Journal of Microbiology

Journal Articles

Biosynthesis of Chryseno[2,1,c]oxepin‑12‑Carboxylic Acid from Glycyrrhizic Acid in Aspergillus terreus TMZ05‑2, and Analysis of Its Anti‑inflammatory Activity: Liangliang Chen , Lin Zhao , Ju Han , Ping Xiao , Mingzhe Zhao , Sen Zhang , Jinao Duan; J. Microbiol. 2024;62(2):113-124. Published online February 27, 2024; DOI: https://doi.org/10.1007/s12275-024-00105-4

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Glycyrrhizic acid, glycyrrhetinic acid, and their oxo, ester, lactone, and other derivatives, are known for their anti-inflammatory, anti-oxidant, and hypoglycemic pharmacological activities. In this study, chryseno[2,1-c]oxepin-12-carboxylic acid (MG) was first biosynthesized from glycyrrhizic acid through sequential hydrolysis, oxidation, and esterification using Aspergillus terreus TMZ05-2, providing a novel in vitro biosynthetic pathway for glycyrrhizic acid derivatives. Assessing the influence of fermentation conditions and variation of strains during culture under stress-induction strategies enhanced the final molar yield to 88.3% (5 g/L glycyrrhizic acid). CCK8 assays showed no cytotoxicity and good cell proliferation, and anti-inflammatory experiments demonstrated strong inhibition of NO release (36.3%, low-dose MG vs. model), transcriptional downregulation of classical effective cellular factors tumor necrosis factor-α (TNF-α; 72.2%, low-dose MG vs. model), interleukin-6 (IL-6; 58.3%, low-dose MG vs. model) and interleukin-1β (IL-1β; 76.4%, low-dose MG vs. model), and decreased abundance of P-IKK-α, P-IKB-α, and P-P65 proteins, thereby alleviating inflammatory responses through the NF-κB pathway in LPS-induced RAW264.7 cells. The findings provide a reference for the biosynthesis of lactone compounds from medicinal plants.

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Effect of different crosslinking agents on carboxymethyl chitosan-glycyrrhizic acid hydrogel: Characterization and biological activities comparison
Yinbing Wu, Zimin Gu, Tingting Chen, Duntao Zu, Yuhui Gan, Honglin Chen, Jianni Yang, Xin Yu, Huaihong Cai, Pinghua Sun, Jianying Ning, Haibo Zhou, Junxia Zheng
International Journal of Biological Macromolecules.2025; 298: 139977. CrossRef
New oxepin and dihydrobenzofuran derivatives from Bauhinia saccocalyx roots and their anti-inflammatory, cytotoxic, and antioxidant activities
Lueacha Tabtimmai, Thanyathon Phonchan, Natrinee Thongprik, Sutin Kaennakam, Nuttapon Yodsin, Kiattawee Choowongkomon, Chanikan Sonklin, Supachai Jadsadajerm, Awat Wisetsai
Journal of Natural Medicines.2025;[Epub] CrossRef
Efficient directional biosynthesis of isoquercitrin from quercetin by Bacillus subtilis CD-2 and its anti-inflammatory activity
Ju Han, Jingru Ma, Ruiqi He, Fan Yang, Jingyi Meng, Jiaqi Liu, Fanxing Shi, Jinao Duan, Liangliang Chen, Sen Zhang
Natural Product Research.2024; : 1. CrossRef

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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Abstract

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.

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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
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

Those Nematode‑Trapping Fungi That are not Everywhere: Hints Towards Soil Microbial Biogeography: Wei Deng , Fa Zhang , Davide Fornacca , Xiao-Yan Yang , Wen Xiao; J. Microbiol. 2023;61(5):511-523. Published online April 6, 2023; DOI: https://doi.org/10.1007/s12275-023-00043-7

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Abstract

The existence of biogeography for microorganisms is a raising topic in ecology and researchers are employing better distinctions between single species, including the most rare ones, to reveal potential hidden patterns. An important volume of evidence supporting heterogeneous distributions for bacteria, archaea and protists is accumulating, and more recently a few efforts have targeted microscopic fungi. We propose an insight into this latter kingdom by looking at a group of soil nematode-trapping fungi whose species are well-known and easily recognizable. We chose a pure culture approach because of its reliable isolation procedures for this specific group. After morphologically and molecularly identifying all species collected from 2250 samples distributed in 228 locations across Yunnan province of China, we analyzed occurrence frequencies and mapped species, genera, and richness. Results showed an apparent cosmopolitan tendency for this group of fungi, including species richness among sites. However, only four species were widespread across the region, while nonrandom heterogeneous distributions were observed for the remaining 40 species, both in terms of statistical distribution of species richness reflected by a significant variance-to-mean ratio, as well as in terms of visually discernible spatial clusters of rare species and genera on the map. Moreover, several species were restricted to only one location, raising the question of whether endemicity exists for this microbial group. Finally, environmental heterogeneity showed a marginal contribution in explaining restricted distributions, suggesting that other factors such as geographical isolation and dispersal capabilities should be explored. These findings contribute to our understanding of the cryptic geographic distribution of microorganisms and encourage further research in this direction.

