Plasmonic coupling-dependent SERS of gold nanoparticles anchored on methylated DNA and detection of global DNA methylation in SERS-based platforms

2015 ◽  
Vol 17 (11) ◽  
pp. 114022 ◽  
Author(s):  
Anh H Nguyen ◽  
Jong Uk Lee ◽  
Sang Jun Sim
Keyword(s):  
Dna Methylation ◽  
Gold Nanoparticles ◽  
Global Dna Methylation ◽  
Plasmonic Coupling ◽  
Methylated Dna

scholarly journals Paternal arbuscular mycorrhizal fungal status affects DNA methylation in seeds

2017 ◽  
Vol 13 (9) ◽  
pp. 20170407 ◽  
Author(s):  
Sandra Varga ◽  
Carl D. Soulsbury
Keyword(s):  
Dna Methylation ◽  
Mycorrhizal Fungi ◽  
Seed Mass ◽  
Arbuscular Mycorrhizal ◽  
Similar Proportion ◽  
Global Dna Methylation ◽  
Transgenerational Effects ◽  
Methylated Dna ◽  
Arbuscular Mycorrhizal Fungal ◽  
First Time

Most land plants grow in association with arbuscular mycorrhizal fungi (AMF) in their roots and these fungi can cause transgenerational effects on plants' offspring. These may be caused by changes in DNA methylation of the offspring. In this study, we compared the amount of global DNA methylation in seeds of the gynodioecious plant Geranium sylvaticum in relation to the gender and the AMF status of the parents producing the seeds. The amount of DNA methylated was positively related to seed mass. Seeds produced by females had a similar proportion of methylated DNA regardless of the AMF status of the father siring the seed. By contrast, seeds from hermaphrodites had higher DNA methylation when sired by AMF fathers. We show to the best of our knowledge for the first time, that the AMF status of fathers can affect DNA methylation in seeds and that these changes in DNA methylation are further dependent on the gender of the mother producing the seeds.

scholarly journals Sensitive detection of methylated DNA and methyltransferase activity based on the lighting up of FAM-labeled DNA quenched fluorescence by gold nanoparticles

RSC Advances ◽  
2019 ◽  
Vol 9 (21) ◽  
pp. 12063-12069 ◽  
Author(s):  
Mohammad Ali Karimi ◽  
Mehdi Dadmehr ◽  
Morteza Hosseini ◽  
Behnaz Korouzhdehi ◽  
Fatemeh Oroojalian
Keyword(s):  
Dna Methylation ◽  
Gold Nanoparticles ◽  
Sensitive Detection ◽  
Fluorescence Recovery ◽  
Methyltransferase Activity ◽  
Au Nps ◽  
Methylated Dna ◽  
Novel Method

A novel method for detection of DNA methylation based on fluorescence recovery of FAM labeled DNA/Au NPs was introduced.

Maternal intermittent fasting before mating alters hepatic DNA methylation in offspring

Epigenomics ◽  
2021 ◽  
Author(s):  
Wenzhen Yin ◽  
Yuan Liang ◽  
Lijun Sun ◽  
Yue Yin ◽  
Weizhen Zhang
Keyword(s):  
Dna Methylation ◽  
Bisulfite Sequencing ◽  
Intermittent Fasting ◽  
Global Dna Methylation ◽  
Impaired Glucose Metabolism ◽  
Methylated Dna ◽  
Glucose Levels ◽  
Blood Glucose Levels ◽  
Genome Wide ◽  
Genome Bisulfite Sequencing

Aim: Our aim was to explore how maternal intermittent fasting (IF) influences offspring metabolism. Materials & methods: A model of female C57BL/6J mice alternate-day feeding before mating was established and alteration of hepatic DNA methylation in offspring analyzed by whole genome bisulfite sequencing. Results: IF dams weighed less (p = 0.03) and had lower random blood glucose levels (p = 0.04). Lower birth weight (p = 0.0031) and impaired glucose metabolism were also observed in the offspring of the IF mice. The hepatic genome-wide DNA methylation maps showed a correlation between maternal IF and decreased hepatic global DNA methylation of adult offspring. In the offspring liver, 2869 differentially methylated DNA regions were altered. Conclusions: Our finding suggests that maternal IF before mating significantly alters hepatic DNA methylation in offspring.

scholarly journals A novel understanding of global DNA methylation in bobcat (Lynx rufus)

Genome ◽  
2020 ◽  
Vol 63 (2) ◽  
pp. 125-130
Author(s):  
Bonnie Cantrell ◽  
Sydney Friedman ◽  
Hannah Lachance ◽  
Chris Bernier ◽  
Brenda Murdoch ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Conservation Biology ◽  
Differential Methylation ◽  
Lynx Rufus ◽  
Global Dna Methylation ◽  
Epigenetic Mechanisms ◽  
Methylated Dna ◽  
Genome Wide ◽  
Weight Data ◽  
Insight Into

