Hydroxymethylation is uniquely distributed within term placenta, and is associated with gene expression.
Benjamin B. Green,E. Andres Houseman,Kevin C. Johnson,Dylan J. Guerin,David A. Armstrong,Brock C. Christensen,Carmen J. Marsit +6 more
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TLDR
The data suggest that dynamic cytosine regulation, associated with transcription, provides the most complete epigenomic landscape of the human placenta, and will be useful for future studies of the placental epigenome.Abstract:
The conversion of cytosine to 5-methylcystosine (5mC) is an important regulator of gene expression. 5mC may be enzymatically converted to 5-hydroxymethylcytosine (5hmC), with a potentially distinct...read more
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The Role of Epigenetics in Placental Development and the Etiology of Preeclampsia
TL;DR: The potential use of epigenetic marks circulating in the maternal blood flow as putative biomarkers able to prognosticate the onset of PE are explored, as well as classifying it according to its severity.
Journal ArticleDOI
Placental epigenetic clocks: estimating gestational age using placental DNA methylation levels
Yunsung Lee,Sanaa Choufani,Rosanna Weksberg,Samantha L. Wilson,Samantha L. Wilson,Victor Yuan,Victor Yuan,Amber Burt,Carmen J. Marsit,Ake T. Lu,Beate Ritz,Jon Bohlin,Håkon K. Gjessing,Håkon K. Gjessing,Jennifer R. Harris,Per Magnus,Alexandra M. Binder,Wendy P. Robinson,Wendy P. Robinson,Astanand Jugessur,Astanand Jugessur,Steve Horvath +21 more
TL;DR: It is shown that epigenetic clocks derived from cord blood or other tissues do not accurately estimate gestational age in placental samples, and placental clocks closely track fetal age during development and may have interesting applications.
Journal ArticleDOI
Association of 5-hydroxymethylation and 5-methylation of DNA cytosine with tissue-specific gene expression
V.K. Chaithanya Ponnaluri,Kenneth C. Ehrlich,Guoqiang Zhang,Michelle Lacey,Douglas Johnston,Sriharsa Pradhan,Melanie Ehrlich +6 more
TL;DR: Findings are consistent with the controversial hypothesis that intragenic DNA methylation can facilitate transcription and is not just a passive consequence of it and support varied roles for tissue-specific 5mC- or 5hmC-enrichment in suppressing inappropriate gene expression from cryptic or alternative promoters and in increasing the plasticity of gene expression required for development and rapid responses to tissue stress or damage.
Journal ArticleDOI
DNA methylation profiling of acute chorioamnionitis-associated placentas and fetal membranes: insights into epigenetic variation in spontaneous preterm births.
Chaini Konwar,E. Magda Price,Li Qing Wang,Samantha L. Wilson,Jefferson Terry,Wendy P. Robinson +5 more
TL;DR: The authors' results suggest that aCA-associated placentas showed altered DNAm signatures that were not observed in the absence of aCA, which is consistent with the activation of the innate immune response in the placenta and/or reflect increase in neutrophils as a response to inflammation.
Journal ArticleDOI
The epigenetic basis of hematopoietic stem cell aging
TL;DR: If molecular or pharmacological interventions could be discovered that rejuvenate aging HSCs, it could reduce the burden of age related immune system compromise as well as open up new opportunities for treatment of hematological disorders with regenerative therapy.
References
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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
Cole Trapnell,Cole Trapnell,Brian A. Williams,Geo Pertea,Ali Mortazavi,Gordon Kwan,Marijke J. van Baren,Steven L. Salzberg,Barbara J. Wold,Lior Pachter +9 more
TL;DR: The results suggest that Cufflinks can illuminate the substantial regulatory flexibility and complexity in even this well-studied model of muscle development and that it can improve transcriptome-based genome annotation.
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Daehwan Kim,Daehwan Kim,Geo Pertea,Cole Trapnell,Cole Trapnell,Harold Pimentel,Kelley Ryan Matthew,Steven L. Salzberg,Steven L. Salzberg +8 more
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Journal ArticleDOI
Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1
Mamta Tahiliani,Kian Peng Koh,Yinghua Shen,William A. Pastor,Hozefa S. Bandukwala,Yevgeny Brudno,Suneet Agarwal,Lakshminarayan M. Iyer,David R. Liu,L. Aravind,Anjana Rao +10 more
TL;DR: It is shown here that TET1, a fusion partner of the MLL gene in acute myeloid leukemia, is a 2-oxoglutarate (2OG)- and Fe(II)-dependent enzyme that catalyzes conversion of 5mC to 5-hydroxymethylcytosine (hmC) in cultured cells and in vitro.
Journal ArticleDOI
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
Shinsuke Ito,Li Shen,Qing Dai,Susan C. Wu,Leonard B. Collins,James A. Swenberg,Chuan He,Yi Zhang +7 more
TL;DR: This study raises the possibility that DNA demethylation may occur through Tet-catalyzed oxidation followed by decarboxylation, and identifies two previously unknown cytosine derivatives in genomic DNA as the products of Tet proteins.
Journal ArticleDOI
The Nuclear DNA Base 5-Hydroxymethylcytosine Is Present in Purkinje Neurons and the Brain
TL;DR: It is shown that, as well as 5mC in mammalian genomes, there are also significant amounts of 5-hydroxymethylcytosine (5hmC) in DNA of Purkinje neurons, which have large nuclei with apparently very little heterochromatin.
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