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Linking watershed formation with the phylogenetic distribution of a soil microscopic fungus in Yunnan Province, China
Davide Fornacca, Wei Deng, Yaoquan Yang, Fa Zhang, Xiaoyan Yang, Wen Xiao
BMC Microbiology.2024;[Epub] CrossRef
Analysis of Nuclear Dynamics in Nematode-Trapping Fungi Based on Fluorescent Protein Labeling
Liang Zhou, Zhiwei He, Keqin Zhang, Xin Wang
Journal of Fungi.2023; 9(12): 1183. CrossRef

Adaptation of Pseudomonas helmanticensis to fat hydrolysates and SDS: fatty acid response and aggregate formation: Ilya N. Zubkov , Anatoly P. Nepomnyshchiy , Vadim D. Kondratyev , Pavel N. Sorokoumov , Konstantin V. Sivak , Edward S. Ramsay , Sergey M. Shishlyannikov; J. Microbiol. 2021;59(12):1104-1111. Published online October 26, 2021; DOI: https://doi.org/10.1007/s12275-021-1214-5

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Abstract

An essential part of designing any biotechnological process is examination of the physiological state of producer cells in different phases of cultivation. The main marker of a bacterial cell’s state is its fatty acid (FA) profile, reflecting membrane lipid composition. Consideration of FA composition enables assessment of bacterial responses to cultivation conditions and helps biotechnologists understand the most significant factors impacting cellular metabolism. In this work, soil SDS-degrading Pseudomonas helmanticensis was studied at the fatty acid profile level, including analysis of rearrangement between planktonic and aggregated forms. The set of substrates included fat hydrolysates, SDS, and their mixtures with glucose. Such media are useful in bioplastic production since they can help incrementally lower overall costs. Conventional gas chromatography-mass spectrometry was used for FA analysis. Acridine orange-stained aggregates were observed by epifluorescence microscopy. The bacterium was shown to change fatty acid composition in the presence of hydrolyzed fats or SDS. These changes seem to be driven by the depletion of metabolizable substrates in the culture medium. Cell aggregation has also been found to be a defense strategy, particularly with anionic surfactant (SDS) exposure. It was shown that simple fluidity indices (such as saturated/ unsaturated FA ratios) do not always sufficiently characterize a cell's physiological state, and morphological examination is essential in cases where complex carbon sources are used.

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Effect of different diet composition on the fat profile of two different black soldier fly larvae populations
M. Tognocchi, L. Abenaim, C. Adamaki-Sotiraki, G.C. Athanassiou, I.C. Rumbos, M. Mele, B. Conti, G. Conte
animal.2024; 18(7): 101205. CrossRef
Earth to Mars: A Protocol for Characterizing Permafrost in the Context of Climate Change as an Analog for Extraplanetary Exploration
Kimberley R. Miner, Joseph Razzell Hollis, Charles E. Miller, Kyle Uckert, Thomas A. Douglas, Emily Cardarelli, Rachel Mackelprang
Astrobiology.2023; 23(9): 1006. CrossRef
Preparation of polyhydroxyalkanoates using Pseudomonas helmanticensis in non-sterile media containing glycerol and sodium dodecyl sulfate
I. N. Zubkov, Yu. S. Bukin, P. N. Sorokoumov, S. M. Shishlyannikov
Proceedings of Universities. Applied Chemistry and Biotechnology.2022; 12(3): 479. CrossRef

Effect of exopolysaccharides of Paenibacillus polymyxa rhizobacteria on physiological and morphological variables of wheat seedlings: Irina V. Yegorenkova , Kristina V. Tregubova , Alexander I. Krasov , Nina V. Evseeva , Larisa Yu. Matora; J. Microbiol. 2021;59(8):729-735. Published online July 24, 2021; DOI: https://doi.org/10.1007/s12275-021-0623-9

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Abstract

Paenibacillus polymyxa is a promising plant-growth-promoting rhizobacterium that associates with a wide range of host plants, including agronomically important ones. Inoculation of wheat seedlings with P. polymyxa strains CCM 1465 and 92 was found to increase the mitotic index of the root cells 1.2- and 1.6-fold, respectively. Treatment of seedlings with the exopolysaccharides (EPSs) of these strains increased the mitotic index 1.9-fold (P. polymyxa CCM 1465) and 2.8-fold (P. polymyxa 92). These increases indicate activation of cell division in the root meristems. Analysis of the morphometric variables of the seedlings showed that P. polymyxa CCM 1465, P. polymyxa 92, and their EPSs promoted wheat growth, increasing root and shoot length up to 22% and root and shoot dry weight up to 28%, as compared with the control. In addition, both strains were found to intensely colonize the seedling root surface. Thus, P. polymyxa EPSs are active metabolites that, along with whole cells, are responsible for the contact interactions of the bacteria with wheat roots and are implicated in the induction of plant responses to these interactions. The strains used in this work are of interest for further study to broaden the existing understanding of the mechanisms of plant–bacterial interactions and to develop effective biofertilizers for agricultural purposes.