Epigenetic mechanisms may provide a novel prospective of bobcat (Lynx rufus) adaptation to habitat loss/fragmentation. Previous research has focused on bobcat behavior and genetics, but epigenetics has not been studied in bobcat. The aim of this study was to determine the quantity of global DNA methylation in the liver of 30 bobcats. DNA was extracted from liver samples obtained from the Vermont Fish and Wildlife Department. The percent of global DNA methylation was quantified and calculated using the MethylFlashTM Methylated DNA 5-mC Quantification Kit from Epigentek (Farmingdale, NY, USA). Age, sex, and carcass weight data were collected at sampling and analyzed with percent of global DNA methylation. Global DNA methylation was found to range from 0.46% to 2.76%. Age ranged from <1 to 12 years old and weight ranged from 3.18 to 13.61 kg. Further analysis of differential methylation may provide insight into novel means of bobcat conservation within different regions of Vermont. These results reinforce the need for genome-wide epigenetic studies in conservation biology.

scholarly journals Using Telomeric Length Measurements and Methylation to Understand The Karyotype Diversification of Ctenomys Minutus (A Small Fossorial Mammals)

2021 ◽  
Author(s):  
Cristina A. Matzenbacher ◽  
Juliana Silva ◽  
Ana Leticia H. Garcia ◽  
Rafael Kretschmer ◽  
Mónica Cappetta ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Genomic Instability ◽  
Chromosomal Instability ◽  
Diploid Number ◽  
Karyotype Evolution ◽  
Chromosomal Rearrangements ◽  
Global Dna Methylation ◽  
Methylated Dna ◽  
Significant Difference ◽  
Length Measurements

Abstract The genus Ctenomys has been widely used in karyotype evolution studies due to the variation in their diploid numbers (2n), which range from 2n = 10 to 2n = 70. Ctenomys minutus is characterized by intraspecific variation in diploid number (2n = 42, 46, 48, and 50), which makes it an interesting model to investigate the genomic instability mechanisms that have led to different cytotypes in this species. We aimed to contribute to the knowledge about telomeres’ role in chromosomal instability and global DNA methylation in the genome evolution of C. minutus. This study found that telomere length differs between cytotypes, but only for females (50a<46a,48a,42), although methylation was also higher, no significant difference was shown. It was also shown that young individuals, regardless of cytotype, had the longest telomere and the most methylated DNA, although only the last was statistically significant. Despite this, there is still much to be answered, although new cytotypes seem to have emerged within the distribution of parental cytotypes by the accumulation of different chromosomal rearrangements.

Global DNA Methylation is influenced by smoking behavior

2007 ◽  
Vol 40 (05) ◽  
Author(s):  
MAN Muschler ◽  
T Hillemacher ◽  
H Frieling ◽  
S Moskau ◽  
A Semmler ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Smoking Behavior ◽  
Global Dna Methylation

scholarly journals Oxidative damage, inflammation, genotoxic effect, and global DNA methylation caused by inhalation of formaldehyde and the purpose of melatonin

2020 ◽  
Vol 9 (6) ◽  
pp. 778-789
Author(s):  
Letícia Bernardini ◽  
Eduardo Barbosa ◽  
Mariele Feiffer Charão ◽  
Gabriela Goethel ◽  
Diana Muller ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Bone Marrow ◽  
Oxidative Damage ◽  
Bronchoalveolar Lavage ◽  
Bone Marrow Cells ◽  
Histological Study ◽  
Global Dna Methylation ◽  
Protective Effects ◽  
Global Methylation ◽  
Protein Thiols

Abstract Formaldehyde (FA) exposure has been proven to increase the risk of asthma and cancer. This study aimed to evaluate for 28 days the FA inhalation effects on oxidative stress, inflammation process, genotoxicity, and global DNA methylation in mice as well as to investigate the potential protective effects of melatonin. For that, analyses were performed on lung, liver and kidney tissues, blood, and bone marrow. Bronchoalveolar lavage was used to measure inflammatory parameters. Lipid peroxidation (TBARS), protein carbonyl (PCO), non-protein thiols (NPSH), catalase activity (CAT), comet assay, micronuclei (MN), and global methylation were determined. The exposure to 5-ppm FA resulted in oxidative damage to the lung, presenting a significant increase in TBARS and NO levels and a decrease in NPSH levels, besides an increase in inflammatory cells recruited for bronchoalveolar lavage. Likewise, in the liver tissue, the exposure to 5-ppm FA increased TBARS and PCO levels and decreased NPSH levels. In addition, FA significantly induced DNA damage, evidenced by the increase of % tail moment and MN frequency. The pretreatment of mice exposed to FA applying melatonin improved inflammatory and oxidative damage in lung and liver tissues and attenuated MN formation in bone marrow cells. The pulmonary histological study reinforced the results observed in biochemical parameters, demonstrating the potential beneficial role of melatonin. Therefore, our results demonstrated that FA exposure with repeated doses might induce oxidative damage, inflammatory, and genotoxic effects, and melatonin minimized the toxic effects caused by FA inhalation in mice.

