Article
Biology
Aleksandr Alekseev, Georgii Pobegalov, Natalia Morozova, Alexey Vedyaykin, Galina Cherevatenko, Alexander Yakimov, Dmitry Baitin, Mikhail Khodorkovskii
Summary: This study investigated the regulation of RecA-ssDNA filaments by RecX using a single-molecule approach and found that RecX effectively binds the inactive conformation of RecA-ssDNA filaments and slows down the transition to the active state.
Article
Genetics & Heredity
Luciane Schons-Fonseca, Milena D. Lazova, Janet L. Smith, Mary E. Anderson, Alan D. Grossman
Summary: DNA replication is essential for all living organisms, and disruptions during replication can be caused by various events. Bacteria have multiple mechanisms for repairing damaged DNA, but little is known about the repair mechanisms for stalled or arrested replication forks without chemical alterations to DNA. This study identified 35 genes that affect cell survival during replication arrest and found that one repair mechanism was detrimental while the other was beneficial.
Article
Biology
Anamaria Babosan, David Skurnik, Anaelle Muggeo, Gerald B. Pier, Zeynep Baharoglu, Thomas Jove, Marie-Cecile Ploy, Sophie Griveau, Fethi Bedioui, Sebastien Vergnolle, Sophie Moussalih, Christophe de Champs, Didier Mazel, Thomas Guillard
Summary: PMQR genes promote high-level bacterial resistance to fluoroquinolone antibiotics, and we found that aminoglycosides can induce the SOS response, leading to elevated transcription of qnrD. The induction of SOS response is due to nitric oxide accumulation caused by sub-MIC of aminoglycosides.
Article
Multidisciplinary Sciences
Bo Gao, Liang Liang, Lu Su, Aijia Wen, Chun Zhou, Yu Feng
Summary: Bacterial RecA protein forms filaments with DinI protein in response to DNA damage. These RecA filaments stimulate the autocleavage of LexA, UmuD, and CI, leading to the activation of SOS response and mutagenic repair and lytic cycle. Our study on the structures of RecA filaments in complex with DinI, LexA, UmuD, and CI provides insights into the recognition of conserved protein features in the filament groove, which could be targeted for rational drug design against bacterial SOS response.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Biotechnology & Applied Microbiology
Xun Wang, Jiaming Chen, Jia Zhang, Yujunjie Zhou, Yu Zhang, Fei Wang, Xun LI
Summary: This study successfully increased the production of geraniol through strategies such as constructing a platform strain, optimizing protein expression, and utilizing fusion tags, as well as developing a high-throughput screening system to monitor fusion tag variants.
METABOLIC ENGINEERING
(2021)
Article
Microbiology
S. Diaz-Diaz, E. Recacha, J. Machuca, A. Garcia-Duque, F. Docobo-Perez, J. Blazquez, A. Pascual, J. M. Rodriguez-Martinez
Summary: Suppression of the recA gene and overproduction of ROS separately enhance fluoroquinolone activity and lethality. Synergistic effects were observed with double knockouts of recA and inactivated detoxification system genes, resulting in increased sensitization to ciprofloxacin. This study highlights the potential of targeting recA gene and oxidative detoxification stress systems to enhance antibiotic-induced bacterial cell death.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2021)
Article
Biochemistry & Molecular Biology
Alexander Yakimov, Irina Bakhlanova, Dmitry Baitin
Summary: Antibiotic resistance is acquired through activating SOS-dependent mutagenesis and horizontal gene transfer pathways, with compounds that inhibit SOS response being crucial for blocking mutagenesis. Regulators of homologous recombination are potential targets for inhibition, as highlighted in this review.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Lorenzo Maso, Filippo Vascon, Monica Chinellato, Frederic Goormaghtigh, Pierangelo Bellio, Enrica Campagnaro, Laurence Van Melderen, Maria Ruzzene, Els Pardon, Alessandro Angelini, Giuseppe Celenza, Jan Steyaert, Donatella Tondi, Laura Cendron
Summary: Antimicrobial resistance poses a threat to eradicating infectious diseases and reducing the effectiveness of available treatments. The bacterial SOS pathway is a key mechanism leading to resistance, and inhibiting this pathway may delay the evolution of antimicrobial resistance. In this study, nanobodies that bind to and block the SOS response in Escherichia coli were identified, paving the way for the development of new-generation antibiotic adjuvants for treating bacterial infections.