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Optimization of the Production Parameters of a Novel Exopolysaccharide Chrysosporine from Endophytic Chrysosporium sp. KTL2, and Evaluation of its Antioxidative and Prebiotic Potentialities
Hiran Kanti Santra, Debdulal Banerjee
Indian Journal of Microbiology.2024;[Epub] CrossRef
Effect of a Bacillus velezensis and Lysinibacillus fusiformis-based biofertilizer on phosphorus acquisition and grain yield of soybean
Luciana Cristina Vitorino, Elias José da Silva, Marilene Silva Oliveira, Isabella de Oliveira Silva, Lorraine da Silva Santos, Maria Andréia Corrêa Mendonça, Thais Cristina Sousa Oliveira, Layara Alexandre Bessa
Frontiers in Plant Science.2024;[Epub] CrossRef
Screening of Endophytic Antagonistic Bacteria in Wheat and Evaluation of Biocontrol Potential against Wheat Stripe Rust
Ainisai Saimi, Qiqi Zhang, Qi Liu, Guangkuo Li, Haifeng Gao, Jing Chen
Plants.2024; 13(10): 1366. CrossRef
Basidiomycetes Polysaccharides Regulate Growth and Antioxidant Defense System in Wheat
Olga Tsivileva, Andrei Shaternikov, Nina Evseeva
International Journal of Molecular Sciences.2024; 25(13): 6877. CrossRef
Exopolysaccharides of Paenibacillus polymyxa: A review
Xuan-Ya Huang, Xin-Pei Ye, Yan-Yu Hu, Zhen-Xing Tang, Tian Zhang, Hai Zhou, Ting Zhou, Xue-Lian Bai, Er-Xu Pi, Bing-Hua Xie, Lu-E Shi
International Journal of Biological Macromolecules.2024; 261: 129663. CrossRef
Bacterial Inoculation and Co-Inoculation Improves Durum Wheat Productivity in Alkaline Calcareous Soils
Souad Guemouri-Athmani, Bouazza Chami, Aurelio Scavo, Nabil Touzout, Djamel Baali-Cherif, Adil Mihoub, Jakub Černý, Muhammad Farhan Saeed, Aftab Jamal, Hayi Mohamed Yassine, Yaser Hassan Dewir
Phyton.2024; 93(12): 3313. CrossRef
Evaluation of Osmotolerant Potential of Halomonas sulfidaeris MV-19 Isolated from a Mud Volcano
Ees Ahmad, Sushil K. Sharma, Abhijeet S. Kashyap, Nazia Manzar, Pramod K. Sahu, Udai B. Singh, Harsh V. Singh, Pawan K. Sharma
Current Microbiology.2023;[Epub] CrossRef
Watering Shapes a Robust and Stable Microbial Community under Fusarium Crown Rot Infection
Runlai Xu, Chenghang Du, Yutian Gao, Xiaohan Zhou, Irsa Ejaz, Jieru Guo, Kunhu Chen, Jun Ma, Yinghua Zhang, Zhimin Wang, Zhencai Sun
Agronomy.2023; 13(5): 1356. CrossRef
Biological activity of silver nanoparticles synthesized with Paenibacillus polymyxa exopolysaccharides
Kristina V. Tregubova, Irina V. Yegorenkova, Vyacheslav S. Grinev, Alexander S. Fomin
Enzyme and Microbial Technology.2023; 164: 110174. CrossRef
Optimizing the Growth Conditions of the Selected Plant-Growth-Promoting Rhizobacteria Paenibacillus sp. MVY-024 for Industrial Scale Production
Justina Kaziūnienė, Raimonda Mažylytė, Aurimas Krasauskas, Monika Toleikienė, Audrius Gegeckas
Biology.2022; 11(5): 745. CrossRef
Fusaricidins, Polymyxins and Volatiles Produced by Paenibacillus polymyxa Strains DSM 32871 and M1
Pascal Mülner, Elisa Schwarz, Kristin Dietel, Stefanie Herfort, Jennifer Jähne, Peter Lasch, Tomislav Cernava, Gabriele Berg, Joachim Vater
Pathogens.2021; 10(11): 1485. CrossRef

Detection of colistin-resistant populations prior to antibiotic exposure in KPC-2-producing Klebsiella pneumoniae clinical isolates: Jungyu Seo , Yu Mi Wi , Jong Min Kim , Yae-Jean Kim , Kwan Soo Ko; J. Microbiol. 2021;59(6):590-597. Published online March 29, 2021; DOI: https://doi.org/10.1007/s12275-021-0610-1

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Abstract

Although colistin is frequently regarded as the antibiotic of last resort in treating carbapenem-resistant Klebsiella pneumoniae, colistin heteroresistance may in part be associated with antibiotic treatment failure. However, we do not know how widespread the colistin heteroresistance is in carbapenem- resistant K. pneumoniae isolates. In this study, we performed colistin disc diffusion assays, E-tests, and population analysis profiling for KPC-2-producing K. pneumoniae isolates to identify colistin heteroresistance. Although no colistin- resistant colonies were detected by the disc diffusion test and E-test, a colistin-resistant subpopulation was identified in population analysis profiling in all colistin-susceptible, KPC-2-producing K. pneumoniae isolates. Colistin-resistant subpopulations were also identified even when isolates had no colistin exposure. The ratio of colistin-resistant subpopulations to the total population increased as the exposure concentration of colistin increased. In in vitro time-kill assays, regrowth was observed in all isolates after 2 h upon exposure to colistin. We identified common amino acid alterations in PhoQ, PhoP, and PmrB in colistin-resistant subpopulations from some isolates, but no substitutions were found in most resistant subpopulations from other isolates. In all colistin-resistant subpopulations, overexpression of PhoQ and PbgP was observed. In this study, we demonstrated that colistin heteroresistance may be common in KPC-2-producing K. pneumoniae isolates, which could not be detected in the disc diffusion method and E-test. Colistin heteroresistance may cause colistin treatment failure in part and may evolve into resistance. Thus, development of more reliable diagnostic methods is required to detect colistin heteroresistance.

