Yusuke MIYANARI
Nano Life Science Institute (WPI-NanoLSI),
Cancer Research Institute, Kanazawa University, Japan

Toward understanding transcriptional events deep
inside the chromatin jungle

Contact : miyanari [at sign] staff.kanazawa-u.ac.jp

Yusuke MIYANARI

Please replace [at sign] with @.

Nano Life Science Institute (WPI-NanoLSI),
Cancer Research Institute, Kanazawa University, Japan

Research Interests

Chromatin is organized in a non-random fashion within 3D nuclear space. During developmental processes, the nuclear

Epigenetics, Stem cell, chromatin, transcription

structural components of the nucleus are responsible for developmental aberrations and several human diseases. Remodelingarchitecture is dramatically reconstructed, resulting in the establishment of cell-type specific nuclear organization. Defects inof the nuclear architecture leads to spatial arrangement of genes, which could affect genome functions including geneexpression. We aim to reveal the role of chromatin dynamics in cell lineage-allocation by deciphering the molecularEducation
2006

mechanisms underlying the remodeling of nuclear organization and their effects on developmental gene expression, using
mouse early embryos and embryonic stem (ES) cells as model systems. We uncovered allelic regulation of key gene for
PhD, Department of Human Tumor Viruses, Graduate School of Biostudies, Kyoto University

reprogramming, Nanog, is crucial for cell-lineage allocation in early mouse embryos [1,2]. We also studied a role of PML
bodies in transcriptional regulation in ES cells [3]. In this seminar, I will present our recent studies to show you how we tackle
our questions.

Professional Career

The promyelocytic leukemia (PML) body is a phase-separated nuclear structure physically associated with chromatin, implying

2006 - 2009

Postdoc, National Institute of Genetics (NIG), JAPAN

mediated chromatin labeling and purification (ALaP) to identify the genomic regions proximal to PML bodies. We found that2009 - 2014

Postdoc, Institute of Genetics and Molecular and Cellular Biology (IGBMC), Strasbourg, FRANCE

2014 - 2020

Associate Professor (PI), National Institute of Basic Biology (NIBB), JAPAN2020 - present

Associate Professor (PI), NanoLSI, Kanazawa University.

its crucial roles in genome functions. However, its role in transcriptional regulation is largely unknown. We developed APEXPML bodies associate with active regulatory regions across the genome and with ~300 kb of the short arm of the Y
chromosome (YS300) in mouse embryonic stem cells. The PML body association with YS300 is essential for the transcriptional
activity of the neighboring Y-linked clustered genes. Mechanistically, PML bodies provide specific nuclear spaces that the denovo DNA methyltransferase DNMT3A cannot access, resulting in the steady maintenance of a hypo-methylated state atY-linked gene promoters. Our study underscores a new mechanism for gene regulation in the 3D nuclear space and provides
insights into the functional properties of nuclear structures for genome function.

Scientific Activities
2001 - 2006
2006 - present

Studies on Hepatitis C virus
Epigenetic regulation of cell lineage allocationHonors
2015
2015

The Young Scientists’ Prize, The Commendation for Science and Technology by the MEXT
Takenaka Promotion PrizePublications
1. Miyanari Y, Torres-Padilla ME, Control of ground-state pluripotency by allelic regulation of Nanog, Nature, 483.470-473. 2012.
Miyanari Y*, Birling CZ. And Torres-Padilla ME*, Live visualization of chromatin dynamics using fluorescent TALEs, Nature Structural & Molecular Biolo-2. gy, 2013. *Corresponding authors
3.

Kurihara M, Miyanari Y, et al., Genomic profiling of PML bodies reveals transcriptional regulation by PML bodies through the DNMT3A exclusion,
Molecular Cell, 2020, Volume 78, Issue 3, 7 May 2020, Pages 493-505.e8.

References[ 1 ] Miyanari Y, Torres-Padilla ME, Control of ground-state pluripotency by allelic regulation of Nanog, Nature,
483.470-473. 2012.
[ 2 ] Miyanari Y*, Birling CZ. And Torres-Padilla ME*, Live visualization of chromatin dynamics using fluorescent TALEs,Nature Structural & Molecular Biology, 2013. *Corresponding authors[ 3 ] Kurihara M, Miyanari Y, et al., Genomic profiling of PML bodies reveals transcriptional regulation by PML bodies
through the DNMT3A exclusion, Molecular Cell, 2020, Volume 78, Issue 3, 7 May 2020, Pages 493-505.e8.

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