Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells

Kitai Kim; Rui Zhao; Akiko Doi; Kitwa Ng; Juli Unternaehrer; Patrick Cahan; Huo Hongguang; Yuin Han Loh; Martin J. Aryee; M. William Lensch; Hu Li; James J. Collins; Andrew P. Feinberg; George Q. Daley

doi:10.1038/nbt.2052

Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells

Kitai Kim, Rui Zhao, Akiko Doi, Kitwa Ng, Juli Unternaehrer, Patrick Cahan, Huo Hongguang, Yuin Han Loh, Martin J. Aryee, M. William Lensch, Hu Li, James J. Collins, Andrew P. Feinberg, George Q. Daley

Pharmacology

Research output: Contribution to journal › Article › peer-review

396 Scopus citations

Abstract

We compared bona fide human induced pluripotent stem cells (iPSCs) derived from umbilical cord blood (CB) cells and neonatal keratinocytes (K). As a consequence of both incomplete erasure of tissue-specific methylation and aberrant de novo methylation, CB-iPSCs and K-iPSCs were distinct in genome-wide DNA methylation profiles and differentiation potential. Extended passage of some iPSC clones in culture did not improve their epigenetic resemblance to embryonic stem cells, implying that some human iPSCs retain a residual 'epigenetic memory' of their tissue of origin.

Original language	English (US)
Pages (from-to)	1117-1119
Number of pages	3
Journal	Nature biotechnology
Volume	29
Issue number	12
DOIs	https://doi.org/10.1038/nbt.2052
State	Published - Dec 2011

ASJC Scopus subject areas

Biotechnology
Bioengineering
Applied Microbiology and Biotechnology
Molecular Medicine
Biomedical Engineering

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Kim, K., Zhao, R., Doi, A., Ng, K., Unternaehrer, J., Cahan, P., Hongguang, H., Loh, Y. H., Aryee, M. J., Lensch, M. W., Li, H., Collins, J. J., Feinberg, A. P., & Daley, G. Q. (2011). Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells. Nature biotechnology, 29(12), 1117-1119. https://doi.org/10.1038/nbt.2052

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title = "Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells",

abstract = "We compared bona fide human induced pluripotent stem cells (iPSCs) derived from umbilical cord blood (CB) cells and neonatal keratinocytes (K). As a consequence of both incomplete erasure of tissue-specific methylation and aberrant de novo methylation, CB-iPSCs and K-iPSCs were distinct in genome-wide DNA methylation profiles and differentiation potential. Extended passage of some iPSC clones in culture did not improve their epigenetic resemblance to embryonic stem cells, implying that some human iPSCs retain a residual 'epigenetic memory' of their tissue of origin.",

author = "Kitai Kim and Rui Zhao and Akiko Doi and Kitwa Ng and Juli Unternaehrer and Patrick Cahan and Huo Hongguang and Loh, {Yuin Han} and Aryee, {Martin J.} and Lensch, {M. William} and Hu Li and Collins, {James J.} and Feinberg, {Andrew P.} and Daley, {George Q.}",

note = "Funding Information: G.Q.D. was funded by US National Institutes of Health (NIH) grants DK70055 and DK59279, special funds received by the NIH under the American Recovery and Reinvestment Act (RC2-HL102815). K.K. was supported by NIH (K99HL093212-01), Leukemia and Lymphoma Society (3567-07), and Cooley′s Anemia Foundation. A.P.F. was funded by NIH grants R37CA054358 and P50HG003233.",

year = "2011",

month = dec,

doi = "10.1038/nbt.2052",

language = "English (US)",

volume = "29",

pages = "1117--1119",

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T1 - Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells

AU - Kim, Kitai

AU - Zhao, Rui

AU - Doi, Akiko

AU - Ng, Kitwa

AU - Unternaehrer, Juli

AU - Cahan, Patrick

AU - Hongguang, Huo

AU - Loh, Yuin Han

AU - Aryee, Martin J.

AU - Lensch, M. William

AU - Li, Hu

AU - Collins, James J.

AU - Feinberg, Andrew P.

AU - Daley, George Q.

N1 - Funding Information: G.Q.D. was funded by US National Institutes of Health (NIH) grants DK70055 and DK59279, special funds received by the NIH under the American Recovery and Reinvestment Act (RC2-HL102815). K.K. was supported by NIH (K99HL093212-01), Leukemia and Lymphoma Society (3567-07), and Cooley′s Anemia Foundation. A.P.F. was funded by NIH grants R37CA054358 and P50HG003233.

PY - 2011/12

Y1 - 2011/12

N2 - We compared bona fide human induced pluripotent stem cells (iPSCs) derived from umbilical cord blood (CB) cells and neonatal keratinocytes (K). As a consequence of both incomplete erasure of tissue-specific methylation and aberrant de novo methylation, CB-iPSCs and K-iPSCs were distinct in genome-wide DNA methylation profiles and differentiation potential. Extended passage of some iPSC clones in culture did not improve their epigenetic resemblance to embryonic stem cells, implying that some human iPSCs retain a residual 'epigenetic memory' of their tissue of origin.

AB - We compared bona fide human induced pluripotent stem cells (iPSCs) derived from umbilical cord blood (CB) cells and neonatal keratinocytes (K). As a consequence of both incomplete erasure of tissue-specific methylation and aberrant de novo methylation, CB-iPSCs and K-iPSCs were distinct in genome-wide DNA methylation profiles and differentiation potential. Extended passage of some iPSC clones in culture did not improve their epigenetic resemblance to embryonic stem cells, implying that some human iPSCs retain a residual 'epigenetic memory' of their tissue of origin.

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Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells

Abstract

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