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https://www.readbyqxmd.com/read/27922078/malat1-and-hotair-long-non-coding-rnas-play-opposite-role-in-estrogen-mediated-transcriptional-regulation-in-prostate-cancer-cells
#1
Aurora Aiello, Lorenza Bacci, Agnese Re, Cristian Ripoli, Francesco Pierconti, Francesco Pinto, Riccardo Masetti, Claudio Grassi, Carlo Gaetano, Pier Francesco Bassi, Alfredo Pontecorvi, Simona Nanni, Antonella Farsetti
In the complex network of nuclear hormone receptors, the long non-coding RNAs (lncRNAs) are emerging as critical determinants of hormone action. Here we investigated the involvement of selected cancer-associated lncRNAs in Estrogen Receptor (ER) signaling. Prior studies by Chromatin Immunoprecipitation (ChIP) Sequencing showed that in prostate cancer cells ERs form a complex with the endothelial nitric oxide synthase (eNOS) and that in turn these complexes associate with chromatin in an estrogen-dependent fashion...
December 6, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27874027/circulating-long-non-coding-rnas-as-biomarkers-of-left-ventricular-diastolic-function-and-remodelling-in-patients-with-well-controlled-type-2-diabetes
#2
D de Gonzalo-Calvo, F Kenneweg, C Bang, R Toro, R W van der Meer, L J Rijzewijk, J W Smit, H J Lamb, V Llorente-Cortes, T Thum
Contractile dysfunction is underdiagnosed in early stages of diabetic cardiomyopathy. We evaluated the potential of circulating long non-coding RNAs (lncRNAs) as biomarkers of subclinical cardiac abnormalities in type 2 diabetes. Forty-eight men with well-controlled type 2 diabetes and 12 healthy age-matched volunteers were enrolled in the study. Left ventricular (LV) parameters were measured by magnetic resonance imaging. A panel of lncRNAs was quantified in serum by RT-qPCR. No differences in expression levels of lncRNAs were observed between type 2 diabetes patients and healthy volunteers...
November 22, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27857151/assessment-of-circulating-lncrnas-under-physiologic-and-pathologic-conditions-in-humans-reveals-potential-limitations-as-biomarkers
#3
Kenny Schlosser, Jennifer Hanson, Patrick J Villeneuve, Jim Dimitroulakos, Lauralyn McIntyre, Louise Pilote, Duncan J Stewart
Long non-coding RNAs (lncRNA) are a new class of regulatory molecules with diverse cellular functions. Recent reports have suggested that extracellular lncRNAs are detectable in human plasma and may serve as biomarkers. Here, we sought to investigate circulating lncRNAs as potential biomarkers for pulmonary arterial hypertension (PAH). Eighty-four lncRNAs, representing some of the most abundant and functionally relevant candidates identified in cellular studies, were assessed via RT-qPCR in plasma from PAH and healthy subjects...
November 18, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27856459/challenges-and-opportunities-in-linking-long-noncoding-rnas-to-cardiovascular-lung-and-blood-diseases
#4
REVIEW
Jane E Freedman, Joseph M Miano
The new millennium heralds an unanticipated surge of genomic information, most notably an expansive class of long noncoding RNAs (lncRNAs). These transcripts, which now outnumber all protein-coding genes, often exhibit the same characteristics as mRNAs (RNA polymerase II-dependent, 5' methyl-capped, multiexonic, polyadenylated); yet, they do not encode for stable, well-conserved proteins. Elucidating the function of all relevant lncRNAs in heart, vasculature, lung, and blood is essential for generating a complete interactome in these tissues...
November 17, 2016: Arteriosclerosis, Thrombosis, and Vascular Biology
https://www.readbyqxmd.com/read/27835600/yap1-enhances-cell-proliferation-migration-and-invasion-of-gastric-cancer-in-vitro-and-in-vivo
#5
Dan Sun, Xiaoting Li, Yingjian He, Wenhui Li, Ying Wang, Huan Wang, Shanshan Jiang, Yan Xin
Yes-associated protein 1 (YAP1) plays an important role in the development of carcinomas such as breast, colorectal, and gastric (GC) cancers, but the role of YAP1 in GC has not been investigated comprehensively. The present study strongly suggests that YAP1 and P62 were significantly up-regulated in GC specimens, compared with normal gastric mucosa. In addition, the YAP1high P62high expression was independently associated with poor prognosis in GC (hazard ratio: 1.334, 95% confidence interval: 1.045-1.704, P = 0...
