Journal of Microbiology

Journal Articles

Limiting the pathogenesis of Salmonella Typhimurium with berry phenolic extracts and linoleic acid overproducing Lactobacillus casei: Zajeba Tabashsum , Mengfei Peng , Cassendra Bernhardt , Puja Patel , Michael Carrion , Shaik O. Rahaman , Debabrata Biswas; J. Microbiol. 2020;58(6):489-498. Published online April 22, 2020; DOI: https://doi.org/10.1007/s12275-020-9545-1

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The growing threat of emergent multidrug-resistant enteric bacterial pathogens, and their adopted virulence properties are directing to find alternative antimicrobials and/or development of dietaries that can improve host gut health and/or defense. Recently, we found that modified Lactobacillus casei (Lc + CLA) with increased production of conjugated linoleic acid has antimicrobial and other beneficial properties. Further, prebiotic alike products such as berry pomace extracts (BPEs), increase the growth of probiotics and inhibit the growth of certain bacterial pathogens. In this study, we evaluated the antibacterial effect of genetically modified Lc + CLA along with BPEs against major enteric pathogen Salmonella enterica serovar Typhimurium (ST). In mixed culture condition, the growth of ST was significantly reduced in the presence of Lc + CLA and/or BPEs. Bacterial cell-free cultural supernatant (CFCS) collected from wild-type Lc or modified Lc + CLA strains also inhibited the growth and survival of ST, and those inhibitory effects were enhanced in the presence of BPEs. We also found that the interaction of the pathogen with cultured host (HD-11 and INT-407) cells were also altered in the presence of either Lc or Lc + CLA strain or their CFCSs significantly. Furthermore, the relative expression of genes related to ST virulence and physicochemical properties of ST was altered by the effect of CFCSs of either Lc or Lc + CLA. These findings indicate that a diet containing synbiotic, specifically linoleic acid, over-produced Lc + CLA and prebiotic product BPEs, might have the potential to be effective in controlling ST growth and pathogenesis.

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Natural anti-adhesive components against pathogenic bacterial adhesion and infection in gastrointestinal tract: case studies of Helicobacter pylori , Salmonella enterica , Clostridiu
Xiaoyu Bao, Jianping Wu
Critical Reviews in Food Science and Nutrition.2024; : 1. CrossRef
Combined effect of metabolites produced by a modified Lactobacillus casei and berry phenolic extract on Campylobacter and microbiome in chicken cecum contents
Zajeba Tabashsum, Zabdiel Alvarado‐Martinez, Matthew J. Wall, Arpita Aditya, Debabrata Biswas
Journal of Food Science.2023; 88(6): 2583. CrossRef
Intracellular autolytic whole cell Salmonella vaccine prevents colonization of pathogenic Salmonella Typhimurium in chicken
Mengfei Peng, Jungsoo Joo, Zabdiel Alvarado-Martinez, Zajeba Tabashsum, Arpita Aditya, Debabrata Biswas
Vaccine.2022; 40(47): 6880. CrossRef
Lactobacilli, a Weapon to Counteract Pathogens through the Inhibition of Their Virulence Factors
Andrea Colautti, Elisabetta Orecchia, Giuseppe Comi, Lucilla Iacumin, Laurie E. Comstock
Journal of Bacteriology.2022;[Epub] CrossRef
Florfenicol Enhances Colonization of a Salmonella enterica Serovar Enteritidis floR Mutant with Major Alterations to the Intestinal Microbiota and Metabolome in Neonatal Chickens
Xueran Mei, Boheng Ma, Xiwen Zhai, Anyun Zhang, Changwei Lei, Lei Zuo, Xin Yang, Changyu Zhou, Hongning Wang, Johanna Björkroth
Applied and Environmental Microbiology.2021;[Epub] CrossRef

Competition/antagonism associations of biofilm formation among Staphylococcus epidermidis Agr groups I, II, and III: Sergio Martínez-García , César I. Ortiz-García , Marisa Cruz-Aguilar , Juan Carlos Zenteno , José Martin Murrieta-Coxca , Sonia Mayra Pérez-Tapia , Sandra Rodríguez-Martínez , Mario E. Cancino-Diaz , Juan C. Cancino-Diaz; J. Microbiol. 2019;57(2):143-153. Published online January 31, 2019; DOI: https://doi.org/10.1007/s12275-019-8322-5

