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Lnc RNA

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https://www.readbyqxmd.com/read/27862128/regulation-of-crucial-lncrnas-in-differentiation-of-chicken-embryonic-stem-cells-to-spermatogonia-stem-cells
#1
D Li, Y Ji, F Wang, Y Wang, M Wang, C Zhang, W Zhang, Z Lu, C Sun, M F Ahmed, N He, K Jin, S Cheng, Y Wang, Y He, J Song, Y Zhang, B Li
Regulation of crucial lncRNAs involved in differentiation of chicken embryonic stem cells (ESCs) to spermatogonia stem cells (SSCs) was explored by sequencing the transcriptome of ESCs, primordial germ cells (PGCs) and SSCs with RNA-Seq; analytical bioinformatic methods were used to excavate candidate lncRNAs. We detected expression of candidate lncRNAs in ESCs, PGCs and SSCs and forecasted related target genes. Utilizing wego, david and string, function and protein-protein interactions of target genes were analyzed...
November 14, 2016: Animal Genetics
https://www.readbyqxmd.com/read/27853262/the-lnc-rna-spry4-it1-modulates-trophoblast-cell-invasion-and-migration-by-affecting-the-epithelial-mesenchymal-transition
#2
Qing Zuo, Shiyun Huang, Yanfen Zou, Yetao Xu, Ziyan Jiang, Shan Zou, Haoqing Xu, Lizhou Sun
Preeclampsia is a common, pregnancy-specific disease and a major contributor to maternal and foetal morbidity and mortality. Some placental abnormalities, including deficient implantation, abnormal trophoblast cell function, and improper placental vascular development, are believed to lead to preeclampsia. The long noncoding RNA SPRY4-IT1 is more highly expressed in preeclamptic human placentas than in normal placentas. We assessed the role of epithelial-mesenchymal transition (EMT)-associated invasion and migration in HTR-8/SVneo trophoblast cells...
November 17, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27789554/lnc-ing-notch1-to-idiopathic-calcific-aortic-valve-disease
#3
W David Merryman, Cynthia R Clark
Calcific aortic valve disease (CAVD) is an age-related disorder that causes significant cardiovascular morbidity and mortality, and is directly responsible for ~15,000 patient deaths per year in the USA. Currently, the molecular mechanism by which CAVD initiates is unknown, making discovery of a non-surgical strategy challenging (reviewed in (1)). Garg et al. made a seminal discovery in 2005 when they showed NOTCH1 mutations led to heritable CAVD.(2) Since then, the heart valve research community has sought a causal mechanism that could connect NOTCH1 dysfunction to idiopathic CAVD...
October 27, 2016: Circulation
https://www.readbyqxmd.com/read/27780975/the-role-and-possible-mechanism-of-lncrna-u90926-in-modulating-3t3-l1-preadipocyte-differentiation
#4
J Chen, Y Liu, S Lu, L Yin, C Zong, S Cui, D Qin, Y Yang, Q Guan, X Li, X Wang
BACKGROUND: Obesity is a risk factor for metabolic diseases, while preadipocyte differentiation or adipogenesis is closely related to obesity occurrence. Long noncoding RNAs (lncRNAs) are a unique class of transcripts in regulation of a variety of biological processes. Using cDNA microarray, we found lncRNA U90926 is negatively correlated with 3T3-L1 preadipocyte differentiation. OBJECTIVE: The aim of this study was to explore the role of lncRNA U90926 (lnc-U90926) in adipogenesis and the underlying mechanisms...
October 26, 2016: International Journal of Obesity: Journal of the International Association for the Study of Obesity
https://www.readbyqxmd.com/read/27713137/a-long-noncoding-rna-positively-regulates-cd56-in-human-natural-killer-cells
#5
Ruya Zhang, Fang Ni, Binqing Fu, Yang Wu, Rui Sun, Zhigang Tian, Haiming Wei
Natural killer (NK) cells are innate immune lymphocytes that play critical roles in host defense against viral infection and surveillance against malignant transformation. Long noncoding RNAs (lncRNAs) are important immune system regulators. Here, we analyzed human primary lymphocyte lncRNA expression profiles to identify NK-lncRNA signatures. We detected numerous novel NK-specific lncRNAs with potential roles in regulating human NK cell differentiation and function. Expression of lnc-CD56, an NK-specific lncRNA, was positively correlated with that of CD56, a classical human NK cell surface marker...
