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no-coding RNA

Ada Congrains-Castillo, Fernanda S Niemann, Adriana S Santos Duarte, Sara T Olalla-Saad
LEF1 antisense RNA 1 (LEF1-AS1) is an antisense long non-coding RNA encoded in the lymphoid enhancer-binding factor 1 (LEF1) locus. LEF1-AS1 is a conserved transcript dysregulated in hematopoiesis. This study aimed to functionally characterize the role of this transcript in myeloid malignancy and explore a possible regulatory effect of LEF1-AS1 upon LEF1. We show that LEF1-AS1 is highly expressed in normal hematopoietic stem cells but barely detectable in myeloid malignant cell lines. Additionally, bone marrow cells from myelodysplastic syndrome (n=12) and acute myeloid malignancy patients (n=28) expressed significantly reduced levels of LEF1-AS1 compared to healthy controls (n=15)...
February 15, 2019: Journal of Cellular and Molecular Medicine
Brittanny M Polanka, Suman Kundu, Kaku A So-Armah, Matthew S Freiberg, Samir K Gupta, Roger J Bedimo, Matthew J Budoff, Adeel A Butt, Chung-Chou H Chang, Stephen S Gottlieb, Vincent C Marconi, Julie A Womack, Jesse C Stewart
BACKGROUND: Insomnia is associated with increased cardiovascular disease (CVD) risk in the general population and is highly prevalent in people with HIV. The CVD risk conferred by insomnia in the HIV population is unknown. METHODS: Using the Veterans Aging Cohort Study-Survey Cohort, insomnia symptoms were measured and dummy coded with the item, "Difficulty falling or staying asleep?" (5-point scale from no difficulty to bothers a lot). Incident CVD event ICD-9 codes (acute myocardial infarction, stroke, or coronary artery revascularization) were identified with VA and Medicare administrative data and VA fee-for-service data...
February 7, 2019: Journal of Acquired Immune Deficiency Syndromes: JAIDS
Narttaya Chaiwiang, Teera Poyomtip
BACKGROUND AND OBJECTIVE: The hepatitis C virus (HCV) is able to cause a life-threatening disease relating to lethal hepatocellular carcinoma. Previous, Toll-like receptor polymorphisms were proposed as promising biomarker for HCV-related hepatocellular carcinoma and disease progression. This study aimed to summarize the association of TLR4 polymorphisms and HCV infection through meta-analysis. METHODS: We applied a systematic review and meta-analysis performed by using PubMed, EMBASE, and Web of Science searches...
February 14, 2019: Bioscience Reports
Yuanhui Qi, Qiying Yi, Yamin Liu, Yanxia Hu, Dongshen Ni, Jianing Liu, Qin Zhou, Yajun Xie
Glucocorticoid hormones have been widely used in clinical practice as potent anti-inflammatory and immunosuppressive agents. However, the underlying mechanisms of how they work remain unaddressed. Here, we used RNA-set to profile spleen gene expression in adult mice after consistent intraperitoneal injection of dexamethasone. We identified 13565 genes in control (injected with 0.9% NaCl) and 13702 genes in dexamethasone-injected group, 12920 genes were expressed in both, but 645 genes were identified only in control and 782 genes were identified only in the dexamethasone group...
February 11, 2019: Gene
Emily Dangelmaier, Sarah B Lazar, Ashish Lal
p53 regulates the expression of hundreds of genes. Recent surprising observations indicate that no single protein-coding gene controls the tumor suppressor effects of p53. This raises the possibility that a subset of these genes, regulated by a p53-induced long noncoding RNA (lncRNA), could control p53's tumor suppressor function. We propose molecular mechanisms through which lncRNAs could regulate this subset of genes and hypothesize an exciting, direct role of lncRNAs in p53's genome stability maintenance function...
February 13, 2019: PLoS Biology
L G V Fernandes, L P Guaman, S A Vasconcellos, Marcos B Heinemann, M Picardeau, A L T O Nascimento
Leptospirosis is a worldwide zoonosis caused by pathogenic bacteria of the genus Leptospira, which also includes free-living saprophyte strains. Many aspects of leptospiral basic biology and virulence mechanisms remain unexplored mainly due to the lack of effective genetic tools available for these bacteria. Recently, the type II CRISPR/Cas system from Streptococcus pyogenes has been widely used as an efficient genome engineering tool in bacteria by inducing double-strand breaks (DSBs) in the desired genomic targets caused by an RNA-guided DNA endonuclease called Cas9, and the DSB repair associated machinery...
