Journal of Microbiology

Journal Articles

The Gut Microbiota Mediates the Protective Effects of Spironolactone on Myocardial Infarction: Lu Li, Jian-Yong Sun, Yu-Lin Li, Shi-Wei Zhu, Sheng-Zhong Duan; J. Microbiol. 2024;62(10):883-895. Published online September 3, 2024; DOI: https://doi.org/10.1007/s12275-024-00164-7

52 View
0 Download
1 Web of Science
1 Crossref

Myocardial infarction (MI) is a type of cardiovascular disease that influences millions of human beings worldwide and has a great rate of mortality and morbidity. Spironolactone has been used as a critical drug for the treatment of cardiac failure and it ameliorates cardiac dysfunction post-MI. Despite these findings, whether there is a relationship between the therapeutic effects of spironolactone and the gut microorganism after MI has not been determined. In our research, we used male C57BL/6 J mice to explore whether the gut microbiota mediates the beneficial function of spironolactone after myocardial infarction. We demonstrated that deletion of the gut microbiota eliminated the beneficial function of spironolactone in MI mice, displaying exacerbated cardiac dysfunction, cardiac infarct size. In addition, the gut microbiota was altered by spironolactone after sham or MI operation in mice. We also used male C57BL/6 J mice to investigate the function of a probiotic in the myocardial infarction. In summary, our findings reveal a precious role of the gut flora in the therapeutic function of spironolactone on MI.

Citations

Citations to this article as recorded by

The role of the gut microbiota in the onset and progression of heart failure: insights into epigenetic mechanisms and aging
Giulia Matacchione, Francesco Piacenza, Lorenzo Pimpini, Yuri Rosati, Serena Marcozzi
Clinical Epigenetics.2024;[Epub] CrossRef

Delineating the Acquired Genetic Diversity and Multidrug Resistance in Alcaligenes from Poultry Farms and Nearby Soil: Abhilash Bhattacharjee, Anil Kumar Singh; J. Microbiol. 2024;62(7):511-523. Published online June 21, 2024; DOI: https://doi.org/10.1007/s12275-024-00129-w

124 View
0 Download
1 Web of Science

Abstract: Alcaligenes faecalis is one of the most important and clinically significant environmental pathogens, increasing in importance due to its isolation from soil and nosocomial environments. The Gram-negative soil bacterium is associated with skin endocarditis, bacteremia, dysentery, meningitis, endophthalmitis, urinary tract infections, and pneumonia in patients. With emerging antibiotic resistance in A. faecalis, it has become crucial to understand the origin of such resistance genes within this clinically significant environmental and gut bacterium. In this research, we studied the impact of antibiotic overuse in poultry and its effect on developing resistance in A. faecalis. We sampled soil and faecal materials from five poultry farms, performed whole genome sequencing & analysis and identified four strains of A. faecalis. Furthermore, we characterized the genes in the genomic islands of A. faecalis isolates. We found four multidrug-resistant A. faecalis strains that showed resistance against vancomycin (MIC >1000 μg/ml), ceftazidime (50 μg/ml), colistin (50 μg/ml) and ciprofloxacin (50 μg/ml). From whole genome comparative analysis, we found more than 180 resistance genes compared to the reference sequence. Parts of our assembled contigs were found to be similar to different bacteria which included pbp1A and pbp2 imparting resistance to amoxicillin originally a part of Helicobacter and Bordetella pertussis. We also found the Mycobacterial insertion element IS6110 in the genomic islands of all four genomes. This prominent insertion element can be transferred and induce resistance to other bacterial genomes. The results thus are crucial in understanding the transfer of resistance genes in the environment and can help in developing regimes for antibiotic use in the food and poultry industry.

Quorum Quenching Potential of Reyranella sp. Isolated from Riverside Soil and Description of Reyranella humidisoli sp. nov.: Dong Hyeon Lee, Seung Bum Kim; J. Microbiol. 2024;62(6):449-461. Published online May 30, 2024; DOI: https://doi.org/10.1007/s12275-024-00131-2

71 View
0 Download
3 Web of Science
3 Crossref

Abstract

Quorum quenching refers to any mechanism that inhibits quorum sensing processes. In this study, quorum quenching activity among bacteria inhabiting riverside soil was screened, and a novel Gram-stain-negative, rod shaped bacterial strain designated MMS21-HV4-11(T), which showed the highest level of quorum quenching activity, was isolated and subjected to further analysis. Strain MMS21-HV4-11(T) could be assigned to the genus Reyranella of Alphaproteobacteria based on the 16S rRNA gene sequence, as the strain shared 98.74% sequence similarity with Reyranella aquatilis seoho-37(T), and then 97.87% and 97.80% sequence similarity with Reyranella soli KIS14-15(T) and Reyranella massiliensis 521(T), respectively. The decomposed N-acyl homoserine lactone was restored at high concentrations under acidic conditions, implying that lactonase and other enzyme(s) are responsible for quorum quenching. The genome analysis indicated that strain MMS21-HV4-11(T) had two candidate genes for lactonase and one for acylase, and expected protein structures were confirmed. In the quorum sensing inhibition assay using a plant pathogen Pectobacterium carotovorum KACC 14888, development of soft rot was significantly inhibited by strain MMS21-HV4-11(T). Besides, the swarming motility by Pseudomonas aeruginosa PA14 was significantly inhibited in the presence of strain MMS21-HV4-11(T). Since the isolate did not display direct antibacterial activity against either of these species, the inhibition was certainly due to quorum quenching activity. In an extended study with the type strains of all known species of Reyranella, all strains were capable of degrading N-acyl homoserine lactones (AHLs), thus showing quorum quenching potential at the genus level. This is the first study on the quorum quenching potential and enzymes responsible in Reyranella. In addition, MMS21-HV4-11(T) could be recognized as a new species through taxonomic characterization, for which the name Reyranella humidisoli sp. nov. is proposed (type strain = MMS21-HV4-11( T) = KCTC 82780( T) = LMG 32365(T)).

Citations

Citations to this article as recorded by

Study of N-acyl homoserine lactone (AHL) degradation potential of bacteria isolated from environmental samples and their impact on quorum sensing regulated biofilm formation of Pseudomonas aeruginosa
Anju Tomy, Rakesh Yasarla
Journal of Environmental Chemical Engineering.2025; 13(2): 115974. CrossRef
Research progress of bacterial quorum sensing systems in synthetic biology applications
Boyu Luo, Tuoyu Liu, Zhi Sun, Yue Teng
Chinese Science Bulletin.2024; 69(36): 5213. CrossRef
Validation List no. 220. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, Markus Göker
International Journal of Systematic and Evolutionary Microbiology .2024;[Epub] CrossRef

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

55 View
0 Download
2 Web of Science
2 Crossref

Abstract

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

Citations

Citations to this article as recorded by

Diversity and Functional Roles of Root-Associated Endophytic Fungi in Two Dominant Pioneer Trees Reclaimed from a Metal Mine Slag Heap in Southwest China
Bo Bi, Yuqing Xiao, Xiaonan Xu, Qianqian Chen, Haiyan Li, Zhiwei Zhao, Tao Li
Microorganisms.2024; 12(10): 2067. CrossRef
Short-term organic fertilizer substitution increases sorghum yield by improving soil physicochemical characteristics and regulating microbial community structure
Mengen Nie, Guangqian Yue, Lei Wang, Yizhong Zhang
Frontiers in Plant Science.2024;[Epub] CrossRef

Gut Lactobacillus and Probiotics Lactobacillus lactis/rhamnosis Ameliorate Liver Fibrosis in Prevention and Treatment: Sung Min Won , Na Young Lee , Ki&# , Haripriya Gupta , Satya Priya Sharma , Kyung Hwan Kim , Byoung Kook Kim , Hyun Chae Joung , Jin Ju Jeong , Raja Ganesan , Sang Hak Han , Sang Jun Yoon , Dong Joon Kim , Ki Tae Suk; J. Microbiol. 2023;61(2):245-257. Published online February 6, 2023; DOI: https://doi.org/10.1007/s12275-023-00014-y

54 View
0 Download
9 Web of Science
8 Crossref

Abstract

The progression and exacerbation of liver fibrosis are closely related to the gut microbiome. It is hypothesized that some probiotics may slow the progression of liver fibrosis. In human stool analysis [healthy group (n = 44) and cirrhosis group (n = 18)], difference in Lactobacillus genus between healthy group and cirrhosis group was observed. Based on human data, preventive and therapeutic effect of probiotics Lactobacillus lactis and L. rhamnosus was evaluated by using four mice fibrosis models. L. lactis and L. rhamnosus were supplied to 3,5-diethoxycarbonyl-1,4-dihydrocollidine or carbon tetrachloride-induced liver fibrosis C57BL/6 mouse model. Serum biochemical measurements, tissue staining, and mRNA expression in the liver were evaluated. The microbiome was analyzed in mouse cecal contents. In the mouse model, the effects of Lactobacillus in preventing and treating liver fibrosis were different for each microbe species. In case of L. lactis, all models showed preventive and therapeutic effects against liver fibrosis. In microbiome analysis in mouse models administered Lactobacillus, migration and changes in the ratio and composition of the gut microbial community were confirmed. L. lactis and L. rhamnosus showed preventive and therapeutic effects on the progression of liver fibrosis, suggesting that Lactobacillus intake may be a useful strategy for prevention and treatment.

