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- The Impact of Makgeolli Consumption on Gut Microbiota: An Enterotype-Based Preliminary Study
- Gyungcheon Kim, Seongok Kim, Hayan Jung, Seohyun Kang, Gwoncheol Park, Hakdong Shin
- J. Microbiol. 2024;62(11):965-972. Published online October 16, 2024
- DOI: https://doi.org/10.1007/s12275-024-00176-3
- 507 View
- 8 Download
- 3 Web of Science
- 3 Crossref
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Abstract
PDF - Makgeolli, a traditional Korean liquor, contains components such as lactic acid bacteria and dietary fiber, which can induce changes in the gut microbiome. Since variations in microbiome responses may exist between enterotypes-classifications based on the dominant bacterial populations in the gut-we hypothesized that the consumption of makgeolli leads to enterotype-dependent differences in gut microbial structures among healthy participants. This study aimed to determine the effect of makgeolli consumption on gut microbial structures by stratifying all participants into two enterotype groups: Bacteroides-dominant type (B-type, n = 7) and Prevotella-dominant type (P-type, n = 4). The B-type showed an increase in alpha diversity, while no significant difference was observed in the P-type following makgeolli consumption. The composition of gut microbiota significantly changed in the B-type, whereas no noticeable alteration was observed in the P-type after makgeolli consumption. Notably, Prevotella exhibited the most significant changes only in the P-type. In line with the increased abundance of Prevotella, the genes associated with carbohydrate metabolism, including pentose/glucuronate interconversions, fructose/mannose metabolism, starch/sucrose metabolism and amino sugar/nucleotide sugar metabolism were significantly enriched following makgeolli consumption in the P-type. These findings suggest that makgeolli consumption induces enterotype-dependent alterations in gut microbial composition and metabolic pathways, highlighting the potential for personalized dietary interventions.
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Citations
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- The prebiotic potential of dietary onion extracts: shaping gut microbial structures and promoting beneficial metabolites
Yebeen Yoo, Seongok Kim, WonJune Lee, Jinwoo Kim, Bokyung Son, Kwang Jun Lee, Hakdong Shin, Aviâja Lyberth Hauptmann
mSystems.2025;[Epub] CrossRef - Dietary Fiber Intake Improves Osteoporosis Caused by Chronic Lead Exposure by Restoring the Gut–Bone Axis
Ruijian Wang, Jin Shen, Chunqing Han, Xiaodong Shi, Yan Gong, Xiping Hu, Zhongtang Jia, Miaomiao Wang, Yu Wu
Nutrients.2025; 17(9): 1513. CrossRef - Modulation of Gut Microbiota by Cacao: Insights from an In Vitro Model
Jinshil Kim, Sunil Jung, Gyungcheon Kim, Jinwoo Kim, Bokyung Son, Hakdong Shin
Current Issues in Molecular Biology.2025; 47(6): 414. CrossRef
- The prebiotic potential of dietary onion extracts: shaping gut microbial structures and promoting beneficial metabolites
- Helicobacter pylori-mediated gastric pathogenesis is attenuated by treatment of 2-deoxyglucose and metformin
- Hanfu Su , Eun-Jung Bak , Aeryun Kim , Kavinda Tissera , Jeong-Heon Cha , Sungil Jang
- J. Microbiol. 2022;60(8):849-858. Published online June 22, 2022
- DOI: https://doi.org/10.1007/s12275-022-2130-z
- 384 View
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- 5 Web of Science
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Abstract
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- Helicobacter pylori infection causes chronic inflammation in the stomach, which is linked to the development of gastric cancer. The anti-inflammatory and anticancer effects of a glycolysis inhibitor 2-deoxyglucose (2DG) and an antidiabetic medication metformin (Met) have gotten attention. Using a Mongolian gerbil animal model, we investigated H. pylorimediated gastric pathogenesis and how this pathogenesis is influenced by 2DG and Met. Five-week-old male gerbils were infected with H. pylori strain 7.13. After 2 weeks of infection, gerbils were fed 2DG-containing food (0.03% w/w), Met-containing water (0.5% w/v), or both (Combi) for 2 (short-term) or 10 weeks (long-term). Gastric pathogenesis and host response to H. pylori infection were examined by macroscopic and histopathologic analysis of gerbils’ stomach. As a result, indicators of gastric pathogenesis by H. pylori infection including infiltration of polymorphonuclear neutrophils and lymphocytes, intestinal metaplasia, atrophy, and proliferation of gastric epithelial cells were attenuated by short-term administration of 2DG, Met, or Combi. When the infection was sustained for long-term, gastric pathogenesis in drug-treated gerbils was equivalent to that in untreated gerbils, with the exception that the infiltration of neutrophil was reduced by 2DG. Colonization of H. pylori in stomach was unaffected by both short- and long-term treatments. Our findings demonstrate that the progression of gastric pathogenesis induced by H. pylori infection can be attenuated by the shortterm individual or combinational treatment of 2DG and Met, implying that 2DG or Met could be considered as a treatment option for gastric diseases in the early stages of infection.
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Citations
Citations to this article as recorded by- Chemoprevention strategies for precancerous gastric lesions beyond Helicobacter pylori eradication
Tai Zhang, Xudong Tang
QJM: An International Journal of Medicine.2025; 118(6): 385. CrossRef - Metabolic reprogramming as a key regulator in Helicobacter pylori-infected gastric cancer
Ruofan Cao, Feifei Zhou, Cuiyu Zhu, Hongwei Xu
Gastric Cancer.2025;[Epub] CrossRef - Antibacterial and Immunoregulatory Effects of Metformin against Helicobacter pylori Infection in Rat Model
Hassan Valadbeigi, Saeed Khoshnood, Babak Negahdari, Mohd Azmuddin Abdullah, Mohammad Hossein Haddadi, Abhimanyu Abhimanyu
BioMed Research International.2023;[Epub] CrossRef - Effect of Metformin on the Prognosis of Gastric Cancer Patients with Type 2 Diabetes Mellitus: A Meta-Analysis Based on Retrospective Cohort Studies
Lingna Li, Jianing Huang, Tongmin Huang, Jie Yao, Yeyuan Zhang, Meiling Chen, Haojie Shentu, Haiying Lou, Flavia Prodam
International Journal of Endocrinology.2023; 2023: 1. CrossRef
- Chemoprevention strategies for precancerous gastric lesions beyond Helicobacter pylori eradication
Review
- Protective and pathogenic role of humoral responses in COVID-19
- Uni Park , Nam-Hyuk Cho
- J. Microbiol. 2022;60(3):268-275. Published online March 2, 2022
- DOI: https://doi.org/10.1007/s12275-022-2037-8
- 382 View
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- 5 Web of Science
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Abstract
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- Since the advent of SARS-CoV-2 in Dec. 2019, the global endeavor to identify the pathogenic mechanism of COVID-19 has been ongoing. Although humoral immunity including neutralizing activity play an important role in protection from the viral pathogen, dysregulated antibody responses may be associated with the pathogenic progression of COVID-19, especially in high-risk individuals. In addition, SARS-CoV-2 spike-specific antibodies acquired by prior infection or vaccination act as immune pressure, driving continuous population turnover by selecting for antibody-escaping mutations. Here, we review accumulating knowledge on the potential role of humoral immune responses in COVID-19, primarily focusing on their beneficial and pathogenic properties. Understanding the multifaceted regulatory mechanisms of humoral responses during SARS-CoV-2 infection can help us to develop more effective therapeutics, as well as protective measures against the ongoing pandemic.
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Citations
Citations to this article as recorded by- Rise in broadly cross-reactive adaptive immunity against human β-coronaviruses in MERS-recovered patients during the COVID-19 pandemic
So-Hee Kim, Yuri Kim, Sangeun Jeon, Uni Park, Ju-Il Kang, Kyeongseok Jeon, Hye-Ran Kim, Songhyeok Oh, Ji-Young Rhee, Jae-Phil Choi, Wan Beom Park, Sang Won Park, Jeong-Sun Yang, Joo-Yeon Lee, Jihye Kang, Hyoung-Shik Shin, Yeonjae Kim, Seungtaek Kim, Yeon-
Science Advances.2024;[Epub] CrossRef - Distinctive Combinations of RBD Mutations Contribute to Antibody Evasion in the Case of the SARS-CoV-2 Beta Variant
Tae-Hun Kim, Sojung Bae, Sunggeun Goo, Jinjong Myoung
Journal of Microbiology and Biotechnology.2023; 33(12): 1587. CrossRef - Two years of COVID-19 pandemic: where are we now?
Jinjong Myoung
Journal of Microbiology.2022; 60(3): 235. CrossRef
- Rise in broadly cross-reactive adaptive immunity against human β-coronaviruses in MERS-recovered patients during the COVID-19 pandemic
Journal Articles
- Down-regulation of microRNA-155 suppressed Candida albicans induced acute lung injury by activating SOCS1 and inhibiting inflammation response
- Xiaohua Li , Yuanzhong Gong , Xin Lin , Qiong Lin , Jianxiong Luo , Tianxing Yu , Junping Xu , Lifang Chen , Liyu Xu , Ying Hu
- J. Microbiol. 2022;60(4):402-410. Published online February 14, 2022
- DOI: https://doi.org/10.1007/s12275-022-1663-5
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- 8 Web of Science
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Abstract
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- Acute lung injury caused by Candida albicans could result in high mortality and morbidity. MicroRNA-155 (miR-155) and suppressor of cytokine signaling 1 (SOCS1) have been believed to play a key in the regulation of inflammatory response. Whether miR-155/SOCS1 axis could regulate the acute lung injury caused by C. albicans has not been reported. The acute lung injury animal model was established with acute infection of C. albicans. miR-155 inhibitor, miR-155 mimic, and sh-SOCS1 were constructed. The binding site between miR- 155 and SOCS1 was identified with dual luciferase reporter assay. Knockdown of miR-155 markedly inhibited the germ tube formation of C. albicans. Knockdown of miR-155 significantly up-regulated the expression of SOCS1, and the binding site between miR-155 and SOCS1 was identified. Knockdown of miR-155 improved the acute lung injury, suppressed inflammatory factors and fungus loading through SOCS1. Knockdown of SOCS1 greatly reversed the influence of miR- 155 inhibitor on the cell apoptosis in vitro. The improvement of acute lung injury caused by C. albicans, suppression of inflammatory response and C. albicans infection, and inhibitor of cell apoptosis were achieved by knocking down miR-155 through SOCS1. This research might provide a new thought for the prevention and treatment of acute lung injury caused by C. albicans through targeting miR-155/SOCS1 axis.
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Citations
Citations to this article as recorded by- Role of microRNAs in Immune Regulation with Translational and Clinical Applications
Zsuzsanna Gaál
International Journal of Molecular Sciences.2024; 25(3): 1942. CrossRef - miR‑186‑5p regulates the inflammatory response of chronic obstructive pulmonary disorder by targeting HIF‑1α
Yihui Fu, Jie Zhao, Jie Chen, Yamei Zheng, Rubing Mo, Lei Zhang, Bingli Zhang, Qi Lin, Chanyi He, Siguang Li, Lingsang Lin, Tian Xie, Yipeng Ding
Molecular Medicine Reports.2024;[Epub] CrossRef - Targeting microRNAs as a promising anti-cancer therapeutic strategy against traffic-related air pollution-mediated lung cancer
Hamed Kazemi Shariat Panahi, Mona Dehhaghi, Gilles J. Guillemin, Wanxi Peng, Mortaza Aghbashlo, Meisam Tabatabaei
Cancer and Metastasis Reviews.2024; 43(2): 657. CrossRef - MicroRNAs: Regulators of the host antifungal immune response
Yanchen Lin, Ping Li, Jinliang Teng, Chunhua Liao
Perioperative Precision Medicine.2023;[Epub] CrossRef - Total saponins from Panax japonicus reduce inflammation in adipocytes through the miR155/SOCS1/NFκB signaling pathway
Yan Gao, Rui Wang, Luoying Li, Yumin He, Ding Yuan, Yifan Zhang, Yaqi Hu, Shuwen Wang, Chengfu Yuan
Phytomedicine.2023; 115: 154827. CrossRef - Unraveling Therapeutic Opportunities and the Diagnostic Potential of microRNAs for Human Lung Cancer
Osama Sweef, Elsayed Zaabout, Ahmed Bakheet, Mohamed Halawa, Ibrahim Gad, Mohamed Akela, Ehab Tousson, Ashraf Abdelghany, Saori Furuta
Pharmaceutics.2023; 15(8): 2061. CrossRef
- Role of microRNAs in Immune Regulation with Translational and Clinical Applications
- Lysobacter arenosi sp. nov. and Lysobacter solisilvae sp. nov. isolated from soil
- Kyeong Ryeol Kim† , Kyung Hyun Kim† , Shehzad Abid Khan , Hyung Min Kim , Dong Min Han , Che Ok Jeon
- J. Microbiol. 2021;59(8):709-718. Published online June 1, 2021
- DOI: https://doi.org/10.1007/s12275-021-1156-y
- 387 View
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- 11 Web of Science
- 11 Crossref
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Abstract
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- Two Gram-stain negative, yellow-pigmented, and mesophilic bacteria, designated strains R7T and R19T, were isolated from sandy and forest soil, South Korea, respectively. Both strains were non-motile rods showing catalase- and oxidase-positive activities. Both strains were shown to grow at 10–37°C and pH 6.0–9.0, and in the presence of 0–1.5% (w/v) NaCl. Strain R7T contained iso-C14:0, iso-C15:0, iso-C16:0, and summed feature 9 (comprising C16:0 10-methyl and/or iso-C17:1 ω9c), whereas strain R19T contained iso-C11:0 3-OH, C16:1 ω7c alcohol, iso-C11:0, iso-C15:0, iso-C16:0, and summed feature 9 (comprising C16:0 10-methyl and/or iso-C17:1 ω9c) as major cellular fatty acids (> 5%). Both strains contained ubiquinone- 8 as the sole isoprenoid quinone and phosphatidylglycerol, phosphatidylethanolamine, and an unidentified phospholipid as the major polar lipids. The DNA G + C contents of strains R7T and R19T calculated from their genomes were 66.9 mol% and 68.9 mol%, respectively. Strains R7T and R19T were most closely related to Lysobacter panacisoli C8-1T and Lysobacter niabensis GH34-4T with 98.7% and 97.8% 16S rRNA sequence similarities, respectively. Phylogenetic analyses based on 16S rRNA gene sequences showed that strains R7T and R19T formed distinct phylogenetic lineages within the genus Lysobacter. Based on phenotypic, chemotaxonomic, and molecular features, strains R7T and R19T represent novel species of the genus Lysobacter, for which the names Lysobacter arenosi sp. nov. and Lysobacter solisilvae sp. nov. are proposed. The type strains of L. arenosi and L. solisilvae are R7T (= KACC 21663T = JCM 34257T) and R19T (= KACC 21767T = JCM 34258T), respectively.
