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DNA methylation miRNA

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https://www.readbyqxmd.com/read/29665942/-research-progress-of-histone-modification-in-b-cell-lymphoma-pathogenesis-review
#1
Jiao Zhang, Yun Pan, Yan Li
It has been increasingly recognized that the pathogenesis of B-cell lymphoma closely relates to the epigenetic disregulations. Epigenetics is a subdiscipline, which means heritable changes in gene expressions without alterations in the DNA sequence, and the DNA methylation, histone modification and miRNA maily were involved. Histone modification is the most important epigenetic modification, the researches showed that the aberrant histone modification is the important pathogenesis in B-cell lymphoma, especially the aberrant histone methylation and acetylation...
April 2018: Zhongguo Shi Yan Xue Ye Xue za Zhi
https://www.readbyqxmd.com/read/29659948/mir156-spls-module-regulates-somatic-embryogenesis-induction-in-citrus-callus
#2
Jian-Mei Long, Chao-Yang Liu, Meng-Qi Feng, Yun Liu, Xiao-Meng Wu, Wen-Wu Guo
As a highly conserved plant miRNA, miR156 has been intensively investigated for its versatile roles in plant development. Herein we report a novel role of miR156 in regulating somatic embryogenesis (SE) of citrus, one of the most widely cultivated fruit crops in the world. SE is an important way of regeneration, but SE potential of the preserved citrus embryogenic callus always declined during long-term sub-culturing, becoming a key obstacle for citrus biotechnology. In our study, either overexpression of csi-miR156a or individual knock-down of the two target genes CsSPL3 and CsSPL14 significantly enhanced SE competence of citrus callus, indicating that the effect of miR156-SPLs module was established for the initial phases of SE induction...
April 5, 2018: Journal of Experimental Botany
https://www.readbyqxmd.com/read/29655674/analysis-of-microrna-expression-in-the-thymus-of-myasthenia-gravis-patients-opens-new-research-avenues
#3
REVIEW
Mélanie A Cron, Solène Maillard, Fabien Delisle, Nolwenn Samson, Frédérique Truffault, Maria Foti, Elie Fadel, Julien Guihaire, Sonia Berrih-Aknin, Rozen Le Panse
In early-onset Myasthenia Gravis (MG) with anti-acetylcholine receptor antibodies, thymic abnormalities associated with ectopic germinal centers are frequent. miRNAs by acting as post-transcriptional regulators are involved in autoimmunity. To investigate the implication of miRNAs in thymic changes associated with early-onset MG, we performed a miRnome study and data were analyzed with different approaches. miRNAs of interest were further investigated by RT-PCR and transfection experiments for functional tests...
April 12, 2018: Autoimmunity Reviews
https://www.readbyqxmd.com/read/29625048/cell-of-origin-patterns-dominate-the-molecular-classification-of-10-000-tumors-from-33-types-of-cancer
#4
Katherine A Hoadley, Christina Yau, Toshinori Hinoue, Denise M Wolf, Alexander J Lazar, Esther Drill, Ronglai Shen, Alison M Taylor, Andrew D Cherniack, Vésteinn Thorsson, Rehan Akbani, Reanne Bowlby, Christopher K Wong, Maciej Wiznerowicz, Francisco Sanchez-Vega, A Gordon Robertson, Barbara G Schneider, Michael S Lawrence, Houtan Noushmehr, Tathiane M Malta, Joshua M Stuart, Christopher C Benz, Peter W Laird
We conducted comprehensive integrative molecular analyses of the complete set of tumors in The Cancer Genome Atlas (TCGA), consisting of approximately 10,000 specimens and representing 33 types of cancer. We performed molecular clustering using data on chromosome-arm-level aneuploidy, DNA hypermethylation, mRNA, and miRNA expression levels and reverse-phase protein arrays, of which all, except for aneuploidy, revealed clustering primarily organized by histology, tissue type, or anatomic origin. The influence of cell type was evident in DNA-methylation-based clustering, even after excluding sites with known preexisting tissue-type-specific methylation...
