Article
Biochemistry & Molecular Biology
Samaneh Ghassabi Kondalaji, Gregory D. Bowman
Summary: NDFs can directly affect the activity of chromatin remodelers, promoting repositioning of nucleosomes away from their binding sites. This study provides insights into how site-specific binding factors like NDFs can regulate nucleosome positioning and impact gene regulation.
MOLECULAR AND CELLULAR BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Li-Fei Tian, Xiaolin Kuang, Ke Ding, Hongwei Gao, Qun Tang, Xiao-Xue Yan, Wenqing Xu
Summary: This study reveals the structure and function of the DNA repair protein RadD during the process of DNA damage repair. Key amino acids Gly34 and Gly36, as well as Lys37 and Arg343, in RadD are crucial for ATP binding and ATPase activity. Asp117 polarizes the attacking water molecule to form the transition state, while Lys68 regulates substrate entry and product release. Additionally, we found that the C-terminal peptide of single-stranded DNA-binding protein (SSB) enhances RadD's ATPase activity.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biophysics
Ilana M. Nodelman, Gregory D. Bowman
Summary: Nucleosomes, as carriers of epigenetic information and gatekeepers of genomic DNA, play a crucial role in the proper growth and development of eukaryotic cells. Chromatin remodelers actively reorganize nucleosomes through ATP-dependent mechanisms, with emerging evidence suggesting twist-based mechanisms for ATP-driven repositioning of nucleosomes along DNA. This review discusses core experimental findings and ideas that have shaped our understanding of how nucleosome sliding may be achieved.
ANNUAL REVIEW OF BIOPHYSICS, VOL 50, 2021
(2021)
Review
Audiology & Speech-Language Pathology
Alejandra Laureano, Jihyun Kim, Edward Martinez, Kelvin Y. Kwan
Summary: Loss of spiral ganglion neurons (SGNs) in the cochlea causes hearing loss. Understanding the mechanisms of cell fate transition accelerates efforts to repopulate lost SGNs. CHD4 may play a role in suppressing alternative cell fates to promote inner ear regeneration.
Review
Cell Biology
Andrej Alendar, Anton Berns
Summary: The CHD family of enzymes play crucial roles in regulating chromatin dynamics, cell fate, identity, and embryonic development, and may serve as valuable targets for therapeutic intervention."
GENES & DEVELOPMENT
(2021)
Article
Biochemistry & Molecular Biology
Martin Meagher, Alexander Myasnikov, Eric J. Enemark
Summary: The ATPase ring of the replication forks is essential for DNA replication and disruption of this ring can lead to genetic instability and diseases such as cancer. Using cryo-EM, researchers have found that the ATPase ring of the archaeal organism Saccharolobus solfataricus binds to the DNA in two different modes, revealing a mechanism for the alternating steps of DNA dissociation and re-association during DNA translocation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Xueyao Zhang, Yingxian Sun
Summary: This study reveals that CHD1L is highly expressed in patients with essential hypertension (EH) and its interference can inhibit the proliferation, migration, invasion, and phenotypic switching of vascular smooth muscle cells (VSMCs). It also reduces inflammation and oxidative stress. Furthermore, it is found that FOXO3a suppresses the proliferation and migration of AngII-induced VSMCs by down-regulating CHD1L.
Article
Biology
Drake A. Donovan, Johnathan G. Crandall, Vi N. Truong, Abigail L. Vaaler, Thomas B. Bailey, Devin Dinwiddie, Orion G. B. Banks, Laura E. McKnight, Jeffrey N. McKnight
Summary: The study revealed that Isw2 functions as an obligately targeted nucleosome remodeler in vivo by interacting physically with sequence-specific factors. These data support an 'interacting barrier model' where Isw2 interacts with a sequence-specific factor to accurately and reproducibly position a single, targeted nucleosome to define the precise border of phased chromatin arrays.
Article
Cell Biology
Xiaona Luo, Xiaoang Sun, Yilin Wang, Longlong Lin, Fang Yuan, Simei Wang, Wenjing Zhang, Xiaobing Ji, Meiyan Liu, Shengnan Wu, Xiaoping Lan, Jie Zhang, Jingbin Yan, Fanyi Zeng, Yucai Chen
Summary: CHD2 gene mutations play a key role in clinical manifestations such as intellectual disability, epilepsy, and behavioral abnormalities, and the mutant protein retains some function. Different mutations may lead to different clinical phenotypes.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Oncology
Yuqi He, Zhongliang Zhang, Zinian Wang, Yigang Jiao, Qi Kang, Jingzhe Li
Summary: This study reveals that circ-SFMBT2 suppresses gastric cancer progression by regulating the miR-885-3p/CHD7 axis.
Article
Multidisciplinary Sciences
Soon-Keat Ooi, Shigeo Sato, Chieri Tomomori-Sato, Ying Zhang, Zhihui Wen, Charles A. S. Banks, Michael P. Washburn, Jay R. Unruh, Laurence Florens, Ronald C. Conaway, Joan W. Conaway
Summary: PARP1 has multiple functions in ALC1-dependent nucleosome remodeling beyond simply synthesizing PAR chains, as shown by investigation of separation-of-function mutants that activate ALC1 ATPase but do not support nucleosome remodeling by ALC1.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biochemistry & Molecular Biology
Anton Sabantsev, Guanzhong Mao, Javier Aguirre Rivera, Mikhail Panfilov, Anatolii Arseniev, Oanh Ho, Mikhail Khodorkovskiy, Sebastian Deindl
Summary: The study introduces a method called LAGOON for controlling NTP-driven reactions in single-molecule experiments by locally generating NTPs. This method significantly increases measurement throughput and enables single-turnover observations. The effectiveness of LAGOON is demonstrated in single-molecule fluorescence and force spectroscopy assays by monitoring DNA unwinding, nucleosome sliding, and RNA polymerase elongation. LAGOON can be easily integrated with various single-molecule techniques, and is expected to facilitate studies on a wide range of crucial NTP-driven processes.
NATURE CHEMICAL BIOLOGY
(2022)
Article
Microbiology
Nichodemus O. Onwubiko, Suraya A. Diaz, Marcela Krecmerova, Heinz Peter Nasheuer
Summary: Cidofovir and its modified derivatives are repurposed as antipolyomavirus agents by inhibiting polyomavirus large tumor antigen (Tag) activities, which leads to the inhibition of viral DNA replication. Further research is needed to fully understand the inhibitory mechanisms of these nucleotide analog-based drugs.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2021)
Review
Cell Biology
Caojie Liu, Ning Kang, Yuchen Guo, Ping Gong
Summary: CHD proteins play a crucial role in stem cell differentiation and human diseases.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Virology
Chun-Chiao Yu, Pei-Chen Lin, Cho-Han Chiang, Shu-Tang Jen, Yen-Ling Lai, Shih-Chin Hsu, Lee-Chiang Lo, Jing-Jer Lin, Nei-Li Chan, Ming-Jiun Yu
Summary: In this study, we discovered for the first time that the ATP-binding domain of NS3 is involved in NS5A phosphorylation. In vitro assays showed that casein kinase I alpha is a very potent kinase responsible for NS5A phosphorylation at serines 225, 232, and 235. Our data suggest that ATP binding by NS3 probably results in conformational changes that recruit casein kinase I alpha to phosphorylate NS5A, initially at S225 and subsequently at S232 and S235. Our discovery reveals intricate requirements of the structural integrity of NS3 for NS5A hyperphosphorylation and HCV replication.
JOURNAL OF VIROLOGY
(2022)