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High prevalence of polymyxin-heteroresistant carbapenem-resistant Klebsiella pneumoniae and its within-host evolution to resistance among critically ill scenarios
Xiaoli Wang, Tianjiao Meng, Yunqi Dai, Hong-Yu Ou, Meng Wang, Bin Tang, Jingyong Sun, Decui Cheng, Tingting Pan, Ruoming Tan, Hongping Qu
Infection.2024;[Epub] CrossRef
Development of colistin resistance via heteroresistance modeling in Klebsiella pneumoniae: A diagnostic study
Jungyu Seo, Kwan Soo Ko
Precision and Future Medicine.2024; 8(1): 10. CrossRef
Conversion to colistin susceptibility by tigecycline exposure in colistin-resistant Klebsiella pneumoniae and its implications to combination therapy
Suyeon Park, Jihyun Choi, Dongwoo Shin, Ki Tae Kwon, Si-Ho Kim, Yu Mi Wi, Kwan Soo Ko
International Journal of Antimicrobial Agents.2024; 63(1): 107017. CrossRef
Insight into Antibiotic Synergy Combinations for Eliminating Colistin Heteroresistant Klebsiella pneumoniae
Sahaya Glingston Rajakani, Basil Britto Xavier, Adwoa Sey, El Bounja Mariem, Christine Lammens, Herman Goossens, Youri Glupczynski, Surbhi Malhotra-Kumar
Genes.2023; 14(7): 1426. CrossRef
Mechanisms and Clinical Relevance ofPseudomonas aeruginosaHeteroresistance
Zhao Chen
Surgical Infections.2023; 24(1): 27. CrossRef
Heteroresistance Is Associated With in vitro Regrowth During Colistin Treatment in Carbapenem-Resistant Klebsiella pneumoniae
Yifan Wang, Xinqian Ma, Lili Zhao, Yukun He, Wenyi Yu, Shining Fu, Wentao Ni, Zhancheng Gao
Frontiers in Microbiology.2022;[Epub] CrossRef
Prevalence of Mutated Colistin-Resistant Klebsiella pneumoniae: A Systematic Review and Meta-Analysis
Nik Yusnoraini Yusof, Nur Iffah Izzati Norazzman, Siti Nur’ain Warddah Ab Hakim, Mawaddah Mohd Azlan, Amy Amilda Anthony, Fatin Hamimi Mustafa, Naveed Ahmed, Ali A. Rabaan, Souad A. Almuthree, Abdulsalam Alawfi, Amer Alshengeti, Sara Alwarthan, Mohammed G
Tropical Medicine and Infectious Disease.2022; 7(12): 414. CrossRef
Antibiotic Heteroresistance in Klebsiella pneumoniae
Karolina Stojowska-Swędrzyńska, Adrianna Łupkowska, Dorota Kuczyńska-Wiśnik, Ewa Laskowska
International Journal of Molecular Sciences.2021; 23(1): 449. CrossRef
Treatment for carbapenem-resistant Enterobacterales infections: recent advances and future directions
Kathleen Tompkins, David van Duin
European Journal of Clinical Microbiology & Infectious Diseases.2021; 40(10): 2053. CrossRef

Different distribution patterns of microorganisms between aquaculture pond sediment and water: Lili Dai , Chengqing Liu , Liang Peng , Chaofeng Song , Xiaoli Li , Ling Tao; J. Microbiol. 2021;59(4):376-388. Published online February 25, 2021; DOI: https://doi.org/10.1007/s12275-021-0635-5

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Abstract

Aquatic microorganisms in the sediment and water column are closely related; however, their distribution patterns between these two habitats still remain largely unknown. In this study, we compared sediment and water microeukaryotic and bacterial microorganisms in aquaculture ponds from different areas in China, and analyzed the influencing environmental factors as well as the inter-taxa relationships. We found that bacteria were significantly more abundant than fungi in both sediment and water, and the bacterial richness and diversity in sediment were higher than in water in all the sampling areas, but no significant differences were found between the two habitats for microeukaryotes. Bacterial taxa could be clearly separated through cluster analysis between the sediment and water, while eukaryotic taxa at all classification levels could not. Spirochaetea, Deltaproteobacteria, Nitrospirae, Ignavibacteriae, Firmicutes, Chloroflexi, and Lentimicrobiaceae were more abundantly distributed in sediment, while Betaproteobacteria, Alphaproteobacter, Cyanobacteria, Roseiflexaceae, Dinghuibacter, Cryomorphaceae, and Actinobacteria were more abundant in water samples. For eukaryotes, only Cryptomonadales were found to be distributed differently between the two habitats. Microorganisms in sediment were mainly correlated with enzymes related to organic matter decomposition, while water temperature, pH, dissolved oxygen, and nutrient levels all showed significant correlation with the microbial communities in pond water. Intensive interspecific relationships were also found among eukaryotes and bacteria. Together, our results indicated that eukaryotic microorganisms are distributed less differently between sediment and water in aquaculture ponds compared to bacteria. This study provides valuable data for evaluating microbial distributions in aquatic environments, which may also be of practical use in aquaculture pond management.