Citations

Citations to this article as recorded by

Enhancing the application of probiotics in probiotic food products from the perspective of improving stress resistance by regulating cell physiological function: A review
Dingkang Wang, Ruijie Xu, Sha Liu, Xiaomin Sun, Tianxiao Zhang, Lin Shi, Youfa Wang
Food Research International.2025; 199: 115369. CrossRef
Lactobacillus gasseri BNR17 and Limosilactobacillus fermentum ABF21069 Ameliorate High Sucrose-Induced Obesity and Fatty Liver via Exopolysaccharide Production and β-oxidation
Yu Mi Jo, Yoon Ji Son, Seul-Ah Kim, Gyu Min Lee, Chang Won Ahn, Han-Oh Park, Ji-Hyun Yun
Journal of Microbiology.2024; 62(10): 907. CrossRef
Probiotics modulation of the endotoxemic effect on the gut and liver of the lipopolysaccharide challenged mice
Gyan Babu, Banalata Mohanty
Drug and Chemical Toxicology.2024; : 1. CrossRef
Research reviews and prospects of gut microbiota in liver cirrhosis: a bibliometric analysis (2001–2023)
Xiaofei Zhu, Ziyuan Zhou, Xiaxia Pan
Frontiers in Microbiology.2024;[Epub] CrossRef
Gut microbes combined with metabolomics reveal the protective effects of Qijia Rougan decoction against CCl4-induced hepatic fibrosis
Xue Li, Xinyi Xu, Sian Tao, Yue Su, Li Wen, Dong Wang, Jibin Liu, Quansheng Feng
Frontiers in Pharmacology.2024;[Epub] CrossRef
Assessment of probiotic properties of lactic acid bacteria isolated from an artisanal Colombian cheese
Samantha Roldán-Pérez, Sara Lucía Gómez Rodríguez, José Uriel Sepúlveda-Valencia, Orlando Simón Ruiz Villadiego, María Elena Márquez Fernández, Olga I. Montoya Campuzano, Mónica María Durango-Zuleta
Heliyon.2023; 9(11): e21558. CrossRef
Agrocybe aegerita Polysaccharide Combined with Bifidobacterium lactis Bb-12 Attenuates Aging-Related Oxidative Stress and Restores Gut Microbiota
Xiaoyan Liu, Yanyu Feng, Hongmin Zhen, Lina Zhao, Hongqiang Wu, Bin Liu, Guangsen Fan, Aijun Tong
Foods.2023; 12(24): 4381. CrossRef
Probiotics and liver fibrosis: An evidence-based review of the latest research
Lin Cheng, Jianyou Shi, Haoyuan Peng, Rongsheng Tong, Yonghe Hu, Dongke Yu
Journal of Functional Foods.2023; 109: 105773. CrossRef

Characteristic alterations of gut microbiota in uncontrolled gout: Asad ul-Haq , Kyung-Ann Lee , Hoonhee Seo , Sukyung Kim , Sujin Jo , Kyung Min Ko , Su-Jin Moon , Yun Sung Kim , Jung Ran Choi , Ho-Yeon Song , Hyun-Sook Kim; J. Microbiol. 2022;60(12):1178-1190. Published online November 24, 2022; DOI: https://doi.org/10.1007/s12275-022-2416-1

59 View
0 Download
10 Web of Science
11 Crossref

Abstract

Microbiome research has been on the rise recently for a more in-depth understanding of gout. Meanwhile, there is a need to understand the gut microbiome related to uric acid-lowering drug resistance. In this study, 16S rRNA gene-based microbiota analysis was performed for a total of 65 stool samples from 17 healthy controls and 48 febuxostat-treated gout patients (including 28 controlled subjects with decreased uric acid levels and 20 uncontrolled subjects with non-reduced uric acid levels). Alpha diversity of bacterial community decreased in the healthy control, controlled, and uncontrolled groups. In the case of beta diversity, the bacterial community was significantly different among groups (healthy control, controlled, and uncontrolled groups). Taxonomic biomarker analysis revealed the increased population of g-Bifidobacterium in healthy controls and g-Prevotella in uncontrolled patients. PCR further confirmed this result at the species level. Additionally, functional metagenomics predictions led to the exploration of various functional biomarkers, including purine metabolism. The results of this study can serve as a basis for developing potential new strategies for diagnosing and treating gout from microbiome prospects.

Citations

Citations to this article as recorded by

Different Prostatic Tissue Microbiomes between High- and Low-Grade Prostate Cancer Pathogenesis
Jae Heon Kim, Hoonhee Seo, Sukyung Kim, Md Abdur Rahim, Sujin Jo, Indrajeet Barman, Hanieh Tajdozian, Faezeh Sarafraz, Ho-Yeon Song, Yun Seob Song
International Journal of Molecular Sciences.2024; 25(16): 8943. CrossRef
Reassessing Gout Management through the Lens of Gut Microbiota
Jean Demarquoy, Oumaima Dehmej
Applied Microbiology.2024; 4(2): 824. CrossRef
Changes in gut microbiota structure and function in gout patients
Feiyan Zhao, Zhixin Zhao, Dafu Man, Zhihong Sun, Ning Tie, Hongbin Li, Heping Zhang
Food Bioscience.2023; 54: 102912. CrossRef
Effect of a Novel Handheld Photobiomodulation Therapy Device in the Management of Chemoradiation Therapy-Induced Oral Mucositis in Head and Neck Cancer Patients: A Case Series Study
In-Young Jo, Hyung-Kwon Byeon, Myung-Jin Ban, Jae-Hong Park, Sang-Cheol Lee, Yong Kyun Won, Yun-Su Eun, Jae-Yun Kim, Na-Gyeong Yang, Sul-Hee Lee, Pyeongan Lee, Nam-Hun Heo, Sujin Jo, Hoonhee Seo, Sukyung Kim, Ho-Yeon Song, Jung-Eun Kim
Photonics.2023; 10(3): 241. CrossRef
New drug targets for the treatment of gout arthritis: what’s new?
Tiago H. Zaninelli, Geovana Martelossi-Cebinelli, Telma Saraiva-Santos, Sergio M. Borghi, Victor Fattori, Rubia Casagrande, Waldiceu A. Verri
Expert Opinion on Therapeutic Targets.2023; 27(8): 679. CrossRef
A dynamics association study of gut barrier and microbiota in hyperuricemia
Qiulan Lv, Jun Zhou, Changyao Wang, Xiaomin Yang, Yafei Han, Quan Zhou, Ruyong Yao, Aihua Sui
Frontiers in Microbiology.2023;[Epub] CrossRef
Biochemical Recurrence in Prostate Cancer Is Associated with the Composition of Lactobacillus: Microbiome Analysis of Prostatic Tissue
Jae Heon Kim, Hoonhee Seo, Sukyung Kim, Asad Ul-Haq, Md Abdur Rahim, Sujin Jo, Ho-Yeon Song, Yun Seob Song
International Journal of Molecular Sciences.2023; 24(13): 10423. CrossRef
Remote effects of kidney drug transporter OAT1 on gut microbiome composition and urate homeostasis
Vladimir S. Ermakov, Jeffry C. Granados, Sanjay K. Nigam
JCI Insight.2023;[Epub] CrossRef
Causal Relationship between Gut Microbiota and Gout: A Two-Sample Mendelian Randomization Study
Mengna Wang, Jiayao Fan, Zhaohui Huang, Dan Zhou, Xue Wang
Nutrients.2023; 15(19): 4260. CrossRef
Emerging Urate-Lowering Drugs and Pharmacologic Treatment Strategies for Gout: A Narrative Review
Robert Terkeltaub
Drugs.2023; 83(16): 1501. CrossRef
Characterization of Fecal Microbiomes of Osteoporotic Patients in Korea
Asad Ul-Haq, Hoonhee Seo, Sujin Jo, Hyuna Park, Sukyung Kim, Youngkyoung Lee, Saebim Lee, Je Hoon Jeong, Ho‑Yeon Song
Polish Journal of Microbiology.2022; 71(4): 601. CrossRef

Pat- and Pta-mediated protein acetylation is required for horizontallyacquired virulence gene expression in Salmonella Typhimurium: Hyojeong Koo , Eunna Choi , Shinae Park , Eun-Jin Lee , Jung-Shin Lee; J. Microbiol. 2022;60(8):823-831. Published online May 27, 2022; DOI: https://doi.org/10.1007/s12275-022-2095-y

51 View
0 Download
2 Web of Science
1 Crossref

Abstract

Salmonella Typhimurium is a Gram-negative facultative pathogen that causes a range of diseases, from mild gastroenteritis to severe systemic infection in a variety of animal hosts. S. Typhimurium regulates virulence gene expression by a silencing mechanism using nucleoid-associated proteins such as Histone-like Nucleoid Structuring protein (H-NS) silencing. We hypothesize that the posttranslational modification, specifically protein acetylation, of proteins in gene silencing systems could affect the pathogenic gene expression of S. Typhimurium. Therefore, we created acetylation-deficient mutant by deleting two genes, pat and pta, which are involved in the protein acetylation pathway. We observed that the pat and pta deletion attenuates mouse virulence and also decreases Salmonella’s replication within macrophages. In addition, the Δpat Δpta strain showed a decreased expression of the horizontally-acquired virulence genes, mgtC, pagC, and ugtL, which are highly expressed in low Mg2+. The decreased virulence gene expression is possibly due to higher H-NS occupancy to those promoters because the pat and pta deletion increases H-NS occupancy whereas the same mutation decreases occupancy of RNA polymerase. Our results suggest that Pat- and Pta-mediated protein acetylation system promotes the expression of virulence genes by regulating the binding affinity of H-NS in S. Typhimurium.

Citations

Citations to this article as recorded by

Multi-Lasso Peptide-Based Synergistic Nanocomposite: A High-Stability, Broad-Spectrum Antimicrobial Agent with Potential for Combined Antibacterial Therapy
Yu Li, Jinyu Zhang, Ke Wei, Di Zhou, Zepeng Wang, Zhiwei Zeng, Yu Han, Weisheng Cao
ACS Nano.2024; 18(45): 31435. CrossRef

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

61 View
0 Download
2 Web of Science
3 Crossref

Abstract

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

Citations

Citations to this article as recorded by

Epsilon-poly-l-lysine inhibits biofilm formation and aids dispersion in Acinetobacter baumannii
Ujjayni Saha, Sakshi Shinde, Savita Jadhav, Sunil D. Saroj
Medicine in Microecology.2024; 21: 100110. CrossRef
Effect of respiratory tract co-colonizers on initial attachment of Neisseria meningitidis
Poonam Kanojiya, Sunil D. Saroj
Archives of Microbiology.2023;[Epub] CrossRef
Antibiotics modulates the virulence of Neisseria meningitidis by regulating capsule synthesis
Tiyasa Haldar, Riya Joshi, Sunil D. Saroj
Microbial Pathogenesis.2023; 179: 106117. CrossRef

Prevalence and characteristics of the mcr-1 gene in retail meat samples in Zhejiang Province, China: Biao Tang , Jiang Chang , Yi Luo , Han Jiang , Canying Liu , Xingning Xiao , Xiaofeng Ji , Hua Yang; J. Microbiol. 2022;60(6):610-619. Published online March 31, 2022; DOI: https://doi.org/10.1007/s12275-022-1597-y

51 View
0 Download
10 Web of Science
8 Crossref

Abstract

Considering the serious threat to food safety and public health posed by pathogens with colistin resistance, colistin was banned as a growth promoter in 2017 in China. In recent years, the resistance rate of Escherichia coli isolated from animal intestines or feces to colistin has decreased. However, the prevalence and characteristics of the mcr-1 gene in retail meat have not been well explored. Herein, 106 mcr-1-negative and 16 mcr- 1-positive E. coli isolates were randomly recovered from 120 retail meat samples and screened using colistin. The 106 E. coli isolates showed maximum resistance to sulfafurazole (73.58%) and tetracycline (62.26%) but susceptibility to colistin (0.00%). All 16 mcr-1-positive E. coli isolates showed resistance to colistin, were extended spectrum beta-lactamase (ESBL)-positive and exhibited complex multidrug resistance (MDR). For these 16 isolates, 17 plasmid replicons and 42 antibiotic resistance genes were identified, and at least 7 antibiotic resistance genes were found in each isolate. Acquired disinfectant resistance genes were identified in 75.00% (12/16) of the isolates. Furthermore, comparative genomic and phylogenetic analysis
results
indicated that these 16 mcr-1-positive E. coli isolates and the most prevalent mcr-1-harboring IncI2 plasmid in this study were closely related to other previously reported mcr-1-positive E. coli isolates and the IncI2 plasmid, respectively, showing their wide distribution. Taken together, our findings showed that retail meat products were a crucial reservoir of mcr-1 during the colistin ban period and should be continuously monitored.

