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Correlation of MGMT promoter methylation status with gene and protein expression levels in glioblastoma

UNO, Miyuki; OBA-SHINJO, Sueli Mieko; CAMARGO, Anamaria Aranha; MOURA, Ricardo Pereira; AGUIAR, Paulo Henrique de; CABRERA, Hector Navarro; BEGNAMI, Marcos; ROSEMBERG, Sérgio; TEIXEIRA, Manoel Jacobsen; MARIE, Suely Kazue Nagahashi
Fonte: Faculdade de Medicina / USP Publicador: Faculdade de Medicina / USP
Tipo: Artigo de Revista Científica
Português
Relevância na Pesquisa
36.769436%
OBJECTIVES: 1) To correlate the methylation status of the O6-methylguanine-DNA-methyltransferase (MGMT) promoter to its gene and protein expression levels in glioblastoma and 2) to determine the most reliable method for using MGMT to predict the response to adjuvant therapy in patients with glioblastoma. BACKGROUND: The MGMT gene is epigenetically silenced by promoter hypermethylation in gliomas, and this modification has emerged as a relevant predictor of therapeutic response. METHODS: Fifty-one cases of glioblastoma were analyzed for MGMT promoter methylation by methylation-specific PCR and pyrosequencing, gene expression by real time polymerase chain reaction, and protein expression by immunohistochemistry. RESULTS: MGMT promoter methylation was found in 43.1% of glioblastoma by methylation-specific PCR and 38.8% by pyrosequencing. A low level of MGMT gene expression was correlated with positive MGMT promoter methylation (p = 0.001). However, no correlation was found between promoter methylation and MGMT protein expression (p = 0.297). The mean survival time of glioblastoma patients submitted to adjuvant therapy was significantly higher among patients with MGMT promoter methylation (log rank = 0.025 by methylation-specific PCR and 0.004 by pyrosequencing)...

DNA mismatch repair gene methylation in gastric cancer in individuals from northern Brazil

LIMA, Eleonidas Moura; LEAL, Mariana Ferreira; SMITH, Marilia de Arruda Cardoso; BURBANO, Rommel Rodriguez; ASSUMPCAO, Paulo Pimentel de; BELLO, Maria Jose; REY, Juan Antonio; LIMA, Francinaldo Ferreira de; CASARTELLI, Cacilda
Fonte: INST HISTOL EMBRIOL-CONICET Publicador: INST HISTOL EMBRIOL-CONICET
Tipo: Artigo de Revista Científica
Português
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Gastric cancer is one of the most common malignancies. DNA methylation is implicated in DNA mismatch repair genes deficiency. In the present study, we evaluated the methylation status of MLH1, MSH2, MSH6 and PMS2 in 20 diffuse- and 26 intestinal-type gastric cancer samples and 20 normal gastric mucosal of gastric cancer patients from Northern Brazil. We found that none of the nonneoplastic samples showed methylation of any gene promoter and 50% of gastric, cancer samples showed at least one methylated gene promoter. Methylation frequencies of MLH1, MSH2, MSH6 and PMS2 promoter were 21.74%, 17.39%, 0% and 28.26% respectively in gastric cancer samples. MLH1 and PMS2 methylation were associated with neoplastic samples compared to nonneoplastic ones. PMS2:? methylation was associated with diffuse- and intestinal-type cancer compared with normal controls. Intestinal-type cancer showed significant association with MLH1 methylation. Diffuse-type cancer was significantly associated with MSH2 methylation. Our findings show differential gene methylation in tumoral tissue, which allows us to conclude that methylation is associated with gastric carcinogenesis. Methylation of mismatch repair genes was associated with gastric carcinogenesis and may be a helpful tool for diagnosis...

Avaliação da taxa de metilação do DNA de leucócitos na região promotora dos genes IFNγ, Serpin B5 e Stratifin durante o período gestacional e sua relação com o metabolismo das vitaminas e metabólitos; Assessment of leukocyte DNA methylation index in the promoter region of IFNγ, Serpin B5 and Stratifin genes in women with different gestational ages and their relationship to the metabolism of vitamins and metabolites

