Journal of Microbiology

Research Article

Lactic acid bacteria from Ethiopian traditional beverage, Tella: technological and metabolic profiles for industrial application: Gashaw Assefa Yehuala, Jaein Choe, Nurelegne Tefera Shibeshi, Kumsa Delessa, Asnake Desalegn, Mi-Kyung Park; J. Microbiol. 2025;63(1):e.2409008. Published online December 20, 2024; DOI: https://doi.org/10.71150/jm.2409008

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Tella is a traditional beverage widely accepted by consumers, despite the lack of product consistency owing to its reliance on natural fermentation. This study aimed to identify potential industrial lactic acid bacteria (LAB) starter cultures based on their technological properties. Seven LAB strains isolated from Tella were characterized for their carbohydrate utilization, salt content, temperature, and acid tolerances, growth and acidification rates, and metabolite profiles. Most strains efficiently utilized various carbohydrates, with Lactiplantibacillus plantarum TDM41 showing exceptional versatility. The strains exhibited similar growth characteristics. Principal component analysis of stress tolerance properties revealed that L. plantarum TDM41, Pediococcus pentosaceus TAA01, and Leuconostoc mesenteroides TDB22 exhibited superior tolerance ability. Strong acidification properties were detected in the L. plantarum TDM41, P. pentosaceus TAA01, and Leuconostoc mesenteroides TDB22 strains after 24 h incubation at 30°C. L. plantarum TDM41 displayed the fastest acidification rate throughout the analysis period. All LAB strains produced significant amounts of diverse organic acids, including lactic acid, citric acid, acetic acid, malic acid, and succinic acid, with lactic acid being the primary acid produced by each strain. Overall, strains L. plantarum TDM41 and P. pentosaceus TAA01 prove to be potential candidates for Tella industrial starter cultures and similar cereal products owing to their robust technological properties.

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Preparation method and physicochemical characteristics of Tella: an Ethiopian fermented beverage
Rabira Lemessa Gudeta, Solomon Abera, Hirpha Adugna Areti
Journal of Ethnic Foods.2025;[Epub] CrossRef

Journal Article

The Salmonella enterica EnvE is an Outer Membrane Lipoprotein and Its Gene Expression Leads to Transcriptional Repression of the Virulence Gene msgA: Sinyeon Kim, Yong Heon Lee; J. Microbiol. 2024;62(11):1013-1022. Published online November 15, 2024; DOI: https://doi.org/10.1007/s12275-024-00183-4

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Abstract PDF: The envE gene of Salmonella enterica serovar Typhimurium is encoded within Salmonella Pathogenicity Island-11 (SPI-11) and is located immediately upstream of the virulence gene msgA (macrophage survival gene A) in the same transcriptional orientation. To date, the characteristics and roles of envE remain largely unexplored. In this study, we show that EnvE, a predicted lipoprotein, is localized on the outer membrane using sucrose gradient ultracentrifugation. Under oxidative stress conditions, envE transcription is suppressed, while msgA transcription is induced, indicating an inverse correlation between the mRNA levels of the two neighboring genes. Importantly, inactivation of envE leads to constitutive transcription of msgA regardless of the presence of oxidative stress. Moreover, trans-complementation of the envE mutant with a plasmid-borne envE fails to prevent the induction of msgA transcription, suggesting that envE functions as a cis-regulatory element rather than a trans-acting factor. We further show that both inactivation and complementation of envE confer wild-type levels of resistance to oxidative stress by ensuring the expression of msgA. Our data suggest that the S. enterica envE gene encodes an outer membrane lipoprotein, and its transcription represses msgA expression in a cis-acting manner, probably by transcriptional interference, although the exact molecular details are yet unclear.

Reviews

Extensive Genomic Rearrangement of Catalase-Less Cyanobloom-Forming Microcystis aeruginosa in Freshwater Ecosystems: Minkyung Kim, Jaejoon Jung, Wonjae Kim, Yerim Park, Che Ok Jeon, Woojun Park; J. Microbiol. 2024;62(11):933-950. Published online October 8, 2024; DOI: https://doi.org/10.1007/s12275-024-00172-7

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Many of the world's freshwater ecosystems suffer from cyanobacteria-mediated blooms and their toxins. However, a mechanistic understanding of why and how Microcystis aeruginosa dominates over other freshwater cyanobacteria during warmer summers is lacking. This paper utilizes comparative genomics with other cyanobacteria and literature reviews to predict the gene functions and genomic architectures of M. aeruginosa based on complete genomes. The primary aim is to understand this species' survival and competitive strategies in warmer freshwater environments. M. aeruginosa strains exhibiting a high proportion of insertion sequences (~ 11%) possess genomic structures with low synteny across different strains. This indicates the occurrence of extensive genomic rearrangements and the presence of many possible diverse genotypes that result in greater population heterogeneities than those in other cyanobacteria in order to increase survivability during rapidly changing and threatening environmental challenges. Catalase-less M. aeruginosa strains are even vulnerable to low light intensity in freshwater environments with strong ultraviolet radiation. However, they can continuously grow with the help of various defense genes (e.g., egtBD, cruA, and mysABCD) and associated bacteria. The strong defense strategies against biological threats (e.g., antagonistic bacteria, protozoa, and cyanophages) are attributed to dense exopolysaccharide (EPS)-mediated aggregate formation with efficient buoyancy and the secondary metabolites of M. aeruginosa cells. Our review with extensive genome analysis suggests that the ecological vulnerability of M. aeruginosa cells can be overcome by diverse genotypes, secondary defense metabolites, reinforced EPS, and associated bacteria.

Citations

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Rapid and selective disruption of photosystem I in toxic cyanobacteria protects aquatic ecosystem health
Wonjae Kim, Yerim Park, Yongjun Son, Nayeon Yoo, Eui-Hwan Chung, Woojun Park
Journal of Hazardous Materials.2026; 501: 140736. CrossRef
Cyanophage Infections in a Sponge Intracellular Cyanobacterial Symbiont
Tzipora Peretz, Esther Cattan‐Tsaushu, Chiara Conti, Benyamin Rosental, Laura Steindler, Sarit Avrani
Environmental Microbiology.2025;[Epub] CrossRef
Public goods-mediated bacterial interplay in aquatic ecosystems
Yerim Park, Wonjae Kim, Jihye Bae, Woojun Park
Water Research.2025; 287: 124310. CrossRef
Horizontal Gene Transfer and Recombination in Cyanobacteriota
Devaki Bhaya, Gabriel Birzu, Eduardo P.C. Rocha
Annual Review of Microbiology .2025; 79(1): 685. CrossRef

Reverse Zoonotic Transmission of SARS-CoV-2 and Monkeypox Virus: A Comprehensive Review: Chiranjib Chakraborty, Manojit Bhattacharya, Md Aminul Islam, Hatem Zayed, Elijah Ige Ohimain, Sang-Soo Lee, Prosun Bhattacharya, Kuldeep Dhama; J. Microbiol. 2024;62(5):337-354. Published online May 23, 2024; DOI: https://doi.org/10.1007/s12275-024-00138-9

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Reverse zoonosis reveals the process of transmission of a pathogen through the human-animal interface and the spillback of the zoonotic pathogen. In this article, we methodically demonstrate various aspects of reverse zoonosis, with a comprehensive discussion of SARS-CoV-2 and MPXV reverse zoonosis. First, different components of reverse zoonosis, such as humans, different pathogens, and numerous animals (poultry, livestock, pets, wild animals, and zoo animals), have been demonstrated. Second, it explains the present status of reverse zoonosis with different pathogens during previous occurrences of various outbreaks, epidemics, and pandemics. Here, we present 25 examples from literature. Third, using several examples, we comprehensively illustrate the present status of the reverse zoonosis of SARS-CoV-2 and MPXV. Here, we have provided 17 examples of SARS-CoV-2 reverse zoonosis and two examples of MPXV reverse zoonosis. Fourth, we have described two significant aspects of reverse zoonosis: understanding the fundamental aspects of spillback and awareness. These two aspects are required to prevent reverse zoonosis from the current infection with two significant viruses. Finally, the One Health approach was discussed vividly, where we urge scientists from different areas to work collaboratively to solve the issue of reverse zoonosis.

Citations

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Phylogenetic analyses of the spread of Clade I MPOX in African and non-African nations
Chiranjib Chakraborty, Manojit Bhattacharya, Arpita Das, Ali S. Abdelhameed
Virus Genes.2025; 61(3): 265. CrossRef
Efficient and modular reverse genetics system for rapid generation of recombinant severe acute respiratory syndrome coronavirus 2
Sojung Bae, Jinjong Myoung
Journal of Microbiology.2025; 63(7): e2504015. CrossRef
Real-time malaria detection in the Amazon rainforest via drone-collected eDNA and portable qPCR
Yin Cheong Aden Ip, Luca Montemartini, Jia Jin Marc Chang, Andrea Desiderato, Nicolás D. Franco-Sierra, Christian Geckeler, Mailyn Adriana Gonzalez Herrera, Michele Gregorini, Meret Jucker, Steffen Kirchgeorg, Martina Lüthi, Elvira Mächler, Frederik Bendi
One Health.2025; 21: 101167. CrossRef
One digital health through wearables: a viewpoint on human–pet integration towards Healthcare 5.0
Mostafa Haghi, Samira Abani, Soheil Khooyooz, Anice Jahanjoo, Samaneh Rashidibajgan, Nima TaheriNejad, Thomas M. Deserno, Holger Volk
Frontiers in Digital Health.2025;[Epub] CrossRef
Development of a multiplex real-time PCR for the simultaneous detection of monkeypox virus clades I, II, and goatpox virus
Yongqiang Lin, Zijing Guo, Jinsong Chen, Xianwen Zhang, Long Zhou, Yanmin Li, Zhidong Zhang
Frontiers in Veterinary Science.2024;[Epub] CrossRef
Differential Impact of Spike Protein Mutations on SARS-CoV-2 Infectivity and Immune Evasion: Insights from Delta and Kappa Variants
Tae-Hun Kim, Sojung Bae, Jinjong Myoung
Journal of Microbiology and Biotechnology.2024; 34(12): 2506. CrossRef

Journal Articles

Comparative Transcriptomic Analysis of Flagellar‑Associated Genes in Salmonella Typhimurium and Its rnc Mutant: Seungmok Han , Ji-Won Byun , Minho Lee; J. Microbiol. 2024;62(1):33-48. Published online January 5, 2024; DOI: https://doi.org/10.1007/s12275-023-00099-5

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Salmonella enterica serovar Typhimurium (S. Typhimurium) is a globally recognized foodborne pathogen that affects both animals and humans. Endoribonucleases mediate RNA processing and degradation in the adaptation of bacteria to environmental changes and have been linked to the pathogenicity of S. Typhimurium. Not much is known about the specific regulatory mechanisms of these enzymes in S. Typhimurium, particularly in the context of environmental adaptation. Thus, this study carried out a comparative transcriptomic analysis of wild-type S. Typhimurium SL1344 and its mutant (Δrnc), which lacks the rnc gene encoding RNase III, thereby elucidating the detailed regulatory characteristics that can be attributed to the rnc gene. Global gene expression analysis revealed that the Δrnc strain exhibited 410 upregulated and 301 downregulated genes (fold-change > 1.5 and p < 0.05), as compared to the wild-type strain. Subsequent bioinformatics analysis indicated that these differentially expressed genes are involved in various physiological functions, in both the wild-type and Δrnc strains. This study provides evidence for the critical role of RNase III as a general positive regulator of flagellar-associated genes and its involvement in the pathogenicity of S. Typhimurium.

Citations

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CspA regulates stress resistance, flagellar motility and biofilm formation in Salmonella Enteritidis
Xiang Li, Yan Cui, Xiaohui Sun, Chunlei Shi, Shoukui He, Xianming Shi
Food Bioscience.2025; 66: 106237. CrossRef
The dual functions of the GTPase BipA in ribosome assembly and surface structure biogenesis in Salmonella enterica serovar Typhimurium
Eunsil Choi, Eunwoo Ryu, Donghwee Kim, Ji-Won Byun, Kahyun Kim, Minho Lee, Jihwan Hwang, Samuel Wagner
PLOS Pathogens.2025; 21(4): e1013047. CrossRef
Influence of Flagella on Salmonella Enteritidis Sedimentation, Biofilm Formation, Disinfectant Resistance, and Interspecies Interactions
Huixue Hu, Jingguo Xu, Jingyu Chen, Chao Tang, Tianhao Zhou, Jun Wang, Zhuangli Kang
Foodborne Pathogens and Disease.2024;[Epub] CrossRef

Effects of Phosphorus‑dissolving Dark Septate Endophytes on the Growth of Blueberry: Qixin Luo , Rui Hou , Xiaojing Shang , Si Li; J. Microbiol. 2023;61(9):837-851. Published online October 5, 2023; DOI: https://doi.org/10.1007/s12275-023-00080-2

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Abstract PDF

Dark septate endophytes (DSEs) are widely distributed and improve plant growth. DSEs secrete large amounts of enzymes to mineralize insoluble phosphorus in soil and convert it into soluble phosphorus, promoting plant uptake of phosphorus. However, the effects of DSEs with phosphate-solubilizing ability on host plants need further study. In this study, phosphorusdissolving DSEs were screened for growth-promoting effects. We isolated, identified and characterized three DSE species (Thozetella neonivea, Pezicula ericae and Hyaloscyphaceae sp.) showing phosphate-solubilizing ability. The impact of single, dual or triple inoculation of DSEs on blueberry plant characteristics was studied. Their effects on colonization intensity, seedling biomass, nutrients in plants and soil, and activities of plant resistance enzymes and soil enzymes were markedly upregulated relative to the control (P < 0.05). The available phosphorus and acid phosphatase levels in different combinations were significantly increased. These findings indicate that the application of the three DSEs may be valuable in facilitating the cultivation of blueberry with a higher biomass and improved plant quality.

