Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

By Assaf Zemach, Ivy E. McDaniel, Pedro Silva, Daniel Zilberman. Science, 2010

1,669 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/dad62b1626c53c569f384497dc6b2c93ae79ff60

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In Molecular Biology

Citations in the corpus

The nucleosome remodeler DDM1 allows DNA methyltransferases to access H1-containing heterochromatin (2013, background): “DDM1 Mediates Gene Body DNA Methylation Plant genes, including those with presumed or demonstrated biological functions, can have methylation patterns that resemble TEs (You et al., 2012; Zemach et al., 2010a) and may therefore be regulated more like TEs than conventional genes.”
The Polycomb Complex PRC2 and its Mark in Life (2011, background): “, given the evolutionarily conserved exclusivity shown by H2Az and DNA methylatio”
Gene Body Methylation can alter Gene Expression and is a Therapeutic Target in Cancer (2014, background): “The function of gene body DNAmethylation is poorly understood, although several recent studies have begun to investigate the potential for how gene body DNA methylation affects gene expression (Kulis et al., 2012; Lister et al., 2009; Maunakea et al., 2010; Varley et al., 2013).”
Conservation and divergence of methylation patterning in plants and animals (2010, background): “(39), which examined additional species, also supports the conservation of gene body methylation.”
The Honey Bee Epigenomes: Differential Methylation of Brain DNA in Queens and Workers (2010, methodology): “The lack of methylation in ALUs and transposons has also been reported in a recent study performed on DNA extracted from a worker’s whole body [5].”
DNA methylation: superior or subordinate in the epigenetic hierarchy? (2011, background): “Promoter methylation is inversely correlated with gene transcription, whereas gene body methylation displays a roughly parabolic curve with transcription, showing that the most methylated genes are at around the 70th transcription percentile.(89) In human B cells, 17.”
The Patterns and Causes of Variation in Plant Nucleotide Substitution Rates (2011, background): “For example, site effects in nuclear genes have been characterized in only a couple of cases, and even known contributors to site variation, such as DNA methylation, have been described in only a small number of lineages (Feng et al. 2010, Zemach et al. 2010).”
High-resolution genome-wide DNA methylation maps of mouse primary female dermal fibroblasts and keratinocytes (2014, positive): “Methylated cytosines are prone to deamination and often are less conserved in the genome [6,51,52]; however, methylated CGs in exons showed more conservation than the unmethylated CGs in exons highlighting their potential importance [24].”
Neuronal activity modifies DNA methylation landscape in the adult brain (2011, background): “Although clustered 5-methylcytosines (5mCs) are well-established transcriptional repressors in gene silencing and inactivation of endogenous transposable element”
Abscisic Acid and Abiotic Stress Tolerance in Crop Plants (2016, background): “These studies demonstrate that certain ATP-binding cassette (ABC)-containing transporter proteins are important for ABA transport and responses.”
Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells (2011, background): “Recent whole-genome analyses have provided insights into the complexity of methylation patterns in plant and animal species (Farthing et al., 2008; Feng et al., 2010a; Lister et al., 2009; Meissner et al., 2008; Zemach et al., 2010).”
Epigenomic Analysis of Multi-lineage Differentiation of Human Embryonic Stem Cells (2013, neutral): “elegans) or varies considerably in its pattern relative to gene activity in invertebrates (Feng et al., 2010; Zemach et al., 2010).”
DNA methylation on N6-adenine in C. elegans (2015, neutral): “, 1982), prevention of cryptic transcription in intragenic regions (Zemach et al., 2010), and heterochromatin state transitions (Saksouk et al.”