November 7, 2016: Oncotarget
https://www.readbyqxmd.com/read/27810073/the-emerging-role-of-long-non-coding-rnas-in-endometrial-cancer
#6
REVIEW
Konii Takenaka, Bei Jun Chen, Susan C Modesitt, Frances L Byrne, Kyle L Hoehn, Michael Janitz
The human genome is pervasively transcribed and approximately 98% of the genome is non-coding. Long non-coding RNAs (lncRNAs) are a heterogeneous group of RNA transcripts that are >200 nucleotides in length with minimal to no protein-coding potential. Similar to proteins, lncRNAs have important biological functions in both normal cells and disease states including many types of cancer. This review summarizes recent advances in our understanding of lncRNAs in cancer biology and highlights the potential for lncRNA as diagnostic biomarkers and therapeutics...
October 2016: Cancer Genetics
https://www.readbyqxmd.com/read/27760679/microbial-culturomics-unravels-the-halophilic-microbiota-repertoire-of-table-salt-description-of-gracilibacillus-massiliensis-sp-nov
#7
Awa Diop, Saber Khelaifia, Nicholas Armstrong, Noémie Labas, Pierre-Edouard Fournier, Didier Raoult, Matthieu Million
BACKGROUND: Microbial culturomics represents an ongoing revolution in the characterization of environmental and human microbiome. METHODS: By using three media containing high salt concentration (100, 150, and 200 g/L), the halophilic microbial culturome of a commercial table salt was determined. RESULTS: Eighteen species belonging to the Terrabacteria group were isolated including eight moderate halophilic and 10 halotolerant bacteria. Gracilibacillus massiliensis sp...
2016: Microbial Ecology in Health and Disease
https://www.readbyqxmd.com/read/27703869/the-complete-chloroplast-genome-sequence-of-gentiana-lawrencei-var-farreri-gentianaceae-and-comparative-analysis-with-its-congeneric-species
#8
Peng-Cheng Fu, Yan-Zhao Zhang, Hui-Min Geng, Shi-Long Chen
BACKGROUND: The chloroplast (cp) genome is useful in plant systematics, genetic diversity analysis, molecular identification and divergence dating. The genus Gentiana contains 362 species, but there are only two valuable complete cp genomes. The purpose of this study is to report the characterization of complete cp genome of G. lawrencei var. farreri, which is endemic to the Qinghai-Tibetan Plateau (QTP). METHODS: Using high throughput sequencing technology, we got the complete nucleotide sequence of the G...
2016: PeerJ
https://www.readbyqxmd.com/read/27659799/genome-wide-long-non-coding-rna-screening-identification-and-characterization-in-a-model-microorganism-chlamydomonas-reinhardtii
#9
Hui Li, Yuting Wang, Meirong Chen, Peng Xiao, Changxing Hu, Zhiyong Zeng, Chaogang Wang, Jiangxin Wang, Zhangli Hu
Microalgae are regarded as the most promising biofuel candidates and extensive metabolic engineering were conducted but very few improvements were achieved. Long non-coding RNA (lncRNA) investigation and manipulation may provide new insights for this issue. LncRNAs refer to transcripts that are longer than 200 nucleotides, do not encode proteins but play important roles in eukaryotic gene regulation. However, no information of potential lncRNAs has been reported in eukaryotic alga. Recently, we performed RNA sequencing in Chlamydomonas reinhardtii, and obtained totally 3,574 putative lncRNAs...
2016: Scientific Reports
https://www.readbyqxmd.com/read/27649770/the-emerging-role-of-non-coding-circulating-rna-as-a-biomarker-in-renal-cell-carcinoma
#10
Jörg Ellinger, Heidrun Gevensleben, Stefan C Müller, Dimo Dietrich
Bodily fluids like serum and plasma contain significant amounts of tumor-derived circulating cell-free RNA, which holds the potential to serve as diagnostic biomarker. Consequently, liquid biopsies comprising circulating cell-free RNA might help to facilitate personalized treatment strategies for patients with renal cell carcinoma (RCC). Areas covered: The present review provides a summary of the literature obtained by a PubMed search and covers the current knowledge on circulating non-coding cell-free RNA in patients with RCC...