Silva, Thaiomara Alves
Fonte: Biblioteca Digitais de Teses e Dissertações da USP Publicador: Biblioteca Digitais de Teses e Dissertações da USP
Tipo: Dissertação de Mestrado Formato: application/pdf
Publicado em 15/10/2010 Português
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36.78499%
A metilação do DNA é uma alteração epigenética que atua na regulação da expressão gênica. A deficiência de vitaminas (cobalamina, B6 e folato) pode interferir na taxa de metilação. O efeito da deficiência destas vitaminas foi determinado em estudos com cultura de células e em animais. No entanto, são raros os estudos realizados com seres humanos. Os objetivos deste trabalho foram: avaliar a taxa de metilação do DNA de leucócitos na região promotora dos genes Interferon gama (IFNγ), Serpin B5 e Stratifin; verificar se existe associação entre as concentrações das vitaminas e dos metabólitos com a taxa de metilação do DNA dos 3 genes; e analisar quais são os fatores de predição para a taxa de metilação do DNA (variável dependente) considerando como variáveis independentes os valores séricos das vitaminas e metabólitos, em mulheres com idades gestacionais de 16, 28 e 36 semanas. Cento e oitenta e três mulheres foram convidadas a participar desse estudo, porém apenas 96 completaram o estudo prospectivo. Foram determinadas as concentrações séricas da cobalamina (Cbl), folato, vitamina B6, S-adenosilmetionina (SAM), S-adenosilhomocisteína (SAH), ácido metilmalônico (MMA), homocisteína total (tHcy) e folato eritrocitário. A taxa de metilação nos 3 genes foi determinada por qMSP (Quantitative Methylation Specific - Polimerase Chain Reaction). Várias mulheres estavam fazendo uso de suplementação com ácido fólico e/ou polivitamínicos. Diante deste fato foram formados 4 subgrupos: Grupo 1 (constituído por mulheres que não usaram suplementação)...

Metilação do gene simportador sódio-iodo (NIS) em tumores de tireóide; Methylation of sodium iodide symporter (NIS) gene in thyroid tumors

Galrão, Ana Luiza Resende
Fonte: Biblioteca Digitais de Teses e Dissertações da USP Publicador: Biblioteca Digitais de Teses e Dissertações da USP
Tipo: Tese de Doutorado Formato: application/pdf
Publicado em 15/12/2011 Português
Relevância na Pesquisa
36.826682%
O iodo é transportado para a célula tireoideana através do simportador sódio-iodo (NIS). Estudo anterior de nosso grupo mostrou que a expressão do RNAm de NIS estava reduzida nos tecidos tumorais (T) tireoideanos quando comparada à dos tecidos não tumorais (NT) adjacentes. A metilação de ilhas CpG localizadas em promotores é um dos mecanismos epigenéticos que regula a expressão gênica. Já foi demonstrado que a metilação aberrante desempenha papel importante na tumorigênese humana, porém, estudos qualitativos não conseguiram definir um padrão de metilação do promotor de NIS no câncer diferenciado de tireóide. Assim, o presente estudo visou (1) investigar o padrão de metilação do promotor do gene NIS em amostras T (benignos e malignos) e NT adjacentes, e correlacionar o grau de metilação com os valores de RNAm, e (2) identificar novas sequencias regulatórias, alvos de metilação do DNA, que pudessem também modular a expressão de NIS. Foram estudados 30 pares de amostras de tecido tireoideano T e NT adjacente, sendo 10 benignos e 20 malignos. Também foi avaliado um par de amostras de paciente com nódulo maligno com alta captação de iodo (hipercaptante). A metilação da ilha1 CpG foi avaliada por PCR Metilação Específica (MSP) semiquantitativa e a metilação da ilha2 CpG foi analisada por bissulfito seqüenciamento; ambas com DNA bissulfito convertido. Novas ferramentas de bioinformática foram utilizadas na análise in silico para identificar ilhas CpG funcionais na região 5' upstream da seqüência promotora de NIS. Plasmídios foram construídos contendo o fragmento de DNA da Ilha2 CpG na frente de gene reporter (luciferase) e usados em transfecções de células HEK293 para avaliar a atividade regulatória desta ilha. Celulas tumorais com baixa expressão de NIS foram tratadas com agente desmetilante 5Aza e a expressão de RNAm de NIS foi avaliada por PCR em tempo real. Na ilha1 CpG...

