Dynamic Organization of Chromatin Domains Revealed by Super-Resolution Live-Cell Imaging

Molecular Cell
Tadasu NozakiKazuhiro Maeshima

Abstract

The eukaryotic genome is organized within cells as chromatin. For proper information output, higher-order chromatin structures can be regulated dynamically. How such structures form and behave in various cellular processes remains unclear. Here, by combining super-resolution imaging (photoactivated localization microscopy [PALM]) and single-nucleosome tracking, we developed a nuclear imaging system to visualize the higher-order structures along with their dynamics in live mammalian cells. We demonstrated that nucleosomes form compact domains with a peak diameter of ∼160 nm and move coherently in live cells. The heterochromatin-rich regions showed more domains and less movement. With cell differentiation, the domains became more apparent, with reduced dynamics. Furthermore, various perturbation experiments indicated that they are organized by a combination of factors, including cohesin and nucleosome-nucleosome interactions. Notably, we observed the domains during mitosis, suggesting that they act as building blocks of chromosomes and may serve as information units throughout the cell cycle.

Associated Datasets

References

Mar 30, 2018·Chromosoma·Anna Fortuny, Sophie E Polo
Aug 25, 2017·Molecular Biology of the Cell·Ryosuke ImaiKazuhiro Maeshima
Sep 30, 2017·Nucleus·Travis J GouldDonald E Olins
Jun 23, 2018·Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry·Takashi NishioKenichi Yoshikawa
May 8, 2018·Cold Spring Harbor Symposia on Quantitative Biology·Geoffrey FudenbergLeonid A Mirny
Nov 6, 2018·Proceedings of the National Academy of Sciences of the United States of America·Eric B Gibbs, Richard W Kriwacki
Dec 22, 2017·Biochemical Society Transactions·Jeffrey C HansenKazuhiro Maeshima
Nov 21, 2018·Wiley Interdisciplinary Reviews. Systems Biology and Medicine·Nicole A SzydlowskiYing S Hu
May 14, 2019·Nucleic Acids Research·Nicolas AudugéMaïté Coppey-Moisan
Mar 6, 2019·Annual Review of Biophysics·Jyotsana J ParmarChristophe Zimmer
May 28, 2019·The FEBS Journal·Jianquan Xu, Yang Liu
Jul 3, 2019·Genes·Udo J Birk
Sep 19, 2019·Proceedings of the National Academy of Sciences of the United States of America·S S AshwinMasaki Sasai
Oct 25, 2019·The Journal of Cell Biology·Marie Anne O'Donnell
Nov 5, 2019·PloS One·Eralda SalatajCharalampos G Spilianakis
Apr 3, 2019·Chembiochem : a European Journal of Chemical Biology·Xiaocui GuoDayong Yang
Mar 6, 2018·Science Advances·Quentin SzaboGiacomo Cavalli
Jan 18, 2020·Science Advances·Kai HuangIgal Szleifer
Jan 15, 2020·Science Advances·Ranya K A VirkVadim Backman
Mar 4, 2020·Nucleic Acids Research·Haitham A Shaban, Andrew Seeber
May 13, 2020·Soft Matter·Tetsuya YamamotoTetsuro Hirose
Jul 1, 2020·Cancer Science·Ryu-Suke NozawaNoriko Saitoh
Aug 4, 2020·Journal of Biochemistry·Lorena ZanninoMarco Biggiogera
Apr 8, 2018·Biochemical Society Transactions·Masae OhnoYuichi Taniguchi
Jun 8, 2018·Open Biology·Donald E Olins, Ada L Olins
Oct 24, 2018·Biophysics and Physicobiology·Kazuhiro MaeshimaYuta Shimamoto
Jul 5, 2019·Nature Communications·Ning ZhaoTimothy J Stasevich
Mar 12, 2020·Frontiers in Genetics·Muhammad ShoaibClaus Storgaard Sørensen
Mar 4, 2020·Nature Methods·Melike Lakadamyali, Maria Pia Cosma
Apr 6, 2019·The Journal of Cell Biology·Hodaya Hochberg-Laufer, Yaron Shav-Tal
Mar 4, 2020·Cells·Mary PitmanYamini Dalal
Feb 12, 2020·Nature Structural & Molecular Biology·Sandro BaldiPeter B Becker
May 8, 2018·Scientific Reports·Silvija BilokapicMario Halic
Oct 10, 2018·Proceedings of the National Academy of Sciences of the United States of America·Shujun CaiLu Gan
Mar 25, 2018·The Journal of Cell Biology·Wanqing XiangJan Ellenberg
Mar 20, 2019·Genes·Ichiro Hiratani, Saori Takahashi
Mar 3, 2019·The Journal of Cell Biology·Ryosuke NagashimaKazuhiro Maeshima
Jan 4, 2019·Nature Cell Biology·Lothar SchermellehGregor P C Drummen
Apr 8, 2020·Royal Society Open Science·Prim B Singh, Andrew G Newman
Dec 7, 2019·Physical Review Letters·Bruno BeltranAndrew J Spakowitz

Related Concepts

Establishment and Maintenance of Localization
Nucleosomes
Microscopy, Video
Chromosomal Proteins, Non-Histone
Transfection
Cellular Process
Cell Cycle Proteins
Genome
Cohesins
Structure-Activity Relationship

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Synapse Loss as Therapeutic Target in MS

As we age, the number of synapses present in the human brain starts to decline, but in neurodegenerative diseases this occurs at an accelerated rate. In MS, it has been shown that there is a reduction in synaptic density, which presents a potential target for treatment. Here is the latest research on synapse loss as a therapeutic target in MS.

Artificial Intelligence in Cardiac Imaging

Artificial intelligence (ai) techniques are increasingly applied to cardiovascular (cv) medicine in cardiac imaging analysis. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

Social Learning

Social learning involves learning new behaviors through observation, imitation and modeling. Follow this feed to stay up to date on the latest research.

Cell Atlas of the Human Eye

Constructing a cell atlas of the human eye will require transcriptomic and histologic analysis over the lifespan. This understanding will aid in the study of development and disease. Find the latest research pertaining to the Cell Atlas of the Human Eye here.

Single Cell Chromatin Profiling

Techniques like ATAC-seq and CUT&Tag have the potential to allow single cell profiling of chromatin accessibility, histones, and TFs. This will provide novel insight into cellular heterogeneity and cell states. Discover the latest research on single cell chromatin profiling here.

Genetic Screens in iPSC-derived Brain Cells

Genetic screening is a critical tool that can be employed to define and understand gene function and interaction. This feed focuses on genetic screens conducted using induced pluripotent stem cell (iPSC)-derived brain cells.