scholarly journals The Rhox Homeobox Gene Cluster Is Imprinted and Selectively Targeted for Regulation by Histone H1 and DNA Methylation

2011 ◽  
Vol 31 (6) ◽  
pp. 1275-1287 ◽  
Author(s):  
J. A. MacLean ◽  
A. Bettegowda ◽  
B. J. Kim ◽  
C.-H. Lou ◽  
S.-M. Yang ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Gene Cluster ◽  
Homeobox Gene ◽  
Histone H1

scholarly journals DNA methylation regulates long-range gene silencing of an X-linked homeobox gene cluster in a lineage-specific manner

2006 ◽  
Vol 20 (24) ◽  
pp. 3382-3394 ◽  
Author(s):  
M. Oda ◽  
A. Yamagiwa ◽  
S. Yamamoto ◽  
T. Nakayama ◽  
A. Tsumura ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Gene Silencing ◽  
Gene Cluster ◽  
Long Range ◽  
Homeobox Gene ◽  
Specific Manner

scholarly journals The histone variant H2A.W and linker histone H1 co-regulate heterochromatin accessibility and DNA methylation

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Pierre Bourguet ◽  
Colette L. Picard ◽  
Ramesh Yelagandula ◽  
Thierry Pélissier ◽  
Zdravko J. Lorković ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Histone H1 ◽  
Epigenetic Modifications ◽  
Flowering Plants ◽  
Linker Histone ◽  
Histone Variant ◽  
Null Mutant ◽  
Chromatin Compaction ◽  
Linker Histone H1

AbstractIn flowering plants, heterochromatin is demarcated by the histone variant H2A.W, elevated levels of the linker histone H1, and specific epigenetic modifications, such as high levels of DNA methylation at both CG and non-CG sites. How H2A.W regulates heterochromatin organization and interacts with other heterochromatic features is unclear. Here, we create a h2a.w null mutant via CRISPR-Cas9, h2a.w-2, to analyze the in vivo function of H2A.W. We find that H2A.W antagonizes deposition of H1 at heterochromatin and that non-CG methylation and accessibility are moderately decreased in h2a.w-2 heterochromatin. Compared to H1 loss alone, combined loss of H1 and H2A.W greatly increases accessibility and facilitates non-CG DNA methylation in heterochromatin, suggesting co-regulation of heterochromatic features by H2A.W and H1. Our results suggest that H2A.W helps maintain optimal heterochromatin accessibility and DNA methylation by promoting chromatin compaction together with H1, while also inhibiting excessive H1 incorporation.

scholarly journals An Epigenetic Switch Involving Overlapping Fur and DNA Methylation Optimizes Expression of a Type VI Secretion Gene Cluster

PLoS Genetics ◽  
2011 ◽  
Vol 7 (7) ◽  
pp. e1002205 ◽  
Author(s):  
Yannick R. Brunet ◽  
Christophe S. Bernard ◽  
Marthe Gavioli ◽  
Roland Lloubès ◽  
Eric Cascales
Keyword(s):  
Dna Methylation ◽  
Gene Cluster ◽  
Epigenetic Switch ◽  
Type Vi Secretion

scholarly journals Histone H1 prevents non-CG methylation-mediated small RNA biogenesis in Arabidopsis heterochromatin

2021 ◽  
Author(s):  
Jaemyung Choi ◽  
David Bruce Lyons ◽  
Daniel Zilberman
Keyword(s):  
Dna Methylation ◽  
Transposable Elements ◽  
Small Rna ◽  
Histone H3 ◽  
Histone H1 ◽  
Dna Methyltransferases ◽  
Flowering Plants ◽  
Genomic Sequences ◽  
Rna Molecules ◽  
Rna Biogenesis

Flowering plants utilize small RNA molecules to guide DNA methyltransferases to genomic sequences. This RNA-directed DNA methylation (RdDM) pathway preferentially targets euchromatic transposable elements. However, RdDM is thought to be recruited by methylation of histone H3 at lysine 9 (H3K9me), a hallmark of heterochromatin. How RdDM is targeted to euchromatin despite an affinity for H3K9me is unclear. Here we show that loss of histone H1 enhances heterochromatic RdDM, preferentially at nucleosome linker DNA. Surprisingly, this does not require SHH1, the RdDM component that binds H3K9me. Furthermore, H3K9me is dispensable for RdDM, as is CG DNA methylation. Instead, we find that non-CG methylation is specifically required for small RNA biogenesis, and without H1 small RNA production quantitatively expands to non-CG methylated loci. Our results demonstrate that H1 enforces the separation of euchromatic and heterochromatic DNA methylation pathways by excluding the small RNA-generating branch of RdDM from non-CG methylated heterochromatin.