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Needle in a Haystack: Culturing Plant‐Beneficial Helotiales Lineages From Plant Roots
Pauline Bruyant, Jeanne Doré, Laurent Vallon, Yvan Moënne‐Loccoz, Juliana Almario
Environmental Microbiology.2025;[Epub] CrossRef
Acidomelania saccharicola sp. nov., a new species of dark septate endophytes in Helotiales, with potential of controlling Fusarium wilt of banana
Qian Nong, Yan Zhang, Yanyan Long, Yanlu Chen, Liping Qin, Shanyu Lin, Fenghua Zeng, Ling Xie
Biological Control.2025; 206: 105781. CrossRef
The Three-Dimensional Structure of the Genome of the Dark Septate Endophyte Exophiala tremulae and Its Symbiosis Effect on Alpine Meadow Plant Growth
Chu Wu, Junjie Fan, Die Hu, Honggang Sun, Guangxin Lu, Yun Wang, Yujie Yang
Journal of Fungi.2025; 11(4): 246. CrossRef
Growth-Promoting Effects of Dark Septate Endophytes Fungus Acrocalymma on Tomato (Solanum lycopersicum)
Xiaoxiao Feng, Ying Jin, Zhupeiqi Zhong, Yongli Zheng, Huiming Wu
Journal of Fungi.2025; 11(7): 510. CrossRef
Inoculation dose and strain identity shape dark septate endophyte effects on plant-soil nutrient stoichiometry in ecological restoration
Shiwei Guo, Mingyi Li, Roujia Kang, Wennian Xu, Haoji Jia, Dong Xia, Daxiang Liu
Applied Soil Ecology.2025; 216: 106523. CrossRef
Dark septate endophytes promote the growth of Cynodon dactylon under drought stress and enhance its potential for use in the ecological restoration of slopes
Haoji Jia, Qiming Geng, Mingyi Li, Ran Wang, Fuhao Wang, Yuxin Deng, Wennian Xu, Daxiang Liu
Frontiers in Plant Science.2025;[Epub] CrossRef
Available Phosphorus Mediates the Community Structure of Dark Septate Endophytes in Halophytes
Boda Li, Yilin Luo, Haiyun Ding, Buyu Tian, Lingjie Xu, Yong Zhou
Journal of Soil Science and Plant Nutrition.2025;[Epub] CrossRef
The Trade-Off in Maize Seedlings: Dark Septate Fungus Inoculation and Phosphorus Fertilization Promote Nutrient Acquisition by Reducing Mycorrhizal Colonization
Philippe Solano Toledo Silva, Adrielle Rodrigues Prates, Natasha Mirella Inhã Godoi, Maria Gabriela de Oliveira Andrade, Renato Lustosa Sobrinho, Afrah E. Mohammed, Modhi O. Alotaibi, Seham M. Hamed, Ana Maria Rodrigues Cassiolato, Marcelo Carvalho Minhot
Communications in Soil Science and Plant Analysis.2025; : 1. CrossRef
Diversity and Functional Roles of Root-Associated Endophytic Fungi in Two Dominant Pioneer Trees Reclaimed from a Metal Mine Slag Heap in Southwest China
Bo Bi, Yuqing Xiao, Xiaonan Xu, Qianqian Chen, Haiyan Li, Zhiwei Zhao, Tao Li
Microorganisms.2024; 12(10): 2067. CrossRef
Short-term organic fertilizer substitution increases sorghum yield by improving soil physicochemical characteristics and regulating microbial community structure
Mengen Nie, Guangqian Yue, Lei Wang, Yizhong Zhang
Frontiers in Plant Science.2024;[Epub] CrossRef

Lactobacillus rhamnosus KBL2290 Ameliorates Gut Inflammation in a Mouse Model of Dextran Sulfate Sodium‑Induced Colitis: Woon-ki Kim , Sung-gyu Min , Heeun Kwon , SungJun Park , Min Jung Jo , GwangPyo Ko; J. Microbiol. 2023;61(7):673-682. Published online June 14, 2023; DOI: https://doi.org/10.1007/s12275-023-00061-5

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Abstract PDF

Ulcerative colitis, a major form of inflammatory bowel disease (IBD) associated with chronic colonic inflammation, may be induced via overreactive innate and adaptive immune responses. Restoration of gut microbiota abundance and diversity is important to control the pathogenesis. Lactobacillus spp., well-known probiotics, ameliorate IBD symptoms via various mechanisms, including modulation of cytokine production, restoration of gut tight junction activity and normal mucosal thickness, and alterations in the gut microbiota. Here, we studied the effects of oral administration of Lactobacillus rhamnosus (L. rhamnosus) KBL2290 from the feces of a healthy Korean individual to mice with DSS-induced colitis. Compared to the dextran sulfate sodium (DSS) + phosphate-buffered saline control group, the DSS + L. rhamnosus KBL2290 group evidenced significant improvements in colitis symptoms, including restoration of body weight and colon length, and decreases in the disease activity and histological scores, particularly reduced levels of pro-inflammatory cytokines and an elevated level of anti-inflammatory interleukin-10. Lactobacillus rhamnosus KBL2290 modulated the levels of mRNAs encoding chemokines and markers of inflammation; increased regulatory T cell numbers; and restored tight junction activity in the mouse colon. The relative abundances of genera Akkermansia, Lactococcus, Bilophila, and Prevotella increased significantly, as did the levels of butyrate and propionate (the major short-chain fatty acids). Therefore, oral L. rhamnosus KBL2290 may be a useful novel probiotic.

Citations

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Dietary supplementation with proanthocyanidins and rutin alleviates the symptoms of type 2 diabetes mice and regulates gut microbiota
Yue Gao, Binbin Huang, Yunyi Qin, Bing Qiao, Mengfei Ren, Liqing Cao, Yan Zhang, Maozhen Han
Frontiers in Microbiology.2025;[Epub] CrossRef
Lacticaseibacillus rhamnosus G7 alleviates DSS-induced ulcerative colitis by regulating the intestinal microbiota
Jianlong Lao, Man Chen, Shuping Yan, Han Gong, Zhaohai Wen, Yanhong Yong, Dan Jia, Shuting Lv, Wenli Zou, Junmei Li, Huiming Tan, Hong Yin, Xiangying Kong, Zengyuan Liu, Fucheng Guo, Xianghong Ju, Youquan Li
BMC Microbiology.2025;[Epub] CrossRef
Lactobacillus rhamnosus MP108 alleviates ulcerative colitis in mice by enhancing the intestinal barrier, inhibiting inflammation, and modulating gut microbiota
Huizhen Li, Yang Chen, Huiting Fang, Xinmei Guo, Xuecong Liu, Jianxin Zhao, Wei Chen, Bo Yang
Food Science and Human Wellness.2025; 14(6): 9250139. CrossRef
Therapeutic Potential of Short-Chain Fatty Acids in Gastrointestinal Diseases
Meng Tong Zhu, Jonathan Wei Jie Lee
Nutraceuticals.2025; 5(3): 19. CrossRef
Probiotics: Shaping the gut immunological responses
Eirini Filidou, Leonidas Kandilogiannakis, Anne Shrewsbury, George Kolios, Katerina Kotzampassi
World Journal of Gastroenterology.2024; 30(15): 2096. CrossRef
Synergistic effects of probiotics with soy protein alleviate ulcerative colitis by repairing the intestinal barrier and regulating intestinal flora
Rentang Zhao, Bingqing Shang, Luyan Sun, Suyuan Lv, Guolong Liu, Qiu Wu, Yue Geng
Journal of Functional Foods.2024; 122: 106514. CrossRef
Lactobacillus gasseri BNR17 and Limosilactobacillus fermentum ABF21069 Ameliorate High Sucrose-Induced Obesity and Fatty Liver via Exopolysaccharide Production and β-oxidation
Yu Mi Jo, Yoon Ji Son, Seul-Ah Kim, Gyu Min Lee, Chang Won Ahn, Han-Oh Park, Ji-Hyun Yun
Journal of Microbiology.2024; 62(10): 907. CrossRef
Immune-Stimulating Potential of Lacticaseibacillus rhamnosus LM1019 in RAW 264.7 Cells and Immunosuppressed Mice Induced by Cyclophosphamide
Yeji You, Sung-Hwan Kim, Chul-Hong Kim, In-Hwan Kim, YoungSup Shin, Tae-Rahk Kim, Minn Sohn, Jeseong Park
Microorganisms.2023; 11(9): 2312. CrossRef

Review

Membrane Proteins as a Regulator for Antibiotic Persistence in Gram‑Negative Bacteria: Jia Xin Yee , Juhyun Kim , Jinki Yeom; J. Microbiol. 2023;61(3):331-341. Published online February 17, 2023; DOI: https://doi.org/10.1007/s12275-023-00024-w

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Abstract PDF

Antibiotic treatment failure threatens our ability to control bacterial infections that can cause chronic diseases. Persister bacteria are a subpopulation of physiological variants that becomes highly tolerant to antibiotics. Membrane proteins play crucial roles in all living organisms to regulate cellular physiology. Although a diverse membrane component involved in persistence can result in antibiotic treatment failure, the regulations of antibiotic persistence by membrane proteins has not been fully understood. In this review, we summarize the recent advances in our understanding with regards to membrane proteins in Gram-negative bacteria as a regulator for antibiotic persistence, highlighting various physiological mechanisms in bacteria.

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Cardamom essential oil-loaded zinc oxide nanoparticles: A sustainable antimicrobial strategy against multidrug-resistant foodborne pathogens
Mabrouk Sobhy, Tamer Elsamahy, Esraa A. Abdelkarim, Ebtihal Khojah, Haiying Cui, Lin Lin
Microbial Pathogenesis.2025; 205: 107661. CrossRef
Amino Acid and Au(III) Self-Assembled Supramolecular Nanozymes for Antimicrobial Applications
Yunzhu Xu, Dahai Hou, Min Zhao, Tong Zhao, Yong Ma, Yafeng Zhang, Yang Guo, Weiwei Tao, Hui Wang
ACS Applied Nano Materials.2024; 7(19): 22505. CrossRef
PhoPQ-mediated lipopolysaccharide modification governs intrinsic resistance to tetracycline and glycylcycline antibiotics in Escherichia coli
Byoung Jun Choi, Umji Choi, Dae-Beom Ryu, Chang-Ro Lee, Mehrad Hamidian, You-Hee Cho
mSystems.2024;[Epub] CrossRef
Bacterial Regulatory Mechanisms for the Control of Cellular Processes: Simple Organisms’ Complex Regulation
Jin-Won Lee
Journal of Microbiology.2023; 61(3): 273. CrossRef

Journal Articles

Alpha‑Hemolysin from Staphylococcus aureus Obstructs Yeast‑Hyphae Switching and Diminishes Pathogenicity in Candida albicans: Xiaoyu Yu , Yinhe Mao , Guangbo Li , Xianwei Wu , Qiankun Xuan , Simin Yang , Xiaoqing Chen , Qi Cao , Jian Guo , Jinhu Guo , Wenjuan Wu; J. Microbiol. 2023;61(2):233-243. Published online February 9, 2023; DOI: https://doi.org/10.1007/s12275-022-00006-4

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The use of antibiotics can disrupt the body’s natural balance and increase the susteptibility of patients towards fungal infections. Candida albicans is a dimorphic opportunistic fungal pathogen with niches similar to those of bacteria. Our aim was to study the interaction between this pathogen and bacteria to facilitate the control of C. albicans infection. Alpha-hemolysin (Hla), a protein secreted from Staphylococcus aureus, causes cell wall damage and impedes the yeast–hyphae transition in C. albicans. Mechanistically, Hla stimulation triggered the formation of reactive oxygen species that damaged the cell wall and mitochondria of C. albicans. The cell cycle was arrested in the G0/G1 phase, CDC42 was downregulated, and Ywp1 was upregulated, disrupting yeast hyphae switching. Subsequently, hyphae development was inhibited. In mouse models, C. albicans pretreated with Hla reduced the C. albicans burden in skin and vaginal mucosal infections, suggesting that S. aureus Hla can inhibit hyphal development and reduce the pathogenicity of candidiasis in vivo.

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The therapeutic potential of phage-based antifungal treatment: strategies, mechanisms, and prospects
Haowen Xiao, Jiayue Xie, Zhiping Luo, Xiaomin Yu, Jumei Zeng, Yuqing Li
Critical Reviews in Microbiology.2025; : 1. CrossRef
Candida albicans and Candida glabrata : global priority pathogens
Myrto Katsipoulaki, Mark H. T. Stappers, Dhara Malavia-Jones, Sascha Brunke, Bernhard Hube, Neil A. R. Gow, Joseph Heitman
Microbiology and Molecular Biology Reviews.2024;[Epub] CrossRef

Brachybacterium kimchii sp. nov. and Brachybacterium halotolerans subsp. kimchii subsp. nov., isolated from the Korean fermented vegetables, kimchi, and description of Brachybacterium halotolerans subsp. halotolerans subsp. nov.: Yujin Kim , Yeon Bee Kim , Juseok Kim , Joon Yong Kim , Tae Woong Whon , Won-Hyong Chung , Eun-Ji Song , Young-Do Nam , Se Hee Lee , Seong Woon Roh; J. Microbiol. 2022;60(7):678-688. Published online July 4, 2022; DOI: https://doi.org/10.1007/s12275-022-1581-6

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Two Gram-stain-positive, oxidase-negative, catalase-positive, and coccus-shaped bacterial strains, designated CBA3104T and CBA3105T, were isolated from kimchi. Strain CBA3104T and CBA3105T grew at 10–35°C (optimum, 25°C and 30°C, respectively), at pH 6.0–8.5 (optimum, pH 6.5), and in the presence of 0–15% (w/v) NaCl (optimum, 5%). A phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CBA3104T formed a distinct phylogenetic lineage within the genus Brachybacterium whereas strain CBA3105T was closely positioned with Brachybacterium halotolerans MASK1Z-5T. The 16S rRNA gene sequence similarity between strains CBA3104T and CBA3105T was 99.9%, but ANI and dDDH values between strains CBA3104T and CBA3105T were 93.61% and 51.5%, respectively. Strain CBA3104T showed lower ANI and dDDH values than species delineation against three closely related strains and type species of the genus Brachybacterium, however, strain CBA3105T showed 96.63% ANI value and 69.6% dDDH value with Brachybacterium halotolerans MASK1Z-5T. Among biochemical analysis results, strain CBA3104T could uniquely utilize bromo-succinic acid whereas only strain CBA3105T was positive for alkaline phosphatase and α-fucosidase among two novel strains, closely related strains, and type species of the genus Brachybacterium. Compared with strain CBA3105T and Brachybacterium halotolerans JCM 34339T, strain CBA3105T was differentially positive for acid production of D-arabinose, D-adonitol, and potassium 5-ketogluconate and enzyme activity of β-glucuronidase. Both strains contained menaquinone-7 as the dominant quinone. The cell-wall peptidoglycan of two novel strains contained meso-diaminopimelic acid. The major fatty acids of strains CBA3104T and CBA3105T were anteiso-C15:0, anteiso-C17:0, and iso-C16:0. The major polar lipids of both strains were phosphatidylglycerol and diphosphatidylglycerol. Strain CBA3104T possessed a uniquely higher abundance of tRNA (97 tRNAs) than four Brachybacterium strains used for comparative taxonomic analysis (54–62 tRNAs). Both the CBA3104T and CBA3105T strain harbored various oxidoreductase, transferase, hydrolase, and lyase as strain-specific functional genes compared to closely related strains and Brachybacterium type species. The results of biochemical/physiological, chemotaxonomic, and genomic analyses demonstrated that strains CBA3104T and CBA3105T represent a novel species of the genus Brachybacterium and a novel subspecies of B. halotolerans, respectively, for which the names Brachybacterium kimchii sp. nov. and B. halotolerans subsp. kimchii subsp. nov. are proposed. The type strains of the novel species and the novel subspecies are CBA3104T (= KCCM 43417T = JCM 34759T) and CBA3105T (= KCCM 43418T = JCM 34760T), respectively.

