Ultrastructural Details of Mammalian Chromosome Architecture

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

Ultrastructural Details of Mammalian Chromosome Architecture. / Krietenstein, Nils; Abraham, Sameer; Venev, Sergey V; Abdennur, Nezar; Gibcus, Johan; Hsieh, Tsung-Han S; Parsi, Krishna Mohan; Yang, Liyan; Maehr, René; Mirny, Leonid A; Dekker, Job; Rando, Oliver J.

In: Molecular Cell, Vol. 78, No. 3, 07.05.2020, p. 554-565.e7.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Krietenstein, N, Abraham, S, Venev, SV, Abdennur, N, Gibcus, J, Hsieh, T-HS, Parsi, KM, Yang, L, Maehr, R, Mirny, LA, Dekker, J & Rando, OJ 2020, 'Ultrastructural Details of Mammalian Chromosome Architecture', Molecular Cell, vol. 78, no. 3, pp. 554-565.e7. https://doi.org/10.1016/j.molcel.2020.03.003

APA

Krietenstein, N., Abraham, S., Venev, S. V., Abdennur, N., Gibcus, J., Hsieh, T-H. S., Parsi, K. M., Yang, L., Maehr, R., Mirny, L. A., Dekker, J., & Rando, O. J. (2020). Ultrastructural Details of Mammalian Chromosome Architecture. Molecular Cell, 78(3), 554-565.e7. https://doi.org/10.1016/j.molcel.2020.03.003

Vancouver

Krietenstein N, Abraham S, Venev SV, Abdennur N, Gibcus J, Hsieh T-HS et al. Ultrastructural Details of Mammalian Chromosome Architecture. Molecular Cell. 2020 May 7;78(3):554-565.e7. https://doi.org/10.1016/j.molcel.2020.03.003

Author

Krietenstein, Nils ; Abraham, Sameer ; Venev, Sergey V ; Abdennur, Nezar ; Gibcus, Johan ; Hsieh, Tsung-Han S ; Parsi, Krishna Mohan ; Yang, Liyan ; Maehr, René ; Mirny, Leonid A ; Dekker, Job ; Rando, Oliver J. / Ultrastructural Details of Mammalian Chromosome Architecture. In: Molecular Cell. 2020 ; Vol. 78, No. 3. pp. 554-565.e7.

Bibtex

@article{55caeaa9c5864650b5d843730460415d,
title = "Ultrastructural Details of Mammalian Chromosome Architecture",
abstract = "Over the past decade, 3C-related methods have provided remarkable insights into chromosome folding in vivo. To overcome the limited resolution of prior studies, we extend a recently developed Hi-C variant, Micro-C, to map chromosome architecture at nucleosome resolution in human ESCs and fibroblasts. Micro-C robustly captures known features of chromosome folding including compartment organization, topologically associating domains, and interactions between CTCF binding sites. In addition, Micro-C provides a detailed map of nucleosome positions and localizes contact domain boundaries with nucleosomal precision. Compared to Hi-C, Micro-C exhibits an order of magnitude greater dynamic range, allowing the identification of ∼20,000 additional loops in each cell type. Many newly identified peaks are localized along extrusion stripes and form transitive grids, consistent with their anchors being pause sites impeding cohesin-dependent loop extrusion. Our analyses comprise the highest-resolution maps of chromosome folding in human cells to date, providing a valuable resource for studies of chromosome organization.",
keywords = "Animals, CCCTC-Binding Factor/metabolism, Cells, Cultured, Chromatin/chemistry, Chromosomes, Human/ultrastructure, Chromosomes, Mammalian/ultrastructure, Embryonic Stem Cells/cytology, Fibroblasts/cytology, Humans, Male, Mammals/genetics, Nucleosomes/metabolism, Signal-To-Noise Ratio",
author = "Nils Krietenstein and Sameer Abraham and Venev, {Sergey V} and Nezar Abdennur and Johan Gibcus and Hsieh, {Tsung-Han S} and Parsi, {Krishna Mohan} and Liyan Yang and Ren{\'e} Maehr and Mirny, {Leonid A} and Job Dekker and Rando, {Oliver J}",
note = "Copyright {\textcopyright} 2020 Elsevier Inc. All rights reserved.",
year = "2020",
month = may,
day = "7",
doi = "10.1016/j.molcel.2020.03.003",
language = "English",
volume = "78",
pages = "554--565.e7",
journal = "Molecular Cell",
issn = "1097-2765",
publisher = "Cell Press",
number = "3",