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Bacterial hazards in urban stream irrigation in peri-urban interface of Nairobi-Machakos counties, Kenya
Arcadius Martinien Agassin Ahogle, Nicholas K. Korir, Pascal Houngnandan, Lina Abu-Ghunmi, Sammy Letema
International Journal of Environmental Studies.2024; 81(4): 1836. CrossRef
Metagenomic Insight into the Effect of Probiotics on Nitrogen Cycle in the Coilia nasus Aquaculture Pond Water
Qi Mang, Jun Gao, Quanjie Li, Yi Sun, Gangchun Xu, Pao Xu
Microorganisms.2024; 12(3): 627. CrossRef
Carbon and Nutrient Limitations of Microbial Metabolism in Xingkai Lake, China: Abiotic and Biotic Drivers
Xingting Chen, Weizhen Zhang, Mengdie Geng, Ji Shen, Jianjun Wang
Microbial Ecology.2024;[Epub] CrossRef
Biofilm formation and chlorine resistance of microbial communities in household drinking water system: Preliminary idea of using bacteria to control bacteria
Lili Shan, Xiajun Bao, Siyang Xu, Zebing Zhu, Yunyan Pei, Wanjun Zheng, Yixing Yuan
Process Biochemistry.2024; 141: 179. CrossRef
Profiling sediment bacterial communities and the response to pattern-driven variations of total nitrogen and phosphorus in long-term polyculture ponds
Yan Zhang, Tiejun Li, Guangzhi Li, Tao Yuan, Yao Zhang, Lei Jin
Frontiers in Marine Science.2024;[Epub] CrossRef
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Anwar Hossain, Md Al Zahid, Santonu Kumar Sanyal, Md Inja-Mamun Haque, Md Habibullah-Al-Mamun, Shankar Chandra Mandal, Kozo Watanabe
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Sara Vettorazzo, Adriano Boscaini, Leonardo Cerasino, Nico Salmaso
Science of The Total Environment.2024; 954: 176495. CrossRef
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Water.2024; 16(13): 1836. CrossRef
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Lijin Jiang, Mengmeng Yi, Zhiyong Jiang, Yuli Wu, Jianmeng Cao, Zhigang Liu, Zhang Wang, Maixin Lu, Xiaoli Ke, Miao Wang
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Minhai Liu, Zhongneng Yan, Chengwei Huang, Zhihua Lin, Zhilan Peng, Chenxi Zhao, Xiafei Zheng
Aquacultural Engineering.2024; 107: 102477. CrossRef
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Ngoc Minh Ngan Bui, Jasmine Heyse, Jérôme Delamare-Deboutteville, Tom Defoirdt, Ruben Props, Colin Shelley
Aquaculture.2024; 582: 740505. CrossRef
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Saurabh Chatterjee, Madhura More
Toxins.2023; 15(4): 289. CrossRef
Significant tipping points of sediment microeukaryotes forewarn increasing antibiotic pollution
Chaohua Wang, Zhiyuan Yao, Pingping Zhan, Xianghua Yi, Jiong Chen, Jinbo Xiong
Journal of Environmental Sciences.2023; 124: 429. CrossRef
Red mark syndrome: Is the aquaculture water microbiome a keystone for understanding the disease aetiology?
Antonia Bruno, Alessandra Cafiso, Anna Sandionigi, Andrea Galimberti, Davide Magnani, Amedeo Manfrin, Giulio Petroni, Maurizio Casiraghi, Chiara Bazzocchi
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Zebing Zhu, Siyang Xu, Xiajun Bao, Lili Shan, Yunyan Pei, Wanjun Zheng, Yixing Yuan
Journal of Cleaner Production.2023; 411: 137308. CrossRef
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Tianheng Gao, Nannan Li, Wenlei Xue, Yuning Hu, Hai Lin
Fishes.2023; 8(2): 98. CrossRef
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Mira Mawardi, Agustin Indrawati, Angela Mariana Lusiastuti, I Wayan Teguh Wibawan
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Shuhui Niu, Kai Zhang, Zhifei Li, Jun Xie, Guangjun Wang, Hongyan Li, Ermeng Yu, Yun Xia, Jingjing Tian, Wangbao Gong
Aquaculture Reports.2023; 30: 101556. CrossRef
Case study on the aptness of in-pond raceways for pikeperch, Sander lucioperca, grow-out
Zoltán Nagy, László Ardó, Ferenc Demény, Dénes Gál, Zsuzsanna J. Sándor, Uroš Ljubobratović
Aquaculture Reports.2022; 27: 101356. CrossRef
Structural and functional comparisons of the environmental microbiota of pond and tank environments at different locations for the commercial aquaculture of American shad
J. Du, Q.H. Liu, J.S. Liu, K.-Q. Zhang, W.F. Huang
Letters in Applied Microbiology.2022; 75(1): 51. CrossRef
The responses of soil bacterial and archaeal communities to coastal embankments in three typical salt marshes of Eastern China
Hongyu Feng, Yajun Qiao, Lu Xia, Wen Yang, Yongqiang Zhao, Nasreen Jeelani, Shuqing An
Plant and Soil.2022; 477(1-2): 439. CrossRef
Improvement of fish production and water quality in a recirculating aquaculture pond enhanced with bacteria-microalgae association
Chu Wang, Cancan Jiang, Tianming Gao, Xiawei Peng, Shuanglong Ma, Qian Sun, Bing Xia, Xiangming Xie, Zhihui Bai, Shengjun Xu, Xuliang Zhuang
Aquaculture.2022; 547: 737420. CrossRef
Microbial Community Structure and Its Driving Environmental Factors in Black Carp (Mylopharyngodon piceus) Aquaculture Pond
Xuemei Li, Lu Liu, Yongjiu Zhu, Tingbing Zhu, Xingbing Wu, Deguo Yang
Water.2021; 13(21): 3089. CrossRef