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Metagenomic Insights into the Taxonomic and Functional Features of Traditional Fermented Milk Products from Russia
Alexander G. Elcheninov, Kseniya S. Zayulina, Alexandra A. Klyukina, Mariia K. Kremneva, Ilya V. Kublanov, Tatiana V. Kochetkova
Microorganisms.2023; 12(1): 16. CrossRef
Validation List no. 208. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef
Complete Genome Sequence of Brachybacterium sp. Strain NBEC-018, Isolated from Nematode-Infected Potatoes
Ling Chen, Yueying Wang, Nanxi Liu, Lei Zhu, Yong Min, Yimin Qiu, Yuxi Tian, Xiaoyan Liu, David Rasko
Microbiology Resource Announcements.2022;[Epub] CrossRef

Availability of polyamines affects virulence and survival of Neisseria meningitidis: Poonam Kanojiya , Riya Joshi , Sunil D. Saroj; J. Microbiol. 2022;60(6):640-648. Published online April 18, 2022; DOI: https://doi.org/10.1007/s12275-022-1589-y

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Neisseria meningitidis is a Gram-negative human-restricted pathogen that asymptomatically resides in the human respiratory tract. Meningococcal meningitis and sepsis both are caused by N. meningitidis. The bacterium must adhere to host epithelial cells in order to colonize effectively. The factors that determine the initial attachment to the host and dispersal, are not well understood. Metabolites released by the host may aid in meningococcal colonization and dissemination. Polyamines are aliphatic polycations that assist in cell survival and proliferation. The virulence properties of N. meningitidis after exposure to polyamines were investigated. Adhesion to nasopharyngeal epithelial cells increased in the presence of spermine. Also, the relative expression of adhesin, pilE increased in the presence of spermine. Further, relative expression of ctrA, ctrB and lipB was upregulated in the presence of spermidine, indicating increased capsule formation. Upregulated capsule synthesis of N. meningitidis in the presence of spermidine allows it to survive in murine macrophages. The study suggests the importance of the extracellular pool of polyamines in promoting virulence in N. meningitidis.

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Environmental desiccation stress induces viable but non culturable state in Neisseria meningitidis
Poonam Kanojiya, Tiyasa Haldar, Sunil D. Saroj
Archives of Microbiology.2025;[Epub] CrossRef
Bacterial metabolism in the host and its association with virulence
Amrita Bhagwat, Tiyasa Haldar, Poonam Kanojiya, Sunil D. Saroj
Virulence.2025;[Epub] CrossRef
Neisseria meningitidis: a traditional extracellular pathogen with an intense intracellular lifestyle
Silvia Caterina Resta, Adelfia Talà, Riccardo Conte, Matteo Calcagnile, Cecilia Bucci, Pietro Alifano
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Epsilon-poly-l-lysine inhibits biofilm formation and aids dispersion in Acinetobacter baumannii
Ujjayni Saha, Sakshi Shinde, Savita Jadhav, Sunil D. Saroj
Medicine in Microecology.2024; 21: 100110. CrossRef
Effect of respiratory tract co-colonizers on initial attachment of Neisseria meningitidis
Poonam Kanojiya, Sunil D. Saroj
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The human symbiont Bacteroides thetaiotaomicron promotes diet-induced obesity by regulating host lipid metabolism: Sang-Hyun Cho , Yong-Joon Cho , Joo-Hong Park; J. Microbiol. 2022;60(1):118-127. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1614-1

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The gut microbiome plays an important role in lipid metabolism. Consumption of a high-fat diet (HFD) alters the bacterial communities in the gut, leading to metabolic disorders. Several bacterial species have been associated with diet-induced obesity, nonalcoholic fatty liver disease, and metabolic syndrome. However, the mechanisms underlying the control of lipid metabolism by symbiotic bacteria remain elusive. Here, we show that the human symbiont Bacteroides thetaiotaomicron aggravates metabolic disorders by promoting lipid digestion and absorption. Administration of B. thetaiotaomicron to HFD-fed mice promoted weight gain, elevated fasting glucose levels, and impaired glucose tolerance. Furthermore, B. thetaiotaomicron treatment upregulated the gene expression of the fatty acid transporter and increased fatty acid accumulation in the liver. B. thetaiotaomicron inhibits expression of the gene encoding a lipoprotein lipase inhibitor, angiopoietin-like protein 4 (ANGPTL4), thereby increasing lipase activity in the small intestine. In particular, we found that B. thetaiotaomicron induced the expression of hepcidin, the master regulator of iron metabolism and an antimicrobial peptide, in the liver. Hepcidin treatment resulted in a decrease in ANGPTL4 expression in Caco-2 cells, whereas treatment with an iron chelator restored ANGPTL4 expression in hepcidin- treated cells. These results indicate that B. thetaiotaomicron- mediated regulation of iron storage in intestinal epithelial cells may contribute to increased fat deposition and impaired glucose tolerance in HFD-fed mice.

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Zhenyu Wang, Yifang Zhang, Xiaolei Shi, Xiaojun Li, Shangxiong Qi, Chunli Hu, Jin Zhao
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Ahmed Saadawi, Florian Mair, Esther Rosenwald, Daniel Hoces, Emma Slack, Manfred Kopf
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Kosuke Nakamichi, Tetsuhiro Yoshino, Masahiro Akiyama, Aya Jibiki, Yuta Yokoyama, Hitoshi Kawazoe, Sayo Suzuki, Kenji Watanabe, Yun-Gi Kim, Tomonori Nakamura
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Martin Šimon, Špela Mikec, Santosh S. Atanur, Janez Konc, Nicholas M. Morton, Simon Horvat, Tanja Kunej
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Yask Gupta, Anna Lara Ernst, Artem Vorobyev, Foteini Beltsiou, Detlef Zillikens, Katja Bieber, Simone Sanna-Cherchi, Angela M. Christiano, Christian D. Sadik, Ralf J. Ludwig, Tanya Sezin
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Dwiyanto Jacky, Chia Bibi, Look Melvin Chee Meng, Fong Jason, Tan Gwendoline, Lim Jeremy, Chong Chun Wie
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Antibacterial pathway of cefquinome against Staphylococcus aureus based on label-free quantitative proteomics analysis: Linglin Gao , Hao Zhu , Yun Chen , Yuhui Yang; J. Microbiol. 2021;59(12):1112-1124. Published online November 9, 2021; DOI: https://doi.org/10.1007/s12275-021-1201-x

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Cefquinome (CEQ) is a novel β-lactam antibiotic that exhibits excellent antibacterial activity against Staphylococcus aureus. However, the bacterial protein targets of CEQ are unclear. To evaluate the relationship between the pharmacokinetic/ pharmacodynamic (PK/PD) parameters of CEQ and strains with varying degrees of resistance and to elucidate bacterial protein responses to CEQ treatment, label-free quantitative proteomics analysis was conducted. The sensitive S. aureus ATCC6538 and the resistant 2MIC and 8MIC were tested for differentially expressed proteins. An in vitro model was treated with different concentrations of CEQ (3, 5, or 10 μg/ml) with different terminal half-lives (2.5 or 5 h) at different intervals (12 or 24 h). Differentially expressed proteins were evaluated using Gene Ontology analysis followed by KEGG pathway enrichment analysis and STRING network analysis. RT-qPCR was performed to validate the differentially expressed proteins at the molecular level. The results showed that the degree of resistance increased in a cumulative manner and increased gradually with the extension of administration time. The resistant strain would not have appeared in the model only if %T > mutant prevention concentration ≥ 50%. The expression of 45 proteins significantly changed following CEQ treatment, among which 42 proteins were obviously upregulated and 3 were downregulated. GO analysis revealed that the differentially expressed proteins were mainly present on cells and the cell membrane, participated in metabolic and intracellular processes, and had catalytic and binding activities. The RPSO, SDHB, CITZ, ADK, and SAOUHSC 00113 genes in S. aureus may play important roles in the development of resistance to CEQ. These results provided important reference candidate proteins as targets for overcoming S. aureus resistance to CEQ.

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Yue Hu, Hao Zhu, Xingbo Zhang, Yuhui Wu, Jingtao Li, Nan Li, Zhanbo Cai, Yuhui Yang
Microorganisms.2025; 13(2): 329. CrossRef
Ex Vivo Pharmacokinetic/Pharmacodynamic Integration Model of Cefquinome Against Escherichia coli in Foals
Tiantian Gao, Xuesong Liu, Di Qiu, Yanan Li, Zongsheng Qiu, Jingjing Qi, Shuxin Li, Xiaoyan Guo, Yan Zhang, Ziqi Wang, Xiang Gao, Yuhui Ma, Tianwen Ma
Veterinary Sciences.2025; 12(4): 294. CrossRef
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Jhon Fredy Cerón-Córdoba, Juan Carlos Bolaños-Bolaños, Henry Jurado-Gámez
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International Journal of Molecular Sciences.2023; 24(11): 9627. CrossRef

Review

Overview of bioinformatic methods for analysis of antibiotic resistome from genome and metagenome data: Kihyun Lee , Dae-Wi Kim , Chang-Jun Cha; J. Microbiol. 2021;59(3):270-280. Published online February 23, 2021; DOI: https://doi.org/10.1007/s12275-021-0652-4

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Whole genome and metagenome sequencing are powerful approaches that enable comprehensive cataloging and profiling of antibiotic resistance genes at scales ranging from a single clinical isolate to ecosystems. Recent studies deal with genomic and metagenomic data sets at larger scales; therefore, designing computational workflows that provide high efficiency and accuracy is becoming more important. In this review, we summarize the computational workflows used in the research field of antibiotic resistome based on genome or metagenome sequencing. We introduce workflows, software tools, and data resources that have been successfully employed in this rapidly developing field. The workflow described in this review can be used to list the known antibiotic resistance genes from genomes and metagenomes, quantitatively profile them, and investigate the epidemiological and evolutionary contexts behind their emergence and transmission. We also discuss how novel antibiotic resistance genes can be discovered and how the association between the resistome and mobilome can be explored.

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Yasufumi Matsumura, Masaki Yamamoto, Ryota Gomi, Yasuhiro Tsuchido, Koh Shinohara, Taro Noguchi, Miki Nagao, Jose M. Munita, Alexander Sundermann
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Journal Articles

iTRAQ-facilitated proteomic analysis of Bacillus cereus via degradation of malachite green: Bobo Wang , Jing Lu , Junfang Zheng , Zhisheng Yu; J. Microbiol. 2021;59(2):142-150. Published online February 1, 2021; DOI: https://doi.org/10.1007/s12275-021-0441-0

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The wide use of malachite green (MG) as a dye has caused substantial concern owing to its toxicity. Bacillus cereus can against the toxic effect of MG and efficiently decolourise it. However, detailed information regarding its underlying adaptation and degradation mechanisms based on proteomic data is scarce. In this study, the isobaric tags for relative and absolute quantitation (iTRAQ)-facilitated quantitative method was applied to analyse the molecular mechanisms by which B. cereus degrades MG. Based on this analysis, 209 upregulated proteins and 198 downregulated proteins were identified with a false discovery rate of 1% or less during MG biodegradation. Gene ontology and KEGG analysis determined that the differentially expressed proteins were enriched in metabolic processes, catalytic activity, antioxidant activity, and responses to stimuli. Furthermore, real-time qPCR was utilised to further confirm the regulated proteins involved in benzoate degradation. The proteins BCE_4076 (Acetyl-CoA acetyltransferase), BCE_5143 (Acetyl-CoA acetyltransferase), BCE_5144 (3-hydroxyacyl-CoA dehydrogenase), BCE_4651 (Enoyl-CoA hydratase), and BCE_5474 (3-hydroxyacyl-CoA dehydrogenase) involved in the benzoate degradation pathway may play an important role in the biodegradation of MG by B. cereus. The results of this study not only provide a comprehensive view of proteomic changes in B. cereus upon MG loading but also shed light on the mechanism underlying MG biodegradation by B. cereus.

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Engineering globins for efficient biodegradation of malachite green: two case studies of myoglobin and neuroglobin
Jiao Liu, Jia-Kun Xu, Hong Yuan, Xiao-Juan Wang, Shu-Qin Gao, Ge-Bo Wen, Xiang-Shi Tan, Ying-Wu Lin
RSC Advances.2022; 12(29): 18654. CrossRef

Influences of genetically perturbing synthesis of the typical yellow pigment on conidiation, cell wall integrity, stress tolerance, and cellulase production in Trichoderma reesei: Weixin Zhang , Ning An , Junqi Guo , Zhixing Wang , Xiangfeng Meng , Weifeng Liu; J. Microbiol. 2021;59(4):426-434. Published online January 26, 2021; DOI: https://doi.org/10.1007/s12275-021-0433-0

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Abstract PDF

The prominent protein producing workhorse Trichoderma reesei secretes a typical yellow pigment that is synthesized by a gene cluster including two polyketide synthase encoding genes sor1 and sor2. Two transcription factors (YPR1 and YPR2) that are encoded in the same cluster have been shown to regulate the expression of the sor genes. However, the physiological relevance of the yellow pigment synthesis in T. reesei is not completely clear. In this study, a yellow pigment hyper-producer OEypr1 and three yellow pigment non-producers, OEypr1-sor1, Δypr1, and OEypr2, were constructed. Their phenotypic features in mycelial growth, conidiation, cell wall integrity, stress tolerance, and cellulase production were determined. Whereas hyperproduction of the yellow pigment caused significant defects in all the physiological aspects tested, the non-producers showed similar colony growth, but improved conidiation, maintenance of cell wall integrity, and stress tolerance compared to the control strain. Moreover, in contrast to the severely compromised extracellular cellobiohydrolase production in the yellow pigment hyperproducer, loss of the yellow pigment hardly affected induced cellulase gene expression. Our results demonstrate that interfering with the yellow pigment synthesis constitutes an engineering strategy to endow T. reesei with preferred features for industrial application.