Citations

Citations to this article as recorded by

Regression models from portable NIR spectra for predicting the carcass traits and meat quality of beef cattle
Nathália Veloso Trópia, Rizielly Saraiva Reis Vilela, Flávia Adriane de Sales Silva, Dhones Rodrigues Andrade, Adailton Camêlo Costa, Fernando Alerrandro Andrade Cidrini, Jardeson de Souza Pinheiro, Pauliane Pucetti, Mario Luiz Chizzotti, Sebastião de Cam
PLOS ONE.2024; 19(5): e0303946. CrossRef
IncHI1 plasmids mediated the tet(X4) gene spread in Enterobacteriaceae in porcine
Jiangang Ma, Juan Wang, Hua Yang, Mengru Su, Ruichao Li, Li Bai, Jie Feng, Yuting Huang, Zengqi Yang, Biao Tang
Frontiers in Microbiology.2023;[Epub] CrossRef
Prevalence and molecular characteristics of polymyxin-resistant Enterobacterales in a Chinese tertiary teaching hospital
Chenlu Xiao, Xuming Li, Lianjiang Huang, Huiluo Cao, Lizhong Han, Yuxing Ni, Han Xia, Zhitao Yang
Frontiers in Cellular and Infection Microbiology.2023;[Epub] CrossRef
Farm to table: colistin resistance hitchhiking through food
Absar Talat, Carla Miranda, Patrícia Poeta, Asad U. Khan
Archives of Microbiology.2023;[Epub] CrossRef
Detection of mcr-1-harbouring Escherichia coli by quantum dot labelling of synthetic small peptides mimicking lipopolysaccharide receptors
Chenghao Wang, Biao Tang, Jiusheng Wu, Xi Jin, Shuwen Ke, Hua Yang, Yuehuan Liu
International Journal of Antimicrobial Agents.2023; 62(3): 106898. CrossRef
Genomic characterization of multidrug-resistance gene cfr in Escherichia coli recovered from food animals in Eastern China
Biao Tang, Juan Ni, Jiahui Lin, Yangying Sun, Hui Lin, Yuehong Wu, Hua Yang, Min Yue
Frontiers in Microbiology.2022;[Epub] CrossRef
Antimicrobial resistance and genomic characterization of Escherichia coli from pigs and chickens in Zhejiang, China
Wei Zhou, Rumeng Lin, Zhijin Zhou, Jiangang Ma, Hui Lin, Xue Zheng, Jingge Wang, Jing Wu, Yuzhi Dong, Han Jiang, Hua Yang, Zhangnv Yang, Biao Tang, Min Yue
Frontiers in Microbiology.2022;[Epub] CrossRef
The Occurrence and Genomic Characteristics of mcr-1-Harboring Salmonella from Retail Meats and Eggs in Qingdao, China
Changan Li, Xiulei Gu, Liping Zhang, Yuqing Liu, Yan Li, Ming Zou, Baotao Liu
Foods.2022; 11(23): 3854. CrossRef

Exploiting the antibacterial mechanism of phenazine substances from Lysobacter antibioticus 13-6 against Xanthomonas oryzae pv. oryzicola: Qi Liu , Jun Yang , Waqar Ahmed , Xiaoyan Wan , Lanfang Wei , Guanghai Ji; J. Microbiol. 2022;60(5):496-510. Published online March 31, 2022; DOI: https://doi.org/10.1007/s12275-022-1542-0

58 View
0 Download
17 Web of Science
15 Crossref

Abstract

Bacterial leaf streak caused by Xanthomonas oryzae pv. oryzicola (Xoc) is one of the most destructive diseases affecting rice production worldwide. In this study, we extracted and purified phenazine substances from the secondary metabolites of Lysobacter antibioticus 13-6. The bacteriostatic mechanism of phenazine substances against Xoc was investigated through physiological response and transcriptomic analysis.
Results
showed that phenazine substances affects the cell membrane permeability of Xoc, which causes cell swelling and deformation, blockage of flagellum synthesis, and imbalance of intracellular environment. The changes in intracellular environment affect the physiological and metabolic functions of Xoc, which reduces the formation of pathogenic factors and pathogenicity. Through transcriptomic analysis, we found that among differentially expressed genes, the expression of 595 genes was induced significantly (275 up-regulated and 320 down-regulated). In addition, we observed that phenazine substances affects three main functions of Xoc, i.e., transmembrane transporter activity, DNA-mediated transposition, and structural molecular activity. Phenazine substances also inhibits the potassium ion transport system that reduces Xoc resistance and induces the phosphate ion transport system to maintain the stability of the internal environment. Finally, we conclude that phenazine substances could retard cell growth and reduce the pathogenicity of Xoc by affecting cell structure and physiological metabolism. Altogether, our study highlights latest insights into the antibacterial mechanism of phenazine substances against Xoc and provides basic guidance to manage the incidence of bacterial leaf streak of rice.

Citations

Citations to this article as recorded by

Biocontrol potential of endophytic Bacillus subtilis A9 against rot disease of Morchella esculenta
Xue Chen, Yin Zhang, ShengQian Chao, LiLi Song, GuoGan Wu, Yu Sun, YiFan Chen, BeiBei Lv
Frontiers in Microbiology.2024;[Epub] CrossRef
A Novel Plant-Derived Biopesticide Mitigates Fusarium Root Rot of Angelica sinensis by Modulating the Rhizosphere Microbiome and Root Metabolome
Qi Liu, Waqar Ahmed, Guoli Li, Yilin He, Mohamed Mohany, Zhaoyu Li, Tong Shen
Plants.2024; 13(16): 2180. CrossRef
Trichoderma Production and Encapsulation Methods for Agricultural Applications
Erick Vindas-Reyes, Randall Chacón-Cerdas, William Rivera-Méndez
AgriEngineering.2024; 6(3): 2366. CrossRef
A Novel Dry-Cured Ham Broth-Derived Peptide JHBp2 Effectively Inhibits Salmonella typhimurium In Vitro: Integrated Metabolomic, Proteomic, and Molecular Simulation Analyses
Ziyi Yang, Zixu Wang, Ruoxin Wang, Wangang Zhang
Journal of Agricultural and Food Chemistry.2024; 72(25): 14433. CrossRef
Exploring the nematicidal mechanisms and control efficiencies of oxalic acid producing Aspergillus tubingensis WF01 against root-knot nematodes
Zhong-Yan Yang, Yuan-Chen Dai, Yuan-Qi Mo, Jia-Lun Wang, Li Ma, Pei-Ji Zhao, Ying Huang, Rui-Bin Wang, Wei Li, Salim S. Al-Rejaie, Jian-Jin Liu, Yi Cao, Ming-He Mo
Frontiers in Microbiology.2024;[Epub] CrossRef
Identification of the Ilex macrocarpa anthracnose pathogen and the antifungal potential of the cell-free supernatant of Bacillus velezensis against Colletotrichum fioriniae
Chun Fu, Shushan Wan, Peng Yang, Xizhu Zhao, Yueyao Yan, Shijiao Jiang, Habib Ali
Frontiers in Microbiology.2024;[Epub] CrossRef
Transcriptome profiling reveals the impact of various levels of biochar application on the growth of flue-cured tobacco plants
Yingfen Yang, Waqar Ahmed, Gang Wang, Chenghu Ye, Shichen Li, Meiwei Zhao, Jinhao Zhang, Junjie Wang, Saleh H. Salmen, Lianzhang Wu, Zhengxiong Zhao
BMC Plant Biology.2024;[Epub] CrossRef
Rice Varieties Intercropping Induced Soil Metabolic and Microbial Recruiting to Enhance the Rice Blast (Magnaporthe Oryzae) Resistance
Xiao-Qiao Zhu, Mei Li, Rong-Ping Li, Wen-Qiang Tang, Yun-Yue Wang, Xiao Fei, Ping He, Guang-Yu Han
Metabolites.2024; 14(9): 507. CrossRef
Characterization of a broad-spectrum antifungal strain, Streptomyces graminearus STR-1, against Magnaporthe oryzae
Wenyuan Shen, Renju Liu, Jiazheng Wang, Maolan Yang, Tuo Qi, Guosong Shu, Min He, Xuewei Chen
Frontiers in Microbiology.2024;[Epub] CrossRef
Evaluation of the novel endophytic fungus Chaetomium ascotrichoides 1‐24‐2 from Pinus massoniana as a biocontrol agent against pine wilt disease caused by Bursaphelenchus xylophilus
Md Kamaruzzaman, Lijun Zheng, Shun Zhou, Wenhua Ye, Yongqiang Yuan, Qiu Qi, Yongfeng Gao, Jiajin Tan, Yan Wang, Bingjia Chen, Zhiguang Li, Songsong Liu, Renjun Mi, Ke Zhang, Chen Zhao, Waqar Ahmed, Xinrong Wang
Pest Management Science.2024; 80(10): 4924. CrossRef
Whole-genome sequencing and comparative genome analysis of Xanthomonas fragariae YM2 causing angular leaf spot disease in strawberry
Yue Qiu, Fangjun Wei, Han Meng, Menglin Peng, Jinhao Zhang, Yilu He, Lanfang Wei, Waqar Ahmed, Guanghai Ji
Frontiers in Plant Science.2023;[Epub] CrossRef
Genetic Basis and Expression Pattern Indicate the Biocontrol Potential and Soil Adaption of Lysobacter capsici CK09
Pu Yang, Chaofan Qu, Miaomiao Yuan, Bo Xi, Xiu Jia, Ben Zhang, Lizhen Zhang
Microorganisms.2023; 11(7): 1768. CrossRef
Seed coat treatment by plant-growth-promoting rhizobacteria Lysobacter antibioticus 13–6 enhances maize yield and changes rhizosphere bacterial communities
Zhenlin Dai, Waqar Ahmed, Jun Yang, Xiuying Yao, Jinhao Zhang, Lanfang Wei, Guanghai Ji
Biology and Fertility of Soils.2023; 59(3): 317. CrossRef
The Antibacterial Effect of Selected Essential Oils and Their Bioactive Constituents on Pseudomonas savastanoi pv. savastanoi: Phytotoxic Properties and Potential for Future Olive Disease Control
Laura Košćak, Janja Lamovšek, Edyta Đermić, Sara Godena
Microorganisms.2023; 11(11): 2735. CrossRef
Plant-Microbe Interaction: Mining the Impact of Native Bacillus amyloliquefaciens WS-10 on Tobacco Bacterial Wilt Disease and Rhizosphere Microbial Communities
Waqar Ahmed, Zhenlin Dai, Jinhao Zhang, Shichen Li, Ayesha Ahmed, Shahzad Munir, Qi Liu, Yujiao Tan, Guanghai Ji, Zhengxiong Zhao, Lindsey Price Burbank
Microbiology Spectrum.2022;[Epub] CrossRef