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Citations
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Luteimonas flava sp. nov. and Aquilutibacter rugosus gen. nov., sp. nov., isolated from freshwater environments in China and re-examining the taxonomic status of genera Luteimonas and Lysobacter
Huibin Lu, Li Chen, Yujing Wang, Peng Xing, Qinglong Wu
International Journal of Systematic and Evolutionary Microbiology .2024;[Epub] CrossRef - Saline soil improvement promotes the transformation of microbial salt tolerance mechanisms and microbial-plant-animal ecological interactions
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Agronomy.2024; 14(9): 2111. CrossRef - Short-term effect of reclaimed wastewater quality gradient on soil microbiome during irrigation
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Dyadobacter pollutisoli sp. nov., isolated from plastic waste landfill soil
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International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef - Physiological and genomic analyses of cobalamin (vitamin B12)-auxotrophy of Lysobacter auxotrophicus sp. nov., a methionine-auxotrophic chitinolytic bacterium isolated from chitin-treated soil
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International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef -
Nitratireductor rhodophyticola sp. nov., isolated from marine red algae
Kyung Hyun Kim, Sylvia Kristyanto, Hyung Min Kim, Kyeong Ryeol Kim, Che Ok Jeon
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef - Description of Corynebacterium poyangense sp. nov., isolated from the feces of the greater white-fronted geese (Anser albifrons)
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Journal of Microbiology.2022; 60(5): 469. CrossRef - Isolation and characterization of tick-borne Roseomonas haemaphysalidis sp. nov. and rodent-borne Roseomonas marmotae sp. nov.
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International Journal of Systematic and Evolutionary Microbiology.2022;[Epub] CrossRef
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Luteimonas flava sp. nov. and Aquilutibacter rugosus gen. nov., sp. nov., isolated from freshwater environments in China and re-examining the taxonomic status of genera Luteimonas and Lysobacter
Review
- Omics in gut microbiome analysis
- Tae Woong Whon , Na-Ri Shin , Joon Yong Kim , Seong Woon Roh
- J. Microbiol. 2021;59(3):292-297. Published online February 23, 2021
- DOI: https://doi.org/10.1007/s12275-021-1004-0
- 348 View
- 0 Download
- 41 Web of Science
- 41 Crossref
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Abstract
PDF
- Our understanding of the interactions between microbial communities and their niche in the host gut has improved owing to recent advances in environmental microbial genomics. Integration of metagenomic and metataxonomic sequencing data with other omics data to study the gut microbiome has become increasingly common, but downstream analysis after data integration and interpretation of complex omics data remain challenging. Here, we review studies that have explored the gut microbiome signature using omics approaches, including metagenomics, metataxonomics, metatranscriptomics, and metabolomics. We further discuss recent analytics programs to analyze and integrate multi-omics datasets and further utilization of omics data with other advanced techniques, such as adaptive immune receptor repertoire sequencing, microbial culturomics, and machine learning, to evaluate important microbiome characteristics in the gut.
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Citations
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Frontiers in Microbiology.2022;[Epub] CrossRef - Regulator of ribonuclease activity modulates the pathogenicity of Vibrio vulnificus
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Journal of Microbiology.2021; 59(12): 1133. CrossRef - Omics-based microbiome analysis in microbial ecology: from sequences to information
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Journal Articles
- 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
- 287 View
- 0 Download
- 25 Web of Science
- 23 Crossref
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Abstract
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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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Reproduction, Fertility and Development.2025;[Epub] CrossRef - Effects of dietary l-carnosine supplementation on the growth, intestinal microbiota, and serum metabolome of fattening lambs
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Jack Jefferson, Claire Reigate, Alessandra Giacomini, M. Jordana Rivero, Matthew Hitchings, Tamsyn Uren Webster, Konstans Wells, Emmanuel Serrano
PLOS One.2025; 20(11): e0337086. CrossRef - Combined transcriptome and metabolome analysis reveals breed-specific regulatory mechanisms in Dorper and Tan sheep
Yuhao Ma, Ganxian Cai, Jianfei Chen, Xue Yang, Guoying Hua, Deping Han, Xinhai Li, Dengzhen Feng, Xuemei Deng
BMC Genomics.2024;[Epub] CrossRef - Effects of feeding patterns on production performance, lipo-nutritional quality and gut microbiota of Sunit sheep
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Microorganisms.2023; 11(2): 358. CrossRef - Repeated use of 3,4-methylenedioxymethamphetamine is associated with the resilience in mice after chronic social defeat stress: A role of gut–microbiota–brain axis
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Frontiers in Microbiology.2022;[Epub] CrossRef - Intestinal Microbial Diversity of Free-Range and Captive Yak in Qinghai Province
Ying Wen, Shaofei Li, Zishuo Wang, Hao Feng, Xiaoting Yao, Mingjie Liu, Jianjun Chang, Xiaoyu Ding, Huiying Zhao, Wentao Ma
Microorganisms.2022; 10(4): 754. CrossRef - Bacterial communities in the gastrointestinal tract segments of helminth-resistant and helminth-susceptible sheep
Erwin A. Paz, Eng Guan Chua, Shamshad Ul Hassan, Johan C. Greeff, Dieter G. Palmer, Shimin Liu, Binit Lamichhane, Néstor Sepúlveda, Junhua Liu, Chin Yen Tay, Graeme B. Martin
Animal Microbiome.2022;[Epub] CrossRef - Comparison and analysis on sheep meat quality and flavor under pasture-based fattening contrast to intensive pasture-based feeding system
Zhichao Zhang, Xiaoqi Wang, Yan Jin, Kai Zhao, Ziyuan Duan
Animal Bioscience.2022; 35(7): 1069. CrossRef - Using Untargeted LC-MS Metabolomics to Identify the Association of Biomarkers in Cattle Feces with Marbling Standard Longissimus Lumborum
Dong Chen, Minchao Su, He Zhu, Gang Zhong, Xiaoyan Wang, Weimin Ma, Metha Wanapat, Zhiliang Tan
Animals.2022; 12(17): 2243. CrossRef - Comparative Analysis of the Composition of Fatty Acids and Metabolites between Black Tibetan and Chaka Sheep on the Qinghai—Tibet Plateau
Tongqing Guo, Xungang Wang, Qian Zhang, Lin Wei, Hongjin Liu, Na Zhao, Linyong Hu, Shixiao Xu
Animals.2022; 12(20): 2745. CrossRef - Metabolite Profile of Sheep Serum With High or Low Average Daily Gain
Tao Feng, Hongxiang Ding, Jing Wang, Wei Xu, Yan Liu, Ákos Kenéz
Frontiers in Veterinary Science.2021;[Epub] CrossRef - The gut bacterial diversity of sheep associated with different breeds in Qinghai province
Jianjun Chang, Xiaoting Yao, Chenxiang Zuo, Yuxu Qi, Dekun Chen, Wentao Ma
BMC Veterinary Research.2020;[Epub] CrossRef
- The impact of GnRH immunocastration on colonic microbiota and metabolites in male sheep
- Pukyongia salina gen. nov., sp. nov., a novel genus in the family Flavobacteriaceae
- Young-Sam Kim , Seong-Jin Kim , Yeon Hee Jang , Kyoung-Ho Kim
- J. Microbiol. 2020;58(6):456-462. Published online April 22, 2020
- DOI: https://doi.org/10.1007/s12275-020-9310-5
- 303 View
- 0 Download
- 6 Web of Science
- 5 Crossref
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Abstract
PDF
- A Gram-negative aerobic bacterium, designated RR4-38T, was isolated from a biofilter in a seawater recirculating aquaculture system (RAS) in Busan, South Korea. The bacteria were irregular, short, rod-shaped, non-motile, oxidase-positive, and catalase-negative. Growth of the strain RR4-38T was observed at 15–35°C (optimum, 25–30°C), pH 5.5–9.5 (optimum, pH 8.0), and in the presence of 0–5% (w/v) NaCl (optimum, 3%). Phylogenetic analysis based on the 16S rRNA gene sequences showed that the strain RR4-38T formed a distinct lineage with close genera Ulvibacter (≤ 95.01% 16S rRNA gene sequence similarity), Aureitalea (94.74%), Aureisphaera (≤ 93.27%), and Jejudonia (93.07%) that all belong to the family Flavobacteriaceae. Whole-genome sequence comparison revealed that the ANI (average nucleotide identity) and digital DDH (DNA-DNA hybridization) values between strain RR4-38T and the two closest strains, Ulvibacter antarcticus DSM 23424T and Aureitalea marina S1-66T, were 68.96– 69.88% and 17.4–19%, respectively. The genome analysis revealed that the strain might be involved in biodegradation of organic debris produced by farmed fish in aquaculture systems. The predominant respiratory quinone was menaquinone MK-6 and the major cellular fatty acids were iso- C15:0 (26.5%), iso-C17:0 3-OH (16.4%), iso-C15:1 G (15%), and iso-C16:0 3-OH (9.6%). The major cellular polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, unidentified aminolipids, and glycolipids. Based on phenotypic, chemotaxonomic, and phylogenetic features, strain RR4-38T represents a novel genus and species in the family Flavobacteriaceae, for which the name Pukyongia salina gen. nov., sp. nov. is proposed. The type strain is RR4-38T (= KCTC 52651T = DSM 108068T).
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Citations
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Ying Yu, Zengliang Yu, Jingang Jiang, Lifang Wu, Huiyun Feng
Science of The Total Environment.2023; 897: 165410. CrossRef - Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, George Garrity
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef - Constantimarinum furrinae gen. nov., sp. nov., a marine bacterium isolated from saline volcanic rock aquifer (lava seawater) at Jeju Island, Republic of Korea
Sung-Hyun Yang, Hyun-Myung Oh, Mi-Jeong Park, Dongil Jang, Kae Kyoung Kwon
Journal of Microbiology.2022; 60(1): 11. CrossRef -
Gordonia jinghuaiqii sp. nov. and Gordonia zhaorongruii sp. nov., isolated from Tibetan Plateau wildlife
Gui Zhang, Yuyuan Huang, Jing Yang, Xin-He Lai, Dong Jin, Shan Lu, Yanpeng Cheng, Caixin Yang, Ji Pu, Junrong Liang, Ying Huang, Jianguo Xu
International Journal of Systematic and Evolutionary Microbiology .2021;[Epub] CrossRef - Pikeienuella piscinae gen. nov., sp. nov., a novel genus in the family Rhodobacteraceae
Jeeeun Park, Young-Sam Kim, Seong-Jin Kim, Sang-Eon Kim, Hyun-Kyoung Jung, Min-Ju Yu, Young Jae Jeon, Kyoung-Ho Kim
Journal of Microbiology.2021; 59(6): 546. CrossRef
- Assessing the impacts of fine sediment removal on endogenous pollution release and microbial community structure in the shallow lakes
- Zur-regulated lipoprotein A contributes to the fitness of Acinetobacter baumannii
- Eun Kyung Lee , Chul Hee Choi , Man Hwan Oh
- J. Microbiol. 2020;58(1):67-77. Published online January 2, 2020
- DOI: https://doi.org/10.1007/s12275-020-9531-7
- 328 View
- 2 Download
- 13 Web of Science
- 14 Crossref
-
Abstract
PDF
- Acinetobacter baumannii is a notorious nosocomial pathogen that commonly infects severely ill patients. Zinc (Zn) is essential to survive and adapt to different environment and host niches in A. baumannii. Of the Zinc uptake regulator (Zur)-regulated genes in A. baumannii, the A1S_3412 gene encoding a Zur-regulated lipoprotein A (ZrlA) is critical for cell envelope integrity and overcoming antibiotic exposure. This study investigated whether ZrlA contributes to the fitness of A. baumannii in vitro and in vivo using the wildtype A. baumannii ATCC 17978, ΔzrlA mutant, and zrlAcomplemented strains. The ΔzrlA mutant showed reduced biofilm formation, surface motility, and adherence to and invasion of epithelial cells compared to the wild-type strain. In a mouse pneumonia model, the ΔzrlA mutant showed significantly lower bacterial numbers in the blood than the wildtype strain. These virulence traits were restored in the zrlAcomplemented strain. Under static conditions, the expression of csuCDE, which are involved in the chaperone-usher pili assembly system, was significantly lower in the ΔzrlA mutant than in the wild-type strain. Moreover, the expression of the bfmR/S genes, which regulate the CsuA/BABCDE system, was significantly lower in the ΔzrlA mutant under static conditions than in the wild-type strain. Our results indicate that the zrlA gene plays a role in the fitness of A. baumannii by regulating the BfmR/S two-component system and subsequently the CsuA/BABCDE chaperone-usher pili assembly system, suggesting it as a potential target for anti-virulence strategies against A. baumannii.