October 2016: Expert Review of Molecular Diagnostics
https://www.readbyqxmd.com/read/27633117/application-of-rna-seq-for-mitogenome-reconstruction-and-reconsideration-of-long-branch-artifacts-in-hemiptera-phylogeny
#11
Nan Song, Shiheng An, Xinming Yin, Wanzhi Cai, Hu Li
Hemiptera make up the largest nonholometabolan insect assemblage. Despite previous efforts to elucidate phylogeny within this group, relationships among the major sub-lineages remain uncertain. In particular, mitochondrial genome (mitogenome) data are still sparse for many important hemipteran insect groups. Recent mitogenomic analyses of Hemiptera have usually included no more than 50 species, with conflicting hypotheses presented. Here, we determined the nearly complete nucleotide sequence of the mitogenome for the aphid species of Rhopalosiphum padi using RNA-seq plus gap filling...
2016: Scientific Reports
https://www.readbyqxmd.com/read/27611072/comprehensive-small-rna-seq-of-adeno-associated-virus-aav-infected-human-cells-detects-patterns-of-novel-non-coding-aav-rnas-in-the-absence-of-cellular-mirna-regulation
#12
Catrin Stutika, Mario Mietzsch, Andreas Gogol-Döring, Stefan Weger, Madlen Sohn, Wei Chen, Regine Heilbronn
Most DNA viruses express small regulatory RNAs, which interfere with viral or cellular gene expression. For adeno-associated virus (AAV), a small ssDNA virus with a complex biphasic life cycle miRNAs or other small regulatory RNAs have not yet been described. This is the first comprehensive Illumina-based RNA-Seq analysis of small RNAs expressed by AAV alone or upon co-infection with helper adenovirus or HSV. Several hotspots of AAV-specific small RNAs were detected mostly close to or within the AAV-ITR and apparently transcribed from the newly identified anti-p5 promoter...
2016: PloS One
https://www.readbyqxmd.com/read/27604461/dna-methylation-mediated-up-regulation-of-terra-non-coding-rna-is-coincident-with-elongated-telomeres-in-the-human-placenta
#13
Boris Novakovic, Christine E Napier, Regan Vryer, Eva Dimitriadis, Ursula Manuelpillai, Andrew Sharkey, Jeffrey M Craig, Roger R Reddel, Richard Saffery
STUDY QUESTION: What factors regulate elongated telomere length in the human placenta? SUMMARY ANSWER: Hypomethylation of TERRA promoters in the human placenta is associated with high expression TERRA genes, however, no clear mechanistic link between these phenomena and elongated telomere length in the human placenta was found. WHAT IS KNOWN ALREADY: Human placenta tissue and trophoblasts show longer telomere lengths compared to gestational age-matched somatic cells...
September 7, 2016: Molecular Human Reproduction
https://www.readbyqxmd.com/read/27596299/a-potential-biomarker-for-colorectal-cancer-long-non-coding-rna-rp1-13p20-6
#14
J Liu, J Wang, Y Song, Y Yang, Y Hu, P Gao, J Sun, X Chen, Y Xu, Z Wang
Long non-coding RNAs (lncRNAs) occupy the majority of the human genome. Their dysregulation is usually related with the procession of diseases, including tumors. Abnormally expressed lncRNAs have been found in colorectal cancer (CRC), but are not fully understood. In the current study, we determined the expression level of a novel lncRNA-RP1-13P20.6 in 99 pairs of CRC tissues compared to their matched normal adjacent tissues, using real time polymerase chain reaction. We further assessed the correlation between their expression levels and their clinicopathological parameters, and determined the potential of RP1-13P20...
2016: Neoplasma
https://www.readbyqxmd.com/read/27572126/insight-into-the-role-of-long-noncoding-rna-in-cancer-development-and-progression
#15
C H Li, Y Chen
Long noncoding RNA (LncRNA) is a large class of RNA molecules with size larger than 200 nucleotides. They exhibit cellular functions although having no protein-coding capability. Accumulating evidence suggests that long noncoding RNA play crucial roles in cancer biology. Studies showed that deregulation of lncRNA was frequently observed in various types of cancers which contributed heavily to malignant phenotypical changes. Aberration of lncRNA can be induced by a number of factors such as dysregulated signaling pathway, response to catastrophic effect, viral infection, and contact with carcinogens...