Potato tillage method is associated with soil microbial communities, soil chemical properties, and potato yield: Haiyan Ma , Chen Xie , Shunlin Zheng , Peihua Li , Hafsa Nazir Cheema , Jing Gong , Zhuqing Xiang , Juanjuan Liu , Jiahao Qin; J. Microbiol. 2022;60(2):156-166. Published online January 7, 2022; DOI: https://doi.org/10.1007/s12275-022-1060-0

50 View
0 Download
9 Web of Science
7 Crossref

Abstract

Intensive potato continuous cropping (IPCC) results in low potato yields compared with non-intensive potato continuous cropping (PCC) and potato-maize rotation (PMRC). However, it is still unclear whether the degree of potato continuous cropping obstacle is related to the soil environment formed by the previous crop. To investigate the effect of planting potatoes and planting maize after harvesting the spring potatoes on soil chemical properties and soil microbial community structure, an experiment was carried out in the same origin soil environment over a period of seven years: (a) PCC, i.e., spring planting; (b) IPCC, i.e., autumn and spring planting (IPCC); (c) PMRC, i.e., spring potatoes and summer maize (PMRC), and (d) fallow (CK). We confirmed that the potato yield under PMRC was significantly higher than that under PCC and IPCC. Under IPCC, soil total phosphorus content was significantly higher than other treatments, whereas ammonium nitrogen content was the lowest. Compared with PCC and IPCC, PMRC had a higher ammonium nitrogen content and lower total phosphorus content. The significantly different fungal taxa in IPCC (Glomerellales, Plectosphaerella, Thelebolales) may threaten the health of the plant and positive correlated with soil total phosphorus, while other microbial taxa in PMRC (Bacillales, Polythrincium, Helotiales) can mainly promotes plant nitrogen uptake and protects plants against diseases. The PMRC-promoting taxa were positively correlated with the ammonium nitrogen content and negative correlated with soil total phosphorus content. In summary, the cropping systems might have affected potato yields by changed soil microorganism community structures – especially fungal community structures – and by the chemical properties of the soils that also depends on microbes.

Citations

Citations to this article as recorded by

Impact of Different Tillage and Residue Retention Practices on Soil Nutrients, Microbial Community Composition and Grain Yield of Malt Barley
Om Parkash Ahlawat, Anil Khippal, Karnam Venkatesh, Rajender Singh Chhokar, Subhash Chander Gill, Prem Lal Kashyap, Ajit Singh Kharub, Lokendra Kumar, Neeraj Kumar, Anu Sharma, Kamini Kumari, Sonia Sheoran, Gyanendra Singh
Journal of Soil Science and Plant Nutrition.2024; 24(4): 7651. CrossRef
Identification of Meloidogyne panyuensis (Nematoda: Meloidogynidae) infecting Orah (Citrus reticulata Blanco) and its impact on rhizosphere microbial dynamics: Guangxi, China
Xiaoxiao Zhang, Wei Zhao, Yuming Lin, Bin Shan, Shanshan Yang
PeerJ.2024; 12: e18495. CrossRef
Rotational strip intercropping of maize and peanut enhances productivity by improving crop photosynthetic production and optimizing soil nutrients and bacterial communities
Xiaoxia Zou, Yan Liu, Mingming Huang, Feng Li, Tong Si, Yuefu Wang, Xiaona Yu, Xiaojun Zhang, Haixin Wang, Puxiang Shi
Field Crops Research.2023; 291: 108770. CrossRef
Inclusion of peanut in wheat–maize rotation increases wheat yield and net return and improves soil organic carbon pool by optimizing bacterial community
Xiao-xia ZOU, Ming-ming HUANG, Yan LIU, Tong SI, Xiao-jun ZHANG, Xiao-na YU, Feng GUO, Shu-bo WAN
Journal of Integrative Agriculture.2023; 22(11): 3430. CrossRef
Shifts in soil microbial diversity and functions during continuous cropping of strawberry
Tongyi Yang, Deli Zhai, Xu Ding, Zechong Guo, Yuyuan Zhao
Land Degradation & Development.2023; 34(15): 4810. CrossRef
Differences in microbial communities and potato growth in two soil types under organic cultivation
Wei Tian, Benge Zou, Shujing Xu, Yinghao Xu, Ruifeng Zhang, Li Li, Yali Jing, Mengzhen Wang, Yingyu Zhuang, Jianlong Liu, Chenglin Liang
3 Biotech.2023;[Epub] CrossRef
Impact of extended dryland crop rotation on sustained potato cultivation in Northwestern China
Yuhui Liu, Zhitao Li, Yuanming Li, Zhen Liu, Fu Chen, Zhenzhen Bi, Chao Sun, Caimei Tang, Panfeng Yao, Anming Yuan, Junlian Zhang, Yantai Gan, Jiangping Bai, Xiaojing Zhang
Resources, Conservation and Recycling.2023; 197: 107114. CrossRef

Microbial community analysis using high-throughput sequencing technology: a beginner’s guide for microbiologists: Jihoon Jo , Jooseong Oh , Chungoo Park; J. Microbiol. 2020;58(3):176-192. Published online February 27, 2020; DOI: https://doi.org/10.1007/s12275-020-9525-5

45 View
0 Download
43 Web of Science
41 Crossref

Abstract

Microbial communities present in diverse environments from deep seas to human body niches play significant roles in the complex ecosystem and human health. Characterizing their structural and functional diversities is indispensable, and many approaches, such as microscopic observation, DNA fingerprinting, and PCR-based marker gene analysis, have been successfully applied to identify microorganisms. Since the revolutionary improvement of DNA sequencing technologies, direct and high-throughput analysis of genomic DNA from a whole environmental community without prior cultivation has become the mainstream approach, overcoming the constraints of the classical approaches. Here, we first briefly review the history of environmental DNA analysis applications with a focus on profiling the taxonomic composition and functional potentials of microbial communities. To this end, we aim to introduce the shotgun metagenomic sequencing (SMS) approach, which is used for the untargeted (“shotgun”) sequencing of all (“meta”) microbial genomes (“genomic”) present in a sample. SMS data analyses are performed in silico using various software programs; however, in silico analysis is typically regarded as a burden on wet-lab experimental microbiologists. Therefore, in this review, we present microbiologists who are unfamiliar with in silico analyses with a basic and practical SMS data analysis protocol. This protocol covers all the bioinformatics processes of the SMS analysis in terms of data preprocessing, taxonomic profiling, functional annotation, and visualization.