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Citations
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Man Hwan Oh, Md Minarul Islam, Nayeong Kim, Chul Hee Choi, Minsang Shin, Woo Shik Shin, Je Chul Lee
Journal of Biomedical Science.2025;[Epub] CrossRef - Biofilm-dispersal patterns in ESKAPE pathogens
Abhijeet Sahu, Sejal Jain, Mrunalini Junghare, Ankita Mishra, Rohit Ruhal
Archives of Microbiology.2025;[Epub] CrossRef - Gene dependence during mammalian Acinetobacter baumannii pneumonia and septicaemia infections
Faye C. Morris, Francesca Short, Xenia Kostoulias, Cara Nethercott, Ying Fu, Yan Jiang, Thomas Smallman, Yusong Yu, Ian T. Paulsen, John D. Boyce, Anton Y Peleg
Microbial Genomics .2025;[Epub] CrossRef - Molecular Detection of Pap II, OmpA, and LuxR Genes Responsible for Biofilm Formation in Acinetobacter baumannii Isolated from Hospitalized Patients
Estabraq Ali Maklef, Amal A. Kareem, Susan F. K. Al-Sudani
Medical Journal of Babylon.2024; 21(Suppl 2): S258. CrossRef -
Pathogenicity and virulence of
Acinetobacter baumannii
: Factors contributing to the fitness in healthcare settings and the infected host
Massimiliano Lucidi, Daniela Visaggio, Antonella Migliaccio, Giulia Capecchi, Paolo Visca, Francesco Imperi, Raffaele Zarrilli
Virulence.2024;[Epub] CrossRef - Characterization of the Zinc Uptake Repressor (Zur) from Acinetobacter baumannii
Minyong Kim, My Tra Le, Lixin Fan, Courtney Campbell, Sambuddha Sen, Daiana A. Capdevila, Timothy L. Stemmler, David P. Giedroc
Biochemistry.2024; 63(5): 660. CrossRef - Acinetobacter Metabolism in Infection and Antimicrobial Resistance
Xiaomei Ren, Lauren D. Palmer, Karen M. Ottemann
Infection and Immunity.2023;[Epub] CrossRef - A response regulator controls Acinetobacter baumannii virulence by acting as an indole receptor
Binbin Cui, Quan Guo, Xia Li, Shihao Song, Mingfang Wang, Gerun Wang, Aixin Yan, Jianuan Zhou, Yinyue Deng, Marenda Wilson-Pham
PNAS Nexus.2023;[Epub] CrossRef - The role of quorum sensing, biofilm formation, and iron acquisition as key virulence mechanisms in Acinetobacter baumannii and the corresponding anti-virulence strategies
Soffi Kei Kei Law, Hock Siew Tan
Microbiological Research.2022; 260: 127032. CrossRef - Carboxy-Terminal Processing Protease Controls Production of Outer Membrane Vesicles and Biofilm in Acinetobacter baumannii
Rakesh Roy, Ren-In You, Chan-Hua Chang, Chiou-Ying Yang, Nien-Tsung Lin
Microorganisms.2021; 9(6): 1336. CrossRef - ppGpp signaling plays a critical role in virulence of Acinetobacter baumannii
Kyeongmin Kim, Maidul Islam, Hye-won Jung, Daejin Lim, Kwangsoo Kim, Sung-Gwon Lee, Chungoo Park, Je Chul Lee, Minsang Shin
Virulence.2021; 12(1): 2122. CrossRef - COG0523 proteins: a functionally diverse family of transition metal-regulated G3E P-loop GTP hydrolases from bacteria to man
Katherine A Edmonds, Matthew R Jordan, David P Giedroc
Metallomics.2021;[Epub] CrossRef - The role of Zur-regulated lipoprotein A in bacterial morphology, antimicrobial susceptibility, and production of outer membrane vesicles in Acinetobacter baumannii
Nayeong Kim, Hyo Jeong Kim, Man Hwan Oh, Se Yeon Kim, Mi Hyun Kim, Joo Hee Son, Seung Il Kim, Minsang Shin, Yoo Chul Lee, Je Chul Lee
BMC Microbiology.2021;[Epub] CrossRef - Insights Into Mechanisms of Biofilm Formation in Acinetobacter baumannii and Implications for Uropathogenesis
Jennifer M. Colquhoun, Philip N. Rather
Frontiers in Cellular and Infection Microbiology.2020;[Epub] CrossRef
- AbOmpA in Acinetobacter baumannii: exploring virulence mechanisms of outer membrane-integrated and outer membrane vesicle-associated AbOmpA and developing anti-infective agents targeting AbOmpA
- Screening and identification of Aspergillus activity against Xanthomonas oryzae pv. oryzae and analysis of antimicrobial components
- Bei Jiang , Zhiying Wang , Chuxuan Xu , Weijia Liu , Donghua Jiang
- J. Microbiol. 2019;57(7):597-605. Published online June 27, 2019
- DOI: https://doi.org/10.1007/s12275-019-8330-5
- 324 View
- 0 Download
- 12 Web of Science
- 12 Crossref
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Abstract
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-
To screen for Aspergillus activity against Xanthomonas oryzae
pv. oryzae and analyse the antimicrobial components
involved, 60 Aspergillus spp. were isolated and purified from
fruits, soil and other habitats. As-75, an Aspergillus strain that
can antagonize Xanthomonas oryzae pv. oryzae, was identified
based on the zone of inhibition formed during co-culture.
According to morphological, ITS rDNA gene sequencing
and phylogenetic tree results, the strain showed close
homology to Aspergillus sclerotiorum. The biochemical characterization
tests showed that the fermentation broth of strain
As-75 exhibited a high capacity for environmental adaptation.
The results of the antimicrobial spectrum experiments demonstrated
that As-75 exhibited fairly strong antagonistic activity
against five plant pathogenic fungi and six plant pathogenic
bacteria in vitro. The fermentation broth of strain As-75
displayed maximum stability under fluorescent illumination
at temperatures below 60°C at pH 6.5. A substance with antagonistic
activity was obtained from strain As-75 via fractional
extraction, silica gel column chromatography and thinlayer
chromatography. Through mass spectrometry, nuclear
magnetic resonance and electrospray ionization mass spectrometry
(ESI-MS) analyses, the target compound was identified
as (2Z)-2-butenedioic acid-2-(1-methylethenyl)-4-methyl
ester; its molecular weight of 170.06 daltons and formula
of C8H10O4 identify it as a novel compound. Trials of
the preventative and curative effects demonstrated that compound
S1 exhibited a better control efficiency than the control
against rice bacterial blight. Additionally, the M1 processing
method
was better, and the efficiency of compound S1 in preventing rice bacterial blight in six rice varieties, TN1, IR24, ZF802, Zhonghua 11, Wuyunjing 21, and Nipponbare, was 78.3%, 77.5%, 74.2%, 75.3%, 70.9%, and 72.1%, respectively. -
Citations
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Applied and Environmental Microbiology.2024;[Epub] CrossRef - Screening of indigenous entomopathogenic fungal isolates on plant parasitic nematodes in China
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Acta Agronomica Sinica.2022; 48(6): 1546. CrossRef - Effect of microwave radiation combined with cellulase treatment of soybean residue on the culture of Aspergillus oryzae
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- Cyanobacterial biodiversity of semiarid public drinking water supply reservoirs assessed via next-generation DNA sequencing technology
- Adriana Sturion Lorenzi , Mathias Ahii Chia , Fabyano Alvares Cardoso Lopes , Genivaldo Gueiros Z. Silva , Robert A. Edwards , Maria do Carmo Bittencourt-Oliveira
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- DOI: https://doi.org/10.1007/s12275-019-8349-7
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- 15 Web of Science
- 13 Crossref
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Abstract
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- Next-generation DNA sequencing technology was applied to generate molecular data from semiarid reservoirs during well-defined seasons. Target sequences of 16S-23S rRNA ITS and cpcBA-IGS were used to reveal the taxonomic groups of cyanobacteria present in the samples, and genes coding for cyanotoxins such as microcystins (mcyE), saxitoxins (sxtA), and cylindrospermopsins (cyrJ) were investigated. The presence of saxitoxins in the environmental samples was evaluated using ELISA kit. Taxonomic analyses of high-throughput DNA sequencing data showed the dominance of the genus Microcystis in Mundaú reservoir. Furthermore, it was the most abundant genus in the dry season in Ingazeira reservoir. In the rainy season, 16S-23S rRNA ITS analysis revealed that Cylindrospermopsis raciborskii comprised 46.8% of the cyanobacterial community in Ingazeira reservoir, while the cpcBAIGS region revealed that C. raciborskii (31.8%) was the most abundant taxon followed by Sphaerospermopsis aphanizomenoides (17.3%) and Planktothrix zahidii (16.6%). Despite the presence of other potential toxin-producing genera, the detected sxtA gene belonged to C. raciborskii, while the mcyE gene belonged to Microcystis in both reservoirs. The detected mcyE gene had good correlation with MC content, while the amplification of the sxtA gene was related to the presence of STX. The cyrJ gene was not detected in these samples. Using DNA analyses, our results showed that the cyanobacterial composition of Mundaú reservoir was similar in successive dry seasons, and it varied between seasons in Ingazeira reservoir. In addition, our data suggest that some biases of analysis influenced the cyanobacterial communities seen in the NGS output of Ingazeira reservoir.
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- DOI: https://doi.org/10.1007/s12275-019-8517-9
- 444 View
- 0 Download
- 48 Web of Science
- 47 Crossref
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Abstract
PDF
- Aspergillus flavus is a saprophytic fungus that contaminates crops with carcinogenic aflatoxin. In the present work, the antifungal effects of volatile organic compounds (VOCs) from Streptomyces alboflavus TD-1 against A. flavus were investigated. VOCs from 8-day-old wheat bran culture of S. alboflavus TD-1 displayed strong inhibitory effects against mycelial growth, sporulation, and conidial germination of A. flavus. Severely misshapen conidia and hyphae of A. flavus were observed by scanning electron microscopy after exposure to VOCs for 6 and 12 h, respectively. Rhodamine 123 staining of mitochondria indicated that mitochondria may be a legitimate antifungal target of the VOCs from S. alboflavus TD-1. Furthermore, the VOCs effectively inhibited aflatoxin B1 production by downregulating genes involved in aflatoxin biosynthesis. Dimethyl trisulfide and benzenamine may play important roles in the suppression of A. flavus growth and production of aflatoxin. The results indicate that VOCs from S. alboflavus TD-1 have tremendous potential to be developed as a useful bio-pesticide for controlling A. flavus.
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- Deciphering the antifungal mechanisms of methyl 2-methyl butyrate (M2MB), a broad-spectrum antifungal VOC from Streptomyces corchorusii (Sc75)
- Microbial transformation of Se oxyanions in cultures of Delftia lacustris grown under aerobic conditions
- Shrutika L. Wadgaonkar , Yarlagadda V. Nancharaiah , Claus Jacob , Giovanni Esposito , Piet N. L. Lens
- J. Microbiol. 2019;57(5):362-371. Published online March 21, 2019
- DOI: https://doi.org/10.1007/s12275-019-8427-x
- 306 View
- 0 Download
- 12 Web of Science
- 13 Crossref
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Abstract
PDF
- Delftia lacustris is reported for the first time as a selenate and selenite reducing bacterium, capable of tolerating and growing in the presence of ≥ 100 mM selenate and 25 mM selenite. The selenate reduction profiles of D. lacustris were investigated by varying selenate concentration, inoculum size, concentration and source of organic electron donor in minimal salt medium. Interestingly, the bacterium was able to reduce both selenate and selenite under aerobic conditions. Although considerable removal of selenate was observed at all concentrations investigated, D. lacustris was able to completely reduce 0.1 mM selenate within 96 h using lactate as the carbon source. Around 62.2% unaccounted selenium (unidentified organo-selenium compounds), 10.9% elemental selenium and 26.9% selenite were determined in the medium after complete reduction of selenate. Studies of the enzymatic activity of the cell fractions show that the selenite/selenate reducing enzymes were intracellular and independent of NADPH availability. D. lacustris shows an unique metabolism of selenium oxyanions to form elemental selenium and possibly also selenium ester compounds, thus a potential candidate for the remediation of selenium-contaminated wastewaters in aerobic environments. This novel finding will advance the field of bioremediation of selenium-contaminated sites and selenium bio-recovery and the production of potentially beneficial organic and inorganic reactive selenium species.
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- Efficient recovery of heavy metals and selenium from wastewater using granular sludge: The crucial role of glutathione (GSH)
- 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
- 352 View
- 0 Download
- 28 Crossref
-
Abstract
PDF
- 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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Review
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- Bora Shin , Woojun Park
- J. Microbiol. 2017;55(11):837-849. Published online October 27, 2017
- DOI: https://doi.org/10.1007/s12275-017-7288-4
- 330 View
- 0 Download
- 41 Crossref
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Abstract
PDF
- The increasing antibiotic resistance of Acinetobacter species in both natural and hospital environments has become a serious problem worldwide in recent decades. Because of both intrinsic and acquired antimicrobial resistance (AMR) against last-resort antibiotics such as carbapenems, novel therapeutics are urgently required to treat Acinetobacter-associated infectious diseases. Among the many pathogenic Acinetobacter species, A. baumannii has been reported to be resistant to all classes of antibiotics and contains many AMR genes, such as blaADC (Acinetobacter-derived cephalosporinase). The AMR of pathogenic Acinetobacter species is the result of several different mechanisms, including active efflux pumps, mutations in antibiotic targets, antibiotic modification, and low antibiotic membrane permeability. To overcome the limitations of existing drugs, combination theraphy that can increase the activity of antibiotics should be considered in the treatment of Acinetobacter infections. Understanding the molecular mechanisms behind Acinetobacter AMR resistance will provide vital information for drug development and therapeutic strategies using combination treatment. Here, we summarize the classic mechanisms of Acinetobacter AMR, along with newly-discovered genetic AMR factors and currently available antimicrobial adjuvants that can enhance drug efficacy in the treatment of A. baumannii infections.