The effects of cigarettes and alcohol on intestinal microbiota in healthy men: Renbin Lin , Yawen Zhang , Luyi Chen , Yadong Qi , Jiamin He , Mengjia Hu , Ying Zhang , Lina Fan , Tao Yang , Lan Wang , Misi Si , Shujie Chen; J. Microbiol. 2020;58(11):926-937. Published online October 30, 2020; DOI: https://doi.org/10.1007/s12275-020-0006-7

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Abstract

Human intestinal microbiota is affected by the exogenous microenvironment. This study aimed to determine the effects of cigarettes and alcohol on the gut microbiota of healthy men. In total, 116 healthy male subjects were enrolled and divided into four groups: non-smoking and non-drinking (Group A), smoking only (Group B), drinking only (Group C), and smoking and drinking combined (Group D). Fecal samples were collected and sequenced using 16S rRNA to analyze the microbial composition. Short-chain fatty acid (SCFAs) levels in feces were determined by gas chromatography. We found that cigarette and alcohol consumptions can alter overall composition of gut microbiota in healthy men. The relative abundances of phylum Bacteroidetes and Firmicutes and more than 40 genera were changed with cigarette and alcohol consumptions. SCFAs decreased with smoking and alcohol consumption. Multivariate analysis indicated that when compared with group A, group B/C/D had higher Bacteroides, and lower Phascolarctobacterium, Ruminococcaceae_ UCG-002, Ruminococcaceae_UCG-003, and Ruminiclostridium_ 9 regardless of BMI and age. Additionally, the abundance of Bacteroides was positively correlated with the smoking pack-year (r = 0.207, p < 0.05), the abundance of predicted pathway of bacterial toxins (r = 0.3672, p < 0.001) and the level of carcinoembryonic antigen in host (r = 0.318, p < 0.01). Group D shared similar microbial construction with group B, but exerted differences far from group C with lower abundance of Haemophilus. These results demonstrated that cigarette and alcohol consumption separately affected the intestinal microbiota and function in healthy men; furthermore, the co-occurrence of cigarette and alcohol didn’t exacerbate the dysbiosis and cigarette played the predominated role on the alteration.

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Light affects picocyanobacterial grazing and growth response of the mixotrophic flagellate Poterioochromonas malhamensis: Thomas Weisse , Michael Moser; J. Microbiol. 2020;58(4):268-278. Published online January 28, 2020; DOI: https://doi.org/10.1007/s12275-020-9567-8

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Abstract

We measured the grazing and growth response of the mixotrophic chrysomonad flagellate Poterioochromonas malhamensis on four closely related picocyanobacterial strains isolated from subalpine lakes in central Europe. The picocyanobacteria represented different pigment types (phycoerythrin- rich, PE, and phycocyanin-rich, PC) and phylogenetic clusters. The grazing experiments were conducted with laboratory cultures acclimated to 10 μmol photon/m2/sec (low light, LL) and 100 μmol photon/m2/sec (moderate light, ML), either in the dark or at four different irradiances ranging from low (6 μmol photon/m2/sec) to high (1,500 μmol photon/m2/ sec) light intensity. Poterioochromonas malhamensis preferred the larger, green PC-rich picocyanobacteria to the smaller, red PE-rich picocyanobacterial, and heterotrophic bacteria. The feeding and growth rates of P. malhamensis were sensitive to the actual light conditions during the experiments; the flagellate performed relatively better in the dark and at LL conditions than at high light intensity. In summary, our
results
found strain-specific ingestion and growth rates of the flagellate; an effect of the preculturing conditions, and, unexpectedly, a direct adverse effect of high light levels. We conclude that this flagellate may avoid exposure to high surface light intensities commonly encountered in temperate lakes during the summer.

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Abstract

Intrauterine growth restriction (IUGR) predisposes newborns to inflammatory and metabolic disturbance. Disequilibrium of gut microbiota in early life has been implicated in the incidence of inflammation and metabolic diseases in adulthood. This study aimed to investigate the difference in gut microbiota colonization, cytokines and plasma metabolome between IUGR and normal birth weight (NBW) piglets in early life. At birth, reduced (P < 0.05) body, jejunum, and ileum weights, as well as decreased (P < 0.05) small intestinal villi and increased (P < 0.05) ileal crypt depth were observed in IUGR piglets compared with their NBW counterparts. Imbalanced inflammatory and plasma metabolome profile was observed in IUGR piglets. Furthermore, altered metabolites were mainly involved in fatty acid metabolism and inflammatory response. At 12 h after birth and after suckling colostrum, reduced (P < 0.05) postnatal growth and the small intestinal maturation retardation (P < 0.05) continued in IUGR piglets in comparison with those in NBW littermates. Besides, the gut microbiota structure was significantly altered by IUGR. Importantly, the disruption of the inflammatory profile and metabolic status mainly involved the pro-inflammatory cytokines (IL-1β and IFN-γ) and amino acid metabolism. Moreover, spearman correlation analysis showed that the increased abundance of Escherichia-Shigella and decreased abundance of Clostridium_sensu_stricto_1 in IUGR piglets was closely associated with the alterations of slaughter weight, intestinal morphology, inflammatory cytokines, and plasma metabolites. Collectively, IUGR significantly impairs small intestine structure, modifies gut microbiota colonization, and disturbs inflammatory and metabolic profiles during the first 12 h after birth. The unbalanced gut microbiota mediated by IUGR contributes to the development of inflammation and metabolic diseases.