Citations

Citations to this article as recorded by

Current updates on metabolites and its interlinked pathways as biomarkers for diabetic kidney disease: A systematic review
Soumik Das, V Devi Rajeswari, Ganesh Venkatraman, Ramprasad Elumalai, Sivaraman Dhanasekaran, Gnanasambandan Ramanathan
Translational Research.2024; 265: 71. CrossRef
The Role of Soil Microbiome in Driving Plant Performance: An Overview Based on Ecological and Ecosystem Advantages to the Plant Community
Grace Gachara, Jihane Kenfaoui, Rashid Suleiman, Beatrice Kilima, Mohammed Taoussi, Kamal Aberkani, Zineb Belabess, Abdelilah Meddich, Nadia Handaq, Salah-Eddine Laasli, Essaid Ait Barka, Rachid Lahlali
Journal of Crop Health.2024; 76(1): 3. CrossRef
Comparison of Culture-Dependent and Culture-Independent Methods for Routine Identification of Airborne Microorganisms in Speleotherapeutic Caves
Rok Tomazin, Tjaša Cerar Kišek, Tea Janko, Tina Triglav, Katja Strašek Smrdel, Vesna Cvitković Špik, Andreja Kukec, Janez Mulec, Tadeja Matos
Microorganisms.2024; 12(7): 1427. CrossRef
The infants’ gut microbiome: setting the stage for the early onset of obesity
Yvonne Vallès, Muhammad Arshad, Mamoun Abdalbaqi, Claire K. Inman, Amar Ahmad, Nizar Drou, Kristin C. Gunsalus, Raghib Ali, Muna Tahlak, Abdishakur Abdulle
Frontiers in Microbiology.2024;[Epub] CrossRef
Metabarcoding of zooplankton communities of Dianchi Lake based on the mitochondrial cytochrome oxidase subunit 1 gene
Fu Cen, Shan Xu, Genshen Yin, Minghua Dong
Frontiers in Microbiology.2024;[Epub] CrossRef
Rational construction of synthetic consortia: Key considerations and model-based methods for guiding the development of a novel biosynthesis platform
Yu Liu, Boyuan Xue, Hao Liu, Shaojie Wang, Haijia Su
Biotechnology Advances.2024; 72: 108348. CrossRef
Genome mining of Mycobacterium tuberculosis: targeting SufD as a novel drug candidate through in silico characterization and inhibitor screening
Neelima Gorityala, Anthony Samit Baidya, Someswar R. Sagurthi
Frontiers in Microbiology.2024;[Epub] CrossRef
Human oral microbiome as forensic biomarkers for individual identification: A systematic review
Vezhavendhan Nagaraj, Vidhya Arumugam, Sivaramakrishnan Muthanandam, Santhadevy Arumugam, Dhamodharan Ramasamy
Indian Journal of Microbiology Research.2024; 11(4): 230. CrossRef
Whole-genome resequencing highlights the phycosphere microbial network in global populations of the edible kelp Undaria pinnatifida
Jihoon Jo, Hyun Hee Hong, Louis Graf, Che Ok Jeon, Hwan Su Yoon
Algal Research.2024; 82: 103656. CrossRef
Overlooked drivers of the greenhouse effect: The nutrient-methane nexus mediated by submerged macrophytes
Jichun Mu, Zhenhan Li, Quanlin Lu, Hongwei Yu, Chengzhi Hu, Yujing Mu, Jiuhui Qu
Water Research.2024; 266: 122316. CrossRef
The diversity of endophytic fungi in Tartary buckwheat (Fagopyrum tataricum) and its correlation with flavonoids and phenotypic traits
Meiqi Chen, Ziqi Ding, Min Zhou, Yukun Shang, Chenglei Li, Qingfeng Li, Tongliang Bu, Zizhong Tang, Hui Chen
Frontiers in Microbiology.2024;[Epub] CrossRef
A metagenomic assessment of bacterial community in spices sold open-air markets in Saint-Louis, Senegal
Sarbanding Sané, Abou Abdallah Malick Diouara, Seynabou Coundoul, Sophie Déli Tene, Alé Kane, Serigne Fallou Wade, Abdoulaye Tamba, Mamadou Diop, Mame Ndew Mbaye, Fatou Thiam, Modou Dieng, Malick Mbengue, Cheikh Momar Nguer, Aminata Diassé Sarr, Ababacar
Scientific Reports.2024;[Epub] CrossRef
Community Diversity of Fungi Carried by Four Common Woodpeckers in Heilongjiang Province, China
Wenhui Shi, Iram Maqsood, Keying Liu, Meichen Yu, Yuhui Si, Ke Rong
Journal of Fungi.2024; 10(6): 389. CrossRef
Use of microbiological data for the purposes of forensic medical examination
O.S. Lavrukova, N.A. Sidorova
Forensic Medical Expertise.2024; 67(5): 55. CrossRef
Integrating microbiome and transcriptome analyses to understand the effect of replacing fishmeal with Tenebrio molitor meal in Pacific white shrimp (Litopenaeus vannamei) diets
Yudong Zheng, Cuihong Hou, Jian Chen, Hongming Wang, Hang Yuan, Naijie Hu, Lili Shi, Shuang Zhang
Aquaculture.2023; 575: 739818. CrossRef
The Future Is Now: Unraveling the Expanding Potential of Human (Necro)Microbiome in Forensic Investigations
Ana Cláudia-Ferreira, Daniel José Barbosa, Veroniek Saegeman, Amparo Fernández-Rodríguez, Ricardo Jorge Dinis-Oliveira, Ana R. Freitas
Microorganisms.2023; 11(10): 2509. CrossRef
Plant-microbiome interactions under drought—insights from the molecular machinist’s toolbox
Mohamed Ait-El-Mokhtar, Abdelilah Meddich, Marouane Baslam
Frontiers in Sustainable Food Systems.2023;[Epub] CrossRef
ResMiCo: Increasing the quality of metagenome-assembled genomes with deep learning
Olga Mineeva, Daniel Danciu, Bernhard Schölkopf, Ruth E. Ley, Gunnar Rätsch, Nicholas D. Youngblut, Luis Pedro Coelho
PLOS Computational Biology.2023; 19(5): e1011001. CrossRef
Response of dissolved organic matter (DOM) and microbial community to submerged macrophytes restoration in lakes: A review
Haoyu Ren, Guoxi Wang, Wanchang Ding, He Li, Xian Shen, Dongbo Shen, Xia Jiang, Abdul Qadeer
Environmental Research.2023; 231: 116185. CrossRef
Integrative approach for classifying male tumors based on DNA methylation 450K data
Ji-Ming Wu, Wang-Ren Qiu, Zi Liu, Zhao-Chun Xu, Shou-Hua Zhang
Mathematical Biosciences and Engineering.2023; 20(11): 19133. CrossRef
Impact of coprophagy prevention on the growth performance, serum biochemistry, and intestinal microbiome of rabbits
Zhitong Wang, Hui He, Mengjuan Chen, Mengke Ni, Dongdong Yuan, Hanfang Cai, Zhi Chen, Ming Li, Huifen Xu
BMC Microbiology.2023;[Epub] CrossRef
The roles of gut microbiota and its metabolites in diabetic nephropathy
Hui Zhao, Cheng-E Yang, Tian Liu, Ming-Xia Zhang, Yan Niu, Ming Wang, Jun Yu
Frontiers in Microbiology.2023;[Epub] CrossRef
Structure and ecological function of the soil microbiome associated with ‘Sanghuang’ mushrooms suffering from fungal diseases
Weifang Xu, Tao Sun, Jiahui Du, Shuqing Jin, Ying Zhang, Guofa Bai, Wanyu Li, Dengke Yin
BMC Microbiology.2023;[Epub] CrossRef
Analysis of differences in tobacco leaf microbial communities after redrying in Chinese provinces and from abroad
Yifan Zhang, Qiang Xu, Mengmeng Yang, Yue Yang, Jincun Fu, Chenlin Miao, Guiyao Wang, Liwei Hu, Zongyu Hu
AMB Express.2023;[Epub] CrossRef
Learning from mistakes: challenges in finding holobiont factors from environmental samples and the importance of methodological consistency
So Fujiyoshi, Kyoko Yarimizu, Ishara Perera, Michel Abanto, Milko Jorquera, Fumito Maruyama
Current Opinion in Biotechnology.2023; 80: 102897. CrossRef
Structural and functional characteristics of soil microbial community in a Pinus massoniana forest at different elevations
Jian Zhang, Ming Xu, Xiao Zou, Jin Chen
PeerJ.2022; 10: e13504. CrossRef
Does filter pore size introduce bias in DNA sequence-based plankton community studies?
Guolin Ma, Ramiro Logares, Yuanyuan Xue, Jun Yang
Frontiers in Microbiology.2022;[Epub] CrossRef
What will polyethylene film mulching bring to the root-associated microbial community of Paeonia ostii?
Yingdan Yuan, Mengting Zu, Jiajia Zuo, Runze Li, Jun Tao
Applied Microbiology and Biotechnology.2022; 106(12): 4737. CrossRef
Differences in Supragingival Microbiome in Patients with and without Full-Crown Prostheses
Manli Guo, Zhidong Zhang, Jiyuan Lu, Di Wang, Yimin Yan, Shen Zhang, Xin Yu, Songhua Su, Lu Yuan, Zhige Li, Baoping Zhang
Dentistry Journal.2022; 10(8): 152. CrossRef
Recent advances in droplet microfluidics for microbiology
Ziyi He, Hao Wu, Xianghua Yan, Wu Liu
Chinese Chemical Letters.2022; 33(4): 1729. CrossRef
The root microbiome: Community assembly and its contributions to plant fitness
Bo Bai, Weidong Liu, Xingyu Qiu, Jie Zhang, Jingying Zhang, Yang Bai
Journal of Integrative Plant Biology.2022; 64(2): 230. CrossRef
Analysis on the Structure and Function of the Bacterial Community in the Replanting Soil of Basswood of Ganoderma lingzhi Medicinal Mushroom (Agaricomycetes)
Tiantian Wang, Wenxin Liu, Jize Xu, Muhammad Idrees, Yi Zhou, Guangbo Xu, Jian Shen, Chunlan Zhang
International Journal of Medicinal Mushrooms.2022; 24(10): 45. CrossRef
Ecosystem-specific microbiota and microbiome databases in the era of big data
Victor Lobanov, Angélique Gobet, Alyssa Joyce
Environmental Microbiome.2022;[Epub] CrossRef
Omics-based microbiome analysis in microbial ecology: from sequences to information
Jang-Cheon Cho
Journal of Microbiology.2021; 59(3): 229. CrossRef
Monitoring of plankton diversity in Dianchi Lake by environmental DNA technology
Liwei He, Lijuan Zhang, Jianghua Yang, Zheng Zhao, Xiaohua Zhou, Qing Feng, Xiaowei Zhang, Shan Xu
IOP Conference Series: Earth and Environmental Science.2021; 651(4): 042023. CrossRef
Fecal Microbiome Composition Does Not Predict Diet‐Induced TMAO Production in Healthy Adults
Marc Ferrell, Peter Bazeley, Zeneng Wang, Bruce S. Levison, Xinmin S. Li, Xun Jia, Ronald M. Krauss, Rob Knight, Aldons J. Lusis, J. C. Garcia‐Garcia, Stanley L. Hazen, W. H. Wilson Tang
Journal of the American Heart Association.2021;[Epub] CrossRef
Roles of Gut Microbial Metabolites in Diabetic Kidney Disease
Qing Fang, Na Liu, Binjie Zheng, Fei Guo, Xiangchang Zeng, Xinyi Huang, Dongsheng Ouyang
Frontiers in Endocrinology.2021;[Epub] CrossRef
A Review of the Molluscan Microbiome: Ecology, Methodology and Future
Bridget Chalifour, Jingchun Li
Malacologia.2021;[Epub] CrossRef
Microbial-induced concrete corrosion under high-salt conditions: Microbial community composition and environmental multivariate association analysis
Jingya Zhou, Shouyi Yin, Qionglin Fu, Qingqing Wang, Qing Huang, Junfeng Wang
International Biodeterioration & Biodegradation.2021; 164: 105287. CrossRef
User guides for biologists to learn computational methods
Dokyun Na
Journal of Microbiology.2020; 58(3): 173. CrossRef
High-throughput cultivation based on dilution-to-extinction with catalase supplementation and a case study of cultivating acI bacteria from Lake Soyang
Suhyun Kim, Miri S. Park, Jaeho Song, Ilnam Kang, Jang-Cheon Cho
Journal of Microbiology.2020; 58(11): 893. CrossRef

Setup of a scientific computing environment for computational biology: Simulation of a genome-scale metabolic model of Escherichia coli as an example: Junhyeok Jeon , Hyun Uk Kim; J. Microbiol. 2020;58(3):227-234. Published online February 27, 2020; DOI: https://doi.org/10.1007/s12275-020-9516-6

45 View
0 Download
6 Web of Science
5 Crossref

Abstract

Computational analysis of biological data is becoming increasingly important, especially in this era of big data. Computational analysis of biological data allows efficiently deriving biological insights for given data, and sometimes even counterintuitive ones that may challenge the existing knowledge. Among experimental researchers without any prior exposure to computer programming, computational analysis of biological data has often been considered to be a task reserved for computational biologists. However, thanks to the increasing availability of user-friendly computational resources, experimental researchers can now easily access computational resources, including a scientific computing environment and packages necessary for data analysis. In this regard, we here describe the process of accessing Jupyter Notebook, the most popular Python coding environment, to conduct computational biology. Python is currently a mainstream programming language for biology and biotechnology. In particular, Anaconda and Google Colaboratory are introduced as two representative options to easily launch Jupyter Notebook. Finally, a Python package COBRApy is demonstrated as an example to simulate 1) specific growth rate of Escherichia coli as well as compounds consumed or generated under a minimal medium with glucose as a sole carbon source, and 2) theoretical production yield of succinic acid, an industrially important chemical, using E. coli. This protocol should serve as a guide for further extended computational analyses of biological data for experimental researchers without computational background.