April 5, 2018: Cell
https://www.readbyqxmd.com/read/29620215/integrated-analysis-of-the-gene-expression-profile-and-dna-methylation-profile-of-obese-patients-with-type-2-diabetes
#5
Juan Shen, Bin Zhu
In order to better understand the etiology of obese type 2 diabetes (T2D) at the molecular level, the present study investigated the gene expression and DNA methylation profiles associated with T2D via systemic analysis. Gene expression (GSE64998) and DNA methylation profiles (GSE65057) from liver tissues of healthy controls and obese patients with T2D were downloaded from the Gene Expression Omnibus database. Differentially‑expressed genes (DEGs) and differentially‑methylated genes (DMGs) were identified using the Limma package, and their overlapping genes were additionally determined...
March 28, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29614816/genetic-and-epigenetic-control-of-cdkn1c-expression-importance-in-cell-commitment-and-differentiation-tissue-homeostasis-and-human-diseases
#6
REVIEW
Emanuela Stampone, Ilaria Caldarelli, Alberto Zullo, Debora Bencivenga, Francesco Paolo Mancini, Fulvio Della Ragione, Adriana Borriello
The CDKN1C gene encodes the p57Kip2 protein which has been identified as the third member of the CIP/Kip family, also including p27Kip1 and p21Cip1 . In analogy with these proteins, p57Kip2 is able to bind tightly and inhibit cyclin/cyclin-dependent kinase complexes and, in turn, modulate cell division cycle progression. For a long time, the main function of p57Kip2 has been associated only to correct embryogenesis, since CDKN1C -ablated mice are not vital. Accordingly, it has been demonstrated that CDKN1C alterations cause three human hereditary syndromes, characterized by altered growth rate...
April 2, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29614648/altered-microrna-mrna-and-protein-expression-of-neurodegeneration-related-biomarkers-and-their-transcriptional-and-epigenetic-modifiers-in-a-human-tau-transgenic-mouse-model-in-response-to-developmental-lead-exposure
#7
Anwar M Masoud, Syed W Bihaqi, Bothaina Alansi, Miriam Dash, Gehad M Subaiea, William E Renehan, Nasser H Zawia
Amyloid deposits originating from the amyloid-β protein precursor (AβPP) and aggregates of the microtubule associated protein tau (MAPT) are the hallmarks of Alzheimer's disease (AD). Animal studies have demonstrated a link between early life exposure to lead (Pb) and latent overexpression of the AβPP and MAPT genes and their products via epigenetic reprogramming. The present study monitored APP gene and epigenetic mediators and transcription factors known to regulate it. Western blot analysis and quantitative polymerase chain reaction (qPCR) were used to study the mRNA, miRNA, and proteins levels of AβPP, specificity protein 1 (SP1; a transcriptional regulator of amyloid and tau pathway), and epigenetic intermediates namely: DNA methyltransferase (DNMT) 1, DNMT3a and Methyl- CpG protein binding 2 (MeCP2) in the cerebral cortex of transgenic mice (Knock-in for human MAPT)...
March 28, 2018: Journal of Alzheimer's Disease: JAD
https://www.readbyqxmd.com/read/29613827/experience-dependent-neuroplasticity-of-the-developing-hypothalamus-integrative-epigenomic-approaches
#8
Annie Vogel Ciernia, Benjamin I Laufer, Keith W Dunaway, Charles E Mordaunt, Rochelle L Coulson, Theresa S Totah, Danielle S Stolzenberg, Jaime Frahm, Akanksha Singh-Taylor, Tallie Z Baram, Janine M LaSalle, Dag H Yasui
Augmented maternal care during the first postnatal week promotes life-long stress resilience and improved memory compared with the outcome of routine rearing conditions. Recent evidence suggests that this programming commences with altered synaptic connectivity of stress sensitive hypothalamic neurons. However, the epigenomic basis of the long-lived consequences is not well understood. Here, we employed whole-genome bisulfite sequencing (WGBS), RNA-sequencing (RNA-seq), and a multiplex microRNA (miRNA) assay to examine the effects of augmented maternal care on DNA cytosine methylation, gene expression, and miRNA expression...
