Elucidating the Antimycobacterial Mechanism of Action of Decoquinate Derivative RMB041 Using Metabolomics by Kirsten E. Knoll, Zander Lindeque, Adetomiwa A. Adeniji, Carel B. Oosthuizen, Namrita Lall, Du Toit Loots

“…These changes support previous findings suggesting this drug acts primarily on the cell wall and secondarily on the DNA metabolism of <i>Mtb</i>. Additionally, we identified metabolic changes suggesting inhibition of protein synthesis and a state of dormancy.…”
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In Vitro and In Silico Characterization of an Antimalarial Compound with Antitumor Activity Targeting Human DNA Topoisomerase IB by Bini Chhetri Soren, Jagadish Babu Dasari, Alessio Ottaviani, Beatrice Messina, Giada Andreotti, Alice Romeo, Federico Iacovelli, Mattia Falconi, Alessandro Desideri, Paola Fiorani

“…Human DNA topoisomerase IB controls the topological state of supercoiled DNA through a complex catalytic cycle that consists of cleavage and religation reactions, allowing the progression of fundamental DNA metabolism. The catalytic steps of human DNA topoisomerase IB were analyzed in the presence of a drug, obtained by the open-access drug bank Medicines for Malaria Venture. …”
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Characterization of a Single-Stranded DNA-Binding-Like Protein from Nanoarchaeum equitans--A Nucleic Acid Binding Protein with Broad Substrate Specificity. by Marcin Olszewski, Jan Balsewicz, Marta Nowak, Natalia Maciejewska, Anna Cyranka-Czaja, Beata Zalewska-Piątek, Rafał Piątek, Józef Kur

“…SSB (single-stranded DNA-binding) proteins play an essential role in all living cells and viruses, as they are involved in processes connected with ssDNA metabolism. There has recently been an increasing interest in SSBs, since they can be applied in molecular biology techniques and analytical methods. …”
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Novel Conserved Genotypes Correspond to Antibiotic Resistance Phenotypes of E. coli Clinical Isolates. by Michelle C Swick, Michael A Evangelista, Truston J Bodine, Jeremy R Easton-Marks, Patrick Barth, Minita J Shah, Christina A Bormann Chung, Sarah Stanley, Stephen F McLaughlin, Clarence C Lee, Vrunda Sheth, Quynh Doan, Richard J Hamill, David Steffen, Lauren B Becnel, Richard Sucgang, Lynn Zechiedrich

“…Plasmid-encoded complementation of null strains with either allelic variant of mutM or ligB resulted in variable responses to ultraviolet light or hydrogen peroxide treatment as markers of induced DNA damage, indicating their importance in DNA metabolism and revealing a potential mechanism for fluoroquinolone resistance. …”
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Managing the Dual Nature of Iron to Preserve Health by Laura Silvestri, Mariateresa Pettinato, Valeria Furiosi, Letizia Bavuso Volpe, Antonella Nai, Alessia Pagani

“…Because of its peculiar redox properties, iron is an essential element in living organisms, being involved in crucial biochemical processes such as oxygen transport, energy production, DNA metabolism, and many others. However, its propensity to accept or donate electrons makes it potentially highly toxic when present in excess and inadequately buffered, as it can generate reactive oxygen species. …”
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The Clustered Regularly Interspaced Short Palindromic Repeats-Associated System and Its Relationship With Mobile Genetic Elements in Klebsiella by Yuqiao Zhou, Wei Zhou, Jinzhi Zhou, Jinchang Yan, Dingting Xu, Xiner Zheng, Shuaizhou Zong, Ping Jiang, Shiyi Tian, Jianzhong Han, Daofeng Qu

“…Through principal component analysis (PCA), we found that Cas gene, plasmids, integron, IS1, IS609, and enzymes of DNA metabolism were closely related to CRISPR-Cas. Compared the structural characteristics of plasmids, the DinG family helicases, Cas6, Csf2, and IS5 were observed near the CRISPR loci in plasmid, which is also confirmed by the results of PCA that they may be important factors affecting the plasmid with CRISPR.…”
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Antibacterial Activity and Mechanism of Ginger Essential Oil against <i>Escherichia coli</i> and <i>Staphylococcus aureus</i> by Xin Wang, Yi Shen, Kiran Thakur, Jinzhi Han, Jian-Guo Zhang, Fei Hu, Zhao-Jun Wei