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Journal Articles
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- J. Microbiol. 2017;55(5):349-356. Published online March 1, 2017
- DOI: https://doi.org/10.1007/s12275-017-6242-9
- 372 View
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Abstract
PDF
- Tobacco-rice rotation is a common farming system in south China, and many tillage practices such as straw mulching, do-lomite dust, and quicklime application have been adopted to improve crop production. These agricultural management practices alter soil physical and chemical properties and affect microbial life environment and community composition. In this research, six tillage practices including no tobacco and rice straw mulching (CK), tobacco and rice straw mulching (TrSr), rice straw returning fire (TrSc), tobacco and rice straw mulching with dolomite dust (TSD), rice straw returning fire and quicklime (TSQ), and rice straw returning fire, quicklime and reduced fertilizer (TSQf) were conducted to detect changes in soil bacterial diversity and composition using Illumina se-quencing. The results showed that the total number of opera-tional taxonomic units (OTUs) from the six treatments was 2030, and the number of mutual OTUs among all samples was 550. The TrSc treatment had the highest diversity and richness, while TSQf had the lowest. Soil physio-chemical properties and microbial diversity can influence each other. Proteobacteria and Actinobacteria had the greatest propor-tion in all treatments. The abundance of Nitrospirae was the highest in the TrSc treatment. The TSQf treatment had the highest abundance of Firmicutes. The abundance of Nitrospira in the TrSc treatment was 2.29-fold over CK. Streptomyces affiliated with Firmicutes improved by 37.33% in TSQf com-pared to TSQ. TSQf treatment was considered to be the most important factor in determining the relative abundance at the genus level.
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Journal of Microbiology.2019; 57(5): 413. CrossRef - Effects of tillage managements and maize straw returning on soil microbiome using 16S rDNA sequencing
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Dali Yu, Zhiguo Wen, Xiumei Li, Xiaojun Song, Huijun Wu, Peilong Yang, Wen-Xiong Lin
PLOS ONE.2018; 13(6): e0198087. CrossRef - Changes in the Microbial Community Structure and Soil Chemical Properties of Vertisols Under Different Cropping Systems in Northern China
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Frontiers in Environmental Science.2018;[Epub] CrossRef
- Investigation into the impact of chloride ion uptake inhibitors on tobacco plants
- 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
- 294 View
- 0 Download
- 11 Crossref
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Abstract
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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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Xiaopeng Tang, Kangning Xiong, Yan Zeng, Rejun Fang
International Journal of Molecular Sciences.2024; 25(18): 10040. CrossRef - 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
Microorganisms.2024; 12(2): 328. CrossRef - 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
Journal of Microbiological Methods.2022; 196: 106473. CrossRef - Proteomic profiling of Deinococcus radiodurans with response to thioredoxin reductase inhibitor and ionizing radiation treatment
Sudharsan M, Rajendra Prasad N, Anindita Chakraborty, Saravanan Rajendrasozhan
Journal of Proteomics.2022; 267: 104697. CrossRef - Influence of Redox Imbalances on the Transposition of Insertion Sequences in Deinococcus geothermalis
Qianying Ye, Chanjae Lee, Eunjung Shin, Sung-Jae Lee
Antioxidants.2021; 10(10): 1623. CrossRef - Active Transposition of Insertion Sequences by Oxidative Stress in Deinococcus geothermalis
Chanjae Lee, Kyungsil Choo, Sung-Jae Lee
Frontiers in Microbiology.2020;[Epub] CrossRef - Oxidative stress-mediated genotoxic effect of zinc oxide nanoparticles on Deinococcus radiodurans
Ragini Singh, Shuang Cheng, Sanjay Singh
3 Biotech.2020;[Epub] CrossRef - Redox potential change by the cystine importer affected on enzymatic antioxidant protection in Deinococcus geothermalis
Kyungsil Choo, Minwook Kim, Sama Abdi Nansa, Min K. Bae, Chanjae Lee, Sung-Jae Lee
Antonie van Leeuwenhoek.2020; 113(6): 779. CrossRef - Transposition of Insertion Sequences was Triggered by Oxidative Stress in Radiation-Resistant Bacterium Deinococcus geothermalis
Chanjae Lee, Nakjun Choi, Min K. Bae, Kyungsil Choo, Sung-Jae Lee
Microorganisms.2019; 7(10): 446. CrossRef - Conservation and diversity of radiation and oxidative stress resistance mechanisms inDeinococcusspecies
Sangyong Lim, Jong-Hyun Jung, Laurence Blanchard, Arjan de Groot
FEMS Microbiology Reviews.2019; 43(1): 19. CrossRef - Metabolic Alternations of Amino Acids, γ-Aminobutyric Acid, and Salicylic Acid in Solanum lycopersicum (L.) Following Preplanting Seedling Spray with Salicylic Acid
Hari C. Meher, Ghanendra Singh, Gautam Chawla
Journal of Agricultural and Food Chemistry.2018; 66(46): 12236. CrossRef
- The Mechanism of Zinc Oxide in Alleviating Diarrhea in Piglets after Weaning: A Review from the Perspective of Intestinal Barrier Function
- Long-term organic-inorganic fertilization ensures great soil productivity and bacterial diversity after natural-to-agricultural ecosystem conversion
- Weibing Xun , Zhihui Xu , Wei Li , Yi Ren , Ting Huang , Wei Ran , Boren Wang , Qirong Shen , Ruifu Zhang
- J. Microbiol. 2016;54(9):611-617. Published online August 31, 2016
- DOI: https://doi.org/10.1007/s12275-016-6143-3
- 338 View
- 0 Download
- 20 Crossref
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Abstract
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- Natural ecosystems comprise the planet’s wild plant and animal resources, but large tracts of land have been converted to agroecosystems to support the demand for agricultural products. This conversion limits the number of plant species and decreases the soil biological diversity. Here we used highthroughput 16S rRNA gene sequencing to evaluate the responses of soil bacterial communities in long-term converted and fertilized red soils (a type of Ferralic Cambisol). We observed that soil bacterial diversity was strongly affected by different types of fertilization management. Oligotrophic bacterial taxa demonstrated large relative abundances in chemically fertilized soil, whereas copiotrophic bacterial taxa were found in large relative abundances in organically fertilized and fallow management soils. Only organic-inorganic fertilization exhibited the same local taxonomic and phylogenetic diversity as that of a natural ecosystem. However, the independent use of organic or inorganic fertilizer reduced local taxonomic and phylogenetic diversity and caused biotic homogenization. This study demonstrated that the homogenization of bacterial communities caused by natural-to-agricultural ecosystem conversion can be mitigated by employing rational organic-inorganic fertilization managemen
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International Journal of Molecular Sciences.2024; 25(3): 1385. CrossRef - Exploring the effects of different fertilizer application durations on the functional microbial profiles of soil carbon and nitrogen cycling by using metagenomics in Paulownia plantations in a subtropical zone
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Yan Xu, Houyu Li, Lu Tan, Qian Li, Wei Liu, Chunxue Zhang, Yi Gao, Xiaocheng Wei, Qiong Gong, Xiangqun Zheng
Journal of Environmental Management.2022; 317: 115382. CrossRef - Impact of long-term application of manure and inorganic fertilizers on common soil bacteria in different soil types
Jinshan Lian, Huiying Wang, Ye Deng, Minggang Xu, Shutang Liu, Baoku Zhou, Kamlesh Jangid, Yinghua Duan
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Li Xiao, Yimei Huang, Junfeng Zhao, Junying Zhou, Fakher Abbas
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Hang Wang, Xiang He, Zhongfu Zhang, Minggang Li, Qing Zhang, Hongye Zhu, Shengtao Xu, Peiwen Yang
European Journal of Soil Biology.2021; 106: 103352. CrossRef - Fertilization strategies affect soil properties and abundance of N-cycling functional genes in an acidic agricultural soil
Wen Xing Li, Chao Wang, Man Man Zheng, Ze Jiang Cai, Bo Ren Wang, Ren Fang Shen
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Xiangzhou Zheng, Cheng Lin, Baoling Guo, Juhua Yu, Hong Ding, Shaoyun Peng, Tord Ranheim Sveen, Yushu Zhang
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Yongxing Cui, Linchuan Fang, Xiaobin Guo, Xia Wang, Yunqiang Wang, Yanjiang Zhang, Xingchang Zhang
Journal of Soils and Sediments.2019; 19(3): 1427. CrossRef - Dynamics of Bacterial Communities in a 30-Year Fertilized Paddy Field under Different Organic–Inorganic Fertilization Strategies
Yadong Yang, Peixin Wang, Zhaohai Zeng
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Yongxing Cui, Linchuan Fang, Xiaobin Guo, Xia Wang, Yunqiang Wang, Pengfei Li, Yanjiang Zhang, Xingchang Zhang
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Wei Guo, Xuebin Qi, Yatao Xiao, Ping Li, Mathias Andersen, Yan Zhang, Zhijuan Zhao
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Research Support, Non-U.S. Gov'ts
- 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
- 363 View
- 0 Download
- 46 Crossref
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Abstract
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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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Scientific Reports.2017;[Epub] CrossRef
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- Antibacterial metabolites from the Actinomycete Streptomyces sp. P294
- Huining Su , Hongwei Shao , Keqin Zhang , Guohong Li
- J. Microbiol. 2016;54(2):131-135. Published online February 2, 2016
- DOI: https://doi.org/10.1007/s12275-016-5311-9
- 324 View
- 0 Download
- 6 Crossref
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Abstract
PDF
- The Actinomycete strain P294 was isolated from soil and identified as Streptomyces sp. based upon the results of 16S rRNA sequence analysis. Three compounds obtained from the solid fermentation products of this strain have been determined by 1D, 2D NMR and HRMS experiments. These compounds include two new compounds angumycinones C (1) and D (2), and the known compound X-14881 E (3). All compounds were assayed for antibacterial and nematicidal activity. The results showed the three compounds had different degrees of inhibitory activity against several target bacteria but no significant toxicity against the nematode Caenorhabditis elegans.
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Hai-Shan Liu, Hui-Ru Chen, Shan-Shan Huang, Zi-Hao Li, Chun-Ying Wang, Hua Zhang
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- Niabella ginsenosidivorans sp. nov., isolated from compost
- Kwon-Jung Yi , Wan-Taek Im , Dong-Woon Kim , Qing Mei Liu , Soo-Ki Kim
- J. Microbiol. 2015;53(11):762-766. Published online October 28, 2015
- DOI: https://doi.org/10.1007/s12275-015-5463-z
- 310 View
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Abstract
- A Gram-reaction negative, strictly aerobic, non-motile, orange colored, and rod-shaped bacterium (designated BS26T) isolated from compost, was characterized by a polyphasic approach to clarify its taxonomic position. Strain BS26T was observed to grow optimally at 25–30°C and at pH 7.0 on R2A and nutrient media. Strain BS26T showed β-glucosidase activity that was responsible for its ability to transform ginsenoside Rb1 (one of the active components of ginseng) to ginsenoside compound-K (C-K). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain BS26T belongs to the genus Niabella of family Chitinophagaceae and was most closely related to Niabella soli DSM 19437T (94.5% similarity), N. yanshanensis CCBAU 05354T (94.3%), and N. aurantiaca DSM 17617T (93.8%). The G+C content of genomic DNA was 47.3 mol%. Chemotaxonomic data [predominant isoprenoid quinone-MK-7, major fatty acids–iso-C15:0, iso-C15:1 G, iso-C17:0 3-OH, and summed feature 3 (comprising C16:1 ω7c and/or C16:1 ω6c)] supported the affiliation of strain BS26T to the genus Niabella. However, strain BS26T could be differentiated genotypically and phenotypically from the recognized species of the genus Niabella. The novel isolate therefore represents a novel species, for which the name Niabella ginsenosidivorans sp. nov. is proposed, with the type strain BS26T (=KACC 16620T =JCM 18199T).
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Citations
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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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- Jun Seung Lee , Hye Ryun Ryu , Ji Young Cha , Hyung Suk Baik
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- 6 Crossref
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Abstract
- Plants produce a wide array of antimicrobial compounds, such as phenolic compounds, to combat microbial pathogens. The hrp PAI is one of the major virulence factors in the plant pathogen, Pseudomonas syringae. A major role of hrp PAI is to disable the plant defense system during bacterial invasion. We examined the influence of phenolic compounds on hrp PAI gene expression at low and high concentrations. There was approximately 2.5 times more hrpA and hrpZ mRNA in PtoDC3000 that was grown in minimal media (MM) supplemented with 10 μM of ortho-coumaric acid than in PtoDC3000 grown in MM alone. On the other hand, a significantly lower amount of hrpA mRNA was observed in bacteria grown in MM supplemented with a high concentration of phenolic compounds. To determine the regulation pathway for hrp PAI gene expression, we performed qRTPCR using gacS, gacA, and hrpS deletion mutants.
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Journal of Plant Nutrition and Soil Science.2024; 187(3): 301. CrossRef - Regulation of the Pseudomonas syringae Type III Secretion System by Host Environment Signals
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Plant Disease.2020; 104(8): 2225. CrossRef - Validation of RT-qPCR Approaches to MonitorPseudomonas syringaeGene Expression During Infection and Exposure to Pattern-Triggered Immunity
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- Soil fungal communities of montane natural secondary forest types in China
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Abstract
- Distinctive plant communities may provide specific physical and chemical properties with soils by specific litters and root exudates to exert effects on soil microorganisms. Past logging activities in the Qinling Mountains induced diverse natural secondary forest types (NSFTs). How these recovered NSFTs regulate patterns of soil microbial communities remain limited. In the study, we used terminal-restriction fragment length polymorphism (T-RFLP) to precisely determine forest type-specific soil fungal diversity and composition in five NSFTs. Our results indicated that NSFTs had significant impacts on the soil fungal communities. The most diverse fungal species were found in the Armand pine (Pinus armandi) and Chinese pine (Pinus tabulaeformis) forest soils, followed by sharptooth oak (Quercus aliena var. acuteserrata) and Chinese pine-sharptooth oak forest soils, the wilson spruce (Picea wilsonii) forests had the lowest soil fungal diversity. The analyses of community composition suggested that the fungal communities of Armand pine forest soils were similar to those of Chinese pine forest soils, while other communities prominently differed from each other. Stepwise multiple regression analysis revealed that soil silt, clay, pH, and ammonium nitrogen had intimate linkages with soil fungal diversity. Furthermore, the patterns of soil fungal communites were strongly governed by the specific soil environments of the tested NSFTs, as described by canonical correspondence analysis (CCA). Finally, our study showed that soil fungal communities may be mediated by NSFTs via specific soil edaphic status. Hence, such a comparable study may provide fundamental information for fungal diversity and community structure of natural forests and assist with better prediction and understanding how soil fungal composition and function alter with forest type transformation.
