title: Epigenetic memory in induced pluripotent stem cells.
abstract: Somatic cell nuclear transfer and transcription-factor-based reprogramming revert adult cells to an embryonic state, and yield pluripotent stem cells that can generate all tissues. Through different mechanisms and kinetics, these two reprogramming methods reset genomic methylation, an epigenetic modification of DNA that influences gene expression, leading us to hypothesize that the resulting pluripotent stem cells might have different properties. Here we observe that low-passage induced pluripotent stem cells (iPSCs) derived by factor-based reprogramming of adult murine tissues harbour residual DNA methylation signatures characteristic of their somatic tissue of origin, which favours their differentiation along lineages related to the donor cell, while restricting alternative cell fates. Such an 'epigenetic memory' of the donor tissue could be reset by differentiation and serial reprogramming, or by treatment of iPSCs with chromatin-modifying drugs. In contrast, the differentiation and methylation of nuclear-transfer-derived pluripotent stem cells were more similar to classical embryonic stem cells than were iPSCs. Our data indicate that nuclear transfer is more effective at establishing the ground state of pluripotency than factor-based reprogramming, which can leave an epigenetic memory of the tissue of origin that may influence efforts at directed differentiation for applications in disease modelling or treatment.
authors.affiliation: Stem Cell Transplantation Program, Division of Pediatric Hematology/Oncology, Manton Center for Orphan Disease Research, Howard Hughes Medical Institute, Children's Hospital Boston and Dana Farber Cancer Institute, Boston, Massachusetts 02115, USA
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authors.lastname: Kim
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authors.lastname: Doi
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authors.initials: B
authors.lastname: Wen
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authors.initials: K
authors.lastname: Ng
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authors.lastname: Zhao
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authors.lastname: Cahan
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authors.lastname: Kim
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authors.lastname: Aryee
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authors.lastname: Ji
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authors.lastname: Ehrlich
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authors.lastname: Yabuuchi
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authors.lastname: Takeuchi
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authors.lastname: Cunniff
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authors.lastname: Hongguang
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authors.lastname: McKinney-Freeman
authors.forename: O
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authors.lastname: Naveiras
authors.forename: T J
authors.initials: TJ
authors.lastname: Yoon
authors.forename: R A
authors.initials: RA
authors.lastname: Irizarry
authors.forename: N
authors.initials: N
authors.lastname: Jung
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authors.initials: J
authors.lastname: Seita
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authors.initials: J
authors.lastname: Hanna
authors.forename: P
authors.initials: P
authors.lastname: Murakami
authors.forename: R
authors.initials: R
authors.lastname: Jaenisch
authors.forename: R
authors.initials: R
authors.lastname: Weissleder
authors.forename: S H
authors.initials: SH
authors.lastname: Orkin
authors.forename: I L
authors.initials: IL
authors.lastname: Weissman
authors.forename: A P
authors.initials: AP
authors.lastname: Feinberg
authors.forename: G Q
authors.initials: GQ
authors.lastname: Daley
mesh_terms: D000818:Animals; D002454:Cell Differentiation / Q000235:genetics; D019070:Cell Lineage / Q000235:genetics; D065150:Cellular Reprogramming / Q000235:genetics; D019175:DNA Methylation / Q000235:genetics; D053595:Embryonic Stem Cells / Q000166:cytology / Q000378:metabolism; D044127:Epigenesis, Genetic; D016678:Genome / Q000235:genetics; D006412:Hematopoietic Stem Cells / Q000166:cytology / Q000378:metabolism; D057026:Induced Pluripotent Stem Cells / Q000166:cytology* / Q000378:metabolism*; D051379:Mice; D008810:Mice, Inbred C57BL; D008808:Mice, Inbred CBA; D053652:Nuclear Transfer Techniques; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism
chemical_list: D014157:Transcription Factors