Oplr16 serves as a novel chromatin factor to control stem cell fate by modulating pluripotency-specific chromosomal looping and TET2-mediated DNA demethylation

Author:

Jia Lin12,Wang Yichen12,Wang Cong12,Du Zhonghua1,Zhang Shilin1,Wen Xue1,Zhou Lei1,Li Hui1,Chen Huiling23,Li Dan1,Zhang Songling1,Li Wei1,Xu Wei1,Hoffman Andrew R2,Cui Jiuwei1,Hu Ji-Fan12ORCID

Affiliation:

1. Key Laboratory of Organ Regeneration and Transplantation of Ministry of Education, Stem Cell and Cancer Center, First Hospital, Jilin University, Changchun, Jilin 130061, P.R. China

2. Stanford University Medical School, VA Palo Alto Health Care System, Palo Alto, CA 94304, USA

3. Department of Endocrinology, Xiangya Hospital, Central South University, Changsha, Hunan, P.R. China

Abstract

AbstractFormation of a pluripotency-specific chromatin network is a critical event in reprogramming somatic cells into pluripotent status. To characterize the regulatory components in this process, we used ‘chromatin RNA in situ reverse transcription sequencing’ (CRIST-seq) to profile RNA components that interact with the pluripotency master gene Oct4. Using this approach, we identified a novel nuclear lncRNA Oplr16 that was closely involved in the initiation of reprogramming. Oplr16 not only interacted with the Oct4 promoter and regulated its activity, but it was also specifically activated during reprogramming to pluripotency. Active expression of Oplr16 was required for optimal maintenance of pluripotency in embryonic stem cells. Oplr16 was also able to enhance reprogramming of fibroblasts into pluripotent cells. RNA reverse transcription-associated trap sequencing (RAT-seq) indicated that Oplr16 interacted with multiple target genes related to stem cell self-renewal. Of note, Oplr16 utilized its 3′-fragment to recruit the chromatin factor SMC1 to orchestrate pluripotency-specific intrachromosomal looping. After binding to the Oct4 promoter, Oplr16 recruited TET2 to induce DNA demethylation and activate Oct4 in fibroblasts, leading to enhanced reprogramming. These data suggest that Oplr16 may act as a pivotal chromatin factor to control stem cell fate by modulating chromatin architecture and DNA demethylation.

Funder

National Key Research and Development Program of China

National Natural Science Foundation of China

Ministry of Education

National Basic Research Program of China

Research on Chronic Noncommunicable Diseases Prevention

Control of National Ministry of Science and Technology

National Health Development Planning Commission Major Disease Prevention

Control of Science and Technology Plan of Action, Cancer Prevention and Control

Natural Science Foundation of Jilin Province

Provincial Science Fund of Jilin Province Development and Reform Commission

California Institute of Regenerative Medicine

Department of Veterans Affairs

Publisher

Oxford University Press (OUP)

Subject

Genetics

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