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Citations
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Fei Cheng, Mingman Li, Yihua Ren, Lei Hou, Tan Gao, Peng He, Xiangsheng Deng, Jie Lu
Journal of Fungi.2023; 9(5): 596. CrossRef - Soil characteristics and microbial community structure on along elevation gradient in a Pinus armandii forest of the Qinling Mountains, China
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- Statistical experimental design optimization of rhamsan gum production by Sphingomonas sp. CGMCC 6833
- Xiao-Ying Xu , Shu-Hao Dong , Sha Li , Xiao-Ye Chen , Ding Wu , Hong Xu
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Abstract
PDF
- Rhamsan gum is a type of water-soluble exopolysaccharide produced by species of Sphingomonas bacteria. The optimal fermentation medium for rhamsan gum production by Sphingomonas sp. CGMCC 6833 was explored definition. Single-factor experiments indicate that glucose, soybean meal, K2HPO4 and MnSO4 compose the optimal medium along with and initial pH 7.5. To discover ideal cultural conditions for rhamsan gum production in a shake flask culture, response surface methodology was employed, from which the following optimal ratio was derived: 5.38 g/L soybean meal, 5.71 g/L K2HPO4 and 0.32 g/L MnSO4. Under ideal fermentation rhamsan gum yield reached 19.58 g/L ?1.23 g/L, 42.09% higher than that of the initial medium (13.78 g/L ? 1.38 g/L). Optimizing the fermentation medium results in enhanced rhamsan gum production.
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- Efficient Production Strategy of a Novel Postbiotic Produced by Bacillus subtilis and Its Antioxidant and Anti-Inflammatory Effects
- Benzaldehyde as an insecticidal, antimicrobial, and antioxidant compound produced by Photorhabdus temperata M1021
- Ihsan Ullah , Abdul Latif Khan , Liaqat Ali , Abdur Rahim Khan , Muhammad Waqas , Javid Hussain , In-Jung Lee , Jae-Ho Shin
- J. Microbiol. 2015;53(2):127-133. Published online January 28, 2015
- DOI: https://doi.org/10.1007/s12275-015-4632-4
- 556 View
- 0 Download
- 111 Crossref
-
Abstract
-
The Photorhabdus temperata M1021 secretes toxic compounds
that kill their insect hosts by arresting immune
responses. Present study was aimed to purify the insecticidal
and antimicrobial compound(s) from the culture extract of
P. temperata M1021 through bioassay guided fractionation.
An ethyl acetate (EtOAc) extract of the P. temperata M1021
exhibited 100% mortality in Galleria mellonella larvae within
72 h. In addition, EtOAc extract and bioactive compound 1
purified form the extract through to column chromatography,
showed phenol oxidase inhibition up to 60% and
80% respectively. The analysis of 1H and 13C NMR spectra
revealed the identity of pure compound as "benzaldehyde".
The benzaldehyde showed insecticidal activity against G.
mellonella in a dose-dependent manner and 100% insect
mortality was observed at 108 h after injection of 8 mM
benzaldehyde. In a PO inhibition assay, 4, 6, and 8 mM concentrations
of benzaldehyde were found to inhibit PO activity
about 15%, 42%, and 80% respectively. In addition,
nodule formation was significantly (P < 0.05) inhibited by 4,
6, and 8 mM of benzaldehyde as compare to control. Moreover,
benzaldehyde was found to have great antioxidant activity
and maximum antioxidant activity was 52.9% at 8 mM
benzaldehyde as compare to control. Antimicrobial activity
was assessed by MIC values ranged from 6 mM 10 mM for
bacterial strains and 8 mM to 10 mM for fungal strains. The
results
suggest that benzaldehyde could be applicable for developing novel insecticide for agriculture use. -
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Journal Article
- Application of Response Surface Methodology for Rapid Chrysene Biodegradation by Newly Isolated Marine-derived Fungus Cochliobolus lunatus Strain CHR4D
- Jwalant K. Bhatt , Chirag M. Ghevariya , Dushyant R. Dudhagara , Rahul K. Rajpara , Bharti P. Dave
- J. Microbiol. 2014;52(11):908-917. Published online October 31, 2014
- DOI: https://doi.org/10.1007/s12275-014-4137-6
- 386 View
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- 17 Crossref
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Abstract
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- For the first time, Cochliobolus lunatus strain CHR4D, a marine-derived ascomycete fungus isolated from historically contaminated crude oil polluted shoreline of Alang-Sosiya ship-breaking yard, at Bhavnagar coast, Gujarat has been reported showing the rapid and enhanced biodegradation of chrysene, a four ringed high molecular weight (HMW) polycyclic aromatic hydrocarbon (PAH). Mineral Salt Broth (MSB) components such as ammonium tartrate and glucose along with chrysene, pH and trace metal solution have been successfully optimized by Response Surface Methodology (RSM) using central composite design (CCD). A validated, two-step optimization protocol has yielded a substantial 93.10% chrysene degradation on the 4th day, against unoptimized 56.37% degradation on the 14th day. The results depict 1.65 fold increase in chrysene degradation and 1.40 fold increase in biomass with a considerable decrement in time. Based on the successful laboratory experiments, C. lunatus strain CHR4D can thus be predicted as a potential candidate for mycoremediation of HMW PAHs impacted environments.
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Citations
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Research Support, Non-U.S. Gov'ts
- Two Rhizobacterial Strains, Individually and in Interactions with Rhizobium sp., Enhance Fusarial Wilt Control, Growth, and Yield in Pigeon Pea
- Swarnalee Dutta , Pranjal Morang , Nishanth Kumar S , B.S. Dileep Kumar
- J. Microbiol. 2014;52(9):778-784. Published online September 2, 2014
- DOI: https://doi.org/10.1007/s12275-014-3496-3
- 328 View
- 0 Download
- 7 Crossref
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Abstract
PDF
- A Pseudomonas aeruginosa strain, RRLJ 04, and a Bacillus cereus strain, BS 03, were tested both individually and in combination with a Rhizobium strain, RH 2, for their ability to enhance plant growth and nodulation in pigeon pea (Cajanus cajan L.) under gnotobiotic, greenhouse and field conditions. Both of the rhizobacterial strains exhibited a positive effect on growth in terms of shoot height, root length, fresh and dry weight, nodulation and yield over the non-treated control. Co-inoculation of seeds with these strains and Rhizobium RH 2 also reduced the number of wilted plants, when grown in soil infested with Fusarium udum. Gnotobiotic studies confirmed that the suppression of wilt disease was due to the presence of the respective PGPR strains. Seed bacterization with drug-marked mutants of RRLJ 04 and BS 03 confirmed their ability to colonize and multiply along the roots. The results suggest that co-inoculation of these strains with Rhizobium strain RH 2 can be further exploited for enhanced growth, nodulation and yield in addition to control of fusarial wilt in pigeon pea.
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Citations
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Shiv Charan Kumar, Prachi Singh, Murugan Kumar, Mahendra Vikram Singh Rajawat, Waquar Akhter Ansari, Desiraju Lakshmi Narsimha Rao, Anil Kumar Saxena
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- Bacillus daqingensis sp. nov., a Halophilic, Alkaliphilic Bacterium Isolated from Saline-Sodic Soil in Daqing, China
- Shuang Wang , Lei Sun , Dan Wei , Baoku Zhou , Junzheng Zhang , Xuejia Gu , Lei Zhang , Ying Liu , Yidan Li , Wei Guo , Shuang Jiang , Yaqing Pan , Yufeng Wang
- J. Microbiol. 2014;52(7):548-553. Published online May 30, 2014
- DOI: https://doi.org/10.1007/s12275-014-3376-x
- 430 View
- 0 Download
- 7 Crossref
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Abstract
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- An alkaliphilic, moderately halophilic, bacterium, designated strain X10-1T, was isolated from saline-alkaline soil in Daqing, Heilongjiang Province, China. Strain X10-1T was determined to be a Gram-positive aerobe with rod-shaped cells. The isolate was catalase-positive, oxidase-negative, non-motile, and capable of growth at salinities of 0–16% (w/v) NaCl (optimum, 3%). The pH range for growth was 7.5–11.0 (optimum, pH 10.0). The genomic DNA G+C content was 47.7 mol%. Its major isoprenoid quinone was MK-7 and its cellular fatty acid profile mainly consisted of anteiso-C15:0, anteiso-C17:0, iso-C15:0, C16:0, and iso-C16:0. The peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, and phosphatidylglycerol. Phylogenetic analysis based on 16S rRNA gene sequences showed that X10-1T is a member of the genus Bacillus, being most closely related to B. saliphilus DSM15402T (97.8% similarity) and B. agaradhaerens DSM 8721T (96.2%). DNA-DNA relatedness to the type strains of these species was less than 40%. On the basis of the phylogenetic, physiological, and biochemical data, strain X10-1T represents a novel species of the genus Bacillus, for which the name Bacillus daqingensis sp. nov. is proposed. The type strain is X10-1T (=NBRC 109404T =CGMCC 1.12295T).
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Citations
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Aharon Oren, Markus Göker
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Journal Article
- Fumigant Activity of Volatiles from Streptomyces alboflavus TD-1 against Fusarium moniliforme Sheldon
- Zhifang Wang , Changlu Wang , Fengjuan Li , Zhenjing Li , Mianhua Chen , Yurong Wang , Xi Qiao , Hong Zhang
- J. Microbiol. 2013;51(4):477-483. Published online August 30, 2013
- DOI: https://doi.org/10.1007/s12275-013-2586-y
- 257 View
- 0 Download
- 31 Crossref
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Abstract
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- The fumigant activity of volatiles generated by Streptomyces alboflavus TD-1 against Fusarium moniliforme Sheldon was investigated. The results showed that the mycelial growth, sporulation, and spore germination of F. moniliforme were significantly suppressed, and that membrane permeability was disrupted in the presence of the volatiles. Gas chromatography-mass Spectrometry analysis revealed 31 kinds of volatile organic compound from the volatiles. Among them, two earthy-smelling substances, namely, 2-methylisoborneol (50.97%) and trans-1,10-dimethyl-trans-9-decalinol (3.10%) were found. The most abundant compound, 2-methylisoborneol, exhibited inhibitory activity against F. moniliforme by fumigation. All these results suggested that S. alboflavus TD-1 can be a promising starter for the inhibition of F. moniliforme through fumigant action.
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Citations
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Feng Luo, Hanna Gwak, Ae Ran Park, Van Thi Nguyen, Jin‐Cheol Kim
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Streptomyces
strains inhibit the growth of
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Research Support, Non-U.S. Gov'ts
- Changes in Arbuscular Mycorrhizal Fungus Community Along an Exotic Plant Eupatorium adenophorum Invasion in a Chinese Secondary Forest
- Xin Sun , Cheng Gao , Liang-Dong Guo
- J. Microbiol. 2013;51(3):295-300. Published online June 28, 2013
- DOI: https://doi.org/10.1007/s12275-013-3169-7
- 249 View
- 0 Download
- 10 Crossref
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Abstract
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- Knowledge of the changes in arbuscular mycorrhizal (AM) fungi is fundamental for understanding the success of exotic plant invasions in natural ecosystems. In this study, AM fungal colonization and spore community were examined along an invasive gradient of the exotic plant Eupatorium adenophorum in a secondary forest in southwestern China. With increasing E. adenophorum invasion, the density of arbuscules in the roots of E. adenophorum significantly increased, but the AM root colonization rate and the densities of vesicles and hyphal coils in roots of E. adenophorum were not significantly different. A total of 29 AM fungi belonging to nine genera were identified based on spore morphology. Claroideoglomus etunicatum, Funneliformis geosporus, and Glomus aggregatum were the most common AM fungal species. The E. adenophorum invasion significantly decreased the AM fungal spore density in the soil. Furthermore, with increasing of E. adenophorum invasion the spore densities of C. etunicatum, G. aggregatum, and G. arenarium significantly decreased, whereas F. geosporus significantly increased. Nonmetric multidimensional scaling demonstrated that the AM fungus community composition was significantly different (P=0.003) in the different invasive levels of E. adenophorum, and significantly correlated with plant species richness, soil total P, and soil NO3--N. The results suggest that the alteration in AM fungus community might be caused by E. adenophorum invasion via changing the local plant community and soil properties in a Chinese secondary forest ecosystem.
