Transcriptomic analysis of the adaptation to prolonged starvation of the insect-dwelling Trypanosoma cruzi epimastigotes by Pablo Smircich, Pablo Smircich, Leticia Pérez-Díaz, Fabricio Hernández, María Ana Duhagon, María Ana Duhagon, Beatriz Garat

“…Consistent with the quiescent status derived from nutrient restriction, genes related to DNA metabolism are regulated during the stationary phase. …”
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Closely-related Photobacterium strains comprise the majority of bacteria in the gut of migrating Atlantic cod (Gadus morhua) by Typhaine Le Doujet, Concetta De Santi, Terje Klemetsen, Erik Hjerde, Nils-Peder Willassen, Peik Haugen

“…A genomic-based functional profiling showed that the most abundant functional subsystems are “Carbohydrates”; “Amino Acids and Derivatives”; “Protein Metabolism”; “Cofactors, Vitamins, Prosthetic, Groups, and Pigments”; and “DNA Metabolism,” which is in agreement with other studies of gut microbiomes of marine organisms. …”
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Comparative analysis of chlorambucil-induced DNA lesion formation and repair in a spectrum of different human cell systems by Sarah Ceylan Krassnig, Marina Mäser, Nicola Anna Probst, Jens Werner, Charlotte Schlett, Nina Schumann, Gudrun von Scheven, Aswin Mangerich, Alexander Bürkle

“…They form DNA interstrand crosslinks (ICLs), which cause a blockage of DNA strand separation, inhibiting essential processes in DNA metabolism like replication and transcription. In fast replicating cells, e.g., tumor cells, this can induce cell death. …”
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Inducible expression of (pp)pGpp synthetases in Staphylococcus aureus is associated with activation of stress response genes. by Petra Horvatek, Andrea Salzer, Andrew Magdy Fekry Hanna, Fabio Lino Gratani, Daniela Keinhörster, Natalya Korn, Marina Borisova, Christoph Mayer, Dominik Rejman, Ulrike Mäder, Christiane Wolz

“…(pp)pGpp induction resulted in the downregulation of many genes involved in protein and RNA/DNA metabolism. Many of the (pp)pGpp upregulated genes are part of the GTP sensitive CodY regulon and thus likely regulated through lowering of the GTP pool. …”
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ATR-Mediated Global Fork Slowing and Reversal Assist Fork Traverse and Prevent Chromosomal Breakage at DNA Interstrand Cross-Links by Karun Mutreja, Jana Krietsch, Jeannine Hess, Sebastian Ursich, Matteo Berti, Fabienne K. Roessler, Ralph Zellweger, Malay Patra, Gilles Gasser, Massimo Lopes

“…Summary: Interstrand cross-links (ICLs) are toxic DNA lesions interfering with DNA metabolism that are induced by widely used anticancer drugs. …”
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Proteomic profiling of the interactions of Cd/Zn in roots of dwarf polish wheat (Triticum polonicum L.) by Yi Wang, Xiaolu Wang, Chao Wang, Ruijiao Wang, Fan Peng, Xue Xiao, Jian Zeng, Fan Xing, Houyang Kang, Lina Sha, Haiqin Zhang, Yonghong Zhou

“…Other proteins induced in response to Cd, Zn or Cd+Zn stress, participate in ribosome biogenesis, DNA metabolism, and protein folding/modificationand may also participate in the differential defense mechanisms.…”
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Bioinformatics analysis of aging-related genes in thoracic aortic aneurysm and dissection by Hong Wan, Danlingyi Liu, Bingqing Liu, Mengyao Sha, Wei Xia, Chang Liu

“…GO enrichment analysis revealed that the DEGs played a major role in regulating DNA metabolism and damaged DNA binding. KEGG enrichment analysis revealed enrichment in the longevity regulating pathway, cellular senescence, and HIF-1 signaling pathway. …”
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GEMIN4, a potential therapeutic targets for patients with basal-like subtype breast cancer by Liang Wu, Yue Zhang, Chunlei Zheng, Fuqiang Zhao, Yan Lin