Citations

Citations to this article as recorded by

The Application of Web‐Based Scientific Computing System in Innovation and Entrepreneurship
Tingli Cheng, Lele Qin
Discrete Dynamics in Nature and Society.2022;[Epub] CrossRef
Numerical Analysis and Scientific Calculation Considering the Management Mechanism of College Students’ Innovation and Entrepreneurship Education
Sheng Wang, Xiantao Jiang
Mathematical Problems in Engineering.2022; 2022: 1. CrossRef
Omics-based microbiome analysis in microbial ecology: from sequences to information
Jang-Cheon Cho
Journal of Microbiology.2021; 59(3): 229. CrossRef
Genome-Scale Metabolic Modeling Enables In-Depth Understanding of Big Data
Anurag Passi, Juan D. Tibocha-Bonilla, Manish Kumar, Diego Tec-Campos, Karsten Zengler, Cristal Zuniga
Metabolites.2021; 12(1): 14. CrossRef
User guides for biologists to learn computational methods
Dokyun Na
Journal of Microbiology.2020; 58(3): 173. CrossRef

Rhizocompartments and environmental factors affect microbial composition and variation in native plants: Myung-Suk Kang , Moonsuk Hur , Soo-Je Park; J. Microbiol. 2019;57(7):550-561. Published online June 27, 2019; DOI: https://doi.org/10.1007/s12275-019-8646-1

55 View
0 Download
10 Web of Science
9 Crossref

Abstract

Molecular analysis based on large-scale sequencing of the plant microbiota has revealed complex relationships between plants and microbial communities, and environmental factors such as soil type can influence these relationships. However, most studies on root-associated microbial communities have focused on model plants such as Arabidopsis, rice or crops. Herein, we examined the microbiota of rhizocompartments of two native plants, Sedum takesimense Nakai and Campanula takesimana Nakai, using archaeal and bacterial 16S rRNA gene amplicon profiling, and assessed relationships between environmental factors and microbial community composition. We identified 390 bacterial genera, including known plant-associated genera such as Pseudomonas, Flavobacterium, Bradyrhizobium and Rhizobium, and uncharacterized clades such as DA101 that might be important in root-associated microbial communities in bulk soil. Unexpectedly, Nitrososphaera clade members were abundant, indicating functional association with roots. Soil texture/type has a greater impact on microbial community composition in rhizocompartments than chemical factors. Our results provide fundamental knowledge on microbial diversity, community and correlations with environmental factors, and expand our understanding of the microbiota in rhizocompartments of native plants.

Citations

Citations to this article as recorded by

Ammonium bicarbonate alleviates apple replant disease: Inhibiting Fusarium and improving soil environment
Mei Wang, Li Xiang, Weixiao Tang, Xuesen Chen, Chuanrong Li, Chengmiao Yin, Zhiquan Mao
Scientia Horticulturae.2024; 325: 112652. CrossRef
Regulation of root-associated microbiomes and root exudates by different tobacco species
Mengli Gu, Jingjing Jin, Peng Lu, Shizhou Yu, Huan Su, Haihong Shang, Zhixiao Yang, Jianfeng Zhang, Peijian Cao, Jiemeng Tao
Chemical and Biological Technologies in Agriculture.2024;[Epub] CrossRef
MAPK Cascades in Plant Microbiota Structure and Functioning
Thijs Van Gerrewey, Hoo Sun Chung
Journal of Microbiology.2024; 62(3): 231. CrossRef
Land-use change alters the bacterial community structure, but not forest management
Viviana Rodríguez Rivera, Yendi E. Navarro-Noya, Luc Dendooven, Marco Luna Guido
Folia Microbiologica.2023; 68(2): 277. CrossRef
Soil Microbial Communities Associated with Three Arctic Plants in Different Local Environments in Ny–Ålesund, Svalbard
Deokjoo Son, Eun Ju Lee
Journal of Microbiology and Biotechnology.2022; 32(10): 1275. CrossRef
The root microbiome: Community assembly and its contributions to plant fitness
Bo Bai, Weidong Liu, Xingyu Qiu, Jie Zhang, Jingying Zhang, Yang Bai
Journal of Integrative Plant Biology.2022; 64(2): 230. CrossRef
Full Issue PDF

Phytobiomes Journal.2020; 4(2): 103. CrossRef
Tomato-Associated Archaea Show a Cultivar-Specific Rhizosphere Effect but an Unspecific Transmission by Seeds
Julian Taffner, Alessandro Bergna, Tomislav Cernava, Gabriele Berg
Phytobiomes Journal.2020; 4(2): 133. CrossRef
Influence of dragon bamboo with different planting patterns on microbial community and physicochemical property of soil on sunny and shady slopes
Weiyi Liu, Fang Wang, Yanmei Sun, Lei Yang, Huihai Chen, Weijie Liu, Bin Zhu, Chaomao Hui, Shiwei Wang
Journal of Microbiology.2020; 58(11): 906. CrossRef

Review

[MINIREVIEW] Interdependence between iron acquisition and biofilm formation in Pseudomonas aeruginosa: Donghoon Kang , Natalia V. Kirienko; J. Microbiol. 2018;56(7):449-457. Published online June 14, 2018; DOI: https://doi.org/10.1007/s12275-018-8114-3

46 View
0 Download
81 Crossref

Abstract

Bacterial biofilms remain a persistent threat to human healthcare due to their role in the development of antimicrobial resistance. To combat multi-drug resistant pathogens, it is crucial to enhance our understanding of not only the regulation of biofilm formation, but also its contribution to bacterial virulence. Iron acquisition lies at the crux of these two subjects. In this review, we discuss the role of iron acquisition in biofilm formation and how hosts impede this mechanism to defend against pathogens. We also discuss recent findings that suggest that biofilm formation can also have the reciprocal effect, influencing siderophore production and iron sequestration.