Decreased expression of DNA methyltransferases in the testes of patients with non-obstructive azoospermia leads to changes in global DNA methylation levels

2019 ◽  
Vol 31 (8) ◽  
pp. 1386 ◽  
Author(s):  
Fatma Uysal ◽  
Gokhan Akkoyunlu ◽  
Saffet Ozturk
Keyword(s):  
Dna Methylation ◽  
Male Infertility ◽  
De Novo ◽  
Biological Effects ◽  
Testicular Biopsy ◽  
Round Spermatid ◽  
Dna Methyltransferases ◽  
Global Dna Methylation ◽  
Obstructive Azoospermia ◽  
Spermatogenic Cells

DNA methylation plays key roles in epigenetic regulation during mammalian spermatogenesis. DNA methyltransferases (DNMTs) function in de novo and maintenance methylation processes by adding a methyl group to the fifth carbon atom of the cytosine residues within cytosine–phosphate–guanine (CpG) and non-CpG dinucleotide sites. Azoospermia is one of the main causes of male infertility, and is classified as obstructive (OA) or non-obstructive (NOA) azoospermia based on histopathological characteristics. The molecular background of NOA is still largely unknown. DNA methylation performed by DNMTs is implicated in the transcriptional regulation of spermatogenesis-related genes. The aim of the present study was to evaluate the cellular localisation and expression levels of the DNMT1, DNMT3A and DNMT3B proteins, as well as global DNA methylation profiles in testicular biopsy samples obtained from men with various types of NOA, including hypospermatogenesis (hyposperm), round spermatid (RS) arrest, spermatocyte (SC) arrest and Sertoli cell-only (SCO) syndrome. In the testicular biopsy samples, DNMT1 expression and global DNA methylation levels decreased gradually from the hyposperm to SCO groups (P&lt;0.05). DNMT3A expression was significantly decreased in the RS arrest, SC arrest and SCO groups compared with the hyposperm group (P&lt;0.05). DNMT3B expression was significantly lower in the RS arrest and SCO groups than in the hyposperm group (P&lt;0.05). Although both DNMT1 and DNMT3A were localised in the cytoplasm and nucleus of the spermatogenic cells, staining for DNMT3B was more intensive in the nucleus of spermatogenic cells. In conclusion, the findings suggest that significant changes in DNMT expression and global DNA methylation levels in spermatogenic cells may contribute to development of male infertility in the NOA groups. Further studies are needed to determine the molecular biological effects of the altered DNMT expression and DNA methylation levels on development of male infertility.

scholarly journals The major histocompatibility complex class II promoter-binding protein RFX (NF-X) is a methylated DNA-binding protein.

1993 ◽  
Vol 13 (11) ◽  
pp. 6810-6818 ◽  
Author(s):  
X Y Zhang ◽  
N Jabrane-Ferrat ◽  
C K Asiedu ◽  
S Samac ◽  
B M Peterlin ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Dna Binding ◽  
Dna Sequences ◽  
Protein Complexes ◽  
Binding Protein ◽  
Dna Binding Protein ◽  
Class Ii ◽  
Major Histocompatibility ◽  
Methylated Dna ◽  
Mammalian Protein

A mammalian protein called RFX or NF-X binds to the X box (or X1 box) in the promoters of a number of major histocompatibility (MHC) class II genes. In this study, RFX was shown to have the same DNA-binding specificity as methylated DNA-binding protein (MDBP), and its own cDNA was found to contain a binding site for MDBP in the leader region. MDBP is a ubiquitous mammalian protein that binds to certain DNA sequences preferentially when they are CpG methylated and to other related sequences, like the X box, irrespective of DNA methylation. MDBP from HeLa and Raji cells formed DNA-protein complexes with X-box oligonucleotides that coelectrophoresed with those containing standard MDBP sites. Furthermore, MDBP and X-box oligonucleotides cross-competed for the formation of these DNA-protein complexes. DNA-protein complexes obtained with MDBP sites displayed the same partial supershifting with an antiserum directed to the N terminus of RFX seen for complexes containing an X-box oligonucleotide. Also, the in vitro-transcribed-translated product of a recombinant RFX cDNA bound specifically to MDBP ligands and displayed the DNA methylation-dependent binding of MDBP. RFX therefore contains MDBP activity and thereby also EF-C, EP, and MIF activities that are indistinguishable from MDBP and that bind to methylation-independent sites in the transcriptional enhancers of polyomavirus and hepatitis B virus and to an intron of c-myc.

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