April 3, 2018: Epigenetics: Official Journal of the DNA Methylation Society
https://www.readbyqxmd.com/read/29600844/click-chemical-ligation-initiated-on-bead-dna-polymerization-for-the-sensitive-flow-cytometric-detection-of-3%C3%A2-terminal-2%C3%A2-o-methylated-plant-microrna
#9
Wenjiao Fan, Yan Qi, Liying Qiu, Pan He, Chenghui Liu, Zhengping Li
A versatile flow cytometric strategy is developed for the sensitive detection of plant microRNA (miRNA) by coupling the target-templated click nucleic acid ligation (CNAL) with on-bead terminal enzymatic DNA polymerization (TEP). Unlike ligase-catalyzed ligation reaction, the plant miRNA-templated enzyme-free CNAL between two single-stranded DNA (ssDNA) probes respectively modified with Aza-dibenzocyclooctyne (Aza-DBCO) and N3, can not only simplify the operation but also achieve a much higher ligation efficiency...
March 30, 2018: Analytical Chemistry
https://www.readbyqxmd.com/read/29597262/maternal-choline-supplementation-during-normal-murine-pregnancy-alters-the-placental-epigenome-results-of-an-exploratory-study
#10
Sze Ting Cecilia Kwan, Julia H King, Jennifer K Grenier, Jian Yan, Xinyin Jiang, Mark S Roberson, Marie A Caudill
The placental epigenome regulates processes that affect placental and fetal development, and could be mediating some of the reported effects of maternal choline supplementation (MCS) on placental vascular development and nutrient delivery. As an extension of work previously conducted in pregnant mice, the current study sought to explore the effects of MCS on various epigenetic markers in the placenta. RNA and DNA were extracted from placentas collected on embryonic day 15.5 from pregnant mice fed a 1X or 4X choline diet, and were subjected to genome-wide sequencing procedures or mass-spectrometry-based assays to examine placental imprinted gene expression, DNA methylation patterns, and microRNA (miRNA) abundance...
March 28, 2018: Nutrients
https://www.readbyqxmd.com/read/29597259/the-role-of-circulating-free-dna-and-microrna-in-non-invasive-diagnosis-of-hbv-and-hcv-related-hepatocellular-carcinoma
#11
REVIEW
Francesca Pezzuto, Luigi Buonaguro, Franco Maria Buonaguro, Maria Lina Tornesello
Hepatocellular carcinoma (HCC) is the third and the fifth leading cause of cancer related death worldwide in men and in women, respectively. HCC generally has a poor prognosis, with a very low 5-year overall survival, due to delayed diagnosis and treatment. Early tumour detection and timely intervention are the best strategies to reduce morbidity and mortality in HCC patients. Histological evaluation of liver biopsies is the gold standard for cancer diagnosis, although it is an invasive, time-consuming and expensive procedure...
March 28, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29596883/antagonistic-activities-of-mir-148a-and-dnmt1-ectopic-expression-of-mir-148a-impairs-dnmt1-mrna-and-dwindle-cell-proliferation-and-survival
#12
Dipta Sengupta, Moonmoon Deb, Samir Kumar Patra
Functional analyses of noncoding RNAs have associated many micro RNAs (miRNA, miR) with various physiological processes, including proliferation, differentiation, development, cell metabolism, and apoptosis. Aberrant expression of miRNA and imbalance in their functions may lead to cellular aberration and different disease development, including cancer. In silico analysis of miRNA target prediction suggested that miR-148a possess a binding site in the 3' UTR of DNMT1 mRNA which can cause silencing of DNMT1 gene...