Dynamics of DNA Methylation during Early Development of the Preimplantation Bovine Embryo

Dobbs, Kyle B.; Rodriguez, Marlon; Sudano, Mateus J.; Ortega, M. Sofia; Hansen, Peter J.
Fonte: Universidade Estadual Paulista Publicador: Universidade Estadual Paulista
Tipo: Artigo de Revista Científica
Português
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There is species divergence in control of DNA methylation during preimplantation development. The exact pattern of methylation in the bovine embryo has not been established nor has its regulation by gender or maternal signals that regulate development such as colony stimulating factor 2 (CSF2). Using immunofluorescent labeling with anti-5-methylcytosine and embryos produced with X-chromosome sorted sperm, it was demonstrated that methylation decreased from the 2-cell stage to the 6-8 cell stage and then increased thereafter up to the blastocyst stage. In a second experiment, embryos of specific genders were produced by fertilization with X- or Y-sorted sperm. The developmental pattern was similar to the first experiment, but there was stage × gender interaction. Methylation was greater for females at the 8-cell stage but greater for males at the blastocyst stage. Treatment with CSF2 had no effect on labeling for DNA methylation in blastocysts. Methylation was lower for inner cell mass cells (i.e., cells that did not label with anti-CDX2) than for trophectoderm (CDX2-positive). The possible role for DNMT3B in developmental changes in methylation was evaluated by determining gene expression and degree of methylation. Steady-state mRNA for DNMT3B decreased from the 2-cell stage to a nadir for D 5 embryos >16 cells and then increased at the blastocyst stage. High resolution melting analysis was used to assess methylation of a CpG rich region in an intronic region of DNMT3B. Methylation percent decreased between the 6-8 cell and the blastocyst stage but there was no difference in methylation between ICM and TE. Results indicate that DNA methylation undergoes dynamic changes during the preimplantation period in a manner that is dependent upon gender and cell lineage. Developmental changes in expression of DNMT3B are indicative of a possible role in changes in methylation. Moreover...

Análise da influência da infecção por Helicobacter pylori no padrão de metilação de genes envolvidos na carcinogênese gástrica; Analysis of the influence of Helicobacter pylori infection on the methylation pattern of genes related to gastric carcinogenesis

Marisa Claudia Alvarez de Prax
Fonte: Biblioteca Digital da Unicamp Publicador: Biblioteca Digital da Unicamp
Tipo: Tese de Doutorado Formato: application/pdf
Publicado em 14/12/2012 Português
Relevância na Pesquisa
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A infecção por Helicobacter pylori e usualmente adquirida durante a infância e persiste durante toda a vida caso não seja tratada. A bactéria induz uma resposta inflamatória crônica, que esta associada com alterações hipergenéticas em oncogenes, genes supressores tumorais, e genes de reparo ao DNA. O Objetivo deste estudo foi avaliar a influencia da infecção por H. pylori no padrão de metilação de genes envolvidos na carcinogenese gástrica. O perfil de metilação de 106 genes foi caracterizado em biopsias provenientes de 5 pacientes adultos (1 Helicobacter pylori negativo, 3 com gastrite crônica infectados com linhagens de diferentes toxicidades e 1 com câncer gástrico) e em DNA proveniente de células epiteliais gástricas infectadas por H. pylori. Para estas analises foram utilizados o Promoter methylation array system, e o Gastric Cancer Methyl--Profiler DNA PCR Array. Os resultados destas análises mostraram que 20 % dos genes se encontravam metilados na amostra de câncer gástrico e 16 % dos genes na amostra de gastrite crônica, entretanto a analise comparativa entre estas amostras mostrou que compartilhavam 8,5 % dos genes metilados. A analise de metilação apos cocultura mostrou 12% dos genes metilados. Entre estes genes foram selecionados os seguintes: THBS1...

DNA methylation as a potential biomarker for Alzheimer disease; Metilação de DNA como potencial biomarcador da doença de Alzheimer

Almeida, João Carlos Moutinho de
Fonte: Universidade de Aveiro Publicador: Universidade de Aveiro
Tipo: Dissertação de Mestrado
Português
Relevância na Pesquisa
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DNA methylation is the major studied epigenetic mechanism and consists in the addiction of a methyl group to 5’ carbon position of the cytosine ring. Methylation of promoter gene regions are directly correlated with gene silencing, which can allow the development of certain diseases since relevant genes may be inhibited due to its promoter methylation; being that the opposite can also occur. This epigenetic mechanism has been linked to cancer and recently it is also being pointed to have an important role in neurological disorders, such as Alzheimer’s Disease (AD). Furthermore, aging is the major risk factor for AD, and also the process underlying many of the epigenetic alterations. As AD etiology and pathological development is not complete understood, alterations in epigenetic mechanisms like DNA methylation may underlie the basis of gene expression alterations. Hence, in this study, possible AD patients and age- and sex-matched controls were used. Genomic DNA was extracted from blood samples and the global methylation levels were determined using an ELISA-type assay, The possible AD patients exhibit lower methylation levels (0,75%±0,29) than age- and sex-matched controls (0,86%±0,29). Gene specific methylation profiles of AD related genes...

