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

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Title: Epigenetic memory via concordant DNA methylation is inversely correlated to developmental potential of mammalian cells.
Authors: Minseung Choi, Diane P Genereux, Jamie Goodson, Haneen Al-Azzawi, Shannon Q Allain, Noah Simon, Stan Palasek, Carol B Ware, Chris Cavanaugh, Daniel G Miller, Winslow C Johnson, Kevin D Sinclair, Reinhard Stöger, Charles D Laird
Source: PLoS Genetics, Vol 13, Iss 11, p e1007060 (2017)
Publisher Information: Public Library of Science (PLoS), 2017.
Publication Year: 2017
Collection: LCC:Genetics
Subject Terms: Genetics, QH426-470
More Details: 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. Broader 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.
Document Type: article
File Description: electronic resource
Language: English
ISSN: 1553-7390
1553-7404
Relation: http://europepmc.org/articles/PMC5690686?pdf=render; https://doaj.org/toc/1553-7390; https://doaj.org/toc/1553-7404
DOI: 10.1371/journal.pgen.1007060
Access URL: https://doaj.org/article/b967721753764a2fae9f6e07de274387
Accession Number: edsdoj.b967721753764a2fae9f6e07de274387
Database: Directory of Open Access Journals
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  Data: PLoS Genetics, Vol 13, Iss 11, p e1007060 (2017)
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  Data: 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. Broader 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.
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