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Impact of feeding regimens on the composition of gut microbiota and metabolite profiles of plasma and feces from Mongolian sheep: Bohui Wang , Yulong Luo , Rina Su , Duo Yao , Yanru Hou , Chang Liu , Rui Du , Ye Jin; J. Microbiol. 2020;58(6):472-482. Published online April 22, 2020; DOI: https://doi.org/10.1007/s12275-020-9501-0

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Mongolian sheep are an indigenous ruminant raised for wool and meat production in China. The gut microbial community plays an important role in animal performance and metabolism. The objective of this study was to investigate the effects of two feeding regimens on the diversity and composition of gut microbiota and metabolite profiles of feces and plasma from Mongolian sheep. A total of 20 Mongolian sheep were assigned to one of two feeding regimens: free grazing (FG) and barn confinement (BC). When samples were collected, the average live weights of the sheep were 31.28 ± 1.56 kg and 34.18 ± 1.87 kg for the FG and BC groups, respectively. At the genus level, the FG group showed higher levels of Bacteroides, RC9_gut_group, Alistipes, Phocaeicola, Barnesiella, and Oscillibacter, and lower levels of Succinivibrio, Treponema, and Prevotella, compared to the BC group. The butyric acid content in feces was lower in the FG group (P < 0.05). Higher levels of palmitic acid, oleic acid, alpha-linolenic acid, L-carnitine, L-citrulline, and L-histidine, and lower levels of L-tyrosine, L-phenylalanine, and L-kynurenine were found in the plasma of the FG sheep. Moreover, there were substantial associations between several gut microbiota genera and alterations in feces and plasma metabolites especially those involved in the metabolism of butyric acid, linolenic acid, and L-tyrosine. Feeding regimens can not only influence the composition of gut microbiota, but also alter metabolic homeostasis in sheep.

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Improved tolerance of Escherichia coli to oxidative stress by expressing putative response regulator homologs from Antarctic bacteria: Seo-jeong Park , Sangyong Lim , Jong-il Choi; J. Microbiol. 2020;58(2):131-141. Published online December 23, 2019; DOI: https://doi.org/10.1007/s12275-020-9290-5

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Response regulator (RR) is known a protein that mediates cell’s response to environmental changes. The effect of RR from extremophiles was still under investigation. In this study, response regulator homologs were mined from NGS data of Antarctic bacteria and overexpressed in Escherichia coli. Sixteen amino acid sequences were annotated corresponding to response regulators related to the two-component regulatory systems; of these, 3 amino acid sequences (DRH632, DRH1601 and DRH577) with high homology were selected. These genes were cloned in pRadGro and expressed in E. coli. The transformant strains were subjected to various abiotic stresses including oxidative, osmotic, thermal stress, and acidic stress. There was found that the robustness of E. coli to abiotic stress was increased in the presence of these response regulator homologs. Especially, recombinant E. coli overexpressing drh632 had the highest survival rate in oxidative, hypothermic, osmotic, and acidic conditions. Recombinant E. coli overexpressing drh1601 showed the highest tolerance level to osmotic stress. These results will be applicable for development of recombinant strains with high tolerance to abiotic stress.

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The NADP+-dependent glutamate dehydrogenase Gdh1 is subjected to glucose starvation-induced reversible aggregation that affects stress resistance in yeast: Woo Hyun Lee , Ju Yeong Oh , Pil Jae Maeng; J. Microbiol. 2019;57(10):884-892. Published online August 3, 2019; DOI: https://doi.org/10.1007/s12275-019-9065-z

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The yeast Saccharomyces cerevisiae has two isoforms of NADP+-dependent glutamate dehydrogenase (Gdh1 and Gdh3) that catalyze the synthesis of glutamate from α-ketoglutarate and NH4 +. In the present study, we confirmed that Gdh3, but not Gdh1, mainly contributes to the oxidative stress resistance of stationary-phase cells and found evidence suggesting that the insignificance of Gdh1 to stress resistance is possibly resulted from conditional and reversible aggregation of Gdh1 into punctuate foci initiated in parallel with postdiauxic growth. Altered localization to the mitochondria or peroxisomes prevented Gdh1, which was originally localized in the cytoplasm, from stationary phase-specific aggregation, suggesting that some cytosolic factors are involved in the process of Gdh1 aggregation. Glucose starvation triggered the transition of the soluble form of Gdh1 into the insoluble aggregate form, which could be redissolved by replenishing glucose, without any requirement for protein synthesis. Mutational analysis showed that the N-terminal proximal region of Gdh1 (NTP1, aa 21-26, TLFEQH) is essential for glucose starvation-induced aggregation. We also found that the substitution of NTP1 with the corresponding region of Gdh3 (NTP3) significantly increased the contribution of the mutant Gdh1 to the stress resistance of stationary-phase cells. Thus, this suggests that NTP1 is responsible for the negligible role of Gdh1 in maintaining the oxidative stress resistance of stationary- phase cells and the stationary phase-specific stresssensitive phenotype of the mutants lacking Gdh3.

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Reviews

REVIEW] Antibacterial strategies inspired by the oxidative stress and response networks: So Youn Kim , Chanseop Park , Hye-Jeong Jang , Bi-o Kim , Hee-Won Bae , In-Young Chung , Eun Sook Kim , You-Hee Cho; J. Microbiol. 2019;57(3):203-212. Published online February 26, 2019; DOI: https://doi.org/10.1007/s12275-019-8711-9

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Oxidative stress arises from an imbalance between the excessive accumulation of reactive oxygen species (ROS) and a cell’s capability to readily detoxify them. Although ROS are spontaneously generated during the normal oxygen respiration and metabolism, the ROS generation is usually augmented by redox-cycling agents, membrane disrupters, and bactericidal antibiotics, which contributes their antimicrobial bioactivity. It is noted that all the bacteria deploy an arsenal of inducible antioxidant defense systems to cope with the devastating effect exerted by the oxidative stress: these systems include the antioxidant effectors such as catalases and the master regulators such as OxyR. The oxidative stress response is not essential for normal growth, but critical to survive the oxidative stress conditions that the bacterial pathogens may encounter due to the host immune response and/or the antibiotic treatment. Based on these, we here define the ROS-inspired antibacterial strategies to enhance the oxidative stress of ROS generation and/or to compromise the bacterial response of ROS detoxification, by delineating the ROSgenerating antimicrobials and the core concept of the bacterial response against the oxidative stress.

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MINIREVIEW] Synthetic lethal interaction between oxidative stress response and DNA damage repair in the budding yeast and its application to targeted anticancer therapy: Ji Eun Choi , Woo-Hyun Chung; J. Microbiol. 2019;57(1):9-17. Published online December 29, 2018; DOI: https://doi.org/10.1007/s12275-019-8475-2

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Abstract PDF

Synthetic lethality is an extreme form of negative genetic epistasis that arises when a combination of functional deficiency in two or more genes results in cell death, whereas none of the single genetic perturbations are lethal by themselves. This unconventional genetic interaction is a modification of the concept of essentiality that can be exploited for the purpose of targeted cancer therapy. The yeast Saccharomyces cerevisiae has been pivotally used for early large-scale synthetic lethal screens due to its experimental advantages, but recent advances in gene silencing technology have now made direct high-throughput analysis possible in higher organisms. Identification of tumor-specific alterations and characterization of the mechanistic principles underlying synthetic lethal interaction are the key to applying synthetic lethality to clinical cancer treatment by enabling genome-driven oncological research. Here, we provide emerging ideas on the synthetic lethal interactions in budding yeast, particularly between cellular processes responsible for oxidative stress response and DNA damage repair, and discuss how they can be appropriately utilized for context-dependent cancer therapeutics.

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Journal Articles

Astragaloside IV reversed the autophagy and oxidative stress induced by the intestinal microbiota of AIS in mice: Nan Xu , Pengcheng Kan , Xiuhua Yao , Ping Yang , Jiwei Wang , Lei Xiang , Yu Zhu; J. Microbiol. 2018;56(11):838-846. Published online October 24, 2018; DOI: https://doi.org/10.1007/s12275-018-8327-5

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Abstract PDF

Acute ischaemic stroke (AIS) seriously affects patient quality of life. We explored the role of the intestinal microbiota on oxidative stress and autophagy in stroke, and Astragaloside IV (AS-IV) reversed the changes induced by intestinal microbiota. We determined the characteristics of the intestinal microbiota of AIS and transient ischaemic attack (TIA) patients by 16S sequencing and found that the structure and diversity of the intestinal microbiota in patients with AIS and TIA were significantly different from those in healthy subjects. Specifically, the abundance of genus Bifidobacterium, Megamonas, Blautia, Holdemanella, and Clostridium, content of homocysteine and triglyceride was increased significantly, thus it may be as a potential mechanism of AIS and TIA. Furthermore, germ-free mice were infused intracolonically with fecal supernatants of TIA and AIS with/without feed AS-IV for 12 weeks, and we found that the feces of AIS up-regulated the autophagy markers Beclin-1, light chain 3 (LC3)-II and autophagy-related gene (Atg)12, and the expression of reactive oxygen species (ROS) and NADPH oxidase 2/4 (NOX2/4), malondialdehyde (MDA), however, the expression of total antioxidant capacity (T-AOC) and activity of superoxide dismutase (SOD) and glutathione (GSH) was down-regulated in brain tissue, the content of homocysteine and free fatty acids (FFA) in serum of the mice. Meanwhile, AS-IV could reverse the above phenomenon, however, it does not affect the motor function of mice. AS-IV reversed these changes and it may be a potential drug for AIS therapeutics.

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Streptomyces sp. strain SK68, isolated from peanut rhizosphere, promotes growth and alleviates salt stress in tomato (Solanum lycopersicum cv. Micro-Tom): Karthiyaini Damodharan , Sasikumar Arunachalam Palaniyandi , Bao Le , Joo-Won Suh , Seung Hwan Yang; J. Microbiol. 2018;56(10):753-759. Published online September 28, 2018; DOI: https://doi.org/10.1007/s12275-018-8120-5

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Abstract PDF

A novel actinobacterium, strain SK68, was isolated from the rhizosphere of peanut plant and its salinity stress alleviation ability was studied using tomato (Solanum lycopersicum cv. Micro-Tom) plants. Based on 16S rDNA based phylogenetic analysis, strain SK68 has been identified as a Streptomyces sp. Strain SK68 had branched substrate mycelium bearing smooth surfaced spores and the spore colour is brownish grey on ISP4 medium. It exhibited enzyme activities such as xylanase, cellulase, amylase, and pectinase and degraded hypoxanthine, casein, and L-tyrosine. The strain SK68 differed in its banding pattern in BOX-PCR and RAPD fingerprinting compared to the closely matching type strains Streptomyces erythrochromogenes NBRC 3304T (AB184746), S. flavotricini NBRC 12770T (AB184132), S. racemochromogenes NBRC 12906T (AB184235), and S. polychromogenes NBRC 13072T (NR041109). Strain SK68 was evaluated for its salinity stress-alleviating activity in tomato plants with 180 mmol/L NaCl under gnotobiotic condition. A significant increase in plant biomass was observed in strain SK68-inoculated tomato plants under salt stress compared to control and salt-stressed non-inoculated plants.

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Hydrogen sulfide inhibits the growth of Escherichia coli through oxidative damage: Liu-Hui Fu , Zeng-Zheng Wei , Kang-Di Hu , Lan-Ying Hu , Yan-Hong Li , Xiao-Yan Chen , Zhuo Han , Gai-Fang Yao , Hua Zhang; J. Microbiol. 2018;56(4):238-245. Published online February 28, 2018; DOI: https://doi.org/10.1007/s12275-018-7537-1

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Abstract PDF

Many studies have shown that hydrogen sulfide (H2S) is both detrimental and beneficial to animals and plants, whereas its effect on bacteria is not fully understood. Here, we report that H2S, released by sodium hydrosulfide (NaHS), significantly inhibits the growth of Escherichia coli in a dose-dependent manner. Further studies have shown that H2S treatment stimulates the production of reactive oxygen species (ROS) and decreases glutathione (GSH) levels in E. coli, resulting in lipid peroxidation and DNA damage. H2S also inhibits the antioxidative enzyme activities of superoxide dismutase (SOD), catalase (CAT) and glutathione reductase (GR) and induces the response of the SoxRS and OxyR regulons in E. coli. Moreover, pretreatment with the antioxidant ascorbic acid (AsA) could effectively prevent H2S-induced toxicity in E. coli. Taken together, our results indicate that H2S exhibits an antibacterial effect on E. coli through oxidative damage and suggest a possible application for H2S in water and food processing.

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Application of high-salinity stress for enhancing the lipid productivity of Chlorella sorokiniana HS1 in a two-phase process: Ramesh Kakarla , Jung-Woon Choi , Jin-Ho Yun , Byung-Hyuk Kim , Jina Heo , Sujin Lee , Dae-Hyun Cho , Rishiram Ramanan , Hee-Sik Kim; J. Microbiol. 2018;56(1):56-64. Published online January 4, 2018; DOI: https://doi.org/10.1007/s12275-018-7488-6

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Abstract PDF

Increased lipid accumulation of algal cells as a response to environmental stress factors attracted much attention of researchers to incorporate this stress response into industrial algal cultivation process with the aim of enhancing algal lipid productivity. This study applies high-salinity stress condition to a two-phase process in which microalgal cells are initially grown in freshwater medium until late exponential phase and subsequently subjected to high-salinity condition that induces excessive lipid accumulation. Our initial experiment revealed that the concentrated culture of Chlorella sorokiniana HS1 exhibited the intense fluorescence of Nile red at the NaCl concentration of 60 g/L along with 1 g/L of supplemental bicarbonate after 48 h of induction period without significantly compromising cultural integrity. These conditions were further verified with the algal culture grown for 7 days in a 1 L bottle reactor that reached late exponential phase; a 12% increment in the lipid content of harvested biomass was observed upon inducing high lipid accumulation in the concentrated algal culture at the density of 5.0 g DW/L. Although an increase in the sum of carbohydrate and lipid contents of harvested biomass indicated that the external carbon source supplemented during the induction period increased overall carbon assimilation, a decrease in carbohydrate content suggested the potential reallocation of cellular carbon that promoted lipid droplet formation under high-salinity stress. These
results
thus emphasize that the two-phase process can be successfully implemented to enhance algal lipid productivity by incorporating high-salinity stress conditions into the pre-concentrated sedimentation ponds of industrial algal production system.