Correlation of MGMT promoter methylation status with gene and protein expression levels in glioblastoma

Uno,Miyuki; Oba-Shinjo,Sueli Mieko; Camargo,Anamaria Aranha; Moura,Ricardo Pereira; Aguiar,Paulo Henrique de; Cabrera,Hector Navarro; Begnami,Marcos; Rosemberg,Sérgio; Teixeira,Manoel Jacobsen; Marie,Suely Kazue Nagahashi
Fonte: Faculdade de Medicina / USP Publicador: Faculdade de Medicina / USP
Tipo: Artigo de Revista Científica Formato: text/html
Publicado em 01/01/2011 Português
Relevância na Pesquisa
36.769436%
OBJECTIVES: 1) To correlate the methylation status of the O6-methylguanine-DNA-methyltransferase (MGMT) promoter to its gene and protein expression levels in glioblastoma and 2) to determine the most reliable method for using MGMT to predict the response to adjuvant therapy in patients with glioblastoma. BACKGROUND: The MGMT gene is epigenetically silenced by promoter hypermethylation in gliomas, and this modification has emerged as a relevant predictor of therapeutic response. METHODS: Fifty-one cases of glioblastoma were analyzed for MGMT promoter methylation by methylation-specific PCR and pyrosequencing, gene expression by real time polymerase chain reaction, and protein expression by immunohistochemistry. RESULTS: MGMT promoter methylation was found in 43.1% of glioblastoma by methylation-specific PCR and 38.8% by pyrosequencing. A low level of MGMT gene expression was correlated with positive MGMT promoter methylation (p = 0.001). However, no correlation was found between promoter methylation and MGMT protein expression (p = 0.297). The mean survival time of glioblastoma patients submitted to adjuvant therapy was significantly higher among patients with MGMT promoter methylation (log rank = 0.025 by methylation-specific PCR and 0.004 by pyrosequencing)...

Biomarkers of Lead Exposure and DNA Methylation within Retrotransposons

Bollati, Valentina; Tarantini, Letizia; Hu, Howard; Schwartz, Joel David; Wright, Rosalind Jo; Park, Sung Kyun; Sparrow, David; Vokonas, Pantel S; Baccarelli, Andrea; Wright, Robert O.
Fonte: National Institute of Environmental Health Sciences Publicador: National Institute of Environmental Health Sciences
Tipo: Artigo de Revista Científica
Português
Relevância na Pesquisa
36.749497%
Background: DNA methylation is an epigenetic mark that regulates gene expression. Changes in DNA methylation within white blood cells may result from cumulative exposure to environmental metals such as lead. Bone lead, a marker of cumulative exposure, may therefore better predict DNA methylation than does blood lead. Objective: In this study we compared associations between lead biomarkers and DNA methylation. Methods: We measured global methylation in participants of the Normative Aging Study (all men) who had archived DNA samples. We measured patella and tibia lead levels by K-X-Ray fluorescence and blood lead by atomic absorption spectrophotometry. DNA samples from blood were used to determine global methylation averages within CpG islands of long interspersed nuclear elements-1 (LINE-1) and Alu retrotransposons. A mixed-effects model using repeated measures of Alu or LINE-1 as the dependent variable and blood/bone lead (tibia or patella in separate models) as the primary exposure marker was fit to the data. Results: Overall mean global methylation (± SD) was 26.3 ± 1.0 as measured by Alu and 76.8 ± 1.9 as measured by LINE-1. In the mixed-effects model, patella lead levels were inversely associated with LINE-1 (β = −0.25; p less than 0.01) but not Alu (β = −0.03; p = 0.4). Tibia lead and blood lead did not predict global methylation for either Alu or LINE-1. Conclusion: Patella lead levels predicted reduced global DNA methylation within LINE-1 elements. The association between lead exposure and LINE-1 DNA methylation may have implications for the mechanisms of action of lead on health outcomes...