October 4, 2016: Oncotarget
https://www.readbyqxmd.com/read/27698869/rna-seq-analysis-identifies-key-long-non-coding-rnas-connected-to-the-pathogenesis-of-alcohol-associated-head-and-neck-squamous-cell-carcinoma
#6
Vicky Yu, Pranav Singh, Elham Rahimy, Hao Zheng, Selena Z Kuo, Elizabeth Kim, Jessica Wang-Rodriguez, Weg M Ongkeko
Alcohol consumption has been implicated in the pathogenesis of head and neck squamous cell carcinoma (HNSCC), although its mechanism is poorly understood. Recent advances in the identification and understanding of long non-coding RNAs (lncRNAs) have indicated that these molecules have a profound effect on numerous biological processes, including tumorigenesis and oncogenesis. The present authors hypothesize that alcohol-mediated dysregulation of lncRNAs is a key event in HNSCC pathogenesis. An in silico differential expression analysis utilizing RNA sequencing (RNA-seq) data from 34 HNSCC patients, which included alcohol drinkers and non-alcohol drinkers, identified a panel of lncRNAs that were dysregulated due to alcohol consumption...
October 2016: Oncology Letters
https://www.readbyqxmd.com/read/27698747/co-expressed-differentially-expressed-genes-and-long-non-coding-rnas-involved-in-the-celecoxib-treatment-of-gastric-cancer-an-rna-sequencing-analysis
#7
Bin Song, Juan Du, Ye Feng, Yong-Jian Gao, Ji-Sheng Zhao
The aim of the present study was to investigate the mechanisms of long non-coding RNAs (lncRNAs) in a gastric cancer cell line treated with celecoxib. The human gastric carcinoma cell line NCI-N87 was treated with 15 µM celecoxib for 72 h (celecoxib group) and an equal volume of dimethylsulfoxide (control group), respectively. Libraries were constructed by NEBNext Ultra RNA Library Prep kit for Illumina. Paired-end RNA sequencing reads were aligned to a human hg19 reference genome using TopHat2. Differentially expressed genes (DEGs) and lncRNAs were identified using Cuffdiff...
October 2016: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/27686049/an-endoplasmic-reticulum-stress-regulated-lncrna-hosting-a-microrna-megacluster-induces-early-features-of-diabetic-nephropathy
#8
Mitsuo Kato, Mei Wang, Zhuo Chen, Kirti Bhatt, Hyung Jung Oh, Linda Lanting, Supriya Deshpande, Ye Jia, Jennifer Y C Lai, Christopher L O'Connor, YiFan Wu, Jeffrey B Hodgin, Robert G Nelson, Markus Bitzer, Rama Natarajan
It is important to find better treatments for diabetic nephropathy (DN), a debilitating renal complication. Targeting early features of DN, including renal extracellular matrix accumulation (ECM) and glomerular hypertrophy, can prevent disease progression. Here we show that a megacluster of nearly 40 microRNAs and their host long non-coding RNA transcript (lnc-MGC) are coordinately increased in the glomeruli of mouse models of DN, and mesangial cells treated with transforming growth factor-β1 (TGF- β1) or high glucose...
