Remodeling Chromatin Induces Z‑DNA Conformation Detected through Fourier Transform Infrared Spectroscopy

The SWI/SNF complex is a highly conserved chromatin remodeling complex and can hydrolyze ATP by its catalytic subunit BRG1 or BRM to reconstruct the chromatin. To investigate whether this ATP-dependent chromatin remodeling could affect the DNA conformation, we therefore regulated (knocked down or ov...

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Bibliographic Details
Published in:Analytical chemistry (Washington) 2020-11, Vol.92 (21), p.14452-14458
Main Authors: Li, Yalin, Huang, Qing, Yao, Guohua, Wang, Xiaoyi, Zhang, Fengqiu, Wang, Tao, Shao, Changsheng, Zheng, Xinxin, Jing, Xumiao, Zhou, Huiyue
Format: Article
Language:English
Subjects:
Adenosine Triphosphate - metabolism
ATP
BRG1 protein
Cell Line, Tumor
Chemistry
Chromatin Assembly and Disassembly
Chromatin remodeling
Conformation
Deoxyribonucleic acid
DNA
DNA Helicases - deficiency
DNA Helicases - genetics
DNA structure
DNA, Z-Form - chemistry
DNA, Z-Form - metabolism
DNA-binding protein
Fourier transforms
Gene Knockdown Techniques
Humans
Infrared spectroscopy
Nuclear Proteins - deficiency
Nuclear Proteins - genetics
Nucleic Acid Conformation
Spectroscopy, Fourier Transform Infrared
Spectrum analysis
SWI/SNF complex
Transcription Factors - deficiency
Transcription Factors - genetics
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Summary:The SWI/SNF complex is a highly conserved chromatin remodeling complex and can hydrolyze ATP by its catalytic subunit BRG1 or BRM to reconstruct the chromatin. To investigate whether this ATP-dependent chromatin remodeling could affect the DNA conformation, we therefore regulated (knocked down or overexpressed) BRG1/BRM in the cells and applied Fourier transform infrared (FTIR) spectroscopy to probe DNA conformational changes. As a result, we found that BRG1/BRM was indeed associated with the DNA conformational changes, in which knockdown of BRG1/BRM reduced Z-DNA conformation, while overexpression of BRG1/BRM enhanced Z-DNA conformation. This Z-DNA conformational transformation was also verified using the Z-DNA-binding proteins. Therefore, this work has provided a direct analytical tool to probe Z-DNA transformation upon ATP-dependent chromatin remodeling.
ISSN:0003-2700
1520-6882
DOI:10.1021/acs.analchem.0c02432