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Direct interaction between the transcription factors CadC and OmpR involved in the acid stress response of Salmonella enterica: Yong Heon Lee , Ji Hye Kim; J. Microbiol. 2017;55(12):966-972. Published online December 7, 2017; DOI: https://doi.org/10.1007/s12275-017-7410-7

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In Salmonella enterica serovar Typhimurium, the acid-sensing regulator CadC activates transcription of the cadBA operon which contributes to the acid tolerance response. The DNA-binding response regulator OmpR in two-component regulatory system with EnvZ binds to its own promoter for autoinduction. We previously reported that CadC exerts a negative influence on ompR transcription during acid adaptation. However, its underlying mechanisms remain to be elucidated. Here we show that the level of OmpR protein is gradually reduced by a gradual increase in the CadC level using an arabinose-inducible expression system, indicating there exists a negative correlation between the expression levels of two transcription factors. To explore the molecular basis for OmpR repression by CadC, we performed in vitro binding assays and determined that CadC directly interacts with OmpR. We further show that inactivation of cadC inhibits transcription of the fliC gene, which encodes the major flagellar subunit,
result
ing in impaired flagellar motility under acid-adaptation conditions. Together, our findings suggest that CadC may repress autoinduction of the OmpR response regulator through their direct interaction.

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Molecular mechanism of proteolytic cleavage-dependent activation of CadC-mediated response to acid in E. coli
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Host acid signal controls Salmonella flagella biogenesis through CadC-YdiV axis
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ZntR positively regulates T6SS4 expression in Yersinia pseudotuberculosis: Tietao Wang , Keqi Chen , Fen Gao , Yiwen Kang , Muhammad Tausif Chaudhry , Zhuo Wang , Yao Wang , Xihui Shen; J. Microbiol. 2017;55(6):448-456. Published online March 10, 2017; DOI: https://doi.org/10.1007/s12275-017-6540-2

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The type VI secretion system (T6SS) is a widespread and versatile protein secretion system found in most Gram- negative bacteria. Studies of T6SS have mainly focused on its role in virulence toward host cells and inter-bacterial inter-actions, but studies have also shown that T6SS4 in Yersinia pseudotuberculosis participates in the acquisition of zinc ions to alleviate the accumulation of hydroxyl radicals induced by multiple stressors. Here, by comparing the gene expression patterns of wild-type and zntR mutant Y. pseudotubercu-losis cells using RNA-seq analysis, T6SS4 and 17 other bio-logical processes were found to be regulated by ZntR. T6SS4 was positively regulated by ZntR in Y. pseudotuberculosis, and further investigation demonstrated that ZntR regulates T6SS4 by directly binding to its promoter region. T6SS4 ex-pression is regulated by zinc via ZntR, which maintains in-tracellular zinc homeostasis and controls the concentration of reactive oxygen species to prevent bacterial death under oxidative stress. This study provides new insights into the regulation of T6SS4 by a zinc-dependent transcriptional regu-lator, and it provides a foundation for further investigation of the mechanism of zinc transport by T6SS.

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International Journal of Molecular Sciences.2025; 26(4): 1472. CrossRef
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Oxidative stress response of Deinococcus geothermalis via a cystine importer: Minwook Kim , Sunwook Jeong , Sangyong Lim , Jeonggu Sim , Ho-Gun Rhie , Sung-Jae Lee; J. Microbiol. 2017;55(2):137-146. Published online January 26, 2017; DOI: https://doi.org/10.1007/s12275-017-6382-y

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A cystine-dependent anti-oxidative stress response is characterized in Deinococcus geothermalis for the first time. Nevertheless, the same transcriptional directed Δdgeo_1985F mutant strain was revealed to have an identical phenotype to the wild-type strain, while the reverse transcriptional directed Δdgeo_1985R mutant strain was more resistant to oxidative stress at a certain concentration of H2O2 than the wild-type strain. The wild-type and mutant strains expressed equal levels of superoxide dismutase and catalase under H2O2-induced stress. Although the expression levels of the general DNAdamage response-related genes recA, pprA, ddrA, and ddrB were up-regulated by more than five-fold in the wild-type strain relative to the Δdgeo_1985R mutant strain, the mutant strain had a higher survival rate than the wild-type under H2O2 stress. The Δdgeo_1985R mutant strain highly expressed a cystine-transporter gene (dgeo_1986), at levels 150-fold higher than the wild-type strain, leading to the conclusion that this cystine transporter might be involved in the defensive response to H2O2 stress. In this study, the cystine transporter was identified and characterized through membrane protein expression analysis, a cystine-binding assay, and assays of intracellular H2O2, cysteine, and thiol levels. The genedisrupted mutant strain of the cystine importer revealed high sensitivity to H2O2 and less absorbed cystine, resulting in low concentrations of total thiol. Thus, the absorbed cystine via this cystine-specific importer may be converted into cysteine, which acts as a primitive defense substrate that non-enzymatically scavenges oxidative stress agents in D. geothermalis.

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The Mechanism of Zinc Oxide in Alleviating Diarrhea in Piglets after Weaning: A Review from the Perspective of Intestinal Barrier Function
Xiaopeng Tang, Kangning Xiong, Yan Zeng, Rejun Fang
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The Transposition of Insertion Sequences in Sigma-Factor- and LysR-Deficient Mutants of Deinococcus geothermalis
Ji Hyun Park, Sohee Lee, Eunjung Shin, Sama Abdi Nansa, Sung-Jae Lee
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Transposition of insertion sequences by dielectric barrier discharge plasma and gamma irradiation in the radiation-resistant bacterium Deinococcus geothermalis
Qianying Ye, Eunjung Shin, Chanjae Lee, Nakjun Choi, Yeonho Kim, Ki Sun Yoon, Sung-Jae Lee
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Kyungsil Choo, Minwook Kim, Sama Abdi Nansa, Min K. Bae, Chanjae Lee, Sung-Jae Lee
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Biosynthesis and uptake of glycine betaine as cold-stress response to low temperature in fish pathogen Vibrio anguillarum: Yue Ma , Qiyao Wang , Xiating Gao , Yuanxing Zhang; J. Microbiol. 2017;55(1):44-55. Published online December 30, 2016; DOI: https://doi.org/10.1007/s12275-017-6370-2

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Fish pathogen Vibrio anguillarum, a mesophile bacterium, is usually found in estuarine and marine coastal ecosystems worldwide that pose a constant stress to local organism by its fluctuation in salinity as well as notable temperature change. Though V. anguillarum is able to proliferate while maintain its pathogenicity under low temperature (5–18°C), so far, coldadaption molecular mechanism of the bacteria is unknown. In this study, V. anguillarum was found possessing a putative glycine betaine synthesis system, which is encoded by betABI and synthesizes glycine betaine from its precursor choline. Furthermore, significant up-regulation of the bet gene at the transcriptional level was noted in log phase in response to cold-stress. Moreover, the accumulation of betaine glycine was only found appearing at low growth temperatures, suggesting that response regulation of both synthesis system and transporter system are cold-dependent. Furthermore, in-frame deletion mutation in the two putative ABC transporters and three putative BCCT family transporters associated with glycine betaine uptake could not block cellular accumulation of betaine glycine in V. anguillarum under coldstress, suggesting the redundant feature in V. anguillarum betaine transporter system. These findings confirmed that glycine betaine serves as an effective cold stress protectant and highlighted an underappreciated facet of the acclimatization of V. anguillarum to cold environments.

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Research Support, Non-U.S. Gov't

Photosynthetic inhibition and oxidative stress to the toxic Phaeocystis globosa caused by a diketopiperazine isolated from products of algicidal bacterium metabolism: Shuo Tan , Xiaoli Hu , Pinghe Yin , Ling Zhao; J. Microbiol. 2016;54(5):364-375. Published online April 20, 2016; DOI: https://doi.org/10.1007/s12275-016-6012-0

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Algicidal bacteria have been turned out to be available for inhibiting Phaeocystis globosa which frequently caused harmful algal blooms and threatened to economic development and ecological balance. A marine bacterium Bacillus sp. Ts-12 exhibited significant algicidal activity against P. globosa by indirect attack. In present study, an algicidal compound was isolated by silica gel column, Sephadex G-15 column and HPLC, further identified as hexahydropyrrolo[1,2-a]pyrazine- 1,4-dione, cyclo-(Pro-Gly), by GC-MS and 1H-NMR. Cyclo-(Pro-Gly) significantly increased the level of reactive oxygen species (ROS) within P. globosa cells, further activating the enzymatic and non-enzymatic antioxidant systems, including superoxide dismutase (SOD), catalase (CAT), glutathione (GSH) and ascorbic acid (AsA). The increase in methane dicarboxylic aldehyde (MDA) content showed that the surplus ROS induced lipid peroxidation on membrane system. Transmission electron microscope (TEM) and flow cytometry (FCM) analysis revealed that cyclo-(Pro-Gly) caused reduction of Chl-a content, destruction of cell membrane integrity, chloroplasts and nuclear structure. Real-time PCR assay showed that the transcriptions of photosynthesis related genes (psbA, psbD, rbcL) were significantly inhibited. This study indicated that cyclo-(Pro-Gly) from marine Bacillus sp. Ts-12 exerted photosynthetic inhibition and oxidative stress to P. globosa and eventually led to the algal cells lysis. This algicidal compound might be potential bio-agent for controlling P. globosa red tide.

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Review

REVIEW] The contribution of Aspergillus fumigatus stress responses to virulence and antifungal resistance: Neil A. Brown , Gustavo H. Goldman; J. Microbiol. 2016;54(3):243-253. Published online February 27, 2016; DOI: https://doi.org/10.1007/s12275-016-5510-4

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Abstract PDF

Invasive aspergillosis has emerged as one of the most common life-threatening fungal disease of humans. The emergence of antifungal resistant pathogens represents a current and increasing threat to society. In turn, new strategies to combat fungal infection are urgently required. Fungal adaptations to stresses experienced within the human host are a prerequisite for the survival and virulence strategies of the pathogen. Here, we review the latest information on the signalling pathways in Aspergillus fumigatus that contribute to stress adaptations and virulence, while highlighting their potential as targets for the development of novel combinational antifungal therapies.

Citations

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Research Support, Non-U.S. Gov't

Lactobacillus rhamnosus CCFM1107 treatment ameliorates alcohol-induced liver injury in a mouse model of chronic alcohol feeding: Fengwei Tian , Feifei Chi , Gang Wang , Xiaoming Liu , Qiuxiang Zhang , Yongquan Chen , Hao Zhang , Wei Chen; J. Microbiol. 2015;53(12):856-863. Published online December 2, 2015; DOI: https://doi.org/10.1007/s12275-015-5239-5

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Abstract

Lactobacillus rhamnosus CCFM1107 was screened for high antioxidative activity from 55 lactobacilli. The present study attempted to explore the protective properties of L. rhamnosus CCFM1107 in alcoholic liver injury. A mouse model was induced by orally feeding alcohol when simultaneously treated with L. rhamnosus CCFM1107, the drug Hu-Gan- Pian (HGP), L. rhamnosus GG (LGG), and L. plantarum CCFM1112 for 3 months. Biochemical analysis was performed for both serum and liver homogenate. Detailed intestinal flora and histological analyses were also carried out. Our results indicated that the administration of L. rhamnosus CCFM1107 significantly inhibited the increase in the levels of serum aminotransferase and endotoxin, as well as the levels of triglyceride (TG) and cholesterol (CHO) in the serum and in the liver. Glutathione (GSH), glutathione peroxidase (GSH-Px) and superoxide dismutase (SOD) were elevated while the levels of malondialdehyde (MDA) were decreased. The enteric dysbiosis caused by alcohol was restored by increasing the numbers of both lactobacilli and bifidobacteria and decreasing the numbers of both enterococci and enterobacter. Histological analysis confirmed the protective effect of L. rhamnosus CCFM1107. Compared with the other lactobacilli and to the drug Hu-Gan-Pian, there is a high chance that L. rhamnosus CCFM1107 provides protective effects on alcoholic liver injury by reducing oxidative stress and restoring the intestinal flora.

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Review

MINIREVIEW] Stress responses in Streptococcus species and their effects on the host: Cuong Thach Nguyen , Sang-Sang Park , Dong-Kwon Rhee; J. Microbiol. 2015;53(11):741-749. Published online October 28, 2015; DOI: https://doi.org/10.1007/s12275-015-5432-6

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Abstract

Streptococci cause a variety of diseases, such as dental caries, pharyngitis, meningitis, pneumonia, bacteremia, endocarditis, erysipelas, and necrotizing fasciitis. The natural niche of this genus of bacteria ranges from the mouth and nasopharynx to the skin, indicating that the bacteria will inevitably be subjected to environmental changes during invasion into the host, where it is exposed to the host immune system. Thus, the Streptococcus-host interaction determines whether bacteria are cleared by the host’s defenses or whether they survive after invasion to cause serious diseases. If this interaction was to be deciphered, it could aid in the development of novel preventive and therapeutic agents. Streptococcus species possess many virulent factors, such as peroxidases and heat-shock proteins (HSPs), which play key roles in protecting the bacteria from hostile host environments. This review will discuss insights into the mechanism(s) by which streptococci adapt to host environments. Additionally, we will address how streptococcal infections trigger host stress responses; however, the mechanism by which bacterial components modulate host stress responses remains largely unknown.