2016: Nature Communications
https://www.readbyqxmd.com/read/27650541/unique-long-non-coding-rna-expression-signature-in-etv6-runx1-driven-b-cell-precursor-acute-lymphoblastic-leukemia
#9
Farzaneh Ghazavi, Barbara De Moerloose, Wouter Van Loocke, Annelynn Wallaert, Hetty H Helsmoortel, Alina Ferster, Marleen Bakkus, Geneviève Plat, Eric Delabesse, Anne Uyttebroeck, Filip Van Nieuwerburgh, Dieter Deforce, Nadine Van Roy, Frank Speleman, Yves Benoit, Tim Lammens, Pieter Van Vlierberghe
Overwhelming evidence indicates that long non-coding RNAs have essential roles in tumorigenesis. Nevertheless, their role in the molecular pathogenesis of pediatric B-cell precursor acute lymphoblastic leukemia has not been extensively explored. Here, we conducted a comprehensive analysis of the long non-coding RNA transcriptome in ETV6/RUNX1-positive BCP-ALL, one of the most frequent subtypes of pediatric leukemia. First, we used primary leukemia patient samples to identify an ETV6/RUNX1 specific expression signature consisting of 596 lncRNA transcripts...
September 16, 2016: Oncotarget
https://www.readbyqxmd.com/read/27618650/the-long-noncoding-rna-chaer-defines-an-epigenetic-checkpoint-in-cardiac-hypertrophy
#10
Zhihua Wang, Xiao-Jing Zhang, Yan-Xiao Ji, Peng Zhang, Ke-Qiong Deng, Jun Gong, Shuxun Ren, Xinghua Wang, Iris Chen, He Wang, Chen Gao, Tomohiro Yokota, Yen Sin Ang, Shen Li, Ashley Cass, Thomas M Vondriska, Guangping Li, Arjun Deb, Deepak Srivastava, Huang-Tian Yang, Xinshu Xiao, Hongliang Li, Yibin Wang
Epigenetic reprogramming is a critical process of pathological gene induction during cardiac hypertrophy and remodeling, but the underlying regulatory mechanisms remain to be elucidated. Here we identified a heart-enriched long noncoding (lnc)RNA, named cardiac-hypertrophy-associated epigenetic regulator (Chaer), which is necessary for the development of cardiac hypertrophy. Mechanistically, Chaer directly interacts with the catalytic subunit of polycomb repressor complex 2 (PRC2). This interaction, which is mediated by a 66-mer motif in Chaer, interferes with PRC2 targeting to genomic loci, thereby inhibiting histone H3 lysine 27 methylation at the promoter regions of genes involved in cardiac hypertrophy...
October 2016: Nature Medicine
https://www.readbyqxmd.com/read/27611921/lncrna-profiling-in-early-stage-chronic-lymphocytic-leukemia-identifies-transcriptional-fingerprints-with-relevance-in-clinical-outcome
#11
D Ronchetti, M Manzoni, L Agnelli, C Vinci, S Fabris, G Cutrona, S Matis, M Colombo, S Galletti, E Taiana, A G Recchia, S Bossio, M Gentile, C Musolino, F Di Raimondo, A Grilli, S Bicciato, A Cortelezzi, P Tassone, F Morabito, M Ferrarini, A Neri
Long non-coding RNAs (lncRNAs) represent a novel class of functional RNA molecules with an important emerging role in cancer. To elucidate their potential pathogenetic role in chronic lymphocytic leukemia (CLL), a biologically and clinically heterogeneous neoplasia, we investigated lncRNAs expression in a prospective series of 217 early-stage Binet A CLL patients and 26 different subpopulations of normal B-cells, through a custom annotation pipeline of microarray data. Our study identified a 24-lncRNA-signature specifically deregulated in CLL compared with the normal B-cell counterpart...
September 9, 2016: Blood Cancer Journal
https://www.readbyqxmd.com/read/27578251/the-long-noncoding-rna-asnr-regulates-degradation-of-bcl-2-mrna-through-its-interaction-with-auf1
#12
Jiahui Chen, Lihui Liu, Guifeng Wei, Wei Wu, Huaxia Luo, Jiao Yuan, Jianjun Luo, Runsheng Chen
The identification and characterization of long non-coding RNAs (lncRNAs) in diverse biological processes has recently developed rapidly. The large amounts of non-coding RNAs scale consistent with developmental complexity in eukaryotes, indicating that most of these transcripts may have functions in the regulation of biological processes and disorder in the organisms. In particular, Understanding of the overall biological significance of lncRNAs in cancers still remains limited. Here, we found a nuclear-retained lncRNA, termed Lnc_ASNR (apoptosis suppressing-noncoding RNA), which serves as a repressor of apoptosis...