Effects of airborne pollutants on mitochondrial DNA Methylation

Byun, Hyang-Min; Panni, Tommaso; Motta, Valeria; Hou, Lifang; Nordio, Francesco; Apostoli, Pietro; Bertazzi, Pier Alberto; Baccarelli, Andrea
Fonte: BioMed Central Publicador: BioMed Central
Tipo: Artigo de Revista Científica
Português
Relevância na Pesquisa
36.749497%
Background: Mitochondria have small mitochondrial DNA (mtDNA) molecules independent from the nuclear DNA, a separate epigenetic machinery that generates mtDNA methylation, and are primary sources of oxidative-stress generation in response to exogenous environments. However, no study has yet investigated whether mitochondrial DNA methylation is sensitive to pro-oxidant environmental exposures. Methods: We sampled 40 male participants (20 high-, 20 low-exposure) from each of three studies on airborne pollutants, including investigations of steel workers exposed to metal-rich particulate matter (measured as PM1) in Brescia, Italy (Study 1); gas-station attendants exposed to air benzene in Milan, Italy (Study 2); and truck drivers exposed to traffic-derived Elemental Carbon (EC) in Beijing, China (Study 3). We have measured DNA methylation from buffy coats of the participants. We measured methylation by bisulfite-Pyrosequencing in three mtDNA regions, i.e., the transfer RNA phenylalanine (MT-TF), 12S ribosomal RNA (MT-RNR1) gene and “D-loop” control region. All analyses were adjusted for age and smoking. Results: In Study 1, participants with high metal-rich PM1 exposure showed higher MT-TF and MT-RNR1 methylation than low-exposed controls (difference = 1.41...

Methylation levels of LINE-1 repeats and CpG island loci are inversely related in normal colonic mucosa

Iacopetta, B.; Grieu, F.; Phillips, M.; Ruszkiewicz, A.; Moore, J.; Minamoto, T.; Kawakami, K.
Fonte: Business Center Academic Societies Japan Publicador: Business Center Academic Societies Japan
Tipo: Artigo de Revista Científica
Publicado em //2007 Português
Relevância na Pesquisa
36.749497%
Hypermethylation of CpG island loci within gene promoter regions is a frequent event in colorectal cancer that is often associated with transcriptional silencing and has been referred to as CIMP+. DNA hypomethylation can occur in concert with CIMP+, although these two phenomena appear not to be related in colorectal cancer. The authors investigated here whether the methylation level of LINE-1 repeats, a surrogate marker for genomic methylation, was associated with the level of CpG island methylation in colorectal cancers and in matching normal colonic mucosa from 178 patients. The MethyLight assay was used to quantitate the methylation of CpG islands within the MLH1, P16(INK4A), TIMP3, DAPK, APC, ER and MYOD genes. A real-time, methylation-specific polymerase chain reaction assay was also used to quantitate the methylation of LINE-1 repeats. In colorectal cancer, no associations were seen between methylation levels in LINE-1 repeats and CpG island loci, including a new CpG island panel that was recently proposed for CIMP+. In normal colonic mucosa, however, the methylation level of LINE-1 repeats was inversely correlated with CpG-island methylation of the MLH1, P16, TIMP3, APC, ER and MYOD genes. The methylation level of LINE-1 repeats in normal colonic mucosa also showed significant associations with common polymorphisms in the methylene tetrahydrofolate reductase and methylene tetrahydrofolate dehydrogenase genes involved in methyl group metabolism. Further investigation of genomic and CpG island methylation in normal colonic mucosa and the possible influences of environmental and genetic factors may provide new insights into the development of CIMP+ colorectal cancer.; Barry Iacopetta...

Obesity alone or with type 2 diabetes is associated with tissue specific alterations in DNA methylation and gene expression of PPARGC1A and IGF2

Chen, M.; Macpherson, A.; Owens, J.; Wittert, G.; Heilbronn, L.
Fonte: Herbert Publications Ltd Publicador: Herbert Publications Ltd
Tipo: Artigo de Revista Científica
Publicado em //2012 Português
Relevância na Pesquisa
36.749497%
BACKGROUND: Epigenetic modifications of key genes have been linked to the development of aging related diseases, such as type 2 diabetes, with increased DNA methylation of the transcriptional co-activator, peroxisome proliferator-activated receptor gamma coactivator 1-alpha (PPARGC1A) in islets and skeletal muscle of patients with type 2 diabetes. Here, we examined DNA methylation and gene expression of PPARGC1A and insulin like growth factor-2 (IGF2) in adipose tissue and skeletal muscle of lean and morbidly obese individuals with or without type 2 diabetes. METHODS: Adipose tissue and skeletal muscle biopsies were collected from 24 lean, obese, and obese patients with type 2 diabetes (n=8/group). DNA methylation and gene expression of PPARGC1A and IGF2 were measured using pyrosequencing and quantitative real-time PCR respectively. RESULTS: DNA methylation and expression of both genes varied in a tissue specific manner (P<0.05). The highest levels of PPARGC1A methylation were observed in subcutaneous adipose tissue and lowest in muscle (P≤0.001), whereas IGF2 methylation was lowest in subcutaneous adipose tissue as compared with visceral adipose tissue and muscle (P≤0.04). Expression of PPARGC1A and IGF2 was highest in muscle and lowest in subcutaneous adipose tissue (P≤0.001) and PPARGC1A expression was conversely correlated with DNA methylation in skeletal muscle (r=-0.54...

