Review
Cell Biology
Ksenia G. Kolobynina, Alexander Rapp, M. Cristina Cardoso
Summary: Chromatin serves as the background for all DNA-based molecular processes in the cell nucleus. The initial chromatin structure at the site of DNA damage determines lesion generation and activation of the DNA damage response pathway. Ubiquitination, as an important chromatin post-translational modification, is involved in chromatin changes at the damaged site and throughout the genome.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Kevin M. Wernke, Alina Tirla, Mengzhao Xue, Yulia Surovtseva, Fabian S. Menges, Seth B. Herzon
Summary: Colibactin is a genotoxic metabolite produced by commensal-pathogenic members of the human microbiome, potentially linked to tumorigenesis. Researchers synthesized and studied colibactin 742 (4), finding that it induces DNA interstrand-cross-links and activates DNA repair pathways, providing a new approach to study the genotoxic effects of colibactin.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2021)
Article
Chemistry, Multidisciplinary
Bowei Wang, Jianjun Dong, Fan Yang, Tuoyu Ju, Jiani Li, Junxi Wang, Ying Wang, M. James C. Crabbe, Yanling Tian, Zuobin Wang
Summary: This study used atomic force microscopy to detect the chromosomal structure changes in UVB-stimulated HaCaT cells. The results showed that higher UVB irradiation doses led to more cells with chromosome aberrations. Additionally, damage to both DNA and cells was observed under the corresponding irradiation doses, with the degree of DNA damage directly proportional to the irradiation dose. The mechanical properties of cells were also altered after UVB irradiation, indicating a series of chain reactions occurring in the cells.
Article
Cell Biology
Md Akram Hossain, Yunfeng Lin, Garrett Driscoll, Jia Li, Anne McMahon, Joshua Matos, Haichao Zhao, Daisuke Tsuchimoto, Yusaku Nakabeppu, Jianjun Zhao, Shan Yan
Summary: APE2 is essential for activating the ATR DDR pathway in response to various stressful conditions in Xenopus laevis egg extracts and human pancreatic cancer cells. Inhibition of APE2 leads to increased DNA damage and sensitizes cancer cells to chemotherapy drugs, indicating its crucial role in maintaining genome integrity.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Alejandro Damian La Greca, Nelba Perez, Sheila Castaneda, Paula Melania Milone, Maria Agustina Scarafia, Alan Miqueas Mobbs, Ariel Waisman, Lucia Natalia Moro, Gustavo Emilio Sevlever, Carlos Daniel Luzzani, Santiago Gabriel Miriuka
Summary: Cell death experiments are crucial for drug development, and predicting cell death with neural networks can outperform human ability. A simple Python tool has been developed by the research team for broadly detecting cell death.
Article
Engineering, Multidisciplinary
Kamila Sofi, Michal Ciesla, Jakub Barbasz, Natalia Wilkosz, Ewelina Lipiec, Marek Szymonski, Piotr Bialas
Summary: DNA is susceptible to various damaging factors, which can cause single- or double-strand breaks. Atomic force microscopy is used to determine the length of DNA fragments deposited on surfaces and quantify double-strand breaks. To overcome the underestimation caused by image resolution, a new methodology based on statistics of DNA fragment length is proposed, along with software for automatic calculation of double-strand breaks. The method is applied to characterize DNA plasmid fragmentation caused by the anticancer chemotherapeutic drug bleomycin.
Article
Oncology
Qunsong Tan, Kaifeng Niu, Yuqi Zhu, Zixiang Chen, Yueyang Li, Mengge Li, Di Wei, Adayabalam S. Balajee, Hongbo Fang, Yongliang Zhao
Summary: The study demonstrates that RNF8 ubiquitinates RecQL4 protein, facilitating its dissociation from DSB sites and hindering the recruitment of downstream DSB repair proteins. RecQL4 also interacts with WRAP53 beta, which enhances its association with RNF8. Overall, the ubiquitination event mediated by RNF8 is essential for RecQL4's function in DSB repair.
Review
Genetics & Heredity
Apfrida Kendek, Marieke R. Wensveen, Aniek Janssen
Summary: The eukaryotic nucleus is constantly exposed to sources causing DNA breaks, requiring dedicated nuclear machinery for faithful repair. DNA is packaged into various chromatin domains with specific molecular properties regulating gene expression and nuclear structure maintenance. Different chromatin environments demand tailored responses to DNA damage.