August 31, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27487148/long-non-coding-rna-rbmy2fp-promotes-proliferation-of-male-hepatocellular-carcinoma-by-directing-dna-methylation-and-activating-rbmy1a1-via-dnmt1
#13
Feng Liu, Fu Yang, Xia Wu, Jin-Feng Huang, Ji-Hang Yuan, Qi-Fei Tao, Gui-Hua Jiang, Jia-Sheng Zheng, Shu-Han Sun
Sexual dimorphism is a major issue in hepatocellular carcinoma (HCC), with significantly higher incidence in males. We screened male specific Y chromosome transcripts through RNA sequence and discovered a long non-coding RNA RBMY2FP (RNA binding motif protein, Y-linked, family 2, member F pseudogene, lnc-RBMY2FP) that is specifically expressed in about 1/3 male HCC tissues, with no expression in adjacent livers. Positive expression of lnc-RBMY2FP in male HCC is related to poor patient survival. Lnc-RBMY2FP enhances HCC cell growth, proliferation and tumor stemness both in vitro and in vivo...
July 30, 2016: Oncotarget
https://www.readbyqxmd.com/read/27446363/mir-148b-3p-inhibits-malignant-biological-behaviors-of-human-glioma-cells-induced-by-high-hotair-expression
#14
Guan Wang, Zhaohui Li, Nan Tian, Liang Han, Yao Fu, Zhigang Guo, Yu Tian
Increasing evidence suggests that long non coding (lnc)RNA and microRNA (miRNA/miR) both regulate the expression of key genes in tumorigenesis and have considerable theranostic potential. Rapid advances in bioinformatics indicate that miRNA may potentially interact with lncRNA to modulate their regulatory roles. miR-148b-3p has been reported to have a vital role in regulating tumor progression. However, the expression pattern of miR-148b-3p in glioma remains largely unknown, and interactions between miR-148b-3p and lncRNA has yet to be identified...
August 2016: Oncology Letters
https://www.readbyqxmd.com/read/27388760/genome-wide-identification-and-functional-prediction-of-long-non-coding-rnas-responsive-to-sclerotinia-sclerotiorum-infection-in-brassica-napus
#15
Raj Kumar Joshi, Swati Megha, Urmila Basu, Muhammad H Rahman, Nat N V Kav
Sclerotinia stem rot caused by Sclerotinia sclerotiorum affects canola production worldwide. Emerging evidence suggests that long non-coding RNAs (lncRNAs) play important roles in the regulation of gene expression in plants, in response to both abiotic and biotic stress. So far, identification of lncRNAs has been limited to a few model plant species, and their roles in mediating responses to biotic stresses are yet to be characterized in Brassica napus. The present study reports the identification of novel lncRNAs responsive to S...
2016: PloS One
https://www.readbyqxmd.com/read/27239797/lnc-%C3%AE-catm-elicits-ezh2-dependent-%C3%AE-catenin-stabilization-and-sustains-liver-csc-self-renewal
#16
Pingping Zhu, Yanying Wang, Guanling Huang, Buqing Ye, Benyu Liu, Jiayi Wu, Ying Du, Lei He, Zusen Fan
Liver cancer stem cells (CSCs) may contribute to the high rate of recurrence and heterogeneity of hepatocellular carcinoma (HCC); however, the molecular mechanisms underlying their self-renewal and differentiation remain largely unknown. Through analysis of transcriptome microarray data, we identified a long noncoding RNA (lncRNA) called lnc-β-Catm, which is highly expressed in human HCC tumors and liver CSCs. We found that lnc-β-Catm is required for self-renewal of liver CSCs and tumor propagation in mice...