scholarly journals Gene‐orientation‐dependent DNA methylation patterns in the mouse prolactin ( Prl ) family gene cluster locus

2010 ◽  
Vol 24 (S1) ◽  
Author(s):  
Koji Hayakawa ◽  
Naoko Hattori ◽  
Momo Nakanishi ◽  
Jun Ohgane ◽  
Satoshi Tanaka ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Gene Cluster ◽  
Gene Orientation ◽  
Family Gene ◽  
Methylation Patterns

scholarly journals Relationship between DNA Methylation States and Transcription of Individual Isoforms Encoded by the Protocadherin-α Gene Cluster

2008 ◽  
Vol 283 (18) ◽  
pp. 12064-12075 ◽  
Author(s):  
Masahumi Kawaguchi ◽  
Tomoko Toyama ◽  
Ryosuke Kaneko ◽  
Teruyoshi Hirayama ◽  
Yoshimi Kawamura ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Gene Cluster

scholarly journals The RHOX homeobox gene cluster is selectively expressed in human oocytes and male germ cells

2013 ◽  
Vol 28 (6) ◽  
pp. 1635-1646 ◽  
Author(s):  
H. W. Song ◽  
R. A. Anderson ◽  
R. A. Bayne ◽  
J. Gromoll ◽  
S. Shimasaki ◽  
...  
Keyword(s):  
Gene Cluster ◽  
Germ Cells ◽  
Homeobox Gene ◽  
Male Germ Cells ◽  
Human Oocytes

scholarly journals DNA methylation of insulin-like growth factor 2 and H19 cluster in cord blood and prenatal air pollution exposure to fine particulate matter

2020 ◽  
Vol 19 (1) ◽  
Author(s):  
Congrong Wang ◽  
Michelle Plusquin ◽  
Akram Ghantous ◽  
Zdenko Herceg ◽  
Rossella Alfano ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Particulate Matter ◽  
Growth Factor ◽  
Cord Blood ◽  
Gene Cluster ◽  
Methylation Level ◽  
Fine Particulate Matter ◽  
Methylation Status ◽  
Insulin Like Growth Factor ◽  
Fine Particulate

Abstract Background The IGF2 (insulin-like growth factor 2) and H19 gene cluster plays an important role during pregnancy as it promotes both foetal and placental growth. We investigated the association between cord blood DNA methylation status of the IGF2/H19 gene cluster and maternal fine particulate matter exposure during fetal life. To the best of our knowledge, this is the first study investigating the association between prenatal PM2.5 exposure and newborn DNA methylation of the IGF2/H19. Methods Cord blood DNA methylation status of IGF2/H19 cluster was measured in 189 mother-newborn pairs from the ENVIRONAGE birth cohort (Flanders, Belgium). We assessed the sex-specific association between residential PM2.5 exposure during pregnancy and the methylation level of CpG loci mapping to the IGF2/H19 cluster, and identified prenatal vulnerability by investigating susceptible time windows of exposure. We also addressed the biological functionality of DNA methylation level in the gene cluster. Results Prenatal PM2.5 exposure was found to have genetic region-specific significant association with IGF2 and H19 during specific gestational weeks. The association was found to be sex-specific in both gene regions. Functionality of the DNA methylation was annotated by the association to fetal growth and cellular pathways. Conclusions The results of our study provided evidence that prenatal PM2.5 exposure is associated with DNA methylation in newborns’ IGF2/H19. The consequences within the context of fetal development of future phenotyping should be addressed.

The Caenorhabditis elegans homeobox gene cluster

1993 ◽  
Vol 3 (4) ◽  
pp. 615-620 ◽  
Author(s):  
Thomas R Bürglin ◽  
Gary Ruvkun
Keyword(s):  
Caenorhabditis Elegans ◽  
Gene Cluster ◽  
Homeobox Gene
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