February 12, 2019: Scientific Reports
Xinxin Wu, Ting Shi, Shahid Iqbal, Yong Zhang, Lin Liu, Zhihong Gao
BACKGROUND: Long non-coding RNAs (lncRNAs) are transcripts more than 200 bp in length do not encode proteins. Up to the present, it has been reported that lncRNAs play an essential role in developmental processes through their regulatory functions. However, their characteristics, expression inheritance patterns, and functions in Prunus mume are quite unidentified. RESULTS: In this present study, we exposed the specific characters of pistil development process between single pistil cv 'Qingjia No...
February 11, 2019: BMC Plant Biology
Christian J Michel
We study the distribution of new classes of motifs in genes, a research field that has not been investigated to date. A single-frame motif SF has no trinucleotide in reading frame (frame 0) that occurs in a shifted frame (frame 1 or 2), e.g., the dicodon AAACAA is SF as the trinucleotides AAA and CAA do not occur in a shifted frame. A motif which is not single-frame SF is multiple-frame MF. Several classes of MF motifs are defined and analysed. The distributions of single-frame SF motifs (associated with an unambiguous trinucleotide decoding in the two 5'⁻3' and 3'⁻5' directions) and 5' unambiguous motifs 5'U (associated with an unambiguous trinucleotide decoding in the 5'⁻3' direction only) are analysed without and with constraints...
February 10, 2019: Life
Qiuhui Hu, Sheng Tai, Jicai Wang
OBJECTIVES: Long non-coding RNAs (lncRNAs) are a group of noncoding RNAs with length larger than 200 nucleotides. LncRNAs have limited or no protein-coding capacity because of lack of obvious open reading frame. An increasing number of researches have shown that lncRNAs participate in the complex regulation network of cancer and play an important role in tumourigenesis and progression such as proliferation, migration and invasion. LncRNA FOXD2 adjacent opposite strand RNA 1 (FOXD2-AS1), located on chromosome 1p33 and with a transcript length of 2527 nucleotides, is a novel cancer-related lncRNA...
January 29, 2019: Pathology, Research and Practice
Sarah Bjorkman, Hugh S Taylor
MicroRNAs (miRNAs), a class of small non-coding RNA molecules, have been recognized as key post-transcriptional regulators associated with a multitude of human diseases. Global expression profiling studies have uncovered hundreds of miRNAs that are dysregulated in several diseases, and yielded many candidate biomarkers. This review will focus on miRNAs in endometriosis, a common chronic disease affecting nearly 10% of reproductive-aged women, which can cause pelvic pain, infertility, and a myriad of other symptoms...
February 4, 2019: Biology of Reproduction
Marine Lambert, Abderrahim Benmoussa, Patrick Provost
The advent of RNA-sequencing (RNA-Seq) technologies has markedly improved our knowledge and expanded the compendium of small non-coding RNAs, most of which derive from the processing of longer RNA precursors. In this review article, we will present a nonexhaustive list of referenced small non-coding RNAs (ncRNAs) derived from eukaryotic ribosomal RNA (rRNA), called rRNA fragments (rRFs). We will focus on the rRFs that are experimentally verified, and discuss their origin, length, structure, biogenesis, association with known regulatory proteins, and potential role(s) as regulator of gene expression...
February 4, 2019: Non-Coding RNA
X-F Wu, J-T Lu, W Chen, N Wang, J-C Meng, Y-H Zhou
OBJECTIVE: Previous studies have shown that long non-coding RNA (lncRNA) FOXC2-AC1 is one of cancer-promoting genes. However, the role of FOXC2-AC1 in lung cancer (LCa) has not been reported. This study aimed to investigate the expression characteristics of FOXC2-AC1 in LCa, and to further explore the mechanism by which it accelerates the metastasis of LCa. PATIENTS AND METHODS: Quantitative Real-time polymerase chain reaction (qRT-PCR) was used to detect the level of FOXC2-AC1 in 62 pairs of LCa tissues and adjacent normal tissues, and the relationship between FOXC2-AC1 and LCa pathological parameters as well as the prognosis of patients were analyzed...
January 2019: European Review for Medical and Pharmacological Sciences
Cai-Cai Xi, Wei Gu, Hong-Mei Sun, Rong Tian, Qi Liu, Xiao-Hao Wang
Selaginella tamariscina is a typical resuscitation medicinal plant with extreme drought tolerance. Trehalose plays an important role in the resurrection process, and the trehalose-6-phosphate synthase(TPS) is the key enzyme to synthesize trehalose in plants. In this study, the sequence of TPS was obtained by splicing from the transcriptome data of S. tamariscina. After the synthesis of cDNA based on the template of total RNA, the sequence was cloned by RT-PCR for verification and then analyzed by bioinformatics methods...