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The Mycobacterium tuberculosis relBE toxin:antitoxin genes are stress-responsive modules that regulate growth through translation inhibition: Shaleen B. Korch , Vandana Malhotra , Heidi Contreras , Josephine E. Clark-Curtiss; J. Microbiol. 2015;53(11):783-795. Published online October 28, 2015; DOI: https://doi.org/10.1007/s12275-015-5333-8

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Abstract

Toxin-antitoxin (TA) genes are ubiquitous among bacteria and are associated with persistence and dormancy. Following exposure to unfavorable environmental stimuli, several species (Escherichia coli, Staphylococcus aureus, Myxococcus xanthus) employ toxin proteins such as RelE and MazF to downregulate growth or initiate cell death. Mycobacterium tuberculosis possesses three Rel TA modules (RelMtb): RelBEMtb, RelFGMtb and RelJKMtb (Rv1246c-Rv1247c, Rv2865-Rv2866, and Rv3357-Rv3358, respectively), which inhibit mycobacterial growth when the toxin gene (relE, relG, relK) is expressed independently of the antitoxin gene (relB, relF, relJ). In the present study, we examined the in vivo mechanism of the RelEMtb toxin protein, the impact of RelEMtb on M. tuberculosis physiology and the environmental conditions that regulate all three relMtb modules. RelEMtb negatively impacts growth and the structural integrity of the mycobacterial envelope, generating cells with aberrant forms that are prone to extensive aggregation. At a time coincident with growth defects, RelEMtb mediates mRNA degradation in vivo resulting in significant changes to the proteome. We establish that relMtb modules are stress responsive, as all three operons are transcriptionally activated following mycobacterial exposure to oxidative stress or nitrogen-limiting growth environments. Here we present evidence that the relMtb toxin:antitoxin family is stress-responsive and, through the degradation of mRNA, the RelEMtb toxin influences the growth, proteome and morphology of mycobacterial cells.

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Research Support, Non-U.S. Gov't

Roles of RpoS in Yersinia pseudotuberculosis stress survival, motility, biofilm formation and type VI secretion system expression: Jingyuan Guan , Xiao Xiao , Shengjuan Xu , Fen Gao , Jianbo Wang , Tietao Wang , Yunhong Song , Junfeng Pan , Xihui Shen , Yao Wang; J. Microbiol. 2015;53(9):633-642. Published online August 27, 2015; DOI: https://doi.org/10.1007/s12275-015-0099-6

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Abstract PDF

RpoS (σS), the stationary phase/stress σ factor, controls the expression of a large number of genes involved in cellular responses to a variety of stresses. However, the role of RpoS appears to differ in different bacteria. While RpoS is an important regulator of flagellum biosynthesis, it is associated with biofilm development in Edwardsiella tarda. Biofilms are dense communities formed by bacteria and are important for microbe survival under unfavorable conditions. The type VI secretion system (T6SS) discovered recently is reportedly associated with several phenotypes, ranging from biofilm formation to stress sensing. For example, Vibrio anguillarum T6SS was proposed to serve as a sensor for extracytoplasmic signals and modulates RpoS expression and stress response. In this study, we investigated the physiological roles of RpoS in Yersinia pseudotuberculosis, including bacterial survival under stress conditions, flagella formation, biofilm development and T6SS expression. We found that RpoS is important in resistance to multiple stressors–including H2O2, acid, osmotic and heat shock–in Y. pseudotuberculosis. In addition, our study showed that RpoS not only modulates the expression of T6SS but also regulates flagellum formation by positively controlling the flagellar master regulatory gene flhDC, and affects the formation of biofilm on Caenorhabditis elegans by regulating the synthesis of exopolysaccharides. Taken together, these results show that RpoS plays a central role in cell fitness under several adverse conditions in Y. pseudotuberculosis.

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BMC Microbiology.2018;[Epub] CrossRef
RsmA and AmrZ orchestrate the assembly of all three type VI secretion systems in Pseudomonas aeruginosa
Luke P. Allsopp, Thomas E. Wood, Sophie A. Howard, Federica Maggiorelli, Laura M. Nolan, Sarah Wettstadt, Alain Filloux
Proceedings of the National Academy of Sciences.2017; 114(29): 7707. CrossRef
A starvation-induced regulator, RovM, acts as a switch for planktonic/biofilm state transition in Yersinia pseudotuberculosis
Ruoxi Zhao, Yunhong Song, Qingyun Dai, Yiwen Kang, Junfeng Pan, Lingfang Zhu, Lei Zhang, Yao Wang, Xihui Shen
Scientific Reports.2017;[Epub] CrossRef
ZntR positively regulates T6SS4 expression in Yersinia pseudotuberculosis
Tietao Wang, Keqi Chen, Fen Gao, Yiwen Kang, Muhammad Tausif Chaudhry, Zhuo Wang, Yao Wang, Xihui Shen
Journal of Microbiology.2017; 55(6): 448. CrossRef
Transcriptomic and Phenotypic Analysis Reveals New Functions for the Tat Pathway in Yersinia pseudotuberculosis
Ummehan Avican, Michael Beckstette, Ann Kathrin Heroven, Moa Lavander, Petra Dersch, Åke Forsberg, P. J. Christie
Journal of Bacteriology.2016; 198(20): 2876. CrossRef

Review

MINIREVIEW] Regulation of Escherichia coli RNase III activity: Boram Lim , Minji Sim , Howoon Lee , Seogang Hyun , Younghoon Lee , Yoonsoo Hahn , Eunkyoung Shin , Kangseok Lee; J. Microbiol. 2015;53(8):487-494. Published online July 31, 2015; DOI: https://doi.org/10.1007/s12275-015-5323-x

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Abstract

Bacterial cells respond to changes in the environment by adjusting their physiological reactions. In cascades of cellular responses to stresses of various origins, rapid modulation of RNA function is known to be an effective biochemical adaptation. Among many factors affecting RNA function, RNase III, a member of the phylogenetically highly conserved endoribonuclease III family, plays a key role in posttranscriptional regulatory pathways in Escherichia coli. In this review, we provide an overview of the factors affecting RNase III activity in E. coli.

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Seungmok Han, Ji-Won Byun, Minho Lee
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arfAantisense RNA regulates MscL excretory activity
Rosa Morra, Fenryco Pratama, Thomas Butterfield, Geizecler Tomazetto, Kate Young, Ruth Lopez, Neil Dixon
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Transcriptome and metabolome analyses of response of Synechocystis sp. PCC 6803 to methyl viologen
Xinyu Hu, Tianyuan Zhang, Kai Ji, Ke Luo, Li Wang, Wenli Chen
Applied Microbiology and Biotechnology.2021; 105(21-22): 8377. CrossRef
Endoribonuclease-mediated control of hns mRNA stability constitutes a key regulatory pathway for Salmonella Typhimurium pathogenicity island 1 expression
Minho Lee, Minkyung Ryu, Minju Joo, Young-Jin Seo, Jaejin Lee, Hong-Man Kim, Eunkyoung Shin, Ji-Hyun Yeom, Yong-Hak Kim, Jeehyeon Bae, Kangseok Lee, William Navarre
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Trans-acting regulators of ribonuclease activity
Jaejin Lee, Minho Lee, Kangseok Lee
Journal of Microbiology.2021; 59(4): 341. CrossRef
RNase III, Ribosome Biogenesis and Beyond
Maxence Lejars, Asaki Kobayashi, Eliane Hajnsdorf
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The rnc Gene Regulates the Microstructure of Exopolysaccharide in the Biofilm of Streptococcus mutans through the β-Monosaccharides
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Research Support, Non-U.S. Gov'ts

Role of the extracytoplasmic function sigma factor CarQ in oxidative response of Bradyrhizobium japonicum: Anchana Thaweethawakorn , Dylan Parks , Jae-Seong So , Woo-Suk Chang; J. Microbiol. 2015;53(8):526-534. Published online July 31, 2015; DOI: https://doi.org/10.1007/s12275-015-5308-9

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Abstract

As a nitrogen-fixing bacterium, Bradyrhizobium japonicum can establish a symbiotic relationship with the soybean plant (Glycine max). To be a successful symbiont, B. japonicum must deal with plant defense responses, such as an oxidative burst. Our previous functional genomics study showed that carQ (bll1028) encoding extracytoplasmic function (ECF) sigma factor was highly expressed (107.8-fold induction) under oxidative stress. Little is known about the underlying mechanisms of how CarQ responds to oxidative stress. In this study, a carQ knock-out mutant was constructed using site-specific mutagenesis to identify the role of carQ in the oxidative response of B. japonicum. The carQ mutant showed a longer generation time than the wild type and exhibited significantly decreased survival at 10 mM H2O2 for 10 min of exposure. Surprisingly, there was no significant difference in expression of oxidative stress-responsive genes such as katG and sod between the wild type and carQ mutant. The mutant also showed a significant increase in susceptibility to H2O2 compared to the wild type in the zone inhibition assay. Nodulation phenotypes of the carQ mutant were distinguishable compared to those of the wild type, including lower numbers of nodules, decreased nodule dry weight, decreased plant dry weight, and a lower nitrogen fixation capability. Moreover, desiccation of mutant cells also resulted in significantly lower percent of survival in both early (after 4 h) and late (after 24 h) desiccation periods. Taken together, this information will provide an insight into the role of the ECF sigma factor in B. japonicum to deal with a plant-derived oxidative burst.

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Implication of the σ E Regulon Members OmpO and σ N in the Δ ompA 299–356 -Mediated Decrease of Oxidative Stress Tolerance in St
Ren-Hsuan Ku, Li-Hua Li, Yi-Fu Liu, En-Wei Hu, Yi-Tsung Lin, Hsu-Feng Lu, Tsuey-Ching Yang, Silvia T. Cardona
Microbiology Spectrum.2023;[Epub] CrossRef
Identification and Validation of Reference Genes for Expression Analysis in Nitrogen-Fixing Bacteria under Environmental Stress
Dylan Parks, Christian Peterson, Woo-Suk Chang
Life.2022; 12(9): 1379. CrossRef
MostSinorhizobium melilotiExtracytoplasmic Function Sigma Factors Control Accessory Functions
Claus Lang, Melanie J. Barnett, Robert F. Fisher, Lucinda S. Smith, Michelle E. Diodati, Sharon R. Long, Craig D. Ellermeier, Claude Bruand, Sarah Ades, Hans-Martin Fischer
mSphere.2018;[Epub] CrossRef

Trichoderma reesei Sch9 and Yak1 regulate vegetative growth, conidiation, and stress response and induced cellulase production: Xinxing Lv† , Weixin Zhang† , Guanjun Chen , Weifeng Liu; J. Microbiol. 2015;53(4):236-242. Published online January 31, 2015; DOI: https://doi.org/10.1007/s12275-015-4639-x

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Abstract PDF

Protein kinases are key players in controlling many basic cellular processes in almost all the organisms via mediating signal transduction processes. In the present study, we characterized the cellulolytic Trichoderma reesei orthologs of Saccharomyces cerevisiae Sch9 and Yak1 by sequence alignment and functional analysis. The T. reesei Trsch9Δ and Tryak1Δ mutant strains displayed a decreased growth rate on different carbon sources and produced less conidia. The absence of these two kinases also resulted in different but abnormal polarized apical growth as well as sensitivity to various stresses. In addition, disruption of the genes Trsch9 or Tryak1 resulted in perturbation of cell wall integrity. Interestingly, while the induced production of cellulases was slightly compromised in the Trsch9Δ strain, the extracellular production of cellulases was significantly improved in the absence of Yak1. The results indicate that TrSch9 and TrYak1 play an important role in filamentous growth, stress response and induced production of cellulases in T. reesei.

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TSC2 is a positive master regulator of cellulase production by affecting protein secretion in Trichoderma reesei
Yun Wang, Funing Zhang, Haiyan Wang, Aiping Pang, Fu-Gen Wu, Fengming Lin
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Enhancing cellulase production in Neurospora crassa through combined deletion of the phospholipase D-encoding gene pla-7 and modulation of transcription factor CLR-2 expression
Yifan Chen, Haowen Sun, Huizhen Chen, Jiaming Wu, Jianzhong Huang, Xianzhang Jiang, Lina Qin
International Journal of Biological Macromolecules.2025; 307: 141944. CrossRef
Transcriptomics and co-expression network analysis revealing candidate genes for the laccase activity of Trametes gibbosa
Jie Chen, Yi Ye, Yujie Chi, Xin Hao, Qingquan Zhao
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Kinase POGSK-3β modulates fungal plant polysaccharide-degrading enzyme production and development
Ting Zhang, Han-Zhi Li, Wen-Tong Li, Di Tian, Yuan-Ni Ning, Xue Liang, Jing Tan, Yan-Hao Zhao, Xue-Mei Luo, Jia-Xun Feng, Shuai Zhao
Applied Microbiology and Biotechnology.2023; 107(11): 3605. CrossRef
Assessing the intracellular primary metabolic profile of Trichoderma reesei and Aspergillus niger grown on different carbon sources
Gustavo Pagotto Borin, Juliana Velasco de Castro Oliveira
Frontiers in Fungal Biology.2022;[Epub] CrossRef
AGC/AKT Protein Kinase SCH9 Is Critical to Pathogenic Development and Overwintering Survival in Magnaporthe oryzae
Wajjiha Batool, Chang Liu, Xiaoning Fan, Penghui Zhang, Yan Hu, Yi Wei, Shi-Hong Zhang
Journal of Fungi.2022; 8(8): 810. CrossRef
High-dose rapamycin exerts a temporary impact on T. reesei RUT-C30 through gene trFKBP12
Ai-Ping Pang, Haiyan Wang, Funing Zhang, Xin Hu, Fu-Gen Wu, Zhihua Zhou, Wei Wang, Zuhong Lu, Fengming Lin
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Pei Zhou, Xiaoke Yuan, Hui Liu, Yanli Qi, Xiulai Chen, Liming Liu, Isaac Cann
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Ruiting Guo, Zhiying Wang, Chang Zhou, Ying Huang, Haijuan Fan, Yucheng Wang, Zhihua Liu
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Broad Substrate-Specific Phosphorylation Events Are Associated With the Initial Stage of Plant Cell Wall Recognition in Neurospora crassa
Maria Augusta C. Horta, Nils Thieme, Yuqian Gao, Kristin E. Burnum-Johnson, Carrie D. Nicora, Marina A. Gritsenko, Mary S. Lipton, Karthikeyan Mohanraj, Leandro José de Assis, Liangcai Lin, Chaoguang Tian, Gerhard H. Braus, Katherine A. Borkovich, Monika
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Vera Novy, Fredrik Nielsen, Bernhard Seiboth, Bernd Nidetzky
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STK-12 acts as a transcriptional brake to control the expression of cellulase-encoding genes in Neurospora crassa
Liangcai Lin, Shanshan Wang, Xiaolin Li, Qun He, J. Philipp Benz, Chaoguang Tian, Katherine A. Borkovich
PLOS Genetics.2019; 15(11): e1008510. CrossRef
Involvement of BcYak1 in the Regulation of Vegetative Differentiation and Adaptation to Oxidative Stress of Botrytis cinerea
Qianqian Yang, Jianan Zhang, Jicheng Hu, Xue Wang, Binna Lv, Wenxing Liang
Frontiers in Microbiology.2018;[Epub] CrossRef
Role of Trichoderma reesei mitogen-activated protein kinases (MAPKs) in cellulase formation
Mingyu Wang, Meiling Zhang, Ling Li, Yanmei Dong, Yi Jiang, Kuimei Liu, Ruiqin Zhang, Baojie Jiang, Kangle Niu, Xu Fang
Biotechnology for Biofuels.2017;[Epub] CrossRef
A copper-responsive promoter replacement system to investigate gene functions in Trichoderma reesei: a case study in characterizing SAGA genes
Fanglin Zheng, Yanli Cao, Xinxing Lv, Lei Wang, Chunyan Li, Weixin Zhang, Guanjun Chen, Weifeng Liu
Applied Microbiology and Biotechnology.2017; 101(5): 2067. CrossRef
The Aspergillus fumigatus SchASCH9 kinase modulates SakAHOG1 MAP kinase activity and it is essential for virulence
Patrícia Alves de Castro, Thaila Fernanda dos Reis, Stephen K. Dolan, Adriana Oliveira Manfiolli, Neil Andrew Brown, Gary W. Jones, Sean Doyle, Diego M. Riaño‐Pachón, Fábio Márcio Squina, Camila Caldana, Ashutosh Singh, Maurizio Del Poeta, Daisuke Hagiwar
Molecular Microbiology.2016; 102(4): 642. CrossRef