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Abstract

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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Alleviation of drought stress in tomato by foliar application of seafood waste extract
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Fatemeh Salimi, Mehdi Khorshidi, Fateme Amirahmadi, Atefe Amirahmadi
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Yang Xu, Zhimeng Zhang, Hong Ding, Saiqun Wen, Guanchu Zhang, Feifei Qin, Liangxiang Dai
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Journal of Microbiology.2021; 59(1): 51. CrossRef
The Effects of Salinity on the Anatomy and Gene Expression Patterns in Leaflets of Tomato cv. Micro-Tom
Jonas Hoffmann, Roberto Berni, Flavia Maria Sutera, Annelie Gutsch, Jean-Francois Hausman, Suzanne Saffie-Siebert, Gea Guerriero
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You-Wei Xiong, Yuan Gong, Xue-Wei Li, Pan Chen, Xiu-Yun Ju, Chun-Mei Zhang, Bo Yuan, Zuo-Peng Lv, Ke Xing, Sheng Qin
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Root-associated bacteria influencing mycelial growth of Tricholoma matsutake (pine mushroom): Seung-Yoon Oh , Young Woon Lim; J. Microbiol. 2018;56(6):399-407. Published online June 1, 2018; DOI: https://doi.org/10.1007/s12275-018-7491-y

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Abstract

Tricholoma matsutake is an ectomycorrhizal fungus usually associated with Pinus densiflora in South Korea. Fruiting bodies (mushrooms) of T. matsutake are economically important due to their attractive aroma; yet, T. matsutake is uncultivatable and its habitat is rapidly being eradicated due to global climate change. Root-associated bacteria can influence the growth of ectomycorrhizal fungi that co-exist in the host rhizosphere and distinctive bacterial communities are associated with T. matsutake. In this study, we investigated how these bacterial communities affect T. matsutake growth by isolating bacteria from the roots of P. densiflora colonized by ectomycorrhizae of T. matsutake and co-culturing rootassociated bacteria with T. matsutake isolates. Thirteen species of bacteria (27 isolates) were found in pine roots, all belonging to the orders Bacillales or Burkholderiales. Two species in the genus Paenibacillus promoted the growth of T. matsutake in glucose poor conditions, likely using soluble metabolites. In contrast, other bacteria suppressed the growth of T. matsutake using both soluble and volatile metabolites. Antifungal activity was more frequent in glucose poor conditions. In general, pine rhizospheres harbored many bacteria that had a negative impact on T. matsutake growth and the few Paenibacillus species that promoted T. matsutake growth. Paenibacillus species, therefore, may represent a promising resource toward successful cultivation of T. matsutake.

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Metabolism-mediated induction of zinc tolerance in Brassica rapa by Burkholderia cepacia CS2-1: Sang-Mo Kang , Raheem Shahzad , Saqib Bilal , Abdul Latif Khan , Young-Hyun You , Won-Hee Lee , Hee-La Ryu , Ko-Eun Lee , In-Jung Lee; J. Microbiol. 2017;55(12):955-965. Published online December 7, 2017; DOI: https://doi.org/10.1007/s12275-017-7305-7

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Abstract

Brassica rapa (Chinese cabbage) is an essential component of traditional Korean food. However, the crop is often subject to zinc (Zn+) toxicity from contaminated irrigation water, which, as a result, compromises plant growth and production, as well as the health of human consumers. The present study investigated the bioaccumulation of Zn+ by Burkholderia cepacia CS2-1 and its effect on the heavy metal tolerance of Chinese cabbage. Strain CS2-1 was identified and characterized on the basis of 16S rRNA sequences and phylogenetic analysis. The strain actively produced indole-3-acetic acid (3.08 ± 0.21 μg/ml) and was also able to produce siderophore, solubilize minerals, and tolerate various concentrations of Zn+. The heavy metal tolerance of B. rapa plants was enhanced by CS2-1 inoculation, as indicated by growth attributes, Zn+ uptake, amino acid synthesis, antioxidant levels, and endogenous hormone (ABA and SA) synthesis. Without inoculation, the application of Zn+ negatively affected the growth and physiology of B. rapa plants. However, CS2-1 inoculation improved plant growth, lowered Zn+ uptake, altered both amino acid regulation and levels of flavonoids and phenolics, and significantly decreased levels of superoxide dismutase, endogenous abscisic acid, and salicylic acid. These findings indicate that B. cepacia CS2-1 is suitable for bioremediation against Zn+-induced oxidative stress.

