Epigenetic memory via concordant DNA methylation is inversely correlated to developmental potential of mammalian cells.

PLoS Genet
Authors
Keywords
Abstract

In storing and transmitting epigenetic information, organisms must balance the need to maintain information about past conditions with the capacity to respond to information in their current and future environments. Some of this information is encoded by DNA methylation, which can be transmitted with variable fidelity from parent to daughter strand. High fidelity confers strong pattern matching between the strands of individual DNA molecules and thus pattern stability over rounds of DNA replication; lower fidelity confers reduced pattern matching, and thus greater flexibility. Here, we present a new conceptual framework, Ratio of Concordance Preference (RCP), that uses double-stranded methylation data to quantify the flexibility and stability of the system that gave rise to a given set of patterns. We find that differentiated mammalian cells operate with high DNA methylation stability, consistent with earlier reports. Stem cells in culture and in embryos, in contrast, operate with reduced, albeit significant, methylation stability. We conclude that preference for concordant DNA methylation is a consistent mode of information transfer, and thus provides epigenetic stability across cell divisions, even in stem cells and those undergoing developmental transitions. Ó³»­´«Ã½er application of our RCP framework will permit comparison of epigenetic-information systems across cells, developmental stages, and organisms whose methylation machineries differ substantially or are not yet well understood.

Year of Publication
2017
Journal
PLoS Genet
Volume
13
Issue
11
Pages
e1007060
Date Published
2017 Nov
ISSN
1553-7404
DOI
10.1371/journal.pgen.1007060
PubMed ID
29107996
PubMed Central ID
PMC5690686
Links
Grant list
DP5 OD019820 / OD / NIH HHS / United States
P30 HD002274 / HD / NICHD NIH HHS / United States
R01 GM077464 / GM / NIGMS NIH HHS / United States