“…GEO could thus inhibit the expression of some genes linked to bacterial energy metabolism, tricarboxylic acid cycle, cell membrane-related proteins, and DNA metabolism. Our findings speculate the bactericidal effects of GEO primarily through disruption of the bacterial cell membrane indicating its suitability in food perseveration.…”
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Pantoea Bacteriophage vB_PagS_MED16—A Siphovirus Containing a 2′-deoxy-7-amido-7-deazaguanosine-Modified DNA by Šimoliūnienė, Monika, Žukauskienė, Emilija, Truncaitė, Lidija, Cui, Liang, Hutinet, Geoffrey, Kazlauskas, Darius, Kaupinis, Algirdas, Skapas, Martynas, Crécy-Lagard, Valérie de, Dedon, Peter C., Valius, Mindaugas, Meškys, Rolandas, Šimoliūnas, Eugenijus

“…In total, 35 MED16 ORFs were given a putative functional annotation, including those coding for the proteins responsible for virion morphogenesis, phage–host interactions, and DNA metabolism. In addition, a gene encoding a preQ₀ DNA deoxyribosyltransferase (DpdA) is present in the genome of MED16 and the LC–MS/MS analysis indicates 2′-deoxy-7-amido-7-deazaguanosine (dADG)-modified phage DNA, which, to our knowledge, has never been experimentally validated in genomes of <i>Pantoea</i> phages. …”
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The role of Topoisomerase II in replication in mammalian cells by Muftic, D

“…Although unique in its ability to resolve catenated chromosomes, the role of Topo2α in other steps of DNA metabolism, such as DNA replication elongation and termination have been elusive. …”

Retroelement-Linked H3K4me1 Histone Tags Uncover Regulatory Evolution Trends of Gene Enhancers and Feature Quickly Evolving Molecular Processes in Human Physiology by Daniil Nikitin, Nikita Kolosov, Anastasiia Murzina, Karina Pats, Anton Zamyatin, Victor Tkachev, Maxim Sorokin, Philippe Kopylov, Anton Buzdin

“…The processes of gene silencing by small RNAs, DNA metabolism/chromatin structure, sensory perception/neurotransmission and lipids metabolism showed signs of the fastest regulatory evolution, while the slowest processes were connected with immunity, protein ubiquitination/degradation, cell adhesion, migration and interaction, metals metabolism/ion transport, cell death, intracellular signaling pathways.…”
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Redox Balance-DDR-miRNA Triangle: Relevance in Genome Stability and Stress Responses in Plants by Sara Cimini, Carla Gualtieri, Anca Macovei, Alma Balestrazzi, Laura De Gara, Vittoria Locato

“…The nuclear redox network participates in the regulation of the DNA metabolism, in terms of transcriptional events, replication, and repair mechanisms. …”
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Therapeutic Effect of a Newly Isolated Lytic Bacteriophage against Multi-Drug-Resistant <i>Cutibacterium acnes</i> Infection in Mice by Ho Yin Pekkle Lam, Meng-Jiun Lai, Ting-Yu Chen, Wen-Jui Wu, Shih-Yi Peng, Kai-Chih Chang

“…The ORFs were associated with phage structure, packing, host lysis, DNA metabolism, and additional functions. Phage treatments applied to mice with multi-drug-resistant (MDR) <i>C.…”
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Phage S144, a New Polyvalent Phage Infecting <i>Salmonella</i> spp. and <i>Cronobacter sakazakii</i> by Michela Gambino, Anders Nørgaard Sørensen, Stephen Ahern, Georgios Smyrlis, Yilmaz Emre Gencay, Hanne Hendrix, Horst Neve, Jean-Paul Noben, Rob Lavigne, Lone Brøndsted