Deletion analysis of LSm, FDF, and YjeF domains of Candida albicans Edc3 in hyphal growth and oxidative-stress response: Eung-Chul Kim , Jinmi Kim; J. Microbiol. 2015;53(2):111-115. Published online January 28, 2015; DOI: https://doi.org/10.1007/s12275-015-4727-y

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Abstract

Candida albicans is an opportunistic fungal pathogen whose responses to environmental changes are associated with the virulence attributes. Edc3 is known to be an enhancer of the mRNA decapping reactions and a scaffold protein of cytoplasmic processing bodies (P-bodies). Recent studies of C. albicans Edc3 suggested its critical roles in filamentous growth and stress-induced apoptotic cell death. The edc3/edc3 deletion mutant strain showed increased cell survival and less ROS accumulation upon treatment with hydrogen peroxide. To investigate the diverse involvement of Edc3 in the cellular processes, deletion mutations of LSm, FDF, or YjeF domain of Edc3 were constructed. The edc3-LSmΔ or edc3-YjeFΔ mutation showed the filamentation defect, resistance to oxidative stress, and decreased ROS accumulation. In contrast, the edc3-FDFΔ mutation exhibited a wild-type level of filamentous growth and a mild defect in ROS accumulation. These results suggest that Lsm and YjeF domains of Edc3 are critical in hyphal growth and oxidative stress response.

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Roles of P-body factors in Candida albicans filamentation and stress response
Melissa A. Tosiano, Frederick Lanni, Aaron P. Mitchell, C. Joel McManus, Guilhem Janbon
PLOS Genetics.2025; 21(3): e1011632. CrossRef
The FomYjeF Protein Influences the Sporulation and Virulence of Fusarium oxysporum f. sp. momordicae
Chenxing Wei, Caiyi Wen, Yuanyuan Zhang, Hongyan Du, Rongrong Zhong, Zhengzhe Guan, Mengjiao Wang, Yanhong Qin, Fei Wang, Luyang Song, Ying Zhao
International Journal of Molecular Sciences.2023; 24(8): 7260. CrossRef
Intersection of phosphate transport, oxidative stress and TOR signalling in Candida albicans virulence
Ning-Ning Liu, Priya Uppuluri, Achille Broggi, Angelique Besold, Kicki Ryman, Hiroto Kambara, Norma Solis, Viola Lorenz, Wanjun Qi, Maikel Acosta-Zaldívar, S. Noushin Emami, Bin Bao, Dingding An, Francisco A. Bonilla, Martha Sola-Visner, Scott G. Filler,
PLOS Pathogens.2018; 14(7): e1007076. CrossRef
Mutational analysis of metacaspase CaMca1 and decapping activator Edc3 in the pathogenicity of Candida albicans
Jeong-Hoon Jeong, Seok-Eui Lee, Jinmi Kim
Fungal Genetics and Biology.2016; 97: 18. CrossRef

The effects of fluctuating culture temperature on stress tolerance and antioxidase expression in Esteya vermicola: Yun-bo Wang , Wen-xing Pang , Xiao-na Yv , Jing-jie Li , Yong-an Zhang , Chang-keun Sung; J. Microbiol. 2015;53(2):122-126. Published online January 28, 2015; DOI: https://doi.org/10.1007/s12275-015-4529-2

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Abstract

The endoparasitic nematophagous fungus, Esteya vermicola, has shown great potential as a biological control agent against the pine wood nematode, Bursaphelenchus xylophilus. Fluctuating culture temperatures can affect fungal yields and fungal tolerance to desiccation, UV radiation, H2O2, and heat stress, as well as antioxidase expression. To explore these effects, E. vermicola cultured under five temperature ranges, 26oC, 15-26oC, 26-35oC, 20-30oC, and 15-35oC, were compared. The cultures grown at lower temperatures showed better growth, stronger tolerance to desiccation, UV, and H2O2 stresses, and increased catalase expression, However, these cultures also showed weaker heat stress tolerance and lower superoxide dismutase expression than the higher-temperature cultures. In particular, the E. vermicola cultured at 20-30oC, i.e., fluctuating in a narrow range around the optimal temperature, showed the best performance. Therefore, for production in practical applications, this narrowly fluctuating, moderate temperature appears to be optimal for yield and stress tolerance in E. vermicola.

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The Biological Characteristics of Nematophagous Fungus Esteya vermicola Fxy121 Strain and Its Specific Detection
Xiaojian Wen, Yongxia Li, Fangtong Chen, Xuan Wang, Wei Zhang, Lin Huang, Xingyao Zhang
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Screening and Optimization of Solid-State Fermentation for Esteya vermicola, an Entomopathogenic Fungus Against the Major Forest Pest Pine Wood Nematode
Lanwen Zhang, Yongxia Li, Xiaojian Wen, Xuan Wang, Wei Zhang, Dongzhen Li, Yuqian Feng, Zhenkai Liu, Xingyao Zhang
Microorganisms.2025; 13(2): 434. CrossRef
Establishing Gene Expression and Knockout Methods in Esteya vermicola CBS115803
Zhijuan Hu, Chi Chen, Xinyao Zheng, Jingjie Yuan, Run Zou, Chengjian Xie
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Research Progress on Biocontrol of Pine Wilt Disease by Microorganisms
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Forests.2022; 13(7): 1047. CrossRef
Effect of culture conditions on conidia production and enhancement of environmental stress resistance of Esteya vermicola in solid‐state fermentation
Y. Zhu, Y. Mao, T. Ma, X. Wen
Journal of Applied Microbiology.2021; 131(1): 404. CrossRef
In vivo infection of Bursaphelenchus xylophilus by the fungus Esteya vermicola
Hai‐Hua Wang, Yun‐Bo Wang, Can Yin, Jie Gao, Ran Tao, Yu‐Lou Sun, Chun‐Yan Wang, Zhen Wang, Yong‐Xia Li, Chang‐Keun Sung
Pest Management Science.2020; 76(8): 2854. CrossRef
Research advance on Esteya vermicola, a high potential biocontrol agent of pine wilt disease
Wen Hui Chu, Qing Dou, Hong Long Chu, Hai Hua Wang, Chang Keun Sung, Chun Yan Wang
Mycological Progress.2015;[Epub] CrossRef

σB Affects Biofilm Formation under the Dual Stress Conditions Imposed by Adding Salt and Low Temperatur in Listeria monocytogenes: Jin-Ju Lee , Gilho Lee , Ji-Hyun Shin; J. Microbiol. 2014;52(10):849-855. Published online October 1, 2014; DOI: https://doi.org/10.1007/s12275-014-4369-5

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The food-borne pathogenic bacteria Listeria monocytogenes can form biofilms on various surfaces including food-processing equipment. Biofilms offer survival benefits to the organisms entrapped against environmental insults. Moreover, the σB transcription factor of L. monocytogenes plays an important role in its survival under various stress conditions. In this study, we evaluated whether σB contributes to biofilm formation when L. monocytogenes is grown under various temperatures and media. When the wild-type strain was grown under static biofilm culture below ambient temperature (15°C) for 72 h, the difference in viable cell number (in both planktonic and biofilm cells) between the wild-type and ΔsigB mutant increased by adding NaCl to BHI broth (9% salt BHI > 6% salt BHI > BHI, w/v), and the specific activity of β-galactosidase was highly induced in the wild-type strain grown in 6% salt containing BHI broth. Furthermore, we measured surface-adhered biofilm forming ability using the crystal violet staining method. The wild-type strain formed a four times larger biofilm than that of the ΔsigB mutant in 6% salt-BHI medium at 15°C over a 72 h incubation and also showed the highest level of β-galactosidase specific activity. However, both the wild-type and ΔsigB mutant L. monocytogenes were defective for forming a biofilm in 9% salt-BHI medium at 15°C. Our results suggest that σB plays an enhanced role in surface-adhered biofilm formation when L. monocytogenes encounters dual stress conditions, such as 6% NaCl and low temperature.

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Estimating the antimicrobial effect of grape seed extract on L. monocytogenes ΔsigB on xanthan gum gels
Melina Kitsiou, Jorge Gutierrez-Merino, Oleksiy V. Klymenko, Kimon Andreas Karatzas, Eirini Velliou
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Characteristics of Clinical Isolates of Listeria monocytogenes in Sichuan, China, in 2022 Based on Whole Genome Sequencing Analysis
Qian Liang, Weifeng Huang, Tao Xiao, Lin Zhang, Gaopeng Lei, Hong Lv, Xiaorong Yang
Foodborne Pathogens and Disease.2024; 21(7): 424. CrossRef
The influence of stress factors on selected phenotypic and genotypic features of Listeria monocytogenes – a pilot study
Natalia Wiktorczyk-Kapischke, Ewa Wałecka-Zacharska, Jakub Korkus, Katarzyna Grudlewska-Buda, Anna Budzyńska, Kacper Wnuk, Eugenia Gospodarek-Komkowska, Krzysztof Skowron
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Marked inter-strain heterogeneity in the differential expression of some key stress response and virulence-related genes between planktonic and biofilm cells in Listeria monocytogenes
Christos Toliopoulos, Efstathios Giaouris
International Journal of Food Microbiology.2023; 390: 110136. CrossRef
Proteomic analysis reveals the temperature-dependent presence of extracytoplasmic peptidases in the biofilm exoproteome of Listeria monocytogenes EGD-e
Yue-Jia Lee, Chinling Wang
Journal of Microbiology.2020; 58(9): 761. CrossRef
Genomic Differences between Listeria monocytogenes EGDe Isolates Reveal Crucial Roles for SigB and Wall Rhamnosylation in Biofilm Formation
Chih-Yu Hsu, Lynne Cairns, Laura Hobley, James Abbott, Conor O’Byrne, Nicola R. Stanley-Wall, Tina M. Henkin
Journal of Bacteriology.2020;[Epub] CrossRef
Listeria monocytogenes Biofilm Adaptation to Different Temperatures Seen Through Shotgun Proteomics
Tiago Santos, Didier Viala, Christophe Chambon, Julia Esbelin, Michel Hébraud
Frontiers in Nutrition.2019;[Epub] CrossRef
Cross Talk between SigB and PrfA in Listeria monocytogenes Facilitates Transitions between Extra- and Intracellular Environments
Ahmed Gaballa, Veronica Guariglia-Oropeza, Martin Wiedmann, Kathryn J. Boor
Microbiology and Molecular Biology Reviews.2019;[Epub] CrossRef
Salt stress affects global protein expression profiles of extracellular membrane-derived vesicles of Listeria monocytogenes
Taewon Lee, So Hyun Jun, Chi Won Choi, Seung Il Kim, Je Chul Lee, Ji Hyun Shin
Microbial Pathogenesis.2018; 115: 272. CrossRef
Genomic and transcriptomic analyses reveal distinct biological functions for cold shock proteins (VpaCspA and VpaCspD) in Vibrio parahaemolyticus CHN25 during low-temperature survival
Chunhua Zhu, Boyi Sun, Taigang Liu, Huajun Zheng, Wenyi Gu, Wei He, Fengjiao Sun, Yaping Wang, Meicheng Yang, Weicheng Bei, Xu Peng, Qunxin She, Lu Xie, Lanming Chen
BMC Genomics.2017;[Epub] CrossRef
Regulation of Escherichia coli RNase III activity
Boram Lim, Minji Sim, Howoon Lee, Seogang Hyun, Younghoon Lee, Yoonsoo Hahn, Eunkyoung Shin, Kangseok Lee
Journal of Microbiology.2015; 53(8): 487. CrossRef

Growth Phase-dependent Roles of Sir2 in Oxidative Stress Resistance and Chronological Lifespan in Yeast: Woo Kyu Kang , Yeong Hyeock Kim , Byoung-Soo Kim , Jeong-Yoon Kim; J. Microbiol. 2014;52(8):652-658. Published online July 5, 2014; DOI: https://doi.org/10.1007/s12275-014-4173-2

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Abstract PDF

Silent Information Regulator 2 (Sir2), a conserved NAD+- dependent histone deacetylase, has been implicated as one of the key factors in regulating stress response and longevity. Here, we report that the role of Sir2 in oxidative stress resistance and chronological lifespan is dependent on growth phase in yeast. In exponential phase, sir2Δ cells were more resistant to H2O2 stress and had a longer chronological lifespan than wild type. By contrast, in post-diauxic phase, sir2Δ cells were less resistant to H2O2 stress and had a shorter chronological lifespan than wild type cells. Similarly, the expression of antioxidant genes, which are essential to cope with oxidative stress, was regulated by Sir2 in a growth phasedependent manner. Collectively, our findings highlight the importance of the metabolic state of the cell in determining whether Sir2 can protect against or accelerate cellular aging of yeast.

