Hierarchical Oct4 Binding in Concert with Primed Epigenetic Rearrangements during Somatic Cell Reprogramming

Cell Reports
Jun ChenShaorong Gao

Abstract

The core pluripotency factor Oct4 plays key roles in somatic cell reprogramming through transcriptional control. Here, we profile Oct4 occupancy, epigenetic changes, and gene expression in reprogramming. We find that Oct4 binds in a hierarchical manner to target sites with primed epigenetic modifications. Oct4 binding is temporally continuous and seldom switches between bound and unbound. Oct4 occupancy in most of promoters is maintained throughout the entire reprogramming process. In contrast, somatic cell-specific enhancers are silenced in the early and intermediate stages, whereas stem cell-specific enhancers are activated in the late stage in parallel with cell fate transition. Both epigenetic remodeling and Oct4 binding contribute to the hyperdynamic enhancer signature transitions. The hierarchical Oct4 bindings are associated with distinct functional themes at different stages. Collectively, our results provide a comprehensive molecular roadmap of Oct4 binding in concert with epigenetic rearrangements and rich resources for future reprogramming studies.

References

Nov 9, 2002·Bioinformatics·Long-Cheng Li, Rajvir Dahiya
Sep 13, 2005·Cell·Laurie A BoyerRichard A Young
Mar 29, 2008·Cell Stem Cell·Matthias StadtfeldKonrad Hochedlinger
May 20, 2008·Nucleic Acids Research·Yuichi KumakiMasaki Okano
Sep 19, 2008·Genome Biology·Yong ZhangX Shirley Liu
Dec 29, 2009·Cell Stem Cell·Miguel Angel EstebanDuanqing Pei
Nov 26, 2010·Proceedings of the National Academy of Sciences of the United States of America·Menno P CreyghtonRudolf Jaenisch
Jan 8, 2011·Cell Stem Cell·Richard P KocheAlexander Meissner
Mar 19, 2011·Cell·Richard A Young
Mar 19, 2011·Nature Reviews. Genetics·Kathrin Plath, William E Lowry
Apr 28, 2011·Proceedings of the National Academy of Sciences of the United States of America·Janghwan KimSheng Ding
Jun 15, 2011·Cell·Stuart H Orkin, Konrad Hochedlinger
Aug 24, 2011·Genome Biology·Tao LiuX Shirley Liu
Aug 8, 2012·Nature Reviews. Genetics·François Spitz, Eileen E M Furlong
Oct 23, 2012·Nature Structural & Molecular Biology·Vladimir B TeifKarsten Rippe
Dec 25, 2012·Cell·Jose M PoloKonrad Hochedlinger
Mar 12, 2013·Molecular Cell·Eliezer Calo, Joanna Wysocka
Mar 19, 2013·Cell·Bernadett Papp, Kathrin Plath
May 18, 2013·Nature Reviews. Genetics·Yosef BuganimRudolf Jaenisch
Jun 7, 2014·Cell Stem Cell·Christa BueckerJoanna Wysocka
Dec 17, 2014·Nature·Peter D TongeAndras Nagy
Dec 17, 2014·Nature·Samer M I HusseinAndras Nagy

❮ Previous
Next ❯

Citations

Jan 24, 2017·Cell·Constantinos ChronisKathrin Plath
Jan 18, 2018·Cellular and Molecular Life Sciences : CMLS·Vikas MalikRalf Jauch
Sep 25, 2019·Nature Cell Biology·Dafne Campigli Di GiammartinoEffie Apostolou
Oct 2, 2019·Nature Communications·Sudhir ThakurelaAlexander Meissner
Aug 12, 2018·Genome Biology·Petko Fiziev, Jason Ernst
Mar 20, 2019·Frontiers in Genetics·Shuai LiuYongchun Zuo
Apr 29, 2020·Cell Death & Disease·Wanhua XieSteven A Johnsen
Jan 23, 2021·EMBO Reports·Dongwei LiDuanqing Pei
Feb 25, 2021·Bioinformatics and Biology Insights·Anna MantsokiAnagha Joshi
Mar 14, 2021·Nature Communications·Sascha JungAntonio Del Sol
Jul 11, 2021·Current Opinion in Genetics & Development·Weixian DengKathrin Plath
Aug 7, 2021·Nature Cell Biology·Gareth A RobertsAbdenour Soufi

❮ Previous
Next ❯

Related Concepts

Related Feeds

CREs: Gene & Cell Therapy

Gene and cell therapy advances have shown promising outcomes for several diseases. The role of cis-regulatory elements (CREs) is crucial in the design of gene therapy vectors. Here is the latest research on CREs in gene and cell therapy.

Adult Stem Cells

Adult stem cells reside in unique niches that provide vital cues for their survival, self-renewal, and differentiation. They hold great promise for use in tissue repair and regeneration as a novel therapeutic strategies. Here is the latest research.

Cell Fate Conversion By mRNA

mRNA-based technology is being studied as a potential technology that could be used to reprogram cell fate. This technique provides the potential to generate safe reprogrammed cells that can be used for clinical applications. Here is the latest research on cell fate conversion by mRNA.