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Citations
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Yang-Ping Li, Wei-Tao Li, Ju Li, Yu-Long Feng
Plant and Soil.2024; 496(1-2): 539. CrossRef - Screening plant growth-promoting bacteria from the rhizosphere of invasive weed Ageratina adenophora for crop growth
Yun Xia, Hongbo Zhang, Yu Zhang, Yuyu Zhang, Jiani Liu, Robert Seviour, Yunhong Kong
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Tingting Xia, Kaiping Shen, Yun Guo, Danmei Chen, Xu Han, Bangli Wu, Ying Zhao, Hongchun Chen, Yan Zhao, Xihong Yang, Menglin Lei, Jiahao Xiao, Yuejun He
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- Cloning and Functional Characterization of Endo-β-1,4-Glucanase Gene from Metagenomic Library of Vermicompost
- Muhammad Yasir , Haji Khan , Syed Sikander Azam , Amar Telke , Seon Won Kim , Young Ryun Chung
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- DOI: https://doi.org/10.1007/s12275-013-2697-5
- 252 View
- 0 Download
- 12 Crossref
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Abstract
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- In the vermicomposting of paper mill sludge, the activity of earthworms is very dependent on dietetic polysaccharides including cellulose as energy sources. Most of these polymers are degraded by the host microbiota and considered potentially important source for cellulolytic enzymes. In the present study, a metagenomic library was constructed from vermicompost (VC) prepared with paper mill sludge and dairy sludge (fresh sludge, FS) and functionally screened for cellulolytic activities. Eighteen cellulase expressing clones were isolated from about 89,000 fosmid clones libraries. A short fragment library was constructed from the most active positive clone (cMGL504) and one open reading frame (ORF) of 1,092 bp encoding an endo-β-1,4-glucanase was indentified which showed 88% similarity with Cellvibrio mixtus cellulase A gene. The endo-β-1,4-glucanase cmgl504 gene was overexpressed in Escherichia coli. The purified recombinant cmgl504 cellulase displayed activities at a broad range of temperature (25–55°C) and pH (5.5–8.5). The enzyme degraded carboxymethyl cellulose (CMC) with 15.4 U, while having low activity against avicel. No detectable activity was found for xylan and laminarin. The enzyme activity was stimulated by potassium chloride. The deduced protein and three-dimensional structure of metagenomederived cellulase cmgl504 possessed all features, including general architecture, signature motifs, and N-terminal signal peptide, followed by the catalytic domain of cellulase belonging to glycosyl hydrolase family 5 (GHF5). The cellulases cloned in this work may play important roles in the degradation of celluloses in vermicomposting process and could be exploited for industrial application in future.
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Citations
Citations to this article as recorded by- Precision enzyme discovery through targeted mining of metagenomic data
Shohreh Ariaeenejad, Javad Gharechahi, Mehdi Foroozandeh Shahraki, Fereshteh Fallah Atanaki, Jian-Lin Han, Xue-Zhi Ding, Falk Hildebrand, Mohammad Bahram, Kaveh Kavousi, Ghasem Hosseini Salekdeh
Natural Products and Bioprospecting.2024;[Epub] CrossRef - Enhanced crystalline cellulose degradation by a novel metagenome-derived cellulase enzyme
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Ming Z. Fan, Weijun Wang, Laurence Cheng, Jiali Chen, Wenyi Fan, Min Wang
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- Influence of Culture Conditions and Medium Composition on the Production of Antibacterial Compounds by Marine Serratia sp. WPRA3
- Mahtab Jafarzade , Nur Ain Yahya , Fatemeh Shayesteh , Gires Usup , Asmat Ahmad
- J. Microbiol. 2013;51(3):373-379. Published online June 28, 2013
- DOI: https://doi.org/10.1007/s12275-013-2440-2
- 227 View
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- 14 Crossref
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Abstract
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- This study was undertaken to investigate the influence of culture conditions and medium components on production of antibacterial compounds by Serratia sp. WPRA3 (JX020764) which was isolated from marine water of Port Dickson, Malaysia. Biochemical, morphological, and molecular characteristics suggested that the isolate is a new candidate of the Serratia sp. The isolate showed strong antimicrobial activity against fungi, Gram-negative and Gram-positive bacteria. This bacterium exhibited optimum antibacterial compounds production at 28°C, pH 7 and 200 rev/min aeration during 72 h of incubation period. Highest antibacterial activity was obtained when sodium chloride (2%), yeast extract (0.5%), and glucose concentration (0.75%) were used as salt, nitrogen, and carbon sources respectively. Different active fractions were obtained by Thin-Layer Chromatography (TLC) and Flash Column Chromatography (FCC) from ethyl acetate crude extracts namely OCE and RCE in different culture conditions, OCE (pH 5, 200 rev/min) and RCE (pH 7/without aeration). In conclusion, the results suggested different culture conditions have a significant impact on the types of secondary metabolites produced by the bacterium.
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Razieh Ebrahimi, Roya Pournejati, Hamid Reza Karbalaei-Heidari
Iranian Journal of Science and Technology, Transactions A: Science.2021; 45(4): 1165. CrossRef -
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- NOTE] Probing the ArcA Regulon in the Rumen Bacterium Mannheimia succiniciproducens by Genome-Wide Expression Profiling
- Seulgi Yun , Jong Moon Shin , Oh-Cheol Kim , Young Ryul Jung , Doo-Byoung Oh , Sang Yup Lee , Ohsuk Kwon
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- DOI: https://doi.org/10.1007/s12275-012-2007-7
- 180 View
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- 4 Scopus
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Abstract
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- In this study, the putative target genes of the Arc two-component system of the rumen bacterium Mannheimia succiniciproducens were determined by analyzing the transcriptome of the ArcA overexpression strain and by the in silico scanning of the entire genome sequence with the position weight matrix of the ArcA binding sequence developed for Escherichia coli. The majority of 79 repressed genes were involved in energy metabolism and carbohydrate transport and metabolism, while the majority of 82 induced genes were involved in hypothetical or unknown functions. Our results suggest that the Arc system in M. succiniciproducens has a specific function that differs from that in E. coli.
- Protein-Protein Interactions between Histidine Kinases and Response Regulators of Mycobacterium tuberculosis H37Rv
- Ha-Na Lee , Kwang-Eun Jung , In-Jeong Ko , Hyung Suk Baik , Jeong-Il Oh
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- DOI: https://doi.org/10.1007/s12275-012-2050-4
- 244 View
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- 22 Crossref
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Abstract
PDF
- Using yeast two-hybrid assay, we investigated protein-protein interactions between all orthologous histidine kinase (HK)/response regulator (RR) pairs of M. tuberculosis H37Rv and identified potential protein-protein interactions between a noncognate HK/RR pair, DosT/NarL. The protein interaction between DosT and NarL was verified by phosphotransfer reaction from DosT to NarL. Furthermore, we found that the DosT and DosS HKs, which share considerable sequence similarities to each other and form a twocomponent system with the DosR RR, have different crossinteraction capabilities with NarL: DosT interacted with NarL, while DosS did not. The dimerization domains of DosT and DosS were shown to be sufficient to confer specificity for DosR, and the different cross-interaction abilities of DosS and DosT with NarL were demonstrated to be attributable to variations in the amino acid sequences of the α2-helices of their dimerization domains.
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- Stratified Distribution of Nutrients and Extremophile Biota within Freshwater Ice Covering the Surface of Lake Baikal
- Nina A. Bondarenko , Olga I. Belykh , Ludmila P. Golobokova , Olga V. Artemyeva , Natalia F. Logacheva , Irina V. Tikhonova , Irina A. Lipko , Tatyana Ya. Kostornova , Valentina V. Parfenova , Tamara V. Khodzher , Young-Gun Zo
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- DOI: https://doi.org/10.1007/s12275-012-1251-1
- 193 View
- 0 Download
- 23 Scopus
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Abstract
PDF
- Biological entities and gradients of selected chemicals within the seemingly barren ice layers covering Lake Baikal were investigated. Ice cores 40–68 cm long were obtained from inshore and offshore sites of Southern Lake Baikal during the cold period of a year (March-April) in 2007 and 2008. In microscopic observations of the melted ice, both algae and bacteria were found in considerable numbers (>103 cells/L and >104 cells/ml, respectively). Among all organisms found, diatom was generally the most predominant taxon in the ice. Interestingly, both planktonic and benthic algae were present in considerable numbers (2–4×104 cells/L). Dominant phototrophic picoplankton were comprised of small green algae of various taxa and cyanobacteria of Synechococcus and Cyanobium. The bacterial community consisted mostly of short rod and cocci cells, either freeliving or aggregated. Large numbers of yeast-like cells and actinomycete mycelium were also observed. Concentrations of silica, phosphorus, and nitrate were low by an order of magnitude where biota was abundant. The profile of the ice could be interpreted as vertical stratification of nutrients and biomass due to biological activities. Therefore, the organisms in the ice were regarded to maintain high activity while thriving under freezing conditions. Based on the results, it was concluded that the freshwater ice covering the surface of Lake Baikal is considerably populated by extremophilic microorganisms that actively metabolize and form a detritus food chain in the unique large freshwater ecosystem of Lake Baikal.
Journal Article
- Assessment of Resistomycin, as an Anticancer Compound Isolated and Characterized from Streptomyces aurantiacus AAA5
- Rajendran Vijayabharathi , Per Bruheim , Trygve Andreassen , Duraisamy Senthil Raja , Palanisamy Bruntha Devi , Sathyaseelan Sathyabama , Venkatesan Brindha Priyadarisini
- J. Microbiol. 2011;49(6):920-926. Published online December 28, 2011
- DOI: https://doi.org/10.1007/s12275-011-1260-5
- 473 View
- 1 Download
- 36 Crossref
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Abstract
PDF
- A new actinomycete strain, isolated from humus soils in the Western Ghats, was found to be an efficient pigment producer. The strain, designated AAA5, was identified as a putative Streptomyces aurantiacus strain based on cultural properties, morphology, carbon source utilization, and analysis of the 16S rRNA gene. The strain produced a reddish-brown pigmented compound during the secondary metabolites phase. A yellow compound was derived from the extracted pigment and was identified as the quinone-related antibiotic resistomycin based on ultraviolet–visible spectrophotometry, fourier transform infrared spectroscopy, liquid chromatography and mass spectroscopy, and nuclear magnetic resonance analyses. The AAA5 strain was found to produce large quantities of resistomycin (52.5 mg/L). It showed potent cytotoxic activity against cell lines viz. HepG2 (hepatic carcinoma) and HeLa (cervical carcinoma) in vitro, with growth inhibition (GI50) of 0.006 and 0.005 μg/ml, respectively. The strain also exhibited broad antimicrobial activities against both Gram-positive and Gram-negative bacteria. Therefore, AAA5 may have great potential as an industrial resistomycin-producing strain.
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Research Support, Non-U.S. Gov't
- Mucilaginibacter composti sp. nov., with Ginsenoside Converting Activity, Isolated from Compost
- Chang-Hao Cui , Tae-Eun Choi , Hongshan Yu , Fengxie Jin , Sung-Taik Lee , Sun-Chang Kim , Wan-Taek Im
- J. Microbiol. 2011;49(3):393-398. Published online June 30, 2011
- DOI: https://doi.org/10.1007/s12275-011-1176-0
- 214 View
- 0 Download
- 34 Crossref
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Abstract
PDF
- The Gram-negative, strictly aerobic, non-motile, non-spore-forming, rod shaped bacterial strain designated TR6-03T was isolated from compost, and its taxonomic position was investigated by using a polyphasic approach. Strain TR6-03T grew at 4-42°C and at pH 6.0-8.0 on R2A and nutrient agar without NaCl supplement. Strain TR6-03T had β-glucosidase activity, which was responsible for its ability to transform ginsenoside Re (one of the dominant active components of ginseng) to Rg2. On the basis of 16S rRNA gene sequence similarity, strain TR6-03T was shown to belong to the family Sphingobacteriaceae and to be related to Mucilaginibacter lappiensis ANJLI2T (96.3% sequence similarity), M. dorajii FR-f4T (96.1%), and M. rigui WPCB133T (94.1%). The G+C content of the genomic DNA was 45.6%. The predominant respiratory quinone was MK-7 and the major fatty acids were summed feature 3 (comprising C16:1 ω7c and/or iso-C15:0 2OH), iso-C15:0 and iso-C17:0 3OH. DNA and chemotaxonomic data supported the affiliation of strain TR6-03T to the genus Mucilaginibacter. Strain TR6-03T could be differentiated genotypically and phenotypically from the recognized species of the genus Mucilaginibacter. The isolate therefore represents a novel species, for which the name Mucilaginibacter composti sp. nov. is proposed, with the type strain TR6-03T (=KACC 14956T =KCTC 12642T =LMG 23497T).
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Citations
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Mucilaginibacter
puniceus sp. nov., isolated from wetland freshwater
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Mucilaginibacter polytrichastri sp. nov., isolated from a moss (Polytrichastrum formosum), and emended description of the genus Mucilaginibacter
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International Journal of Systematic and Evolutionary Microbiology .2014; 64(Pt_4): 1395. CrossRef -
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Mucilaginibacter
koreensis sp. nov., isolated from leaf mould
Cheol Su Park, Kyudong Han, Tae-Young Ahn
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Juan Du, Chang-Hao Cui, Sung Chul Park, Jin-Kwang Kim, Hong-Shan Yu, Feng-Xie Jin, Changkai Sun, Sun-Chang Kim, Wan-Taek Im, Luis Menéndez-Arias
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Mucilaginibacter jinjuensis sp. nov., with xylan-degrading activity
Haji Khan, Eu Jin Chung, Dong Young Kang, Che Ok Jeon, Young Ryun Chung
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Mucilaginibacter
herbaticus sp. nov., isolated from the rhizosphere of the medicinal plant Angelica sinensis
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Mucilaginibacter
gynuensis sp. nov., isolated from rotten wood
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Mucilaginibacter
sabulilitoris sp. nov., isolated from marine sand in a firth
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Journal Article
- NOTE] Identification of PhoB Binding Sites of the yibD and ytfK Promoter Regions in Escherichia coli
- Yusuke Yoshida , Shinichiro Sugiyama , Tomoya Oyamada , Katsushi Yokoyama , Soo-Ki Kim , Kozo Makino
- J. Microbiol. 2011;49(2):285-289. Published online May 3, 2011
- DOI: https://doi.org/10.1007/s12275-011-0360-6
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- By using a lacZ operon fusion genomic library of the Escherichia coli O157:H7 Sakai, we identified phosphatestarvation-inducible (psi) promoters located upstream of the yibD and ytfK genes. They have been previously proposed to belong to the phosphate regulon (pho regulon) by Beak and Lee (2006), based on the DNA array and in vivo transcriptional experiments. However, the direct interaction of these promoters with the activator protein of the pho regulon, PhoB, has not been determined. We determined the binding regions of PhoB in these promoter regions by DNase I footprinting. Both regions contained two pho boxes similar to the consensus sequence for PhoB binding.