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Yeong Hyeock Kim, Ji-In Ryu, Mayur Nimbadas Devare, Juhye Jung, Jeong-Yoon Kim
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Applied Biochemistry and Biotechnology.2022; 194(12): 5702. CrossRef
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Meifang Wen, Huahui Lan, Ruilin Sun, Xuan Chen, Xin Zhang, Zhuo Zhu, Can Tan, Jun Yuan, Shihua Wang
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Expression Analysis of LeNHX1 Gene in Mycorrhizal Tomato under Salt Stress: ZhongQun He , Zhi Huang; J. Microbiol. 2013;51(1):100-104. Published online March 2, 2013; DOI: https://doi.org/10.1007/s12275-013-2423-3

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Abstract PDF

The plant growth, stem sap flow, Na+ and Cl- content, and the expression of vacuolar Na+/H+ antiporter gene (LeNHX1) in the leaves and roots of tomato under different NaCl stresses (0.5% and 1%) were studied to analyze the effect of arbuscular mycorrhizal fungi (AMF) on Na+ and Cl- accumulation and ion exchange. The results showed that arbuscular mycorrhizal (AM) plant growth and stem sap flow increased and salt tolerance improved, whereas Na+ and Claccumulated. Na+ significantly decreased, and no significant decline was detected in Cl- content after AMF inoculation compared with the non-AM plants. The LeNHX1 gene expression was induced in the AM and non-AM plants by NaCl stress. However, AMF did not improve the LeNHX1 level, and low expression was observed in the AM tomato. Hence, the mechanism that reduced the Na+ damage to tomato induced by AMF has little relation to LeNHX1, which can export Na+ from the cytosol to the vacuole across the tonoplast.

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Role of Heavy Metal Resistant Ochrobactrum sp. and Bacillus spp. Strains in Bioremediation of a Rice Cultivar and Their PGPR Like Activities: Sanjeev Pandey , Pallab Kumar Ghosh , Sisir Ghosh , Tarun Kumar De , Tushar Kanti Maiti; J. Microbiol. 2013;51(1):11-17. Published online March 2, 2013; DOI: https://doi.org/10.1007/s12275-013-2330-7

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Abstract PDF

The present study demonstrates the metal toxicity ameliorating and growth promoting abilities of three different bacterial isolates when applied to rice as host plant. The three bacterial strains included a cadmium resistant Ochrobactrum sp., a lead resistant Bacillus sp. and an arsenic resistant Bacillus sp. designated as CdSP9, PbSP6, and AsSP9, respectively. When these isolates were used as inocula applied to metaltreated rice plants of variety Satabdi, the germination percentage, relative root elongation (RRE), amylase and protease activities were increased. The toxic effect of metal was reduced in presence of these bacteria. The overall biomass and root/shoot ratio were also enhanced by bacterial inoculation. Hydroponic studies showed that the superoxide dismutase (SOD) activity and malondialdehyde (MDA) level, which had been increased in the presence of metal stress in rice roots, were lowered by the bacterial inoculation. In addition, all three strains were 1-aminocyclopropane-1-carboxylate (ACC) deaminase and catalase positive, whereas siderophore producing ability was lacking in PbSP6. However, both PbSP6 and AsSP9 were protease positive and could hydrolyse starch. The data indicate that these bacteria have promise for bioremediation as well as for plant growth promotion.

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Involvement of Alternative Oxidase in the Regulation of Growth, Development, and Resistance to Oxidative Stress of Sclerotinia sclerotiorum: Ting Xu , Fei Yao , Wu-Sheng Liang , Yong-Hong Li , Dian-Rong Li , Hao Wang , Zheng-Yi Wang; J. Microbiol. 2012;50(4):594-602. Published online August 25, 2012; DOI: https://doi.org/10.1007/s12275-012-2015-7

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Sclerotinia sclerotiorum is a cosmopolitan, filamentous, fungal pathogen that can cause serious disease in many kinds of crops. Alternative oxidase is the terminal oxidase of the alternative mitochondrial respiratory pathway in fungi and higher plants. We report the presence of this alternative pathway respiration and demonstrate its expression in two isolates of S. sclerotiorum under unstressed, normal culture conditions. Application of salicylhydroxamic acid, a specific inhibitor of alternative oxidase, severely inhibited the mycelial growth of S. sclerotiorum both on potato dextrose agar plates and in liquid culture media. Inhibition of alternative oxidase could influence the growth pattern of S. sclerotiorum, as salicylhydroxamic acid treatment induced obvious aerial mycelia growing on potato dextrose agar plates. Under the treatment with salicylhydroxamic acid, S. sclerotiorum formed sclerotia much more slowly than the control. Treatment with hydrogen peroxide in millimolar concentrations greatly decreased the growth rate of mycelia and delayed the formation of sclerotia in both tested S. sclerotiorum isolates. As well, this treatment obviously increased their alternative pathway respiration and the levels of both mRNA and protein of the alternative oxidase. These results indicate that alternative oxidase is involved in the regulation of growth, development, and resistance to oxidative stress of S. sclerotiorum.

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NOTE] Ectopic Expression of Sweet Potato MuS1 Increases Acquired Stress Tolerance and Fermentation Yield in Saccharomyces cerevisiae: Il-Sup Kim , Sun-Young Shin , Sun-Hyung Kim , Ho-Sung Yoon; J. Microbiol. 2012;50(3):544-546. Published online June 30, 2012; DOI: https://doi.org/10.1007/s12275-012-2043-3

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The MuS1 gene is highly homologous to many stress-related proteins in plants. Here, we characterized whether a new candidate gene, MuS1, is related to multiple stress tolerance in yeast as it is in plants. Transgenic yeast strain expressing MuS1 were more resistant to hydrogen peroxide, menadione, high salinity, metals (i.e., cadmium, copper, iron, and zinc), ethanol, and lactic acid than wild-type strain transformed with a vector alone. In addition, the alcohol yield of the transgenic yeast strain was higher than that of the wild-type strain during the batch fermentation process. These results show that MuS1-expressing transgenic yeast strain exhibits enhanced alcohol yield as well as tolerance to abiotic stresses, especially metal stress.

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The unique importance of sweetpotato: Insights focusing on genetic improvements of salt and drought tolerance
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Scientia Horticulturae.2025; 339: 113848. CrossRef
Recent advances in miRNA and siRNA approaches, and genome editing to augment biotic and abiotic stress tolerance in sweet potato (Ipomoea batatas L.)
Bin Song, Ali Raza, Fei He, Shuting Wang, Xuelian Huang, Aihui Mo, Kaifang Jiang, Jucheng Guo, Atul Kumar Srivastava, Aamir Riaz, Muhammad Ahmad Hassan, Zhangxun Wang
International Journal of Biological Macromolecules.2025; 327: 147195. CrossRef
The interaction networks of small rubber particle proteins in the latex of Taraxacum koksaghyz reveal diverse functions in stress responses and secondary metabolism
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Tularemia Progression Accompanied with Oxidative Stress and Antioxidant Alteration in Spleen and Liver of BALB/c Mice: Miroslav Pohanka , Oto Pavlis , Branislav Ruttkay-Nedecky , Jiri Sochor , Jakub Sobotka , Jiri Pikula , Vojtech Adam , Rene Kizek; J. Microbiol. 2012;50(3):401-408. Published online June 30, 2012; DOI: https://doi.org/10.1007/s12275-012-1621-8

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Francisella tularensis is the causative agent of tularemia. It is an intracellular pathogen with the ability to survive within phagosomes and induce pyroptotic cell death. In this study, we attempted to prove whether oxidative imbalance plays a significant role in tularemia pathogenesis. In our experimental model, we subcutaneously infected female BALB/c mice (dose 105 CFU of F. tularensis LVS). Liver, spleen, and blood were collected from mice at regular intervals from days 1–15 after infection. The bacterial burden was assessed by a cultivation test. The burden was unchanging from the 2nd to 6th day after infection. The bacterial burden corresponded to the plasmatic level of IFN-γ, IL-6, and liver malondialdehyde. After the phase of acute bacteraemia and the innate immunity reaction, the levels of reduced glutathione and total low molecular weight antioxidants decreased significantly and the activity of caspase-3 increased in the liver. The level of reduced glutathione decreased to 25% of the original level, and the total level of low molecular weight antioxidants was less than 50% of the initial amount. The demonstrated effects of tularemia-induced pathology had a more extensive impact on the liver than on the spleen.

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The Group A Streptococcus (GAS) and Oxidative Stress Interaction
Charles Emene, Irina E. Kravchenko, Maxim V. Zamergrad, Albert A. Rizvanov
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Organs of BALB/c mice can be injured in course of tularemia
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Jiri Sochor, Lukas Nejdl, Branislav Ruttkay-Nedecky, Andrea Bezdekova, Katerina Lukesova, Ondrej Zitka, Natalia Cernei, Petr Mares, Miroslav Pohanka, Vojtech Adam, Petr Babula, Miroslava Beklova, Ladislav Zeman, Rene Kizek
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Tacrine can suppress immune response to tularemia in BALB/c mouse model
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Role of oxidative stress in infectious diseases. A review
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Extracellular Stress and Lipopolysaccharide Modulate Acinetobacter baumannii Surface-Associated Motility: Christin N. McQueary , Benjamin C. Kirkup , Yuanzheng Si , Miriam Barlow , Luis A. Actis , David W. Craft , Daniel V. Zurawski; J. Microbiol. 2012;50(3):434-443. Published online June 30, 2012; DOI: https://doi.org/10.1007/s12275-012-1555-1

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Acinetobacter baumannii is a nosocomial bacterial pathogen, and infections attributed to this species are further complicated by a remarkable ability to acquire antimicrobial resistance genes and to survive in a desiccated state. While the antibiotic resistance and biofilm formation of A. baumannii is well-documented, less is known about the virulence attributes of this organism. Recent studies reported A. baumannii strains display a motility phenotype, which appears to be partially dependent upon Type IV pili, autoinducer molecules, and the response to blue light. In this study, we wanted to determine the prevalence of this trait in genetically diverse clinical isolates, and any additional required factors, and environmental cues that regulate motility. When strains are subjected to a wide array of stress conditions, A. baumannii motility is significantly reduced. In contrast, when extracellular iron is provided or salinity is reduced, motility is significantly enhanced. We further investigated whether the genes required for the production of lipopolysaccharide (lpsB) and K1 capsule (epsA/ptk) are required for motility as demonstrated in other Gram-negative bacteria. Transposon mutagenesis resulted in reduced motility by the insertion derivatives of each of these genes. The presence of the parental allele provided in trans, in the insertion mutant background, could only restore motility in the lpsB mutant. The production of core LPS directly contributes to the motility phenotype, while capsular polysaccharide may have an indirect effect. Further, the data suggest motility is regulated by extracellular conditions, indicating that A. baumannii is actively sensing the environment and responding accordingly.

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Sunil D. Saroj, Philip N. Rather
Antimicrobial Agents and Chemotherapy.2013; 57(4): 1926. CrossRef

Effects of Exopolysaccharide Production on Liquid Vegetative Growth, Stress Survival, and Stationary Phase Recovery in Myxococcus xanthus: Wei Hu , Jing Wang , Ian McHardy , Renate Lux , Zhe Yang , Yuezhong Li , Wenyuan Shi; J. Microbiol. 2012;50(2):241-248. Published online April 27, 2012; DOI: https://doi.org/10.1007/s12275-012-1349-5

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Abstract PDF: Exopolysaccharide (EPS) of Myxococcus xanthus is a wellregulated cell surface component. In addition to its known functions for social motility and fruiting body formation on solid surfaces, EPS has also been proposed to play a role in multi-cellular clumping in liquid medium, though this phenomenon has not been well studied. In this report, we confirmed that M. xanthus clumps formed in liquid were correlated with EPS levels and demonstrated that the EPS encased cell clumps exhibited biofilm-like structures. The clumps protected the cells at physiologically relevant EPS concentrations, while cells lacking EPS exhibited significant reduction in long-term viability and resistance to stressful conditions. However, excess EPS production was counterproductive to vegetative growth and viable cell recovery declined in extended late stationary phase as cells became trapped in the matrix of clumps. Therefore, optimal EPS production by M. xanthus is important for normal physiological functions in liquid.

Review

REVIEW] Recent Findings about the Yersinia enterocolitica Phage Shock Protein Response: Saori Yamaguchi , Andrew J. Darwin; J. Microbiol. 2012;50(1):1-7. Published online February 27, 2012; DOI: https://doi.org/10.1007/s12275-012-1578-7

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Abstract PDF: The phage shock protein (Psp) system is a conserved extracytoplasmic stress response in bacteria that is essential for virulence of the human pathogen Yersinia enterocolitica. This article summarizes some recent findings about Y. enterocolitica Psp system function. Increased psp gene expression requires the transcription factor PspF, but under non-inducing conditions PspF is inhibited by an interaction with another protein, PspA, in the cytoplasm. A Psp-inducing stimulus causes PspA to relocate to the cytoplasmic membrane, freeing PspF to induce psp gene expression. This PspA relocation requires the integral cytoplasmic membrane proteins, PspB and PspC, which might sense an inducing trigger and sequester PspA by direct interaction. The subsequent induction of psp gene expression increases the PspA concentration, which also allows it to contact the membrane directly, perhaps for its physiological function. Mutational analysis of the PspB and PspC proteins has revealed that they both positively and negatively regulate psp gene expression and has also identified PspC domains associated with each function. We also compare the contrasting physiological roles of the Psp system in the virulence of Y. enterocolitica and Salmonella enterica sv. Typhimurium (S. Typhimurium). In S. Typhimurium, PspA maintains the proton motive force, which provides the energy needed to drive ion importers required for survival within macrophages. In contrast, in the extracellular pathogen Y. enterocolitica, PspB and PspC, but not PspA, are the Psp components needed for virulence. PspBC protect Y. enterocolitica from damage caused by the secretin component of its type 3 secretion system, an essential virulence factor.

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