March 26, 2018: Gene
https://www.readbyqxmd.com/read/29570800/dna-methylation-of-mirna-encoding-genes-in-non-small-cell-lung-cancer-patients
#13
Gerwin Heller, Corinna Altenberger, Irene Steiner, Thais Topakian, Barbara Ziegler, Erwin Tomasich, György Lang, Adelheid End-Pfützenreuter, Sonja Zehetmayer, Balazs Döme, Britt-Madeleine Arns, Walter Klepetko, Christoph C Zielinski, Sabine Zöchbauer-Müller
De-regulated DNA methylation leading to transcriptional inactivation of certain genes occurs frequently in non-small cell lung cancers (NSCLC). Besides protein-encoding genes also microRNA (miRNA)-encoding genes may be targets for methylation in NSCLCs, however, the number of known methylated miRNA genes is still small. Thus, we investigated methylation of miRNA genes in primary tumours (TU) and corresponding non-malignant lung tissue samples (NL) of 50 NSCLC patients using methylated DNA immunoprecipitation followed by custom designed tiling microarray analyses (MeDIP-chip) and 252 differentially methylated probes between TU and NL samples were identified...
March 23, 2018: Journal of Pathology
https://www.readbyqxmd.com/read/29567152/gold-nanoparticle-based-2-o-methyl-modified-dna-probes-for-breast-cancerous-theranostics
#14
Jing Li, Jin Huang, Xiaohai Yang, Yanjing Yang, Ke Quan, Nuli Xie, Yanan Wu, Changbei Ma, Kemin Wang
MicroRNAs (miRNAs) are a class of small non-coding RNAs that regulated diverse cellular processes including differentiation, proliferation, apoptosis, metabolism and signal transduction pathways. An increasing number of data suggested that miRNA-21 could be identified as diagnostic and therapeutic biomarker for breast cancer. Meanwhile, inhibiting the function of miRNA-21, resulting in cells growth inhibition and apoptotic cells death. To realize miRNA-21detection and inhibition to diagnostic and therapeutic breast cancer cells, we developed gold nanoparticle-based 2'-O-methyl modified DNA probes (AuNP-2'-OMe-DNA probes) for diagnostic and therapeutic breast cancer...
June 1, 2018: Talanta
https://www.readbyqxmd.com/read/29563510/integrative-proteomics-in-prostate-cancer-uncovers-robustness-against-genomic-and-transcriptomic-aberrations-during-disease-progression
#15
Leena Latonen, Ebrahim Afyounian, Antti Jylhä, Janika Nättinen, Ulla Aapola, Matti Annala, Kati K Kivinummi, Teuvo T L Tammela, Roger W Beuerman, Hannu Uusitalo, Matti Nykter, Tapio Visakorpi
To understand functional consequences of genetic and transcriptional aberrations in prostate cancer, the proteomic changes during disease formation and progression need to be revealed. Here we report high-throughput mass spectrometry on clinical tissue samples of benign prostatic hyperplasia (BPH), untreated primary prostate cancer (PC) and castration resistant prostate cancer (CRPC). Each sample group shows a distinct protein profile. By integrative analysis we show that, especially in CRPC, gene copy number, DNA methylation, and RNA expression levels do not reliably predict proteomic changes...
March 21, 2018: Nature Communications
https://www.readbyqxmd.com/read/29562725/genetic-and-epigenetic-regulation-in-nonalcoholic-fatty-liver-disease-nafld
#16
REVIEW
José A Del Campo, Rocío Gallego-Durán, Paloma Gallego, Lourdes Grande
Genetics and epigenetics play a key role in the development of several diseases, including nonalcoholic fatty liver disease (NAFLD). Family studies demonstrate that first degree relatives of patients with NAFLD are at a much higher risk of the disease than the general population. The development of the Genome Wide Association Study (GWAS) technology has allowed the identification of numerous genetic polymorphisms involved in the evolution of diseases (e.g., PNPLA3 , MBOAT7 ). On the other hand, epigenetic changes interact with inherited risk factors to determine an individual's susceptibility to NAFLD...