July 2016: Nature Structural & Molecular Biology
https://www.readbyqxmd.com/read/27188286/long-non-coding-rna-expression-profile-in-minor-salivary-gland-of-primary-sj%C3%A3-gren-s-syndrome
#17
Huan Shi, Ningning Cao, Yiping Pu, Lisong Xie, Lingyan Zheng, Chuangqi Yu
BACKGROUND: To examine the roles of long noncoding RNAs (lncRNAs) in the regulation of primary Sjögren's syndrome (pSS) and reveal the expression profile of lncRNAs in labial salivary glands (LSGs) in pSS patients. METHOD: The expression of 63,431 lncRNAs and 39,887 mRNAs were determined in the LSG of four pSS patients and four healthy controls using microarray experiments. Validation was performed in 30 pSS patients and 16 controls using real-time PCR. LncRNA-mRNA co-expression and gene-pathway networks were constructed using bioinformatics software...
2016: Arthritis Research & Therapy
https://www.readbyqxmd.com/read/27182066/differential-expression-profiles-of-long-noncoding-rna-and-mrna-of-osteogenically-differentiated-mesenchymal-stem-cells-in-ankylosing-spondylitis
#18
Zhongyu Xie, Jinteng Li, Peng Wang, Yuxi Li, Xiaohua Wu, Shan Wang, Hongjun Su, Wen Deng, Zhenhua Liu, Shuizhong Cen, Yi Ouyang, Yanfeng Wu, Huiyong Shen
OBJECTIVE: We previously demonstrated that mesenchymal stem cells (MSC) from patients with ankylosing spondylitis (AS; ASMSC) have a greater osteogenic differentiation capacity than MSC from healthy donors (HDMSC) and that this difference underlies the pathogenesis of pathological osteogenesis in AS. Here we compared expression levels of long noncoding RNA (lncRNA) and mRNA between osteogenically differentiated ASMSC and HDMSC and explored the precise mechanism underlying abnormal osteogenic differentiation in ASMSC...
August 2016: Journal of Rheumatology
https://www.readbyqxmd.com/read/27165520/transcription-of-lncrna-prt-clustered-prt-rna-sites-for-mmi1-binding-and-rna-polymerase-ii-ctd-phospho-sites-govern-the-repression-of-pho1-gene-expression-under-phosphate-replete-conditions-in-fission-yeast
#19
Debashree Chatterjee, Ana M Sanchez, Yehuda Goldgur, Stewart Shuman, Beate Schwer
Expression of fission yeast Pho1 acid phosphatase is repressed during growth in phosphate-rich medium. Repression is mediated by transcription of the prt locus upstream of pho1 to produce a long noncoding (lnc) prt RNA. Repression is also governed by RNA polymerase II CTD phosphorylation status, whereby inability to place a Ser7-PO4 mark (as in S7A) derepresses Pho1 expression, and inability to place a Thr4-PO4 mark (as in T4A) hyper-represses Pho1 in phosphate replete cells. Here we find that basal pho1 expression from the prt-pho1 locus is inversely correlated with the activity of the prt promoter, which resides in a 110-nucleotide DNA segment preceding the prt transcription start site...
July 2016: RNA
https://www.readbyqxmd.com/read/27160062/long-noncoding-rna-lnc-ri-is-a-new-regulator-of-mitosis-via-targeting-mirna-210-3p-to-release-plk1-mrna-activity
#20
Zhi-Dong Wang, Li-Ping Shen, Cheng Chang, Xue-Qing Zhang, Zhong-Min Chen, Lin Li, Hong Chen, Ping-Kun Zhou
Increasing evidence indicates that lncRNAs play critical roles in various biological processes, but many have not been functionally characterized. Here, we report a novel radiation-inducible lncRNA, namely lnc-RI which is essential for cell survival and appropriate mitotic progression. Our data indicated that knockdown of lnc-RI resulted in spindle abnormalities and mitotic arrest simultaneously with sharply decreased mRNA and protein expression of PLK1, a key regulator of mitosis. Our data demonstrated that PLK1 is a key downstream mediator of lnc-RI in regulating mitosis, whereby lnc-RI competitively bound to the negative PLK1 regulating miRNA, miRNA-210-p3...
May 10, 2016: Scientific Reports
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