Article
Microbiology
Kathryn J. Stratton, Matthew J. Bush, Govind Chandra, Clare E. M. Stevenson, Kim C. Findlay, Susan Schlimpert
Summary: DNA damage triggers the SOS response in bacteria, and the number of genes regulated by LexA varies between different organisms. This study demonstrates the importance of RecA and LexA for the survival and normal development of Streptomyces venezuelae during DNA-damaging conditions. Through transcriptional profiling and ChIP-seq analysis, the LexA regulon and core DNA damage repair genes were identified in response to treatment with mitomycin C.
JOURNAL OF BACTERIOLOGY
(2022)
Article
Microbiology
Peter W. S. Hill, Ana Laura Moldoveanu, Molly Sargen, Severin Ronneau, Izabela Glegola-Madejska, Catrin Beetham, Robert A. Fisher, Sophie Helaine
Summary: Tolerance and persistence are superficially similar survival mechanisms for bacteria under antibiotic pressure, but they are underpinned by different physiological processes. Multidrug-tolerant bacteria enter a near-dormant state to avoid immune-mediated genotoxic damage, while persisters remain active to withstand macrophage-induced DNA breaks.
CELL HOST & MICROBE
(2021)
Article
Multidisciplinary Sciences
Wen Wei, Wei-Chin Ho, Megan G. Behringer, Samuel F. Miller, George Bcharah, Michael Lynch
Summary: Ecological and demographic factors can significantly shape the evolution of microbial populations, including the mutation rate. This study provides direct evidence that the mutation rate of Escherichia coli evolves rapidly in response to different transfer volumes and resource-replenishment intervals.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Miquel Sanchez-Osuna, Pilar Cortes, Mark Lee, Aaron T. Smith, Jordi Barbe, Ivan Erill
Summary: Lesions to DNA can threaten cell survival by compromising chromosome integrity, and the bacterial SOS response is a common transcriptional regulatory mechanism to address DNA damage. A novel family of transcriptional repressor proteins in the Bacteroidetes has been identified, orchestrating the canonical response to DNA damage in this phylum. The discovery sheds light on the origin and plasticity of the transcriptional network involved in the SOS response.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Cell Biology
Anna Brzostek, Przemyslaw Plocinski, Alina Minias, Aneta Ciszewska, Filip Gasior, Jakub Pawelczyk, Bozena Dziadek, Marcin Slomka, Jaroslaw Dziadek
Summary: This study identified elements of RecA-independent responses to DNA damage in pathogenic intracellular mycobacteria through global transcriptional profiling, revealing the differences between different response pathways.
Review
Microbiology
Marie Schopping, Ahmad A. Zeidan, Carl Johan Franzen
Summary: Bifidobacteria, naturally present in diverse environments including the gastrointestinal tracts of humans and animals, have gained significant scientific interest due to their potential as probiotics. However, their industrial-scale production and commercialization can be hindered by poor stability and robustness, which vary among different strains. Understanding the stress response mechanisms of bifidobacteria has become increasingly important, and omics technologies have provided new insights. This review summarizes the current knowledge on the stress responses of bifidobacteria and discusses strategies to improve their stability as probiotics.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
(2022)
Review
Biochemistry & Molecular Biology
Vaishali Kaushik, Monalisa Tiwari, Vishvanath Tiwari
Summary: This article discusses the mechanisms of action for antibiotics and how bacteria tolerate DNA damage through SOS response. Additionally, it explores the interconnection between DNA damage repair pathways and other survival mechanisms in bacteria, highlighting the potential of targeting SOS response for therapeutic purposes. The article emphasizes the importance of RecA as a promising target for hindering bacterial SOS response and enhancing antibiotic efficacy.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Article
Chemistry, Multidisciplinary
Jiapeng Hu, Xietao Yuan, Chonglong Wang, Xixi Shao, Baiyu Yang, Amir Abdul Razzaq, Xiaohui Zhao, Yuebin Lian, Zhao Deng, Muzi Chen, Yang Peng
Article
Biotechnology & Applied Microbiology
Yunhe Meng, Xixi Shao, Yan Wang, Yumei Li, Xiaojian Zheng, Gongyuan Wei, Seon-Won Kim, Chonglong Wang
BIOTECHNOLOGY AND BIOENGINEERING
(2020)
Article
Fisheries
Xing Zhang, Yunshan Zhang, Xiu Shi, Kun Dai, Zi Liang, Min Zhu, Ziyao Zhang, Zeen Shen, Jun Pan, Chonglong Wang, Xiaolong Hu, Chengliang Gong
Summary: The study found that lipid metabolism in BmN cells was disrupted upon BmCPV infection, leading to significant induction of major lipid constituents in the cellular membrane. Glycerophospholipid metabolism was identified as one of the most enriched pathways affected by the altered lipids.
DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY
(2021)
Article
Fisheries
Xing Zhang, Jingcai Huang, Zeen Shen, Yan Wang, Yujun Wang, Chengliang Gong, Xiaolong Hu, Chonglong Wang
Summary: This study used a lipidomic approach to investigate lipid profiling changes in grass carp kidney cells upon GCRV infection. A total of 97 lipid species were identified with 85 up-regulated and 12 down-regulated upon infection, mainly accumulation of neutral triacylglycerols. Metabolic pathway analysis showed enrichment in signaling and immune response pathways, such as regulation of autophagy, indicating potential novel defense strategies for viral hemorrhagic disease.
Article
Biotechnology & Applied Microbiology
Seong-Hee Jeong, Ji-Bin Park, Yan Wang, Gye-Hwan Kim, Gaochuan Zhang, Gongyuan Wei, Chonglong Wang, Seon-Won Kim
Summary: The study found that manipulating the intracellular level of cyclic AMP in E. coli can increase the production of terpenoids. This indicates that cell fitness plays an important role in compound production.
METABOLIC ENGINEERING
(2021)
Article
Biotechnology & Applied Microbiology
Xing Chen, Ying Wang, Chao-Yong He, Guo-Liang Wang, Gao-Chuan Zhang, Chong-Long Wang, Da-Hui Wang, Xiang Zou, Gong-Yuan Wei
Summary: Disrupting the mal31 gene significantly increases beta-glucan production in A. pullulans, while reducing its pullulan production capability. This study provides an effective method for improving beta-glucan production and identifies a useful gene for metabolic engineering to enhance polysaccharide production.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Chaoyong He, Zhen Zhang, Youdan Zhang, Guoliang Wang, Chonglong Wang, Dahui Wang, Gongyuan Wei
Summary: This study used cost-effective substrates to produce high molecular weight pullulan, optimized the medium using response surface methodology and artificial neural network, and analyzed the physiological mechanism of changes in pullulan titer and molecular weight using different substrates. Economic analysis showed a significant decrease in cost for using soybean meal hydrolysate and corn steep liquor substrates, improving the competitiveness of pullulan in industrial applications.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2021)
Article
Agriculture, Multidisciplinary
Yan Wang, Shenting Zhou, Qian Liu, Seong-Hee Jeong, Liyan Zhu, Xiangming Yu, Xiaojian Zheng, Gongyuan Wei, Seon-Won Kim, Chonglong Wang
Summary: This study optimized an alpha-santalene synthetic operon in E. coli by manipulating ribosome binding sites (RBSs). Deletion of the tnaA gene led to an increase in alpha-santalene production. These results suggest that optimizing the RBS sets of the synthetic module and attenuating competitive pathways are promising approaches for improving terpenoid production.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2021)
Article
Biotechnology & Applied Microbiology
Yan Wang, Shenting Zhou, Runyi Li, Qian Liu, Xixi Shao, Liyan Zhu, Min-Kyoung Kang, Gongyuan Wei, Seon-Won Kim, Chonglong Wang
Summary: This study assessed the impacts of E. coli hosts, acetyl-CoA supply, and NADPH availability on the production of mevalonate from glycerol. By engineering the xPK-PTA bypass and improving NADPH availability, a high yield of mevalonate was achieved. The findings provide valuable information for metabolically engineering the production of isoprenoids.
