Gender-specific postnatal demethylation and establishment of epigenetic memory

In this study, Reizel et al. demonstrate that gender-specific demethylation occurs via a postnatal pathway found exclusively in the male liver. The secretion of testosterone at the time of sexual maturity regulates this process, providing new insights into how the environment impacts epigenetic regulation of genes in fully differentiated tissue.

[1]  H. Teede,et al.  Polycystic ovary syndrome , 2016, Nature Reviews Disease Primers.

[2]  J. Stender,et al.  Environment Drives Selection and Function of Enhancers Controlling Tissue-Specific Macrophage Identities , 2015, Cell.

[3]  I. Amit,et al.  Tissue-Resident Macrophage Enhancer Landscapes Are Shaped by the Local Microenvironment , 2014, Cell.

[4]  V. Beneš,et al.  Dynamic DNA methylation orchestrates cardiomyocyte development, maturation and disease , 2014, Nature Communications.

[5]  Jonathan Schug,et al.  DNA methylation is required for the control of stem cell differentiation in the small intestine , 2014, Genes & development.

[6]  G. Hon,et al.  Adult tissue methylomes harbor epigenetic memory at embryonic enhancers , 2013, Nature Genetics.

[7]  Wei Li,et al.  Sexually Dimorphic Genome-Wide Binding of Retinoid X Receptor alpha (RXRα) Determines Male-Female Differences in the Expression of Hepatic Lipid Processing Genes in Mice , 2013, PloS one.

[8]  A. Gnirke,et al.  Charting a dynamic DNA methylation landscape of the human genome , 2013, Nature.

[9]  David J. Waxman,et al.  Genome-Wide Analysis of Chromatin States Reveals Distinct Mechanisms of Sex-Dependent Gene Regulation in Male and Female Mouse Liver , 2013, Molecular and Cellular Biology.

[10]  K. Shiota,et al.  Age- and sex-dependent DNA hypomethylation controlled by growth hormone in mouse liver , 2013, Mechanisms of Ageing and Development.

[11]  David Haussler,et al.  ENCODE Data in the UCSC Genome Browser: year 5 update , 2012, Nucleic Acids Res..

[12]  Cole Trapnell,et al.  TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions , 2013, Genome Biology.

[13]  Francine E. Garrett-Bakelman,et al.  methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles , 2012, Genome Biology.

[14]  Zachary D. Smith,et al.  Gel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling , 2012, Genome Biology.

[15]  P. Laird,et al.  Bis-SNP: Combined DNA methylation and SNP calling for Bisulfite-seq data , 2012, Genome Biology.

[16]  Howard Cedar,et al.  Programming of DNA methylation patterns. , 2012, Annual review of biochemistry.

[17]  Vijay K. Tiwari,et al.  DNA-binding factors shape the mouse methylome at distal regulatory regions , 2011, Nature.

[18]  D. Waxman,et al.  Dynamic, Sex-Differential STAT5 and BCL6 Binding to Sex-Biased, Growth Hormone-Regulated Genes in Adult Mouse Liver , 2011, Molecular and Cellular Biology.

[19]  U. Panzer,et al.  CXCR3 Deficiency Exacerbates Liver Disease and Abrogates Tolerance in a Mouse Model of Immune-Mediated Hepatitis , 2011, The Journal of Immunology.

[20]  Felix Krueger,et al.  Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications , 2011, Bioinform..

[21]  S. Okamoto,et al.  DNA methylation of intronic enhancers directs tissue-specific expression of steroidogenic factor 1/adrenal 4 binding protein (SF-1/Ad4BP). , 2011, Endocrinology.

[22]  T. Mikkelsen,et al.  The NIH Roadmap Epigenomics Mapping Consortium , 2010, Nature Biotechnology.

[23]  Ernest Fraenkel,et al.  Unbiased, Genome-Wide In Vivo Mapping of Transcriptional Regulatory Elements Reveals Sex Differences in Chromatin Structure Associated with Sex-Specific Liver Gene Expression , 2010, Molecular and Cellular Biology.

[24]  C. Glass,et al.  Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. , 2010, Molecular cell.

[25]  Cole Trapnell,et al.  Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. , 2010, Nature biotechnology.

[26]  Cory Y. McLean,et al.  GREAT improves functional interpretation of cis-regulatory regions , 2010, Nature Biotechnology.

[27]  P. Fahey,et al.  Maternal Ethanol Consumption Alters the Epigenotype and the Phenotype of Offspring in a Mouse Model , 2010, PLoS genetics.

[28]  D. Waxman,et al.  Dynamic in vivo binding of STAT5 to growth hormone-regulated genes in intact rat liver. Sex-specific binding at low- but not high-affinity STAT5 sites. , 2009, Molecular endocrinology.

[29]  D. Waxman,et al.  Sex Differences in the Expression of Hepatic Drug Metabolizing Enzymes , 2009, Molecular Pharmacology.

[30]  Wei Li,et al.  BSMAP: whole genome bisulfite sequence MAPping program , 2009, BMC Bioinformatics.

[31]  H. Cedar,et al.  De novo DNA methylation promoted by G9a prevents reprogramming of embryonically silenced genes , 2008, Nature Structural &Molecular Biology.

[32]  D. Waxman,et al.  Sex-specific early growth hormone response genes in rat liver. , 2008, Molecular endocrinology.

[33]  Nathaniel D. Heintzman,et al.  Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome , 2007, Nature Genetics.

[34]  D. Waxman,et al.  Growth hormone regulation of sex-dependent liver gene expression. , 2006, Molecular endocrinology.

[35]  A. Arnold,et al.  Tissue-specific expression and regulation of sexually dimorphic genes in mice. , 2006, Genome research.

[36]  Hidetoshi Shimodaira,et al.  Pvclust: an R package for assessing the uncertainty in hierarchical clustering , 2006, Bioinform..

[37]  R. Matusik,et al.  Comparison of the growth‐promoting effects of testosterone and 7‐α‐methyl‐19‐nor‐testosterone (MENT) on the prostate and levator ani muscle of LPB‐tag transgenic mice , 2006, The Prostate.

[38]  H. Cedar,et al.  G9a-mediated irreversible epigenetic inactivation of Oct-3/4 during early embryogenesis , 2006, Nature Cell Biology.

[39]  M. Meaney,et al.  Maternal care as a model for experience-dependent chromatin plasticity? , 2005, Trends in Neurosciences.

[40]  Michael J Meaney,et al.  Epigenetic programming by maternal behavior , 2004, Nature Neuroscience.

[41]  A. Bird,et al.  Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals , 2003, Nature Genetics.

[42]  W. J. Kent,et al.  BLAT--the BLAST-like alignment tool. , 2002, Genome research.

[43]  Howard Cedar,et al.  A role for nuclear NF–κB in B–cell–specific demethylation of the Igκ locus , 1996, Nature Genetics.

[44]  M. Groudine,et al.  Regulation of amyloid A gene expression in cultured cells , 1988, Molecular and cellular biology.

[45]  B. Ginsburg,et al.  Developmental changes in serum luteinizing hormone, follicle stimulating hormone and androgen levels in males of two inbred mouse strains. , 1977, Endocrinology.