}

RIS

TY - JOUR

T1 - Ultrastructural Details of Mammalian Chromosome Architecture

AU - Krietenstein, Nils

AU - Abraham, Sameer

AU - Venev, Sergey V

AU - Abdennur, Nezar

AU - Gibcus, Johan

AU - Hsieh, Tsung-Han S

AU - Parsi, Krishna Mohan

AU - Yang, Liyan

AU - Maehr, René

AU - Mirny, Leonid A

AU - Dekker, Job

AU - Rando, Oliver J

N1 - Copyright © 2020 Elsevier Inc. All rights reserved.

PY - 2020/5/7

Y1 - 2020/5/7

N2 - Over the past decade, 3C-related methods have provided remarkable insights into chromosome folding in vivo. To overcome the limited resolution of prior studies, we extend a recently developed Hi-C variant, Micro-C, to map chromosome architecture at nucleosome resolution in human ESCs and fibroblasts. Micro-C robustly captures known features of chromosome folding including compartment organization, topologically associating domains, and interactions between CTCF binding sites. In addition, Micro-C provides a detailed map of nucleosome positions and localizes contact domain boundaries with nucleosomal precision. Compared to Hi-C, Micro-C exhibits an order of magnitude greater dynamic range, allowing the identification of ∼20,000 additional loops in each cell type. Many newly identified peaks are localized along extrusion stripes and form transitive grids, consistent with their anchors being pause sites impeding cohesin-dependent loop extrusion. Our analyses comprise the highest-resolution maps of chromosome folding in human cells to date, providing a valuable resource for studies of chromosome organization.

AB - Over the past decade, 3C-related methods have provided remarkable insights into chromosome folding in vivo. To overcome the limited resolution of prior studies, we extend a recently developed Hi-C variant, Micro-C, to map chromosome architecture at nucleosome resolution in human ESCs and fibroblasts. Micro-C robustly captures known features of chromosome folding including compartment organization, topologically associating domains, and interactions between CTCF binding sites. In addition, Micro-C provides a detailed map of nucleosome positions and localizes contact domain boundaries with nucleosomal precision. Compared to Hi-C, Micro-C exhibits an order of magnitude greater dynamic range, allowing the identification of ∼20,000 additional loops in each cell type. Many newly identified peaks are localized along extrusion stripes and form transitive grids, consistent with their anchors being pause sites impeding cohesin-dependent loop extrusion. Our analyses comprise the highest-resolution maps of chromosome folding in human cells to date, providing a valuable resource for studies of chromosome organization.

KW - Animals

KW - CCCTC-Binding Factor/metabolism

KW - Cells, Cultured

KW - Chromatin/chemistry

KW - Chromosomes, Human/ultrastructure

KW - Chromosomes, Mammalian/ultrastructure

KW - Embryonic Stem Cells/cytology

KW - Fibroblasts/cytology

KW - Humans

KW - Male

KW - Mammals/genetics

KW - Nucleosomes/metabolism

KW - Signal-To-Noise Ratio

U2 - 10.1016/j.molcel.2020.03.003

DO - 10.1016/j.molcel.2020.03.003

M3 - Journal article

C2 - 32213324

VL - 78

SP - 554-565.e7

JO - Molecular Cell

JF - Molecular Cell

SN - 1097-2765

IS - 3

ER -

ID: 301925297