Research Support, Non-U.S. Gov'ts
- Distinctive Endophytic Fungal Assemblage in Stems of Wild Rice (Oryza granulata) in China with Special Reference to Two Species of Muscodor (Xylariaceae)
- Zhi-lin Yuan , Zhen-zhu Su , Li-juan Mao , Yang-qing Peng , Guan-mei Yang , Fu-cheng Lin , Chu-long Zhang
- J. Microbiol. 2011;49(1):15-23. Published online March 3, 2011
- DOI: https://doi.org/10.1007/s12275-011-0213-3
- 266 View
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- 26 Crossref
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Abstract
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- Ecological niches in the rhizosphere and phyllosphere of grasses capable of sustaining endophytes have been extensively studied. In contrast, little information regarding the identity and functions of endophytic fungi in stems is available. In this study, we investigated the taxonomic affinities, diversity, and host specificities of culturable endophytes in stems of wild rice (Oryza granulata) in China. Seventy-four isolates were recovered. Low recovery rate (11.7%) indicated that there were relatively few sites for fungal infection. Identification using morphology, morphospecies sorting, and molecular techniques resulted in classification into 50 taxa, 36 of which were recovered only once. Nucleotide sequence similarity analysis indicated that 30% of the total taxa recovered were highly divergent from known species and thus may represent lineages new to science. Most of the taxa were classified as members of the classes Sordariomycetes or Dothideomycetes (mainly in Pleosporales). The presence of Arthrinium and Magnaporthaceae species, most often associated with poaceous plants, suggested a degree of host specificity. A polyphasic approach was employed to identify two Muscodor taxa based on (i) ITS and RPB2 phylogenies, (ii) volatile compounds produced, and (iii) an in vitro bioassay of antifungal activity. This to our knowledge is only the second report regarding the isolation of Muscodor spp. in China. Therefore, we hypothesize that wild plants represent a huge reservoir of unknown fungi. The prevalence, novelty, and species-specificity of unique isolates necessitate a reevaluation of their contribution to ecosystem function and fungal biodiversity.
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Citations
Citations to this article as recorded by- 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 - Prospects of fungal endophytes for stress mitigation in rice (Oryza sativa L.)
Boby Vattekkattu Unnikrishnan, Mahesh Mohan
Oryza-An International Journal on Rice.2022; 59(3): 309. CrossRef - Pest categorisation of Colletotrichum aenigma, C. alienum, C. perseae, C. siamense and C. theobromicola
Claude Bragard, Paula Baptista, Elisavet Chatzivassiliou, Francesco Di Serio, Paolo Gonthier, Josep Anton Jaques Miret, Annemarie Fejer Justesen, Alan MacLeod, Christer Sven Magnusson, Panagiotis Milonas, Juan A Navas‐Cortes, Stephen Parnell, Roel Potting
EFSA Journal.2022;[Epub] CrossRef - Phytotoxic compounds from endophytic fungi
Martha Lydia Macías-Rubalcava, Monserrat Yesenia Garrido-Santos
Applied Microbiology and Biotechnology.2022; 106(3): 931. CrossRef - Cross-pathogenicity of Colletotrichum isolates on tropical fruit species in Brazil
André Freire Cruz, Geleta Dugassa Barka, Luiz Eduardo Bassay Blum
Archives of Phytopathology and Plant Protection.2021; 54(5-6): 295. CrossRef - Endophytic microbes from Nigerian ethnomedicinal plants: a potential source for bioactive secondary metabolites—a review
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Bulletin of the National Research Centre.2021;[Epub] CrossRef - Life on the Rocks: First Insights Into the Microbiota of the Threatened Aquatic Rheophyte Hanseniella heterophylla
Witoon Purahong, Shakhawat Hossen, Ali Nawaz, Dolaya Sadubsarn, Benjawan Tanunchai, Sven Dommert, Matthias Noll, La-aw Ampornpan, Petcharat Werukamkul, Tesfaye Wubet
Frontiers in Plant Science.2021;[Epub] CrossRef - Elucidation of the life cycle of the endophytic genus Muscodor and its transfer to Induratia in Induratiaceae fam. nov., based on a polyphasic taxonomic approach
Milan C. Samarakoon, Benjarong Thongbai, Kevin D. Hyde, Mark Brönstrup, Ulrike Beutling, Christopher Lambert, Andrew N. Miller, Jian-Kui (Jack) Liu, Itthayakorn Promputtha, Marc Stadler
Fungal Diversity.2020; 101(1): 177. CrossRef - Responses of the species complex Fallopia × bohemica to single-metal contaminations to Cd, Cr or Zn: growth traits, metal accumulation and secondary metabolism
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Environmental Monitoring and Assessment.2020;[Epub] CrossRef - Plant host and drought shape the root associated fungal microbiota in rice
Beatriz Andreo-Jimenez, Philippe Vandenkoornhuyse, Amandine Lê Van, Arvid Heutinck, Marie Duhamel, Niteen Kadam, Krishna Jagadish, Carolien Ruyter-Spira, Harro Bouwmeester
PeerJ.2019; 7: e7463. CrossRef - Plant-mycorrhizal fungi interaction and response to inoculation with different growth-promoting fungi
Carlos Vergara, Karla Emanuelle Campos Araujo, Sônia Regina de Souza, Nivaldo Schultz, Orivaldo José Saggin Júnior, Marcus Vinícius Loss Sperandio, Jerri Édson Zilli
Pesquisa Agropecuária Brasileira.2019;[Epub] CrossRef - Identification and characterization of new Muscodor endophytes from gramineous plants in Xishuangbanna, China
Li‐Juan Mao, Jia‐Jie Chen, Chen‐Yang Xia, Xiao‐Xiao Feng, De‐Dong Kong, Zhen‐Yu Qi, Feng Liu, Dian Chen, Fu‐Cheng Lin, Chu‐Long Zhang
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International Journal of Secondary Metabolite.2018; 5(4): 288. CrossRef - Contribution of dark septate fungi to the nutrient uptake and growth of rice plants
Carlos Vergara, Karla Emanuelle Campos Araujo, Luiziene Soares Alves, Sônia Regina de Souza, Leandro Azevedo Santos, Claudete Santa-Catarina, Krisle da Silva, Gilmara Maria Duarte Pereira, Gustavo Ribeiro Xavier, Jerri Édson Zilli
Brazilian Journal of Microbiology.2018; 49(1): 67. CrossRef - Endophytic fungal community of Dysphania ambrosioides from two heavy metal‐contaminated sites: evaluated by culture‐dependent and culture‐independent approaches
Shobhika Parmar, Qiaohong Li, Ying Wu, Xinya Li, Jinping Yan, Vijay K. Sharma, Yunlin Wei, Haiyan Li
Microbial Biotechnology.2018; 11(6): 1170. CrossRef - Secondary structure prediction of ITS rRNA region and molecular phylogeny: an integrated approach for the precise speciation of Muscodor species
Neha Kapoor, Lokesh Gambhir, Sanjai Saxena
Annals of Microbiology.2018; 68(11): 763. CrossRef - Endophytic fungi harbored in the root of Sophora tonkinensis Gapnep: Diversity and biocontrol potential against phytopathogens
Yu Qun Yao, Fang Lan, Yun Ming Qiao, Ji Guang Wei, Rong Shao Huang, Liang Bo Li
MicrobiologyOpen.2017;[Epub] CrossRef - Dark Septate Endophytic Fungi Help Tomato to Acquire Nutrients from Ground Plant Material
Carlos Vergara, Karla E. C. Araujo, Segundo Urquiaga, Nivaldo Schultz, Fabiano de Carvalho Balieiro, Peter S. Medeiros, Leandro A. Santos, Gustavo R. Xavier, Jerri E. Zilli
Frontiers in Microbiology.2017;[Epub] CrossRef - Antifungal, anti-oomycete and phytotoxic effects of volatile organic compounds from the endophytic fungusXylariasp. strain PB3f3 isolated fromHaematoxylon brasiletto
B.L. Sánchez-Ortiz, R.E. Sánchez-Fernández, G. Duarte, P. Lappe-Oliveras, M.L. Macías-Rubalcava
Journal of Applied Microbiology.2016; 120(5): 1313. CrossRef - Phylogenetic diversity of culturable endophytic fungi in Dongxiang wild rice (Oryza rufipogon Griff), detection of polyketide synthase gene and their antagonistic activity analysis
Ya Wang, Bo Liang Gao, Xi Xi Li, Zhi Bin Zhang, Ri Ming Yan, Hui Lin Yang, Du Zhu
Fungal Biology.2015; 119(11): 1032. CrossRef - Identification of Acremonium isolates from grapevines and evaluation of their antagonism towards Plasmopara viticola
Sandra Lo Piccolo, Antonio Alfonzo, Selene Giambra, Gaetano Conigliaro, Luis V. Lopez-Llorca, Santella Burruano
Annals of Microbiology.2015; 65(4): 2393. CrossRef - Plant Bioactive Metabolites and Drugs Produced by Endophytic Fungi of Spermatophyta
Rosario Nicoletti, Antonio Fiorentino
Agriculture.2015; 5(4): 918. CrossRef - Endophytic Diaporthe from Southeast China are genetically diverse based on multi-locus phylogeny analyses
Jiaying Wang, Xihui Xu, Lijuan Mao, Jiaping Lao, Fucheng Lin, Zhilin Yuan, Chulong Zhang
World Journal of Microbiology and Biotechnology.2014; 30(1): 237. CrossRef - The Colletotrichum boninense species complex
U. Damm, P.F. Cannon, J.H.C. Woudenberg, P.R. Johnston, B.S. Weir, Y.P. Tan, R.G. Shivas, P.W. Crous
Studies in Mycology.2012; 73: 1. CrossRef - Current perspectives on the volatile-producing fungal endophytes
Yuan Zhi-Lin, Chen Yi-Cun, Xu Bai-Ge, Zhang Chu-Long
Critical Reviews in Biotechnology.2012; 32(4): 363. CrossRef - Colletotrichum – current status and future directions
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- Growth-Promoting Effects of Dark Septate Endophytes Fungus Acrocalymma on Tomato (Solanum lycopersicum)
- Halomonas alkalitolerans sp. nov., a Novel Moderately Halophilic Bacterium Isolated from Soda Meadow Saline Soil in Daqing, China
- Shuang Wang , Qian Yang , Zhi-Hua Liu , Lei Sun , Dan Wei , Jun-Zheng Zhang , Jin-Zhu Song , Yun Wang , Jia Song , Jin-Xia Fan , Xian-Xin Meng , Wei Zhang
- J. Microbiol. 2011;49(1):24-28. Published online March 3, 2011
- DOI: https://doi.org/10.1007/s12275-011-0197-z
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Abstract
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- A moderately halophilic bacterial strain 15-13T, which was isolated from soda meadow saline soil in Daqing City, Heilongjiang Province, China, was subjected to a polyphasic taxonomic study. The cells of strain 15-13T were found to be Gram-negative, rod-shaped, and motile. The required growth conditions for strain 15-13T were: 1-23% NaCl (optimum, 7%), 10-50°C (optimum, 35°C), and pH 7.0-11.0 (optimum, pH 9.5). The predominant cellular fatty acids were C18:1 ω7c (60.48%) and C16:0 (13.96%). The DNA G+C content was 67.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequence comparisons indicated that strain 15-13T clustered within a branch comprising species of the genus Halomonas. The closest phylogenetic neighbor of strain 15-13T was Halomonas pantelleriensis DSM 9661T (98.9% 16S rRNA gene sequence similarity). The level of DNA-DNA relatedness between the novel isolated strain and H. pantelleriensis DSM 9661T was 33.8%. On the basis of the phenotypic and phylogenetic data, strain 15-13T represents a novel species of the genus Halomonas, for which the name Halomonas alkalitolerans sp. nov. is proposed. The type strain for this novel species is 15-13T (=CGMCC 1.9129T =NBRC 106539T).
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Citations
Citations to this article as recorded by- Developments in extremophilic bacterial genomics: A post next generation sequencing era
Digvijay Verma, Swati Joshi, Priyanka Ghimire, Archana Mishra, Vinay Kumar
Ecological Genetics and Genomics.2024; 32: 100255. CrossRef - Two Novel Alkaliphilic Species Isolated from Saline-Alkali Soil in China: Halalkalibacter flavus sp. nov., and Halalkalibacter lacteus sp. nov
Pin-Jiao Jin, Lei Sun, Yong-Hong Liu, Kang-Kang Wang, Manik Prabhu Narsing Rao, Osama Abdalla Abdelshafy Mohamad, Bao-Zhu Fang, Li Li, Lei Gao, Wen-Jun Li, Shuang Wang
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Shuang Wang, Lei Sun, Manik Prabhu Narsing Rao, Guo-Hong Liu, Pin-Jiao Jin, Zhou-Yan Dong, Zheng-Han Lian, Xiao-Yu Hao, Ming-Yi Zhang, Wen-Jun Li
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Shuang Wang, Lei Sun, Dan Wei, Baoku Zhou, Junzheng Zhang, Xuejia Gu, Lei Zhang, Ying Liu, Yidan Li, Wei Guo, Shuang Jiang, Yaqing Pan, Yufeng Wang
Journal of Microbiology.2014; 52(7): 548. CrossRef - Microbiology and Epidemiology ofHalomonasSpecies
Kwang Kyu Kim, Jung-Sook Lee, David A Stevens
Future Microbiology.2013; 8(12): 1559. CrossRef
- Developments in extremophilic bacterial genomics: A post next generation sequencing era
- Transcriptional Regulation of hemO Encoding Heme Oxygenase in Clostridium perfringens
- Sufi Hassan , Kaori Ohtani , Ruoyu Wang , Yonghui Yuan , Yun Wang , Yumi Yamaguchi , Tohru Shimizu
- J. Microbiol. 2010;48(1):96-101. Published online March 11, 2010
- DOI: https://doi.org/10.1007/s12275-009-0384-3
- 178 View
- 0 Download
- 16 Scopus
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Abstract
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- A Gram-positive anaerobic pathogen, Clostridium perfringens, causes clostridial myonecrosis or gas gangrene in humans by producing numerous extracellular toxins and enzymes that act in concert to degrade host tissues. The ability of infectious bacteria to acquire sufficient iron during infection is essential for the pathogen to cause disease. In the C. perfringens strain 13 genome, a heme oxygenase gene homologue (CPE0214, hemO) was found and its role was examined. The purified recombinant HemO protein showed heme oxygenase activity that can convert heme to biliverdin. hemO transcription was induced in response to extracellular hemin in a dose-dependent manner. The global two-component VirR/VirS regulatory system and its secondary regulator VR-RNA had positive regulatory effects on the transcription of hemO. These data indicate that heme oxygenase may play important roles in iron acquisition and cellular metabolism, and that the VirR/VirS-VR-RNA system is also involved in the regulation of cellular iron homeostasis, which might be important for the survival of C. perfringens in a human host.