December 2018: Zhongguo Zhong Yao za Zhi, Zhongguo Zhongyao Zazhi, China Journal of Chinese Materia Medica
Yingai Zhang, Shunlan Wang, Jingchuan Xiao, Hailong Zhou
Hepatocellular carcinoma (HCC) is the most frequent primary liver cancer, which has poor outcome. This study aimed to investigate the key genes implicated in the progression and prognosis of HCC. The RNA-sequencing data of HCC was extracted from The Cancer Genome Atlas database. Using the R package (DESeq), the differentially expressed genes (DEGs) were analyzed. Based on the Cluepedia plug-in in Cytoscape software, enrichment analysis for the protein-coding genes among the DEGs was conducted. Subsequently, protein-protein interaction (PPI) network was built by Cytoscape software...
January 31, 2019: Bioscience Reports
Shaoman Yin, Laurie Barker, Jianglan Z White, Ruth B Jiles
BACKGROUND: Chronic hepatitis C (CHC) is a leading cause of morbidity and mortality and has imposed a high health care burden in the United States. Direct-acting antiviral (DAA) regimens are well tolerated and highly effective for CHC therapy but were initially marketed at a high price. Studies of their real-world use with a nationwide population are limited. OBJECTIVE: To examine patient characteristics, treatment adherence, effectiveness, and health care costs in a large U...
February 2019: Journal of Managed Care & Specialty Pharmacy
Senyang Li, Jing Yang, Luyao Wang, Fen Du, Junlong Zhao, Rui Fang
BACKGROUND: Toxoplasma gondii is an apicomplexan protozoan parasite that can cause serious clinical illnesses in both humans and animals. microRNAs (miRNAs) are non-protein-coding RNAs that can regulate the expression of target genes. A previous study found that many miRNAs were differentially expressed after T. gondii infection and exert significant effects and revealed that both host survival and the virulence of different strains can be regulated by different miRNAs. Macrophages play an important role in T...
January 29, 2019: Parasites & Vectors
Lijuan Zhang, Li Wang, Enyu Guo, Yuefeng Qi
BACKGROUND: Cardiac hypertrophy related factor (CHRF), a newly recognized long non-coding RNA (lncRNA), is a central regulator in cardiac hypertrophy responses. This study attempted to show the potential role of lncRNA CHRF in bacterial infection caused myocarditis. METHODS: H9c2 cells were transfected with small interfering RNAs (siRNAs) specific for lncRNA CHRF alone or in combination with miR-221 inhibitor, and then subjected to lipopolysaccharide (LPS). The following parameters were measured: cell viability, apoptosis, reactive oxygen species (ROS) generation, pro-inflammatory cytokines release, microRNA (miR)-221 expression and the activation of nuclear factor-κB (NF-κB) and c-Jun N-terminal kinase (JNK) pathways...
January 26, 2019: Experimental and Molecular Pathology
Peisi Kou, Chenyue Zhang, Jiamao Lin, Haiyong Wang
Circular RNA (circRNA), a type of endogenous non-coding RNA, is a closed continuous loop of RNA with no poly(A) tail. Previously, studies have identified that circRNAs are closely associated with several cancer types. However, their function in hepatocellular carcinoma (HCC) has rarely been studied. Therefore, the aim of the current study was to screen differential circRNA expression between HCC tissues and adjacent non-cancerous tissues, and test the potential clinical value of individual circRNAs. CircRNA microarray was used to investigate global circRNA expression profiles...
February 2019: Oncology Letters
Yoshikazu Fujimoto, Kenji Kyogoku, Keiko Takeda, Kinuyo Ozaki, Sayo Yamamoto, Haruka Suyama, Etsuro Ono
RNA interference (RNAi) can inhibit Influenza A virus (IAV) infection in a gene-specific manner. In this study, we constructed a transgene expressing a short hairpin RNA (shRNA) that targets the noncoding region of the IAV RNA gene encoding nucleoprotein (NP). To investigate the antiviral effects of the shRNA, we generated two transgenic mouse lines with this transgene. Unfortunately, there was no apparent difference in IAV resistance between transgenic and non-transgenic littermates. To further investigate the antiviral effects of the shRNA, we prepared mouse embryonic fibroblasts (MEFs) from transgenic and non-transgenic mice...
January 22, 2019: Journal of Veterinary Medical Science
Qining Yang, Xiaofei Li, Yongwei Zhou, Weicong Fu, Jinhua Wang, Qiang Wei
Osteoarthritis (OA) is the most common degenerative joint disease and results from progressive loss and destruction of articular cartilage and the underlying bone. The disease affects millions of people worldwide with an associated risk of mobility disability. However, the molecular basis underlying OA initiation and progression is not well understood and, currently, there is no effective intervention available to decelerate disease progression or restore degraded cartilage. We have found that lncRNA long intergenic nonprotein coding RNA 341 (LINC00341) is aberrantly downregulated in OA patient tissues and cultured OA chondrocytes...
January 22, 2019: Journal of Cellular Biochemistry
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