DNA methylation in the rectal mucosa is associated with crypt proliferation and fecal short-chain fatty acids

Worthley, D.; Whitehall, V.; Le Leu, R.; Irahara, N.; Buttenshaw, R.; Mallitt, K.A.; Greco, S.; Ramsnes, I.; Winter, J.; Hu, Y.; Ogino, S.; Young, G.; Leggett, B.
Fonte: Springer Publicador: Springer
Tipo: Artigo de Revista Científica
Publicado em //2011 Português
Relevância na Pesquisa
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BACKGROUND DNA methylation varies throughout the normal colorectal mucosa and DNA methylation in normal appearing mucosa is associated with serrated and adenomatous neoplasia elsewhere within the colorectum. AIMS The purpose of this study was to measure luminal chemistry, rectal proliferation and mucosal DNA methylation and thus determine whether regional and pathological patterns of DNA methylation could be explained by luminal and epithelial factors. METHODS Twenty healthy subjects had normal rectal mucosal biopsies and a 24-h fecal collection. Rectal biopsies were analyzed for epithelial proliferation (Ki67 immunohistochemistry) and DNA methylation at 17 different markers, including “type A” markers (ESR1, GATA5, HIC1, HPP1, SFRP1), “type C” markers (MGMT, MLH1, CDKN2A, MINT1, MINT2, MINT31, IGF2, CACNA1G, NEUROG1, SOCS1, RUNX3), and LINE-1. Fecal analysis included short-chain fatty acids (SCFA), pH and ammonia. Mean “type A” and CIMP panel methylation Z-scores were calculated. RESULTS Rectal proliferation was significantly correlated with methylation at ESR1 (ρ = 0.81, P = 0.003) and GATA5 (ρ = 0.78, P = 0.012). LINE-1 methylation was 71.7 vs. 74.1%, in patients with “low” and “high” fecal total SCFA concentration (defined by the median value)...

Chronic Inflammation of the Oral Cavity and Squamous Cell DNA Methylation; Chronische Entzündung der Mundhöhle und DNA Methylierung des Plattenepithels

Gasche, Jacqueline Anke Katja
Fonte: Universidade de Tubinga Publicador: Universidade de Tubinga
Tipo: Dissertação
Português
Relevância na Pesquisa
36.760122%
Introduction: Worldwide oral squamous cell carcinoma (OSCC) accounts for more than 100,000 deaths per year. Chronic inflammation is considered one of its risk factors. DNA methylation may regulate gene expression and contribute to OSCC tumorigenesis. This project investigated whether chronic inflammation alters DNA methylation and expression of cancer-associated genes in OSCC. Methods: Several in-vitro models of chronic inflammation were established. Co-culture with activated neutrophils, oxidative or nitrosative stress, and interleukin (IL)-6 were tested for methylation pattern changes in OSCC cell lines. The methylation status was analyzed by pyrosequencing, methylation-specific multiplex ligation-dependent probe amplification, and sensitive melting analysis after methylation-specific PCR. Gene expression was investigated by qRT-PCR. DNA methyltransferase (DNMT)-1 and DNMT3b expression was assessed by western blot. Results: All three inflammatory models induced LINE-1 demethylation which can be interpreted as global DNA hypomethylation. CpG promoter methylation changes were observed in several tumor suppressor genes upon IL-6 treatment. In detail, CHFR, GATA5, and PAX6 altered gene expression upon change in CpG methylation. The western blot did not detect any increase in DNMT1 and DNMT3b. Conclusion: Our results indicate that chronic inflammation contributes to tumorigenesis in-vitro by altering gene methylation and consequently their expression independent of DNMT protein expression. Epigenetic gene silencing may be the consequence of chronic inflammation in the oral cavity. Both methylation and inflammation are suitable targets for developing novel preventive measures.; Einleitung: Das Plattenepithelkarzinom der Mundhöhle fordert weltweit 100.000 Todesfälle pro Jahr. Chronische Entzündung gilt als einer der Risikofaktoren. Als epigenetischer Prozess reguliert DNA Methylierung vermutlich die Genexpression und ist damit an der Tumorentstehung beteiligt. Dieses Projekt erforscht...