BIOTECHNOLOGY AND BIOENGINEERING
(2022)
Review
Immunology
Xing Zhang, Zi Liang, Chonglong Wang, Zeen Shen, Sufei Sun, Chengliang Gong, Xiaolong Hu
Summary: This review summarizes the biogenesis, functions, and future prospects of circular RNAs (circRNAs) derived from viruses and hosts. The study is important for understanding viral-encoded circRNAs during viral infections.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Electrochemistry
Ziwei Li, Xiaohui Zhao, Jiapeng Hu, Xietao Yuan, Yongze Qin, Chonglong Wang, Muzi Chen, Yang Peng, Jou-Hyeon Ahn, Zhao Deng
Summary: This study reports a polyaniline-derived hierarchical carbon capsule co-doped with Co, S, N, F (MHCC) as a sulfur host, synthesized through a dual-template strategy. The resulting capsular composite exhibits a hollow core and a mesoporous shell with various active sites that synergistically boost the redox kinetics. The Li-S cell with the MHCC cathode demonstrates high initial discharge capacity, long-term lifespan, and high areal capacity, paving the way for green Li-S batteries based on natural products.
ELECTROCHIMICA ACTA
(2023)
Article
Microbiology
Wenlin Zhou, Yujie Weng, Qian Liu, Chonglong Wang, Yu-Qing Zhang, Xing Zhang, Aihong Ye
Summary: Type II diabetes (T2D) is a global epidemic disease, and gut microbiota plays a crucial role in its development. This study investigated the effect of hydrolyzed sericin peptide (HSP) as a dietary additive on the gut microbiota of T2D model rats. The results showed that HSP supplementation lowered the blood glucose level of diabetic rats and induced a shift in the gut microbiota composition towards that of normal rats. Key taxa, including Lactobacillus gasseri, were suggested to be involved in controlling T2D development. These findings suggest the potential of sericin as a functional food or therapeutic prebiotic for T2D treatment.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Daohong He, Huasheng Wu, Huishu Jiang, Zhen Zhang, Chonglong Wang, Dahui Wang, Gongyuan Wei
Summary: This study screened a mutant of Candida utilis SE-172 with high selenite tolerance and glutathione (GSH) biosynthesis capability and investigated its physiological mechanism. Furthermore, the anti-inflammatory and antioxidant activities of this selenized yeast were evaluated in mice with colitis.
BIOLOGICAL TRACE ELEMENT RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Zi Liang, Renyu Xue, Xing Zhang, Manman Cao, Sufei Sun, Yunshan Zhang, Min Zhu, Ziyao Zhang, Kun Dai, Jun Pan, Guangli Cao, Chonglong Wang, Xiaolong Hu, Chengliang Gong
Summary: In this study, the beta-Arrestin 2 (BmArrestin 2) gene from the silkworm was cloned and characterized. It was found that BmArrestin 2 is mainly distributed in the cytoplasm. Overexpression of BmArrestin 2 promoted the replication of Bombyx mori nucleopolyhedrovirus (BmNPV) and B. mori cytoplasmic polyhedrosis virus (BmCPV), while silencing the gene inhibited viral replication. Blocking endogenous BmArrestin 2 decreased the invasion of recombinant BmNPV and BmCPV. These findings suggest that BmArrestin 2 could be a potential target for antiviral strategies.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Review
Chemistry, Physical
Xiaohui Zhao, Chonglong Wang, Ziwei Li, Xuechun Hu, Amir Abdul Razzaq, Zhao Deng
Summary: Lithium sulfur (Li-S) batteries have high theoretical specific capacity and energy density, while sulfurized polyacrylonitrile (SPAN) is known for completely eradicating the shuttle of lithium polysulfides and having good compatibility with carbonate-based electrolytes and manufacturing processes. Research on SPAN has focused on its chemical structure, redox reaction, and electrochemical performance over the past few decades.
JOURNAL OF MATERIALS CHEMISTRY A
(2021)
