-coding-rnas-a-rising-biotarget-in-colorectal-cancer
#15
Jian Luo, Jian Qu, Dong-Kai Wu, Zhi-Li Lu, Yue-Sheng Sun, Qiang Qu
Colorectal cancer (CRC) is a common gastrointestinal cancer, with a high incidence and high mortality. Long non-coding RNAs (lncRNAs) are involved in the development, invasion and metastasis, early diagnosis, prognosis, the chemoresistance and radioresistance of CRC through interference with mRNA activity, directly combining with proteins to regulate their activity or alter their localization, influencing downstream gene expression by inhibiting RNA polymerase and regulating gene expression as competing endogenous RNAs...
January 18, 2017: Oncotarget
https://www.readbyqxmd.com/read/28108554/genome-wide-analysis-of-lncrna-and-mrna-expression-during-differentiation-of-abdominal-preadipocytes-in-the-chicken
#16
Tao Zhang, Xiangqian Zhang, Kunpeng Han, Genxi Zhang, Jinyu Wang, Kaizhou Xie, Qian Xue
Long non-coding RNAs (lncRNAs) regulate adipogenesis and other processes associated with metabolic tissue development and function. However, little is known about the function and profile of lncRNAs during preadipocyte differentiation in the chicken (Gallus gallus). Herein, lncRNA and mRNA expression in preadipocytes at different stages of differentiation were analyzed using RNA sequencing. A total of 1,300,074,528 clean reads and 27,023 novel lncRNAs were obtained from 12 samples. The number of genes (1,336 lncRNAs and 1,759 mRNAs; 3,095 in total) differentially expressed across various stages declined as differentiation progressed...
January 20, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28103885/discovery-and-validation-of-immune-associated-long-non-coding-rna-biomarkers-associated-with-clinically-molecular-subtype-and-prognosis-in-diffuse-large-b-cell-lymphoma
#17
Meng Zhou, Hengqiang Zhao, Wanying Xu, Siqi Bao, Liang Cheng, Jie Sun
BACKGROUND: Diffuse large B-cell lymphoma (DLBCL) is an aggressive and complex disease characterized by wide clinical, phenotypic and molecular heterogeneities. The expression pattern and clinical implication of long non-coding RNAs (lncRNAs) between germinal center B-cell-like (GCB) and activated B-cell-like (ABC) subtypes in DLBCL remain unclear. This study aims to determine whether lncRNA can serve as predictive biomarkers for subtype classification and prognosis in DLBCL. METHODS: Genome-wide comparative analysis of lncRNA expression profiles were performed in a large number of DLBCL patients from Gene Expression Omnibus (GEO), including GSE31312 cohort (N = 426), GSE10846 (N = 350) cohort and GSE4475 cohort (N = 129)...
January 19, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28099146/long-non-coding-rna-growth-arrest-specific-transcript-5-acts-as-a-tumour-suppressor-in-colorectal-cancer-by-inhibiting-interleukin-10-and-vascular-endothelial-growth-factor-expression
#18
Yuan Li, Yan Li, Shengkai Huang, Kun He, Mei Zhao, Hong Lin, Dongdong Li, Jiaming Qian, Caihong Zhou, Yuhua Chen, Changzhi Huang
Long non-coding RNAs (lncRNAs) are highly involved in diverse biological processes of human malignancies. The expression profile and underlying mechanism of lncRNA growth arrest specific transcript 5 (GAS5) in colorectal cancer (CRC) is poorly understood. In this study, we found that GAS5 was commonly downregulated in CRC tissues, serum of CRC patients and CRC cell lines. Knockdown of GAS5 promoted CRC cell proliferation and colony formation, whereas overexpression of GAS5 produced the opposite result. We further demonstrated that knockdown of GAS5 increased the expression and secretion of interleukin-10 (IL-10) and vascular endothelial growth factor (VEGF-A) via NF-κB and Erk1/2 pathways...
January 13, 2017: Oncotarget
https://www.readbyqxmd.com/read/28081465/biological-function-and-mechanism-of-lncrna-meg3-in-tenon-s-capsule-fibroblasts-proliferation-by-meg3-nrf2-protein-interaction
#19
Yuan Wang, Jing Wang, Li-Juan Wei, Dong-Mei Zhu, Jin-Song Zhang
OBJECTIVE: The proliferation of Tenon's capsule fibroblasts after glaucoma filtration surgery is a harmful element for operation failure. However, the underlying mechanism remains unclear. In this study, we evaluated the role of long non-coding RNA (lncRNA)-MEG3 in the proliferation of Glaucoma Tenon's capsule fibroblasts (GTFs) with a model of transforming growth factor-β (TGF-β)-induced proliferation which has been used in previous studies to explore the mechanism underlying glaucoma surgery failure...
January 9, 2017: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/28062751/transcriptome-wide-mapping-of-rna-5-methylcytosine-in-arabidopsis-mrnas-and-non-coding-rnas
#20
Rakesh David, Alice Burgess, Brian Parker, Jun Li, Kalinya Pulsford, Tennille Sibbritt, Thomas Preiss, Iain R Searle
Post-transcriptional methylation of RNA cytosine residues to 5-methylcytosine (m5C) is an important modification with diverse roles, such as regulating stress responses, stem cell proliferation, and RNA metabolism. Here, we used RNA bisulfite sequencing (bsRNA-seq) for transcriptome-wide quantitative mapping of m5C in the model plant, Arabidopsis thaliana. We discovered more than a thousand m5C sites in Arabidopsis mRNAs, long non-coding RNAs, and other non-coding RNAs across three tissue types (siliques, seedling shoots, and roots) and validated a number of these sites...
January 6, 2017: Plant Cell
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