“…Kaplan Meier survival analysis suggests that high GEMIN4 expression levels are associated with poor prognosis in BLBC patients;The GEMIN4 gene dependency score in HCC1143 and CAL120 cell lines is negative and low; Si-GEMIN4-1 can significantly reduce the mRNA expression of GEMIN4; Si-GEMIN4 can inhibit cell viability; Si-GEMIN4 can reduce the number of positive cells;GO enrichment analysis showed that GEMIN4 is associated with DNA metabolism processes and adenylate binding; KEGG pathway enrichment analysis shows that GEMIN4 is related to ribosome biogenesis in eukaryotes. …”
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Comparative genomics and proteomics of 13 Porphyromonas gingivalis strains by Tsute Chen, Huma Siddiqui, Ingar Olsen

“…Functions unique to individual genomes include: a tetracycline resistance protein TetQ, DNA metabolism gene YcfH, and DNA repair gene exonuclease SbcC (only in SJD2); very-short-patch mismatch repair endonuclease and a phage packaging terminase similar to Bacteroides phage B124-14 (in W4087); an internalin similar to a Listeria surface virulence protein (W83); a Type I restriction-modification system (F0569); an iron acquisition/heme transport protein (F0566); colicin I receptor and carbamoylputrescine amidase (W50); L-serine dehydratase (TDC60); and spermidine synthase and ribokinase (JCVISC001). …”
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Prevalence and mobility of integrative and conjugative elements within a Streptomyces natural population by Caroline Choufa, Abdoul-Razak Tidjani, Abdoul-Razak Tidjani, Anthony Gauthier, Manar Harb, Manar Harb, Julie Lao, Nathalie Leblond-Bourget, Michiel Vos, Pierre Leblond, Cyril Bontemps

“…A wide variety of cargo genes was present in the AICEs with the potential to mediate strain-specific adaptation (e.g., DNA metabolism and resistance genes to antibiotic and phages). …”
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Crystal Structure of DNA Replication Protein SsbA Complexed with the Anticancer Drug 5-Fluorouracil by Hsin-Hui Su, Yen-Hua Huang, Yi Lien, Po-Chun Yang, Cheng-Yang Huang

“…Single-stranded DNA-binding proteins (SSBs) play a crucial role in DNA metabolism by binding and stabilizing single-stranded DNA (ssDNA) intermediates. …”
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Large-scale Identification and Time-course Quantification of Ubiquitylation Events During Maize Seedling De-etiolation by Yue-Feng Wang, Qing Chao, Zhe Li, Tian-Cong Lu, Hai-Yan Zheng, Cai-Feng Zhao, Zhuo Shen, Xiao-Hui Li, Bai-Chen Wang

“…The majority of the ubiquitylated sites we identified corresponded to substrates involved in protein and DNA metabolism, such as ribosomes and histones. Meanwhile, multiple ubiquitylation sites were detected in proteins whose functions reflect the major physiological changes that occur during plant de-etiolation, such as hormone synthesis/signaling proteins, key C4 photosynthetic enzymes, and light signaling proteins. …”
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Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting <i>Salmonella enterica</i> by Karen Fong, Denise M. Tremblay, Pascal Delaquis, Lawrence Goodridge, Roger C. Levesque, Sylvain Moineau, Curtis A. Suttle, Siyun Wang

“…We further observed associations between genomic relatedness and the site of isolation, as well as genetic elements related to DNA metabolism and host virulence. Our data support the knowledge framework for phage diversity and phage&#8722;host interactions that are required for developing phage-based applications for various sectors, including biocontrol, detection and typing.…”
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<i>Pantoea</i> <i>agglomerans</i>-Infecting Bacteriophage vB_PagS_AAS21: A Cold-Adapted Virus Representing a Novel Genus within the Family <i>Siphoviridae</i> by Monika Šimoliūnienė, Lidija Truncaitė, Emilija Petrauskaitė, Aurelija Zajančkauskaitė, Rolandas Meškys, Martynas Skapas, Algirdas Kaupinis, Mindaugas Valius, Eugenijus Šimoliūnas