Citations

Citations to this article as recorded by

Metal chelation as an antibacterial strategy for Pseudomonas aeruginosa and Acinetobacter baumannii
Martina M. Golden, Amelia C. Heppe, Cassandra L. Zaremba, William M. Wuest
RSC Chemical Biology.2024; 5(11): 1083. CrossRef
Iron transport pathways in the human malaria parasite Plasmodium falciparum revealed by RNA-sequencing
Juliane Wunderlich, Vadim Kotov, Lasse Votborg-Novél, Christina Ntalla, Maria Geffken, Sven Peine, Silvia Portugal, Jan Strauss
Frontiers in Cellular and Infection Microbiology.2024;[Epub] CrossRef
Taxonomic and functional characterization of biofilms from a photovoltaic panel reveals high genetic and metabolic complexity of the communities
Viviane Faria Morais Jotta, Glen Jasper Yupanqui García, Paula Luize Camargos Fonseca, Angela de Mello Ferreira, Vasco Azevedo, Bertram Brenig, Aristóteles Góes-Neto, Fernanda Badotti
Journal of Applied Microbiology.2024;[Epub] CrossRef
Global transcriptome analysis of Pseudomonas aeruginosa NT06 response to potassium chloride, sodium lactate, sodium citrate, and microaerophilic conditions in a fish ecosystem
Natalia Tomaś, Kamila Myszka, Łukasz Wolko, Wojciech Juzwa
FEMS Microbiology Letters.2024;[Epub] CrossRef
Compassionate use of cefiderocol in a complex case of extensively drug-resistant Acinetobacter baumannii fracture-related infection: a comprehensive approach and multidisciplinary management
Flavia Petrucci, Beatrice Perciballi, Marco Rivano Capparuccia, Giancarlo Iaiani, Federico Lo Torto, Diego Ribuffo, Stefano Gumina, Daniele De Meo
Infection.2024; 52(6): 2487. CrossRef
Ultrafiltration (UF) and biological oxygen-dosed activated carbon (BODAC) filtration to prevent fouling of reversed osmosis (RO) membranes: A mass balance analysis
Sara Ribeiro Pinela, Amanda Larasati, Roel J.W. Meulepas, Maria Cristina Gagliano, Robbert Kleerebezem, Harry Bruning, Huub H.M. Rijnaarts
Journal of Water Process Engineering.2024; 57: 104648. CrossRef
Deferiprone-Gallium-Protoporphyrin Chitogel Decreases Pseudomonas aeruginosa Biofilm Infection without Impairing Wound Healing
Tahlia L. Kennewell, Hanif Haidari, Suzanne Mashtoub, Gordon S. Howarth, Catherine Bennett, Clare M. Cooksley, Peter John Wormald, Allison J. Cowin, Sarah Vreugde, Zlatko Kopecki
Materials.2024; 17(4): 793. CrossRef
Antimicrobial activity of iron-depriving pyoverdines against human opportunistic pathogens
Vera Vollenweider, Karoline Rehm, Clara Chepkirui, Manuela Pérez-Berlanga, Magdalini Polymenidou, Jörn Piel, Laurent Bigler, Rolf Kümmerli
eLife.2024;[Epub] CrossRef
Influence of carbonyl cyanide m-chlorophenyl hydrazone on biofilm dynamics, protease, and siderophore production by Burkholderia pseudomallei
Glaucia Morgana de Melo Guedes, Crister José Ocadaque, Bruno Rocha Amando, Alyne Soares Freitas, Vinicius Carvalho Pereira, Rossana de Aguiar Cordeiro, Silviane Praciano Bandeira, Pedro Filho Noronha Souza, Marcos Fábio Gadelha Rocha, José Júlio Costa Sid
Biofouling.2024; 40(8): 514. CrossRef
Siderophores: A Case Study in Translational Chemical Biology
Andrew R. LeBlanc, William M. Wuest
Biochemistry.2024; 63(15): 1877. CrossRef
Pseudomonas aeruginosa kills Staphylococcus aureus in a polyphosphate-dependent manner
Ritika Shah, Julius Kwesi Narh, Magdalena Urlaub, Olivia Jankiewicz, Colton Johnson, Barry Livingston, Jan-Ulrik Dahl, Craig D. Ellermeier
mSphere.2024;[Epub] CrossRef
Deferiprone and Gallium-Protoporphyrin Chitogel as an antimicrobial treatment: Preclinical studies demonstrating antimicrobial activity for S. aureus infected cutaneous wounds
T.L. Kennewell, H. Haidari, S. Mashtoub, G.S. Howarth, P.J. Wormald, A.J. Cowin, S. Vreugde, Z. Kopecki
International Journal of Biological Macromolecules.2024; 276: 133874. CrossRef
In vitro lung epithelial cell model reveals novel roles for Pseudomonas aeruginosa siderophores
Donghoon Kang, Qi Xu, Natalia V. Kirienko, Giordano Rampioni
Microbiology Spectrum.2024;[Epub] CrossRef
In vitro effect of the iron chelator deferiprone on the antimicrobial susceptibility and biofilms of Burkholderia pseudomallei
Glaucia Morgana de Melo Guedes, Késia Veras Costa Ribeiro, Emanuela Silva de Araújo, Vinícius Carvalho Pereira, Ana Carla de Castro Freitas Soares, Alyne Soares Freitas, Rossana de Aguiar Cordeiro, José Júlio Costa Sidrim, Marcos Fábio Gadelha Rocha, Débo
Biofouling.2023; 39(2): 135. CrossRef
Gallium-enabled bactericidal medicine
Yong Liu, Fei Yang, Zixin Pan, Zhenzhen Fu, Xiaoli Jiang, Zhenping Cao, Juanjuan Li, Hao Wang
Materials Today.2023; 67: 548. CrossRef
Study on the inhibitory effect of quercetin combined with gentamicin on the formation of Pseudomonas aeruginosa and its bioenvelope
Shuangyan Luo, Xinyun Kang, Xiaofeng Luo, Caixia Li, Guiqin Wang
Microbial Pathogenesis.2023; 182: 106274. CrossRef
Antibiofilm activity of promethazine, deferiprone, and Manuka honey in an ex vivo wound model
Gláucia Morgana de Melo Guedes, Alyne Soares Freitas, Rodrigo Machado Pinheiro, Vinicius Carvalho Pereira, Carliane Melo Alves Melgarejo, Emanuela Silva de Araujo, Késia Veras Costa Ribeiro, Silviane Praciano Bandeira, Rossana de Aguiar Cordeiro, Marcos F
Letters in Applied Microbiology.2023;[Epub] CrossRef
Absence of proline-peptide transporter YjiY in Salmonella Typhimurium leads to secretion of factors which inhibits intra-species biofilm formation
Kasturi Chandra, Abhilash Vijay Nair, Ritika Chatterjee, Prerana Muralidhara, Anmol Singh, Sathisha Kamanna, Utpal S. Tatu, Dipshikha Chakravortty
Microbiological Research.2023; 273: 127411. CrossRef
Study on pyoverdine and biofilm production with detection of LasR gene in MDR Pseudomonas aeruginosa
Esraa H. Hamza, Ashraf M. El-Shawadfy, Ayman A. Allam, Wesam A. Hassanein
Saudi Journal of Biological Sciences.2023; 30(1): 103492. CrossRef
Mobilization of iron stored in bacterioferritin, a new target for perturbing iron homeostasis and developing antibacterial and antibiofilm molecules
Mario Rivera
Journal of Inorganic Biochemistry.2023; 247: 112306. CrossRef
Novel marine metalloprotease—new approaches for inhibition of biofilm formation of Stenotrophomonas maltophilia
Marie Kristin Peters, Yekaterina Astafyeva, Yuchen Han, Jascha F. H. Macdonald, Daniela Indenbirken, Jacqueline Nakel, Sanamjeet Virdi, Guido Westhoff, Wolfgang R. Streit, Ines Krohn
Applied Microbiology and Biotechnology.2023; 107(23): 7119. CrossRef
Legionella pneumophila Rhizoferrin Promotes Bacterial Biofilm Formation and Growth within Amoebae and Macrophages
Alberto E. Lopez, Lubov S. Grigoryeva, Armando Barajas, Nicholas P. Cianciotto, Craig R. Roy
Infection and Immunity.2023;[Epub] CrossRef
The action of phytochemicals in biofilm control
Ariana S. C. Gonçalves, Miguel M. Leitão, Manuel Simões, Anabela Borges
Natural Product Reports.2023; 40(3): 595. CrossRef
Virulence-associated genes and antimicrobial resistance patterns in bacteria isolated from pregnant and nonpregnant women with urinary tract infections: the risk of neonatal sepsis
Uriel A. Angulo-Zamudio, Hector Flores-Villaseñor, Nidia Leon-Sicairos, Dina Zazueta-Armenta, Francisco A. Martínez-Villa, Gabriela Tapia-Pastrana, Jorge Angulo-Rocha, Joel Murillo-Llanes, Mario Francisco Barajas-Olivas, Adrian Canizalez-Roman
Canadian Journal of Microbiology.2023; 69(12): 488. CrossRef
Insight into the Global Negative Regulation of Iron Scavenger 7-HT Biosynthesis by the SigW/RsiW System in Pseudomonas donghuensis HYS
Shiyu Teng, Tingting Wu, Donghao Gao, Siyi Wu, Yaqian Xiao, Yan Long, Zhixiong Xie
International Journal of Molecular Sciences.2023; 24(2): 1184. CrossRef
Host-microbe interactions in chronic rhinosinusitis biofilms and models for investigation
Emily J. Vanderpool, Kendra P. Rumbaugh
Biofilm.2023; 6: 100160. CrossRef
Mechanisms of iron homeostasis in Pseudomonas aeruginosa and emerging therapeutics directed to disrupt this vital process
Ana Sánchez‐Jiménez, Francisco J. Marcos‐Torres, María A. Llamas
Microbial Biotechnology.2023; 16(7): 1475. CrossRef
Host cell responses against the pseudomonal biofilm: A continued tale of host-pathogen interactions
Sathish Sankar, Pitchaipillai Sankar Ganesh, Suganya Subramaniam, Esaki M Shankar, Monal Yuwanati, Rajakumar Govindasamy, Muthu Thiruvengadam
Microbial Pathogenesis.2023; 174: 105940. CrossRef
Development of Gallium(III) as an Antimicrobial Drug Targeting Pathophysiologic Iron Metabolism of Human Pathogens
Zachary W. Scott, Seoung-ryoung Choi, Bradley E. Britigan, Prabagaran Narayanasamy
ACS Infectious Diseases.2023; 9(4): 716. CrossRef
Functionalized Amphiphilic Block Copolymers and Complex Emulsions for Selective Sensing of Dissolved Metals at Liquid–Liquid Interfaces
Tyler J. Durkin, Baishali Barua, Jamie J. Holmstrom, Vasiliki Karanikola, Suchol Savagatrup
Langmuir.2023; 39(36): 12845. CrossRef
Characterisation of Ferritin–Lymphocyte Ratio in COVID-19
Alexander Liu, Robert Hammond, Kenneth Chan, Chukwugozie Chukwuenweniwe, Rebecca Johnson, Duaa Khair, Eleanor Duck, Oluwaseun Olubodun, Kristian Barwick, Winston Banya, James Stirrup, Peter D. Donnelly, Juan Carlos Kaski, Anthony R. M. Coates
Biomedicines.2023; 11(10): 2819. CrossRef
Pseudomonas aeruginosa responds to altered membrane phospholipid composition by adjusting the production of two-component systems, proteases and iron uptake proteins
Muttalip Caliskan, Gereon Poschmann, Mirja Gudzuhn, Daniel Waldera-Lupa, Rebecka Molitor, Christoph Heinrich Strunk, Wolfgang R. Streit, Karl-Erich Jaeger, Kai Stühler, Filip Kovacic
Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids.2023; 1868(6): 159317. CrossRef
Biofilm formation in xenobiotic-degrading microorganisms
Pankaj Bhatt, Kalpana Bhatt, Yaohua Huang, Jiayi Li, Siyi Wu, Shaohua Chen
Critical Reviews in Biotechnology.2023; 43(8): 1129. CrossRef
Pathogenesis of the Pseudomonas aeruginosa Biofilm: A Review
Felipe Francisco Tuon, Leticia Ramos Dantas, Paula Hansen Suss, Victoria Stadler Tasca Ribeiro
Pathogens.2022; 11(3): 300. CrossRef
Molecular Technology for the Detection of Pyoviridine Gene in Pseudomonas aeruginosa Isolated from Burn Cases
Eman Nassir Hussan AL-Jesmany, Oruba Khalid Abbas, Basima QASIM Hasan AlSaadi
Mustansiriya Medical Journal.2022; 21(1): 23. CrossRef
Heme cross-feeding can augment Staphylococcus aureus and Enterococcus faecalis dual species biofilms
Jun-Hong Ch’ng, Mugil Muthu, Kelvin K L Chong, Jun Jie Wong, Casandra A Z Tan, Zachary J S Koh, Daniel Lopez, Artur Matysik, Zeus J Nair, Timothy Barkham, Yulan Wang, Kimberly A Kline
The ISME Journal.2022; 16(8): 2015. CrossRef
Human lactoferrin from breast milk: characterization by HPLC and its in vitro antibiofilm performance
Karina Jeanette Parra-Saavedra, Adriana Macaria Macias-Lamas, Jorge Manuel Silva-Jara, Josué Raymundo Solís-Pacheco, Pablo César Ortiz-Lazareno, Blanca Rosa Aguilar-Uscanga
Journal of Food Science and Technology.2022; 59(12): 4907. CrossRef
Elucidation of Iron(III) Bioleaching Properties of Gram-Positive Bacteria
Hao Jing, Zhao Liu, Jun Chen, Chun Loong Ho