Article
Multidisciplinary Sciences
Michael Schmalz, Xiao- Xuan Liang, Ines Wieser, Caroline Gruschel, Lukas Muskalla, Martin Thomas Stoeckl, Roland Nitschke, Norbert Linz, Alfred Leitenstorfer, Alfred Vogel, Elisa Ferrando-May, Wei Yang
Summary: Understanding and predicting the outcome of light-DNA interaction is crucial for DNA repair and radiotherapy. This study combines laser microirradiation, imaging, and modeling to investigate the damage pathways in live cells. The results show that photochemical damage dominates at 515 nm, while electron-mediated damage dominates at wavelengths ≥620 nm. The study provides a conceptual framework for interpreting the wavelength-dependent DNA damage induced by laser and electron interactions.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Biochemistry & Molecular Biology
Genevieve Trombly, Afaf Milad Said, Alexei P. Kudin, Viktoriya Peeva, Janine Altmueller, Kerstin Becker, Karl Koehrer, Gabor Zsurka, Wolfram S. Kunz
Summary: The study investigated the effects of hydrogen peroxide on mitochondrial DNA integrity. The results showed that hydrogen peroxide treatment resulted in DNA breaks, which were then repaired through rapid repair of single-strand breaks and degradation of double-strand breaks-generated linear fragments. Inactivation of mitochondrial DNA degradation resulted in the persistence of linear fragments in mutant cells without affecting the repair of single-strand breaks. These findings highlight the interplay between DNA repair and degradation processes, and the potential generation of somatic mitochondrial DNA deletions.
Review
Genetics & Heredity
Jac A. Nickoloff, Neelam Sharma, Lynn Taylor, Sage J. Allen, Robert Hromas
Summary: Cells need to accurately replicate and segregate DNA to prevent cancer, but replication forks can encounter obstacles leading to replication stress. Cells respond by activating DNA damage response pathways to delay cell cycle progression, stimulate repair and replication fork restart, or induce apoptosis. Resection of single-ended double-strand breaks (seDSBs) and accurate fork restart by homologous recombination are crucial in maintaining genome stability.
FRONTIERS IN GENETICS
(2021)
Article
Biochemistry & Molecular Biology
Sijie Liu, Yu Hua, Jingna Wang, Lingyan Li, Junjie Yuan, Bo Zhang, Ziyang Wang, Jianguo Ji, Daochun Kong
Summary: Protection of 30 overhangs in DNA double-strand breaks (DSBs) repair is achieved through the transient formation of RNA-DNA hybrids, with RNA polymerase III (RNAPIII) responsible for synthesizing the RNA strand. CtIP and MRN nuclease activity are required for initiating RNAPIII-mediated RNA synthesis at DSBs. Reduced RNAPIII levels suppress homologous recombination (HR) and lead to genetic loss > 30 bp at DSBs.
Review
Cell Biology
Marcelo Santos da Silva
Summary: This article discusses the unique dependence of trypanosomatids on DSBs for important events such as antigenic variation, genetic exchange, and genomic changes, as well as how they balance the benefits and challenges caused by DSBs through homologous recombination.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Neurosciences
Xiaoyu Zhang, Yan Liu, Ming Huang, Sumedha Gunewardena, Mohammad Haeri, Russell H. Swerdlow, Ning Wang
Summary: This study identified an accumulation of DNA double-strand breaks (DSBs) in Alzheimer's disease (AD) brains, which differed from the pattern in control brains. The aberrant DSB formation was associated with AD-associated genetic variations, increased chromatin accessibility, and upregulated gene expression.
JOURNAL OF ALZHEIMERS DISEASE
(2023)
Article
Multidisciplinary Sciences
Albert W. Hinman, Hsin-Yi Yeh, Baptiste Roelens, Kei Yamaya, Alexander Woglar, Henri-Marc G. Bourbon, Peter Chi, Anne M. Villeneuve
Summary: Meiotic recombination plays essential roles in genetic diversity and genome inheritance, with DSB-3 identified as a protein promoting DSB formation in the nematode Caenorhabditis elegans. DSB-3 is interdependent with other DSB proteins and its localization supports its role as a homolog of MEI4 in conserved DSB-promoting complexes. Variations in meiotic programs across diverse organisms may contribute to the diversification of essential meiotic machinery components.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Physics, Applied
Katja Zocher, Raphael Rataj, Anna Steuer, Klaus-Dieter Weltmann, Juergen F. Kolb
JOURNAL OF PHYSICS D-APPLIED PHYSICS
(2020)
Article
Biochemistry & Molecular Biology
Hongmei Liu, Fukun Shi, Xiao Tang, Shuang Zheng, Juergen Kolb, Chenguo Yao
BIOELECTROCHEMISTRY
(2020)
Article
Oncology
Christina M. Wolff, Juergen F. Kolb, Klaus-Dieter Weltmann, Thomas von Woedtke, Sander Bekeschus
Article
Physics, Applied
Long Zhang, Fukun Shi, Jinsong Guo, Qun Wang, Juergen F. Kolb, Weidong Wang, Xiaodong Wu, Jie Zhuang
Summary: This study investigated the selective effects of nano-pulse stimulation (NPS) on cancer and normal cells using impedance spectroscopy, finding that cancer cells were more susceptible to electroporation compared to normal cells. The distance between cells and substrate, as well as the pulse number and duration, played a role in the cellular response. Moreover, intense NPS was shown to induce long-term changes in the cell-to-substrate interface for both cancer and normal cells.
