Studying Structure and Functions of Nucleosomes with Atomic Force Microscopy

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Studying Structure and Functions of Nucleosomes with Atomic Force Microscopy. / Ukraintsev, Alexander A.; Kutuzov, Mikhail M.; Lavrik, Olga I.

In: Biochemistry (Moscow), Vol. 89, No. 4, 04.2024, p. 674-687.

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

BibTeX

@article{5566125a1c0a4abbb587bf010dce2a69,

title = "Studying Structure and Functions of Nucleosomes with Atomic Force Microscopy",

abstract = "Abstract: Chromatin is an epigenetic platform for implementation of DNA-dependent processes. Nucleosome, as a basic level of chromatin compaction, largely determines its properties and structure. In the study of nucleosomes structure and functions physicochemical tools are actively used, such as magnetic and optical “tweezers”, “DNA curtains”, nuclear magnetic resonance, X-ray crystallography, and cryogenic electron microscopy, as well as optical methods based on F{\"o}rster resonance energy transfer. Despite the fact that these approaches make it possible to determine a wide range of structural and functional characteristics of chromatin and nucleosomes with high spatial and time resolution, atomic force microscopy (AFM) complements the capabilities of these methods. The results of structural studies of nucleosome focusing on the AFM method development are presented in this review. The possibilities of AFM are considered in the context of application of other physicochemical approaches.",

keywords = "AFM, chromatin, nucleosome, single-molecule methods for studying biomolecules, DNA/chemistry, Animals, Nucleosomes/chemistry, Microscopy, Atomic Force/methods, Humans",

author = "Ukraintsev, {Alexander A.} and Kutuzov, {Mikhail M.} and Lavrik, {Olga I.}",

note = "This research was funded by the Russian Science Foundation (project no. 22-74-10059) and State Budget Project of Institute of Chemical Biology and Fundamental Medicine No. 121031300041-4 (for O. I. Lavrik). Ukraintsev, A. A. Studying Structure and Functions of Nucleosomes with Atomic Force Microscopy / A. A. Ukraintsev, M. M. Kutuzov, O. I. Lavrik // Biochemistry (Moscow). – 2024. – Vol. 89, No. 4. – P. 674-687. – DOI 10.1134/S0006297924040072.",

year = "2024",

month = apr,

doi = "10.1134/S0006297924040072",

language = "English",

volume = "89",

pages = "674--687",

journal = "Biochemistry (Moscow)",

issn = "0006-2979",

publisher = "Maik Nauka-Interperiodica Publishing",

number = "4",

}

RIS

TY - JOUR

T1 - Studying Structure and Functions of Nucleosomes with Atomic Force Microscopy

AU - Ukraintsev, Alexander A.

AU - Kutuzov, Mikhail M.

AU - Lavrik, Olga I.

N1 - This research was funded by the Russian Science Foundation (project no. 22-74-10059) and State Budget Project of Institute of Chemical Biology and Fundamental Medicine No. 121031300041-4 (for O. I. Lavrik). Ukraintsev, A. A. Studying Structure and Functions of Nucleosomes with Atomic Force Microscopy / A. A. Ukraintsev, M. M. Kutuzov, O. I. Lavrik // Biochemistry (Moscow). – 2024. – Vol. 89, No. 4. – P. 674-687. – DOI 10.1134/S0006297924040072.

PY - 2024/4

Y1 - 2024/4

N2 - Abstract: Chromatin is an epigenetic platform for implementation of DNA-dependent processes. Nucleosome, as a basic level of chromatin compaction, largely determines its properties and structure. In the study of nucleosomes structure and functions physicochemical tools are actively used, such as magnetic and optical “tweezers”, “DNA curtains”, nuclear magnetic resonance, X-ray crystallography, and cryogenic electron microscopy, as well as optical methods based on Förster resonance energy transfer. Despite the fact that these approaches make it possible to determine a wide range of structural and functional characteristics of chromatin and nucleosomes with high spatial and time resolution, atomic force microscopy (AFM) complements the capabilities of these methods. The results of structural studies of nucleosome focusing on the AFM method development are presented in this review. The possibilities of AFM are considered in the context of application of other physicochemical approaches.

AB - Abstract: Chromatin is an epigenetic platform for implementation of DNA-dependent processes. Nucleosome, as a basic level of chromatin compaction, largely determines its properties and structure. In the study of nucleosomes structure and functions physicochemical tools are actively used, such as magnetic and optical “tweezers”, “DNA curtains”, nuclear magnetic resonance, X-ray crystallography, and cryogenic electron microscopy, as well as optical methods based on Förster resonance energy transfer. Despite the fact that these approaches make it possible to determine a wide range of structural and functional characteristics of chromatin and nucleosomes with high spatial and time resolution, atomic force microscopy (AFM) complements the capabilities of these methods. The results of structural studies of nucleosome focusing on the AFM method development are presented in this review. The possibilities of AFM are considered in the context of application of other physicochemical approaches.

KW - AFM

KW - chromatin

KW - nucleosome

KW - single-molecule methods for studying biomolecules

KW - DNA/chemistry

KW - Animals

KW - Nucleosomes/chemistry

KW - Microscopy, Atomic Force/methods

KW - Humans

UR - https://www.scopus.com/record/display.uri?eid=2-s2.0-85192209552&origin=inward&txGid=a4162d58c831f7b60fe2a54edabd2df6

UR - https://www.mendeley.com/catalogue/16993b89-c6a9-3dd3-ae5e-535debb67f00/

UR - https://elibrary.ru/item.asp?id=67249635

UR - https://pubmed.ncbi.nlm.nih.gov/38831504/

U2 - 10.1134/S0006297924040072

DO - 10.1134/S0006297924040072

M3 - Review article

C2 - 38831504

VL - 89

SP - 674

EP - 687

JO - Biochemistry (Moscow)

JF - Biochemistry (Moscow)

SN - 0006-2979

IS - 4

ER -

ID: 61084107