ACS Omega.2022; 7(42): 37212. CrossRef
Proteomic and Transcriptomic Analyses Indicate Reduced Biofilm-Forming Abilities in Cefiderocol-Resistant Klebsiella pneumoniae
Jinfeng Bao, Lu Xie, Yating Ma, Ran An, Bing Gu, Chengbin Wang
Frontiers in Microbiology.2022;[Epub] CrossRef
Zeolite-supported biofilms as inoculants for the treatment of MCPA-polluted soil and sand by bioaugmentation: A microcosm study
Nataliia Gorodylova, Alain Seron, Karine Michel, Catherine Joulian, Fabian Delorme, Coralie Soulier, Sophie Bresch, Catherine Garreau, Fabien Giovannelli, Caroline Michel
Applied Soil Ecology.2022; 180: 104614. CrossRef
Bacterial Siderophores: Structure, Functions, and Role in the Pathogenesis of Infections
D. A. Kuznetsova, V. A. Rykova, O. N. Podladchikova
Problems of Particularly Dangerous Infections.2022; (3): 14. CrossRef
Harnessing microbial iron chelators to develop innovative therapeutic agents
Marta Ribeiro, Cátia A. Sousa, Manuel Simões
Journal of Advanced Research.2022; 39: 89. CrossRef
Understanding the Potential and Risk of Bacterial Siderophores in Cancer
Valentina Pita-Grisanti, Kaylin Chasser, Trevor Sobol, Zobeida Cruz-Monserrate
Frontiers in Oncology.2022;[Epub] CrossRef
Overexpression of pdeR promotes biofilm formation of Paracoccus denitrificans by promoting ATP production and iron acquisition
Na Wang, Jie Gao, Shujie Xiao, Guoqiang Zhuang
Frontiers in Microbiology.2022;[Epub] CrossRef
Impact of Fe2+ and Shear Stress on the Development and Mesoscopic Structure of Biofilms—A Bacillus subtilis Case Study
Luisa Gierl, Harald Horn, Michael Wagner
Microorganisms.2022; 10(11): 2234. CrossRef
Clinical Efficacy and In Vitro Drug Sensitivity Test Results of Azithromycin Combined With Other Antimicrobial Therapies in the Treatment of MDR P. aeruginosa Ventilator-Associated Pneumonia
Yuqin Huang, Wenguo Wang, Qiang Huang, Zhengyan Wang, Zhuanzhuan Xu, Chaochao Tu, Dongli Wan, Miaobo He, Xiaoyi Yang, Huaqiang Xu, Hanqin Wang, Ying Zhao, Mingli Tu, Quan Zhou
Frontiers in Pharmacology.2022;[Epub] CrossRef
Advancement of Gallium and Gallium-Based Compounds as Antimicrobial Agents
Fupeng Li, Fengxiang Liu, Kai Huang, Shengbing Yang
Frontiers in Bioengineering and Biotechnology.2022;[Epub] CrossRef
Genomic characterization of denitrifying methylotrophic Pseudomonas aeruginosa strain AAK/M5 isolated from municipal solid waste landfill soil
Ashish Kumar Singh, Rakesh Kumar Gupta, Hemant J. Purohit, Anshuman Arun Khardenavis
World Journal of Microbiology and Biotechnology.2022;[Epub] CrossRef
Pyoverdine Inhibitors and Gallium Nitrate Synergistically Affect Pseudomonas aeruginosa
Donghoon Kang, Alexey V. Revtovich, Alexander E. Deyanov, Natalia V. Kirienko, Patricia A. Bradford
mSphere.2021;[Epub] CrossRef
Pseudomonas aeruginosa: An Audacious Pathogen with an Adaptable Arsenal of Virulence Factors
Irene Jurado-Martín, Maite Sainz-Mejías, Siobhán McClean
International Journal of Molecular Sciences.2021; 22(6): 3128. CrossRef
Role of Tris-CaEDTA as an adjuvant with nebulised tobramycin in cystic fibrosis patients with Pseudomonas aeruginosa lung infections: A randomised controlled trial
Ramaa Puvvadi, Helga Mikkelsen, Lucy McCahon, Samantha Grogan, William Ditcham, David W. Reid, Iain Lamont, Stephen M. Stick, Barry Clements
Journal of Cystic Fibrosis.2021; 20(2): 316. CrossRef
Transcriptional profiling of Pseudomonas aeruginosa PAO1 in response to anti‐biofilm and anti‐infection agent exopolysaccharide EPS273
Z. Wu, R. Zheng, J. Zhang, S. Wu
Journal of Applied Microbiology.2021; 130(1): 265. CrossRef
Wolf in Sheep’s Clothing: Clostridioides difficile Biofilm as a Reservoir for Recurrent Infections
Jazmin Meza-Torres, Emile Auria, Bruno Dupuy, Yannick D. N. Tremblay
Microorganisms.2021; 9(9): 1922. CrossRef
Variability of the structure of winter microbial communities in Chelyabinsk lakes
S. V. Andreeva, Y. Y. Filippova, E. V. Devyatova, D. Y. Nokhrin
Biosystems Diversity.2021; 29(4): 311. CrossRef
The cystic fibrosis lung microenvironment alters antibiotic activity: causes and effects
Sara Van den Bossche, Emma De Broe, Tom Coenye, Eva Van Braeckel, Aurélie Crabbé
European Respiratory Review.2021; 30(161): 210055. CrossRef
Virulent and multidrug‐resistant Klebsiella pneumoniae from clinical samples in Balochistan
Sareeen Fatima, Faiza Liaqat, Ali Akbar, Muhammad Sahfee, Abdul Samad, Muhammad Anwar, Shazia Iqbal, Shabir Ahmad Khan, Haleema Sadia, Gul Makai, Anila Bahadur, Wajeeha Naeem, Adnan Khan
International Wound Journal.2021; 18(4): 510. CrossRef
Cefiderocol Retains Antibiofilm Activity in Multidrug-Resistant Gram-Negative Pathogens
Christine A. Pybus, Christina Felder-Scott, Victor Obuekwe, David E. Greenberg
Antimicrobial Agents and Chemotherapy.2021;[Epub] CrossRef
Let-7b-5p in vesicles secreted by human airway cells reduces biofilm formation and increases antibiotic sensitivity of P. aeruginosa
Katja Koeppen, Amanda Nymon, Roxanna Barnaby, Laura Bashor, Zhongyou Li, Thomas H. Hampton, Amanda E. Liefeld, Fred W. Kolling, Ian S. LaCroix, Scott A. Gerber, Deborah A. Hogan, Swetha Kasetty, Carey D. Nadell, Bruce A. Stanton
Proceedings of the National Academy of Sciences.2021;[Epub] CrossRef
High-Throughput Approaches for the Identification of Pseudomonas aeruginosa Antivirulents
Donghoon Kang, Liyang Zhang, Natalia V. Kirienko, Danielle A. Garsin
mBio.2021;[Epub] CrossRef
Antimicrobial activity of harzianic acid against Staphylococcus pseudintermedius
Anna De Filippis, Francesca Paola Nocera, Simona Tafuri, Francesca Ciani, Alessia Staropoli, Ernesto Comite, Assunta Bottiglieri, Laura Gioia, Matteo Lorito, Sheridan Lois Woo, Francesco Vinale, Luisa De Martino
Natural Product Research.2021; 35(23): 5440. CrossRef
Ex situ model of biofilm‐associated wounds: providing a host‐like environment for the study of Staphylococcus aureus and Pseudomonas aeruginosa biofilms
G.M.M. Guedes, A.S.P. Santos‐Filho, W.F.M. Regis, C.J. Ocadaque, B.R. Amando, J.J.C. Sidrim, R.S.N. Brilhante, R.A. Cordeiro, S.P. Bandeira, M.F.G. Rocha, D.S.C.M. Castelo‐Branco
Journal of Applied Microbiology.2021; 131(3): 1487. CrossRef
Iron Chelation in Local Infection
Cassidy Scott, Gaurav Arora, Kayle Dickson, Christian Lehmann
Molecules.2021; 26(1): 189. CrossRef
The Adc regulon mediates zinc homeostasis in Streptococcus mutans
Yangyang Pan, Yang Chen, Jiamin Chen, Qizhao Ma, Tao Gong, Shuxing Yu, Qiong Zhang, Jing Zou, Yuqing Li
Molecular Oral Microbiology.2021; 36(5): 278. CrossRef
Small Molecule Inhibitors of the Bacterioferritin (BfrB)–Ferredoxin (Bfd) Complex Kill Biofilm-Embedded Pseudomonas aeruginosa Cells
Anabel Soldano, Huili Yao, Achala N. D. Punchi Hewage, Kevin Meraz, Joel K. Annor-Gyamfi, Richard A. Bunce, Kevin P. Battaile, Scott Lovell, Mario Rivera
ACS Infectious Diseases.2021; 7(1): 123. CrossRef
Recent Evidence for Multifactorial Biofilm Regulation by Heme Sensor Proteins NosP and H-NOX
Jiayuan Fu, Steven Hall, Elizabeth M. Boon
Chemistry Letters.2021; 50(5): 1095. CrossRef
New Perspectives on Antimicrobial Agents: Cefiderocol
Erin K. McCreary, Emily L. Heil, Pranita D. Tamma
Antimicrobial Agents and Chemotherapy.2021;[Epub] CrossRef
Design of Polymeric Thin Films to Direct Microbial Biofilm Growth, Virulence, and Metabolism
Trevor Franklin, Yinan Wu, Jiayan Lang, Sijin Li, Rong Yang
Biomacromolecules.2021; 22(12): 4933. CrossRef
Aspergillus fumigatus biofilms: Toward understanding how growth as a multicellular network increases antifungal resistance and disease progression
Kaesi A. Morelli, Joshua D. Kerkaert, Robert A. Cramer, Chaoyang Xue
PLOS Pathogens.2021; 17(8): e1009794. CrossRef
Case Report: Successful Rescue Therapy of Extensively Drug-Resistant Acinetobacter baumannii Osteomyelitis With Cefiderocol
Michael Dagher, Felicia Ruffin, Steven Marshall, Magdalena Taracila, Robert A Bonomo, Rachel Reilly, Vance G Fowler, Joshua T Thaden
Open Forum Infectious Diseases.2020;[Epub] CrossRef
Identification and validation of a novel anti-virulent that binds to pyoverdine and inhibits its function
Xu Wang, Quinn Kleerekoper, Alexey V. Revtovich, Donghoon Kang, Natalia V. Kirienko
Virulence.2020; 11(1): 1293. CrossRef
Inhibiting Iron Mobilization from Bacterioferritin in Pseudomonas aeruginosa Impairs Biofilm Formation Irrespective of Environmental Iron Availability
Anabel Soldano, Huili Yao, Josephine R. Chandler, Mario Rivera
ACS Infectious Diseases.2020; 6(3): 447. CrossRef
Mobilization of Iron Stored in Bacterioferritin Is Required for Metabolic Homeostasis in Pseudomonas aeruginosa
Achala N. D. Punchi Hewage, Leo Fontenot, Jessie Guidry, Thomas Weldeghiorghis, Anil K. Mehta, Fabrizio Donnarumma, Mario Rivera
Pathogens.2020; 9(12): 980. CrossRef
Role of aspartate ammonia-lyase in Pasteurella multocida
Zui Wang, Li Li, Peng Liu, Chen Wang, Qin Lu, Lina Liu, Xiaozhong Wang, Qingping Luo, Huabin Shao
BMC Microbiology.2020;[Epub] CrossRef
An In Vitro Cell Culture Model for Pyoverdine-Mediated Virulence
Donghoon Kang, Natalia V. Kirienko
Pathogens.2020; 10(1): 9. CrossRef
Vertebrate mucus stimulates biofilm development and upregulates iron acquisition genes in Flavobacterium columnare
Miles D. Lange, Bradley D. Farmer, Jason Abernathy
Journal of Fish Diseases.2020; 43(1): 101. CrossRef
Rhamnolipid Enhances Burkholderia Pseudomallei Biofilm Susceptibility, Disassembly and Production of Virulence Factors
José JC Sidrim, Crister J Ocadaque, Bruno R Amando, Glaucia M de M Guedes, Cecília L Costa, Raimunda SN Brilhante, Rossana de A Cordeiro, Marcos FG Rocha, Débora SCM Castelo-Branco
Future Microbiology.2020; 15(12): 1109. CrossRef
An integrated model system to gain mechanistic insights into biofilm-associated antimicrobial resistance in Pseudomonas aeruginosa MPAO1
Adithi R. Varadarajan, Raymond N. Allan, Jules D. P. Valentin, Olga E. Castañeda Ocampo, Vincent Somerville, Franziska Pietsch, Matthias T. Buhmann, Jonathan West, Paul J. Skipp, Henny C. van der Mei, Qun Ren, Frank Schreiber, Jeremy S. Webb, Christian H.
npj Biofilms and Microbiomes.2020;[Epub] CrossRef
Connecting iron acquisition and biofilm formation in the ESKAPE pathogens as a strategy for combatting antibiotic resistance
Savannah J. Post, Justin A. Shapiro, William M. Wuest
MedChemComm.2019; 10(4): 505. CrossRef
Novel Pyoverdine Inhibitors Mitigate Pseudomonas aeruginosa Pathogenesis
Daniel R. Kirienko, Donghoon Kang, Natalia V. Kirienko
Frontiers in Microbiology.2019;[Epub] CrossRef
Bioaccumulation of potentially toxic elements by submerged plants and biofilms: A critical review
Nan Geng, Yichao Wu, Ming Zhang, Daniel C.W. Tsang, Jörg Rinklebe, Yinfeng Xia, Debao Lu, Lifang Zhu, Kumuduni Niroshika Palansooriya, Ki-Hyun Kim, Yong Sik Ok
Environment International.2019; 131: 105015. CrossRef
Pyoverdine-Dependent Virulence of Pseudomonas aeruginosa Isolates From Cystic Fibrosis Patients
Donghoon Kang, Alexey V. Revtovich, Qingquan Chen, Kush N. Shah, Carolyn L. Cannon, Natalia V. Kirienko
Frontiers in Microbiology.2019;[Epub] CrossRef

First
Prev
Page of 4
Next
Last

Search