Profile analysis and prediction of tissue-specific CpG island methylation classes

Previti, Christopher; Harari, Oscar; Zwir, Igor; Val, Coral del
Fonte: Biomed Central Publicador: Biomed Central
Tipo: Artigo de Revista Científica
Português
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Background The computational prediction of DNA methylation has become an important topic in the recent years due to its role in the epigenetic control of normal and cancer-related processes. While previous prediction approaches focused merely on differences between methylated and unmethylated DNA sequences, recent experimental results have shown the presence of much more complex patterns of methylation across tissues and time in the human genome. These patterns are only partially described by a binary model of DNA methylation. In this work we propose a novel approach, based on profile analysis of tissue-specific methylation that uncovers significant differences in the sequences of CpG islands (CGIs) that predispose them to a tissue- specific methylation pattern.; Results We defined CGI methylation profiles that separate not only between constitutively methylated and unmethylated CGIs, but also identify CGIs showing a differential degree of methylation across tissues and cell-types or a lack of methylation exclusively in sperm. These profiles are clearly distinguished by a number of CGI attributes including their evolutionary conservation, their significance, as well as the evolutionary evidence of prior methylation. Additionally...

Methylation of CLDN6, FBN2, RBP1, RBP4, TFP12, and TMEFF2 in esophageal squamous cell carcinoma

Tsunoda, S.; Smith, E.; De Young, N.; Wang, X.; Tian, Z.Q.; Liu, J.; Jamieson, G.; Drew, P.
Fonte: Professor D A Spandidos Publicador: Professor D A Spandidos
Tipo: Artigo de Revista Científica
Publicado em //2009 Português
Relevância na Pesquisa
36.749497%
In the development and progression of cancer, tumor suppressor genes may be silenced by mechanisms such as methylation. Thus the discovery of new genes silenced by methylation may uncover new tumor suppressor genes, and improve our understanding of cancer biology. In this study we investigated the methylation of 19 genes in esophageal squamous cell carcinoma. Methylation was measured in 10 of these genes in esophageal squamous cell carcinoma cell lines: CDH13, CLDN6, C16orf62, FBN2, FNBP1, ID4, RBP1, RBP4, TFPI2 and TMEFF2. To determine if there was a correlation between DNA methylation and gene silencing, each cell line was cultured with or without the demethylating drug 5-aza-2'-deoxycytidine (aza-dC). For 6 genes (CLDN6, FBN2, RBP1, RBP4, TFPI2 and TMEFF2) there was an association between reduction of methylation and increase in mRNA expression in the demethylated cell lines. The frequency of the methylation of these 6 genes in esophageal squamous cell carcinoma resection specimens was also investigated. All 6 genes showed more frequent methylation in the tumor than the matched proximal resection margin of uninvolved esophagus. There was a significant difference in the frequency of methylation and in the extent of the methylation between the cancer and the margin tissues for CLDN6...

Quantitation of DNA methylation by melt curve analysis

Smith, E.; Jones, M.; Drew, P.
Fonte: BioMed Central Publicador: BioMed Central
Tipo: Artigo de Revista Científica
Publicado em //2009 Português
Relevância na Pesquisa
36.760122%
Background: Methylation of DNA is a common mechanism for silencing genes, and aberrant methylation is increasingly being implicated in many diseases such as cancer. There is a need for robust, inexpensive methods to quantitate methylation across a region containing a number of CpGs. We describe and validate a rapid, in-tube method to quantitate DNA methylation using the melt data obtained following amplification of bisulfite modified DNA in a real-time thermocycler. Methods: We first describe a mathematical method to normalise the raw fluorescence data generated by heating the amplified bisulfite modified DNA. From this normalised data the temperatures at which melting begins and finishes can be calculated, which reflect the less and more methylated template molecules present respectively. Also the T50, the temperature at which half the amplicons are melted, which represents the summative methylation of all the CpGs in the template mixture, can be calculated. These parameters describe the methylation characteristics of the region amplified in the original sample. Results: For validation we used synthesized oligonucleotides and DNA from fresh cells and formalin fixed paraffin embedded tissue, each with known methylation. Using our quantitation we could distinguish between unmethylated...