2016: International Review of Cell and Molecular Biology
https://www.readbyqxmd.com/read/27562825/androgens-induce-a-distinct-response-of-epithelial-mesenchymal-transition-factors-in-human-prostate-cancer-cells
#16
Juliane Colditz, Benjamin Rupf, Caroline Maiwald, Aria Baniahmad
Inhibition of the androgen receptor (AR) is a major target of prostate cancer (PCa) therapy. However, prolonged androgen deprivation results eventually in castration-resistant PCa (CRPC) with metastasis and poor survival. Emerging evidence suggests that epithelial-mesenchymal transition (EMT) may facilitate castration-resistance and cancer metastasis in PCa. The human androgen-dependent, castration-sensitive prostate cancer (CSPC) cell line LNCaP and the CRPC cell line C4-2 are often used as a model system for human PCa...
October 2016: Molecular and Cellular Biochemistry
https://www.readbyqxmd.com/read/27542205/identification-and-functional-analysis-of-long-non-coding-rnas-in-human-and-mouse-early-embryos-based-on-single-cell-transcriptome-data
#17
Jia-Jun Qiu, Zhao-Rui Ren, Jing-Bin Yan
Epigenetics regulations have an important role in fertilization and proper embryonic development, and several human diseases are associated with epigenetic modification disorders, such as Rett syndrome, Beckwith-Wiedemann syndrome and Angelman syndrome. However, the dynamics and functions of long non-coding RNAs (lncRNAs), one type of epigenetic regulators, in human pre-implantation development have not yet been demonstrated. In this study, a comprehensive analysis of human and mouse early-stage embryonic lncRNAs was performed based on public single-cell RNA sequencing data...
August 16, 2016: Oncotarget
https://www.readbyqxmd.com/read/27524623/in%C3%A2-vivo-characterization-of-linc-p21-reveals-functional-cis-regulatory-dna-elements
#18
Abigail F Groff, Diana B Sanchez-Gomez, Marcela M L Soruco, Chiara Gerhardinger, A Rasim Barutcu, Eric Li, Lara Elcavage, Olivia Plana, Lluvia V Sanchez, James C Lee, Martin Sauvageau, John L Rinn
The Linc-p21 locus, encoding a long non-coding RNA, plays an important role in p53 signaling, cell-cycle regulation, and tumor suppression. However, despite extensive study, confusion exists regarding its mechanism of action: is activity driven by the transcript acting in trans, in cis, or by an underlying functional enhancer? Here, using a knockout mouse model and a massively parallel enhancer assay, we delineate the functional elements at this locus. We observe that, even in tissues with no detectable Linc-p21 transcript, deletion of the locus significantly affects local gene expression, including of the cell-cycle regulator Cdkn1a...
August 23, 2016: Cell Reports
https://www.readbyqxmd.com/read/27503944/long-non-coding-rnas-towards-precision-medicine-in-diabetic-kidney-disease
#19
REVIEW
Usha Panchapakesan, Carol Pollock
Diabetic kidney disease (DKD) is escalating and is the major cause of end stage kidney failure. There is increasing evidence to support the role of epigenetic factors and metabolic memory in linking the environmental and genetic causes of this disease. Although our understanding of this disease has improved, there has been no significant efficacious therapeutic translation in the last decade. Current sequencing technology has allowed interrogation of the human transcriptome. It is evident that although approximately 80% of the genome is transcribed, only 1-2% is read and coded into protein...
September 1, 2016: Clinical Science (1979-)
https://www.readbyqxmd.com/read/27499160/hypoxia-upregulates-malat1-expression-through-a-camkk-ampk-hif-1%C3%AE-axis
#20
Sandrine Sallé-Lefort, Stéphanie Miard, Marc-André Nolin, Louise Boivin, Marie-Ève Paré, Richard Debigaré, Frédéric Picard
Increased expression levels of the long non-coding RNA metastasis-associated lung adenocarcinoma transcript 1 (Malat1) have been associated with enhanced proliferation and metastasis of several cancer cell types. Hypoxia, a hallmark characteristic of solid tumors, has been linked to an increase in the activity of the ATP-generating AMPK protein. Since Malat1 was recently shown to be upregulated during hypoxia, the objective of this study was to determine the contribution of AMPK in the mechanistic pathways regulating Malat1 expression in low oxygen conditions...
October 2016: International Journal of Oncology
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