“…In total, 63 AAS21 ORFs were functionally annotated, including those coding for the proteins responsible for virion morphogenesis, phage-host interactions, and DNA metabolism. Proteomic analysis led to the experimental identification of 19 virion proteins, including 11 that were predicted by bioinformatics approaches. …”
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Novel genomic island modifies DNA with 7-deazaguanine derivatives by Thiaville, Jennifer J., Yuan, Yifeng, Hutinet, Geoffrey, Thiaville, Patrick C., Brochier-Armanet, Celine, Letarov, Andrey V., Malik, Chanchal K., Rizzo, Carmelo J., de Crécy-Lagard, Valérie, Kellner, Stefanie M, Jumpathong, Watthanachai, Mohapatra, Susovan, Hillebrand, Roman, Dedon, Peter C

“…The discovery of ∼20-kb gene clusters containing a family of paralogs of tRNA guanosine transglycosylase genes, called tgtA5, alongside 7-cyano-7-deazaguanine (preQ[subscript 0]) synthesis and DNA metabolism genes, led to the hypothesis that 7-deazaguanine derivatives are inserted in DNA. …”
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Phosphorylation of the human topoisomerase II protein by Fry, A, Fry, A. M.

“…<p>DNA topoisomerase II is an essential enzyme in eukaryotes and is required for many aspects of DNA metabolism including DNA replication, recombination, chromosome segregation and chromosome condensation. …”

Comparison of the RNA Content of Extracellular Vesicles Derived from <i>Paracoccidioides</i> <i>brasiliensis</i> and <i>Paracoccidioides lutzii</i> by Roberta Peres da Silva, Larissa G. V. Longo, Julia P. C. da Cunha, Tiago J. P. Sobreira, Marcio L. Rodrigues, Helisson Faoro, Samuel Goldenberg, Lysangela R. Alves, Rosana Puccia

“…Shared mRNA sequences were related to protein modification, translation, and DNA metabolism/biogenesis, while those related to transport and oxidation-reduction were exclusive to Pb01. …”
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Detrimental Effect of Ozone on Pathogenic Bacteria by Karyne Rangel, Fellipe O. Cabral, Guilherme C. Lechuga, João P. R. S. Carvalho, Maria H. S. Villas-Bôas, Victor Midlej, Salvatore G. De-Simone

“…The bacterial membrane of all strains was not affected by O₃ but presented a significant increase of ROS in <i>E. coli</i> (90 ± 14%), <i>P. aeruginosa</i> (62.5 ± 19%), and <i>A. baumanni</i> (52.6 ± 5%); (4) Conclusion: Low doses of ozone were able to interfere in the cell viability of most strains studied, and although it does not cause damage to the bacterial membrane, increased levels of reactive ROS are responsible for causing a detrimental effect in the lipids, proteins, and DNA metabolism.…”
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Exploration of the common genetic landscape of COVID-19 and male infertility by Yinwei Chen, Taotao Sun, Kang Liu, Penghui Yuan, Chang Liu

“…Module assessment of PPI network revealed that enriched GO functions were closely related to cell cycle and DNA metabolism processes. Pharmacologic agent prediction displayed protein-drug interactions of ascorbic acid, biotin, caffeine, and L-cysteine with CORGs. …”
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The C-Terminal Domain of Y-Box Binding Protein 1 Exhibits Structure-Specific Binding to Poly(ADP-Ribose), Which Regulates PARP1 Activity by Konstantin N. Naumenko, Mariya V. Sukhanova, Loic Hamon, Tatyana A. Kurgina, Tatyana A. Kurgina, Rashid O. Anarbaev, Rashid O. Anarbaev, Aswin Mangerich, David Pastré, Olga I. Lavrik, Olga I. Lavrik

“…Recent studies showed that in addition to its role in the RNA and DNA metabolism, YB-1 is involved in the regulation of PARP1 activity, which catalyzes poly(ADP-ribose) [PAR] synthesis under genotoxic stress through auto-poly(ADP-ribosyl)ation or protein trans-poly(ADP-ribosyl)ation. …”
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