The Influence of Body Mass Index on Global DNA Methylation Levels in Blood Leukocytes

Zwingerman, Nora
Fonte: Quens University Publicador: Quens University
Tipo: Tese de Doutorado
Português
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Introduction: Body Mass Index (BMI) is a relative measure of whether an individual’s weight is at a healthy level for their height. A higher BMI is associated with an increased risk of cancer and cardiovascular disease (CVD). However, the biologic mechanisms are not well understood. One proposed mechanism is through changes in global DNA methylation levels, particularly global DNA hypomethylation. Global DNA hypomethylation refers to lower levels of DNA methylation across the entire genome and hypermethylation refers to higher levels of DNA methylation across the entire genome. Changes in methylation levels can affect gene expression, genomic stability, and chromosomal structure. The methylation status of repetitive sequences in the DNA, such as LINE-1, is commonly used to represent a surrogate measure of global DNA methylation levels. Objectives: 1. Quantify and describe LINE-1 DNA methylation in leukocytes in a large sample of healthy volunteers. 2. Examine the relationship between BMI and LINE-1 DNA methylation levels. 3. Assess if sex is an effect modifier of the relationship between BMI and LINE-1 DNA methylation levels. Methods: A nested cross-sectional study was composed of 502 healthy volunteers between the ages of 20 and 50. Subjects completed a study questionnaire and provided blood samples for laboratory analyses. For each subject...

24-Hour Rhythms of DNA Methylation and Their Relation with Rhythms of RNA Expression in the Human Dorsolateral Prefrontal Cortex

Lim, Andrew S. P.; Srivastava, Gyan P.; Yu, Lei; Chibnik, Lori B.; Xu, Jishu; Buchman, Aron S.; Schneider, Julie A.; Myers, Amanda J.; Bennett, David A.; De Jager, Philip L.
Fonte: Public Library of Science Publicador: Public Library of Science
Tipo: Artigo de Revista Científica
Português
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Circadian rhythms modulate the biology of many human tissues, including brain tissues, and are driven by a near 24-hour transcriptional feedback loop. These rhythms are paralleled by 24-hour rhythms of large portions of the transcriptome. The role of dynamic DNA methylation in influencing these rhythms is uncertain. While recent work in Neurospora suggests that dynamic site-specific circadian rhythms of DNA methylation may play a role in modulating the fungal molecular clock, such rhythms and their relationship to RNA expression have not, to our knowledge, been elucidated in mammalian tissues, including human brain tissues. We hypothesized that 24-hour rhythms of DNA methylation exist in the human brain, and play a role in driving 24-hour rhythms of RNA expression. We analyzed DNA methylation levels in post-mortem human dorsolateral prefrontal cortex samples from 738 subjects. We assessed for 24-hour rhythmicity of 420,132 DNA methylation sites throughout the genome by considering methylation levels as a function of clock time of death and parameterizing these data using cosine functions. We determined global statistical significance by permutation. We then related rhythms of DNA methylation with rhythms of RNA expression determined by RNA sequencing. We found evidence of significant 24-hour rhythmicity of DNA methylation. Regions near transcription start sites were enriched for high-amplitude rhythmic DNA methylation sites...

Correlation of MGMT promoter methylation status with gene and protein expression levels in glioblastoma

Uno, Miyuki; Oba-Shinjo, Sueli Mieko; Camargo, Anamaria Aranha; Moura, Ricardo Pereira; Aguiar, Paulo Henrique de; Cabrera, Hector Navarro; Begnami, Marcos; Rosemberg, Sérgio; Teixeira, Manoel Jacobsen; Marie, Suely Kazue Nagahashi
Fonte: Universidade de São Paulo. Faculdade de Medicina Publicador: Universidade de São Paulo. Faculdade de Medicina
Tipo: info:eu-repo/semantics/article; info:eu-repo/semantics/publishedVersion; ; ; ; ; ; Formato: application/pdf
Publicado em 01/01/2011 Português
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OBJECTIVES: 1) To correlate the methylation status of the O6-methylguanine-DNA-methyltransferase (MGMT) promoter to its gene and protein expression levels in glioblastoma and 2) to determine the most reliable method for using MGMT to predict the response to adjuvant therapy in patients with glioblastoma. BACKGROUND: The MGMT gene is epigenetically silenced by promoter hypermethylation in gliomas, and this modification has emerged as a relevant predictor of therapeutic response. METHODS: Fifty-one cases of glioblastoma were analyzed for MGMT promoter methylation by methylation-specific PCR and pyrosequencing, gene expression by real time polymerase chain reaction, and protein expression by immunohistochemistry. RESULTS: MGMT promoter methylation was found in 43.1% of glioblastoma by methylation-specific PCR and 38.8% by pyrosequencing. A low level of MGMT gene expression was correlated with positive MGMT promoter methylation (p = 0.001). However, no correlation was found between promoter methylation and MGMT protein expression (p = 0.297). The mean survival time of glioblastoma patients submitted to adjuvant therapy was significantly higher among patients with MGMT promoter methylation (log rank = 0.025 by methylation-specific PCR and 0.004 by pyrosequencing)...