“…In total, 32 ORFs coding for structural proteins were confirmed by ESI-MS/MS analysis, whereas 45 gene products were functionally annotated within DNA metabolism, packaging, nucleotide biosynthesis and phage morphogenesis. …”
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DNA Damage and Repair Deficiency in ALS/FTD-Associated Neurodegeneration: From Molecular Mechanisms to Therapeutic Implication by Haibo Wang, Haibo Wang, Manohar Kodavati, Gavin W. Britz, Gavin W. Britz, Muralidhar L. Hegde, Muralidhar L. Hegde

“…Several genes predominantly associated with RNA/DNA metabolism have been implicated in both ALS and FTD, suggesting that the two diseases share a common underlying pathology with varied clinical manifestations. …”
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Zero-valent iron sand filtration reduces concentrations of virus-like particles and modifies virome community composition in reclaimed water used for agricultural irrigation by Jessica Chopyk, Prachi Kulkarni, Daniel J. Nasko, Rhodel Bradshaw, Kalmia E. Kniel, Pei Chiu, Manan Sharma, Amy R. Sapkota

“…In addition, for both sample types, viral metagenomes (viromes) were dominated by bacteriophages of the order Caudovirales, largely Siphoviridae, and genes related to DNA metabolism. However, the proportion of sequences homologous to bacteria, as well as the abundance of genes possibly originating from a bacterial host, was higher in the viromes of zero-valent iron-sand filtered reclaimed water samples. …”
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Crystal Structure of an SSB Protein from <i>Salmonella enterica</i> and Its Inhibition by Flavanonol Taxifolin by En-Shyh Lin, Yen-Hua Huang, Ren-Hong Luo, Zarrin Basharat, Cheng-Yang Huang

“…Single-stranded DNA (ssDNA)-binding proteins (SSBs) play a central role in cells by participating in DNA metabolism, including replication, repair, recombination, and replication fork restart. …”
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Assessing the impact of Benzo[a]pyrene on Marine Mussels: Application of a novel targeted low density microarray complementing classical biomarker responses. by Mohamed Banni, Susanna Sforzini, Volker M Arlt, Audrey Barranger, Lorna J Dallas, Caterina Oliveri, Yann Aminot, Beniamina Pacchioni, Caterina Millino, Gerolamo Lanfranchi, James W Readman, Michael N Moore, Aldo Viarengo, Awadhesh N Jha

“…In addition to the well-known effects of B[a]P on DNA metabolism and oxidative stress, the new array data provided clues about the implication of other biological processes, such as cytoskeleton, immune response, adhesion to substrate, and mitochondrial activities. …”
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A Pyrazolate Osmium(VI) Nitride Exhibits Anticancer Activity through Modulating Protein Homeostasis in HepG2 Cells by Chengyang Huang, Wanqiong Huang, Pengchao Ji, Fuling Song, Tao Liu, Meiyang Li, Hongzhi Guo, Yongliang Huang, Cuicui Yu, Chuanxian Wang, Wenxiu Ni

“…Proteomics analysis revealed that <b>Na[Os^VI(N)(tpm)₂]</b> modulates the expression of protein-transportation-associated, DNA-metabolism-associated, and oxidative-stress-associated proteins in HepG2 cells. …”
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Identification, Characterization, and Preliminary X-ray Diffraction Analysis of a Single Stranded DNA Binding Protein (LjSSB) from Psychrophilic <i>Lacinutrix jangbogonensis</i> PA... by Woong Choi, Jonghyeon Son, Aekyung Park, Hongshi Jin, Seung Chul Shin, Jun Hyuck Lee, T. Doohun Kim, Han-Woo Kim

“…Single-stranded DNA-binding proteins (SSBs) are essential for DNA metabolism, including repair and replication, in all organisms. …”
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Novel ATP-cone-driven allosteric regulation of ribonucleotide reductase via the radical-generating subunit by Inna Rozman Grinberg, Daniel Lundin, Mahmudul Hasan, Mikael Crona, Venkateswara Rao Jonna, Christoph Loderer, Margareta Sahlin, Natalia Markova, Ilya Borovok, Gustav Berggren, Anders Hofer, Derek T Logan, Britt-Marie Sjöberg

“…Ribonucleotide reductases (RNRs) are key enzymes in DNA metabolism, with allosteric mechanisms controlling substrate specificity and overall activity. …”
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