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Sang-Mo Kang, Sajjad Asaf, Abdul Latif Khan, Lubna, Adil Khan, Bong-Gyu Mun, Muhammad Aaqil Khan, Humaira Gul, In-Jung Lee
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Construction of a genetic linkage map and QTL mapping of agronomic traits in Auricularia auricula-judae: Li-Xin Lu , Fang-Jie Yao , Peng Wang , Ming Fang , You-Min Zhang , Wei-Tong Zhang , Xiang-Hui Kong , Jia Lu; J. Microbiol. 2017;55(10):792-799. Published online September 28, 2017; DOI: https://doi.org/10.1007/s12275-017-7241-6

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Abstract

Auricularia auricula-judae is a traditional edible fungus that is cultivated widely in China. In this study, a genetic linkage map for A. auricula-judae was constructed using a mapping population consisting of 138 monokaryons derived from a hybrid strain (A119-5). The monokaryotic parent strains A14-5 and A18-119 were derived from two cultivated varieties, A14 (Qihei No. 1) and A18 (Qihei No. 2), respectively. In total, 130 simple sequence repeat markers were mapped. These markers were developed using the whole genome sequence of A. auricula-judae and amplified in A14-5, A18- 119, and the mapping population. The map consisted of 11 linkage groups (LGs) spanning 854 cM, with an average interval length of 6.57 cM. A testcross population was derived from crossing between the monokaryon A184-57 (from the wild strain A184 as a tester strain) and the mapping population. Important agronomic trait-related QTLs, including mycelium growth rate on potato dextrose agar for the mapping population, mycelium growth rate on potato dextrose agar and sawdust for the testcross population, growth period (days from inoculation to fruiting body harvesting), and yield for the testcross population, were identified using the composite interval mapping method. Six mycelium growth raterelated QTLs were identified on LG1 and LG4, two growth period-related QTLs were identified on LG2, and three yieldrelated QTLs were identified on LG2 and LG6. The results showed no linkage relationship between mycelium growth rate and growth period. The present study provides a foundation for locating genes for important agronomic characteristics in A. auricula-judae in the future.

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Lee Seong Wei, Alvin Amos Adrian Susin, Albaris B. Tahiluddin, Liew Vui Kien, Wendy Wee
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Jian Sun, Fangjie Yao, Lixin Lu, Youmin Zhang, Ming Fang, Xiaoxu Ma, Kaisheng Shao, Xu Sun
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Medicinal Value, Genetic Diversity, and Genetic Relationship Analysis of Auricularia cornea (Agaricomycetes) Based on ITS, ISSR, and SRAP Markers
Ping Du, Hong-Yan He, Ni-Ya Wu, Tianxu Cao, Bao-Kai Cui
International Journal of Medicinal Mushrooms.2024; 26(5): 43. CrossRef
Velvet Family Members Regulate Pigment Synthesis of the Fruiting Bodies of Auricularia cornea
Xiaoxu Ma, Lixin Lu, Youmin Zhang, Ming Fang, Kaisheng Shao, Xu Sun, Fangjie Yao, Peng Wang
Journal of Fungi.2023; 9(4): 412. CrossRef
The polysaccharides from Auricularia auricula alleviate non-alcoholic fatty liver disease via modulating gut microbiota and bile acids metabolism
Yifan Shu, Yujie Huang, Wei Dong, Xia Fan, Yi Sun, Guijie Chen, Xiaoxiong Zeng, Hong Ye
International Journal of Biological Macromolecules.2023; 246: 125662. CrossRef
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SNP-Based Genetic Linkage Map and Quantitative Trait Locus Mapping Associated with the Agronomically Important Traits of Hypsizygus marmoreus
Youn-Lee Oh, In-Geol Choi, Kab-Yeul Jang, Min-Seek Kim, Min ji Oh, Ji-Hoon Im
Mycobiology.2021; 49(6): 589. CrossRef
Genetic linkage map construction and quantitative trait loci mapping of agronomic traits in Gloeostereum incarnatum
Wan-Zhu Jiang, Fang-Jie Yao, Li-Xin Lu, Ming Fang, Peng Wang, You-Min Zhang, Jing-Jing Meng, Jia Lu, Xiao-Xu Ma, Qi He, Kai-Sheng Shao
Journal of Microbiology.2021; 59(1): 41. CrossRef
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Nana Chen, Hao Zhang, Xin Zong, Siyu Li, Jiaojiao Wang, Yizhen Wang, Mingliang Jin
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The response of human bacteria to static magnetic field and radiofrequency electromagnetic field: David P. E. Crabtree , Brandon J. Herrera , Sanghoon Kang; J. Microbiol. 2017;55(10):809-815. Published online September 28, 2017; DOI: https://doi.org/10.1007/s12275-017-7208-7

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Abstract

Cell phones and electronic appliances and devices are inseparable from most people in modern society and the electromagnetic field (EMF) from the devices is a potential health threat. Although the direct health effect of a cell phone and its radiofrequency (RF) EMF to human is still elusive, the effect to unicellular organisms is rather apparent. Human microbiota, including skin microbiota, has been linked to a very significant role in the health of a host human body. It is important to understand the response of human skin microbiota to the RF-EMF from cell phones and personal electronic devices, since this may be one of the potential mechanisms of a human health threat brought about by the disruption of the intimate and balanced host-microbiota relationship. Here, we investigated the response of both laboratory culture strains and isolates of skin bacteria under static magnetic field (SMF) and RF-EMF. The growth patterns of laboratory cultures of Escherichia coli, Pseudomonas aeruginosa, and Staphylococcus epidermidis under SMF were variable per different species. The bacterial isolates of skin microbiota from 4 subjects with different cell phone usage history also showed inconsistent growth responses. These findings led us to hypothesize that cell phone level RF-EMF disrupts human skin microbiota. Thus, the results from the current study lay ground for more comprehensive research on the effect of RF-EMF on human health through the human-microbiota relationship.

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