- NOTE] Evidence Against the Physiological Role of Acetyl Phosphate in the Phosphorylation of the ArcA Response Regulator in Escherichia coli
- Xueqiao Liu , Gabriela R. Peña Sandoval , Barry L. Wanner , Won Seok Jung , Dimitris Georgellis , Ohsuk Kwon
- J. Microbiol. 2009;47(5):657-662. Published online October 24, 2009
- DOI: https://doi.org/10.1007/s12275-009-0087-9
- 248 View
- 0 Download
- 12 Crossref
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Abstract
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- The Arc two-component signal transduction system of Escherichia coli comprises the ArcB sensor kinase and the ArcA response regulator. Under anoxic growth conditions, ArcB autophosphorylates and transphosphorylates ArcA, which, in turn, represses or activates its target operons. ArcA has been shown to be able to autophosphorylate in vitro at the expense of acetyl-P. Here, the in vivo effect of acetyl phosphate on the redox signal transduction by the Arc system was assessed. Our results indicate that acetyl phosphate can modulate the expression of ArcA-P target genes only in the absence of ArcB. Therefore, the acetyl phosphate dependent ArcA phosphorylation route does not seem to play a significant role under physiological conditions.
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Citations
Citations to this article as recorded by- Theoretical study of ArcB and its dimerization, interaction with anaerobic metabolites, and activation of ArcA
Felipe Padilla-Vaca, Javier de la Mora, Rodolfo García-Contreras, Jorge Humberto Ramírez-Prado, Marcos Vicente-Gómez, Francisco Vargas-Gasca, Fernando Anaya-Velázquez, Itzel Páramo-Pérez, Ángeles Rangel-Serrano, Patricia Cuéllar-Mata, Naurú Idalia Vargas-
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- Ligand-Receptor Recognition for Activation of Quorum Sensing in Staphylococcus aureus
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- J. Microbiol. 2009;47(5):572-581. Published online October 24, 2009
- DOI: https://doi.org/10.1007/s12275-009-0004-2
- 288 View
- 0 Download
- 12 Crossref
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Abstract
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- The accessory gene regulator (agr) locus controls many of the virulence toxins involved in Staphylococcus aureus pathogenesis, and can be divided into four specificity groups. AgrC is the only group-specific receptor to mediate both intra-group activation and inter-group inhibition. We studied the ligand-receptor recognition of the agr system in depth by using a luciferase reporter system to identify the key residues responsible for AgrC activation in two closely related agr groups, AgrC-I, and AgrC-IV. Fusion PCR and site-directed mutagenesis were used to screen for functional residues of AgrC. Our data suggest that for AgrC-IV activation, residue 101 is critical for activating the receptor. In contrast, the key residues for the activation of AgrC-I are located at residues 49~59, 107, and 116. However, three residue changes, T101A, V107S, I116S, are sufficient to convert the AIP recognizing specificity from AgrC-IV to AgrC-I.
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Citations
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Journal Article
- Nematicidal Activity of Paecilomyces spp. and Isolation of a Novel Active Compound
- Ya-Jun Liu , Chong-Yan Zhai , Yi Liu , Ke-Qin Zhang
- J. Microbiol. 2009;47(3):248-252. Published online June 26, 2009
- DOI: https://doi.org/10.1007/s12275-009-0012-2
- 271 View
- 0 Download
- 9 Crossref
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Abstract
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- Many species of Paecilomyces are entomogenous fungi and several are efficacious toward nematodes. To study the potential of Paecilomyces species in controlling nematodes, fungal extracts of 40 Paecilomyces spp. were evaluated for their nematicidal activity against Bursaphelenchus xylophilus and Panagrellus redivivus. The extracts of six Paecilomyces spp. exhibited the nematicidal activity against P. redivivus, and 11 species exhibited the nematicidal activity against B. xylophilus. The methanol extract of strain 1.01761 incubating on Czapek solid medium killed more than 95% P. redivivus in 24 h at 5 mg/ml, and the filtrate of strain 1.01788 cultured in Sabouraud''s broth medium resulted in 90% mortality of B. xylophilus in 24 h at 5 mg/ml. A novel nematicidal compound, 4-(4’-carboxy-2’-ethyl-hydroxypentyl)-5,6-dihydro-6-methylcyclobuta[b]pyridine-3,6-dicarboxylic acid, was isolated from Paecilomyces sp. YMF1.01761. The LD50 value of the compound within 24 h against P. redivivus was 50.86 mg/L, against Meloidogyne incognita was 47.1 mg/L, and against B. xylophilus was 167.7 mg/L.
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Citations
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Prashant Patidar, Lakshman Prasad, Sushma Sagar, Anil Sirohi, Mahender Singh Saharan, Mukesh Kumar Dhillon, Vaibhav Kumar Singh, Tusar Kanti Bag, Ebrahim Shokoohi
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Revista Colombiana de Biotecnología.2014; 16(2): 37. CrossRef - Naturally occurring bioactive Cyclobutane-containing (CBC) alkaloids in fungi, fungal endophytes, and plants
Valery M. Dembitsky
Phytomedicine.2014; 21(12): 1559. CrossRef
- Chemo-profiling of Purpureocillium lilacinum and Paecilomyces variotii isolates using GC-MS analysis, and evaluation of their metabolites against M. incognita
Research Support, Non-U.S. Gov'ts
- Cyanobacterial Hybrid Kinase Sll0043 Regulates Phototaxis by Suppressing Pilin and Twitching Motility Protein
- Bong-Jeong Shin , Jeehyun Oh , Sungsoo Kang , Young-Ho Chung , Young Mok Park , Young Hwan Kim , Seungil Kim , Jong Bhak , Jong-Soon Choi
- J. Microbiol. 2008;46(3):300-308. Published online July 5, 2008
- DOI: https://doi.org/10.1007/s12275-007-0212-6
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- The unicellular cyanobacterium Synechocystis sp. PCC 6803 glides toward a light source through the interplay of positive phototaxis genes and proteins. In genetic analysis, the complete disruption of the hybrid sensory kinase sll0043 produced negative phototaxis. Furthermore, Sll0043 was found to be a hub protein by in silico prediction of protein-protein interaction, in which Sll0043 was predominantly linked to seven two-component proteins with high confidence. To understand the regulation and networking of positive phototaxis proteins, the proteomic profile of the sll0043 mutant was compared to that of wild-type. In the sll0043 mutant, 18 spots corresponding to 15 unique proteins were altered by 1.3 to 59 fold; the spots were identified by 2-DE/MALDI-MS analysis. Down-regulated proteins in the sll0043 null-mutant included chaperonins, superoxide dismutase, and phycocyanin β-subunit. In contrast, nine proteins involved in photosynthesis, translation, regulatory function, and other functions were up-regulated. In particular, a twitching motility protein (PilT1) was induced over 2-fold in sll0043 mutant. Moreover, semiquantitative and quantitative RT-PCR analysis revealed that pilin (pilA1), pili motor (pilT1), and pili switch gene (pilT2) were significantly increased in sll0043 mutant. These results suggest that the hybrid kinase Sll0043 regulates positive phototaxis by suppressing the expression of pili biosynthesis and regulatory genes and through the interplay with positive phototaxis/motility two-component proteins.
- Analysis of Vaginal Lactic Acid Producing Bacteria in Healthy Women
- Hyeran Nam , Kyunghee Whang , Yeonhee Lee
- J. Microbiol. 2007;45(6):515-520.
- DOI: https://doi.org/2642 [pii]
- 183 View
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- Vaginal lactic acid-producing bacteria of 80 pre-menopausal women were studied by isolation on Blood and DeMan-Rogosa-Sharpe agar, PCR with group-specific primers for Lactobacillus-denaturing gradient gel electrophoresis (DGGE), and PCR with specific primers for V3 region in 16S rRNA-temporal temperature gel electrophoresis (TTGE). Conventional isolation method on media detected only one lactobacillus (Lactobacillus brevis) while TTGE detected only Lactobacillus sp. DGGE detected seven Lactobacillus species; L. coleohominis, L. crispatus, L. iners, L. reuteri, L. rhamnosus, L. vaginalis, and Leuconostoc lactis. L. acidophilus and L. gasseri, which are prevalent in Western women, were not detected in Korean women. Furthermore, L. rhamnosus, Leuc. lactis, L. coleohominis, and Weissella cibaria, which were not previously reported in the vaginal microbiota of Korean women, were detected. The five most prevalent LABs in vaginal microbiota in Korean women were L. iners, Enterococcus faecalis, L. crispatus, Leuc. lactis, and W. cibaria.
- Diversity of Microorganisms in Decaying Maize Stalks Revealed by a Molecular Method
- Ming-Xia Yang , Han-Bo Zhang
- J. Microbiol. 2007;45(4):367-370.
- DOI: https://doi.org/2558 [pii]
- 177 View
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- Microbial diversity in decaying maize stalk was characterized by constructing and analyzing rRNA gene clone library. Total 47 OTUs were obtained from 82 bacterial clones, including Proteobacteria (64.6%), Actinobacteria (30.5%), Bacteroidetes (2.4%) and Firmicutes (2.4%). Most proteobacterial clones were members of Rhizobium, Pseudomonas and Stenotrophomonas. Eighty-four percent of Actinobacteria was related to Microbacterium. Only 14 OTUs were identified from 124 fungal clones, including Ascomycota (88%) and Basidiomycota (12%). Sixty percent of Ascomycota were members of Eupenicillium and Paecilomyces but all Basidiomycota were close to Kurtzmanomyces nectairei.
- Expression of Escherichia coli DcuS-R Two-Component Regulatory System is Regulated by the Secondary Internal Promoter Which is Activated by CRP-cAMP
- Tomoya Oyamada , Katsushi Yokoyama , Michiko Morinaga , Masashi Suzuki , Kozo Makino
- J. Microbiol. 2007;45(3):234-240.
- DOI: https://doi.org/2537 [pii]
- 176 View
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- The DcuS-R two-component system of Escherichia coli senses C4-dicarboxylates of the medium and regulates expression of the genes related to utilization of them. It is known that phospho-DcuR induces expression of genes such as the dcuB-fumB operon, the frdABCD operon, and the dctA gene. We analyzed promoters of the dcuS-R operon to elucidate the transcriptional regulation system. We found a novel internal promoter within the dcuS gene that is regulated by the transcriptional regulator, CRP-cAMP, in both aerobic and anaerobic conditions.
- Characterization of β-Ketoadipate Pathway from Multi-Drug Resistance Bacterium, Acinetobacter baumannii DU202 by Proteomic Approach
- Sonn-Ho Park , Jae-Woo Kim , Sung-Ho Yun , Sun Hee Leem , Hyung-Yeel Kahng , Seung Il Kim
- J. Microbiol. 2006;44(6):632-640.
- DOI: https://doi.org/2464 [pii]
- 236 View
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- In this study, the biodegradative activities of monocyclic aromatic compounds were determined from the multi-drug resistant (MDR) Acinetobacter baumannii, which were studied in the form of clinical isolates from a hospital in Korea. These bacteria were capable of biodegrading monocyclic aromatic compounds, such as benzoate and p-hydroxybenzoate. In order to determine which pathways are available for biodegradation in these stains, we conducted proteome analyses of benzoate and p-hydroxybenzoate-cultured A. baumannii DU202, using 2-DE/MS analysis. As genome DB of A. baumannii was not yet available, MS/MS analysis or de novo sequencing methods were employed in the identification of induced proteins. Benzoate branch enzymes [catechol 1,2-dioxygenase (CatA) and benzoate dioxygenase α subunit (BenA)] of the β-ketoadipate pathway were identified under benzoate culture condition and p-hydroxybenzoate branch enzymes [protocatechuate 3,4-dioxygenase α subunit (PcaG) and 3-carboxy-cis,cis-muconate cycloisomerase (PcaB)] of the β-ketoadipate pathway were identified under p-hydroxybenzoate culture condition, respectively, thereby suggesting that strain DU202 utilized the β-ketoadipate pathway for the biodegradation of monocyclic aromatic compounds. The sequence analysis of two purified dioxygenases (CatA and PcaGH) indicated that CatA is closely associated with the CatA of Acinetobacter radiresistance, but PcaGH is only moderately associated with the PcaGH of Acinetobacter sp. ADP1. Interestingly, the fused form of PcaD and PcaC, carboxymuconolactone decarboxylase (PcaCD), was detected on benzoate-cultured A. baumannii DU202. These results indicate that A. baumannii DU202 exploits a different β-ketoadipate pathway from other Acinetobacter species.
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