JOURNAL OF PHYSICS D-APPLIED PHYSICS
(2021)
Article
Microbiology
Marie-Christine Sommer, Martina Balazinski, Raphael Rataj, Sebastian Wenske, Juergen F. Kolb, Katja Zocher
Summary: Phycocyanin is a valuable blue pigment synthesized by cyanobacteria and red algae, with potential pharmaceutical and nutritional applications. Extracting high-quality phycocyanin from red algae is challenging due to the rigid cell wall, requiring alternative methods as standard techniques have low yields. Spark discharges have shown potential for efficient extraction of phycocyanin from red algae.
Article
Nanoscience & Nanotechnology
Wenzuo Wei, Fukun Shi, Jie Zhuang, Juergen F. Kolb
Summary: The UM model developed is capable of considering the influence of both the environment and different inclusions simultaneously, and addressing interactions between different components using a fitting parameter v. Within a higher frequency range, the model accurately determines BV/TV values for different bone samples and the predictions of dielectric parameters are promising for assessing and distinguishing osteopathic conditions and differences.
Article
Biochemistry & Molecular Biology
Jie Zhuang, Cheng Zhu, Rui Han, Anna Steuer, Juergen F. Kolb, Fukun Shi
Summary: The influence of a Cole-Cole model's pertinent parameters on the assessment of cell-monolayers using electrical impedance spectroscopy (EIS) was investigated. Cold atmospheric plasma (CAP) was found to have an effect on intercellular junctions, potentially playing a key role in CAP-related biological effects. The analysis of Cole parameters revealed the frequency cut-off point between low and high frequency resistances, while the sensitivity analysis showed that certain parameters were more sensitive than others. The results indicated reversible changes in intercellular junctions and sustained changes in membrane permeability induced by CAP.
Article
Physics, Fluids & Plasmas
Raphael Rataj, Matthias Werneburg, Harald Below, Juergen F. Kolb
Summary: Submerged pulsed streamer discharges have shown potential in various applications, with short high-voltage pulses in the nanosecond range offering advantages in efficacies and efficiencies. The plasma chemistry relies on the production of short-lived species like hydroxyl radicals, and quantifying hydrogen peroxide provides insight into the underlying reactions. Parameters of high-voltage pulses, such as duration, amplitude, and steepness, impact the production rate and efficiency of hydrogen peroxide.
PLASMA SOURCES SCIENCE & TECHNOLOGY
(2022)
Review
Engineering, Environmental
Marcel Schneider, Raphael Rataj, Ludek Blaha, Juergen F. Kolb
Summary: The challenge of removing frequently occurring recalcitrant pollutants from drinking water has led to a rising interest in more advanced treatment methods. This study investigated six different treatment systems and found that a dielectric barrier discharge in a water mist was the most versatile approach for degradation of cylindrospermopsin.
CHEMICAL ENGINEERING JOURNAL
(2023)
Article
Biochemistry & Molecular Biology
Christina M. Wolff, Juergen F. Kolb, Sander Bekeschus
Summary: In modern oncology, combining different therapies to enhance treatment efficacy is a common approach. The combination of microsecond-pulsed electric fields and cold physical plasma treatment has shown synergistic effects, increasing the accumulation of reactive oxygen species (ROS), enhancing cytotoxicity against cancer cells, and promoting immune responses.
Article
Biochemistry & Molecular Biology
Nadja Engel, Michael Dau, Vivien Engel, Denise Franz, Fabian Klemmstein, Christiane Thanisch, Juergen F. Kolb, Marcus Frank, Armin Springer, Ruediger Koehling, Rainer Bader, Bernhard Frerich, Nadine Wiesmann, Diana Heimes, Peer W. Kaemmerer
Summary: By combining electrical stimulation of a commercial titanium implant with real-time impedance sensing, osteogenesis progress can be monitored and electrical stimulation can be adjusted accordingly for individual fracture healing.
Article
Chemistry, Physical
Raphael Rataj, Matthias Werneburg, Harald Below, Juergen F. Kolb
Summary: The production of hydrogen peroxide (H2O2) is studied for pulsed discharges in water with different conductivities. An electrochemical flow injection analysis method based on the reaction of Prussian blue with H2O2 is developed to measure the H2O2 concentration. The results show that the H2O2 concentration increases quadratically with propagation time and is stable for different water conductivities. The production efficiency decreases with higher conductivity due to increased resistive losses within the bulk liquid.
Article
Green & Sustainable Science & Technology
Michael Schmidt, Manfred Kettlitz, Juergen F. Kolb
Summary: The combination of non-thermal plasma with activated carbon filters offers a more efficient removal of VOCs from gas streams than individual methods. Efficiencies are increased through reduction of ozone by the filters and decomposition of pollutants on the carbon surface in humid air.
CLEANER ENGINEERING AND TECHNOLOGY
(2021)
Article
Environmental Sciences
Marcel Schneider, Raphael Rataj, Juergen F. Kolb, Ludek Blaha
ENVIRONMENTAL POLLUTION
(2020)
Article
Physics, Fluids & Plasmas
H. Hoeft, M. M. Becker, J. F. Kolb, T. Huiskamp
PLASMA SOURCES SCIENCE & TECHNOLOGY
(2020)