March 19, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29560091/epigenetic-modifications-in-hyperhomocysteinemia-potential-role-in-diabetic-retinopathy-and-age-related-macular-degeneration
#17
Khaled Elmasry, Riyaz Mohamed, Isha Sharma, Nehal M Elsherbiny, Yutao Liu, Mohamed Al-Shabrawey, Amany Tawfik
To study Hyperhomocysteinemia (HHcy)-induced epigenetic modifications as potential mechanisms of blood retinal barrier (BRB) dysfunction, retinas isolated from three- week-old mice with elevated level of Homocysteine (Hcy) due to lack of the enzyme cystathionine β-synthase ( cbs-/- , cbs+/- and cbs+/+ ), human retinal endothelial cells (HRECs), and human retinal pigmented epithelial cells (ARPE-19) treated with or without Hcy were evaluated for (1) histone deacetylases (HDAC), (2) DNA methylation (DNMT), and (3) miRNA analysis...
February 27, 2018: Oncotarget
https://www.readbyqxmd.com/read/29557690/hypomethylation-of-the-mirna-34a-gene-promoter-is-associated-with-severe-preeclampsia
#18
Mahnaz Rezaei, Fatemeh Eskandari, Abbas Mohammadpour-Gharehbagh, Mahdiyeh Harati-Sadegh, Batool Teimoori, Saeedeh Salimi
PURPOSE: PE is a pregnancy-specific complication, which genetic and epigenetic factors play key roles in its pathogenesis. DNA methylation is a main epigenetic alteration with important roles in gene regulation. Micro RNAs (miRNAs) as another member of epigenetic machinery regulate the gene expression and involve in different biological pathways including apoptosis and placental development. Therefore, the present study performed to assess the association between miRNA-34a promoter methylation and PE susceptibility...
March 20, 2018: Clinical and Experimental Hypertension: CHE
https://www.readbyqxmd.com/read/29554950/involvement-of-methylation-of-microrna-122-125b-and-106b-in-regulation-of-cyclin-g1-cat-1-and-stat3-target-genes-in-isoniazid-induced-liver-injury
#19
Yuhong Li, Qi Ren, Lingyan Zhu, Yingshu Li, Jinfeng Li, Yiyang Zhang, Guoying Zheng, Tiesheng Han, Shufeng Sun, Fumin Feng
BACKGROUND: This investigation aimed to evaluate the role of methylation in the regulation of microRNA (miR)-122, miR-125b and miR-106b gene expression and the expression of their target genes during isoniazid (INH)-induced liver injury. METHODS: Rats were given INH 50 mg kg- 1 ·d- 1 once per day for 3, 7, 10, 14, 21 and 28 days and were sacrificed. Samples of blood and liver were obtained. RESULTS: We analysed the methylation and expression levels of miR-122, miR-125b and miR-106b and their potential gene targets in livers...
March 20, 2018: BMC Pharmacology & Toxicology
https://www.readbyqxmd.com/read/29552712/epigenetic-mechanisms-and-events-in-gastric-cancer-emerging-novel-biomarkers
#20
REVIEW
Puneet, Hasan Raza Kazmi, Soni Kumari, Satendra Tiwari, A Khanna, Gopeshwar Narayan
Gastric cancer is one of the most common malignancy worldwide. The various genetic and epigenetic events have been found to be associated with its carcinogenesis. The epigenetic is a heritable and transient/reversible change in the gene expression that is not accompanied by modification in the DNA sequence. This event is characterized by the alteration in the promoter CpG island of the gene or histone modification. These events are associated with silencing of critical tumor suppressor gene and activation of oncogenes leading to carcinogenesis...
March 19, 2018: Pathology Oncology Research: POR
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