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Abstract

Staphylococci have quorum-sensing (QS) systems that enable cell-to-cell communication, as well as the regulation of numerous colonization and virulence factors. The accessory gene regulator (Agr) operon is one of the Staphylococcus genus QS systems. Three groups (I, II, and III) are present in Staphylococcus epidermidis Agr operon. To date, it is unknown whether Agr groups can interact symbiotically during biofilm development. This study analyzed a symbiotic association among Agr groups during biofilm formation in clinical and commensal isolates. Different combinations among Agr group isolates was used to study biofilm formation in vitro and in vivo (using a mouse catheter-infection model). The analysis of Agr groups were also performed from samples of human skin (head, armpits, and nostrils). Different predominant coexistence was found within biofilms, suggesting symbiosis type. In vitro, Agr I had a competition with Agr II and Agr III. Agr II had a competition with Agr III, and Agr II was an antagonist to Agr I and III when the three strains were combined. In vivo, Agr II had a competition to Agr I, but Agr I and II were antagonists to Agr III. The associations found in vitro and in vivo were also found in different sites of the skin. Besides, other associations were observed: Agr III antagonized Agr I and II, and Agr III competed with Agr I and Agr II. These results suggest that, in S. epidermidis, a symbiotic association of competition and antagonism occurs among different Agr groups during biofilm formation.

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The pathogenicity and virulence of the opportunistic pathogen Staphylococcus epidermidis
Órla Burke, Merve S. Zeden, James P. O’Gara
Virulence.2024;[Epub] CrossRef
Synthetic Peptides Capable of Potent Multigroup Staphylococcal Quorum Sensing Activation and Inhibition in Both Cultures and Biofilm Communities
Emma L. Eisenbraun, Troy D. Vulpis, Brendan N. Prosser, Alexander R. Horswill, Helen E. Blackwell
Journal of the American Chemical Society.2024; 146(23): 15941. CrossRef
Biofilm formation, occurrence, microbial communication, impact and characterization methods in natural and anthropic systems: a review
Punniyakotti Elumalai, Xuke Gao, Jinjie Cui, Arunagiri Santhosh Kumar, Perumal Dhandapani, Punniyakotti Parthipan, Obulisamy Parthiba Karthikeyan, Jayaraman Theerthagiri, Soorathep Kheawhom, Myong Yong Choi
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Analysis of the Presence of the Virulence and Regulation Genes from Staphylococcus aureus (S. aureus) in Coagulase Negative Staphylococci and the Influence of the Staphylococcal Cross-Talk on Their Functions
Magdalena Grazul, Ewa Balcerczak, Monika Sienkiewicz
International Journal of Environmental Research and Public Health.2023; 20(6): 5155. CrossRef
Staphylococcus epidermidis Controls Opportunistic Pathogens in the Nose, Could It Help to Regulate SARS-CoV-2 (COVID-19) Infection?
Silvestre Ortega-Peña, Sandra Rodríguez-Martínez, Mario E. Cancino-Diaz, Juan C. Cancino-Diaz
Life.2022; 12(3): 341. CrossRef
Direct Quantitative Immunochemical Analysis of Autoinducer Peptide IV for Diagnosing and Stratifying Staphylococcus aureus Infections
Enrique-J. Montagut, Gerardo Acosta, Fernando Albericio, Miriam Royo, Gerard Godoy-Tena, Alicia Lacoma, Cristina Prat, Juan-Pablo Salvador, María-Pilar Marco
ACS Infectious Diseases.2022; 8(3): 645. CrossRef
Non-Native Peptides Capable of Pan-Activating the agr Quorum Sensing System across Multiple Specificity Groups of Staphylococcus epidermidis
Korbin H. J. West, Wenqi Shen, Emma L. Eisenbraun, Tian Yang, Joseph K. Vasquez, Alexander R. Horswill, Helen E. Blackwell
ACS Chemical Biology.2021; 16(6): 1070. CrossRef
Clinical and molecular characteristics of Staphylococcus aureus isolated from Chinese children: association among the agr groups and genotypes, virulence genes and disease types
Yan Xu, Su-Yun Qian, Kai-Hu Yao, Fang Dong, Wen-Qi Song, Chen Sun, Xin Yang, Jing- Hui Zhen, Xi-Qing Liu, Zhi -Yong Lv, Xi Yang
World Journal of Pediatrics.2021; 17(2): 180. CrossRef
Non‐biofilm‐forming commensal Staphylococcus epidermidis isolates produce biofilm in the presence of trypsin
Sergio Martínez‐García, Silvestre Ortega‐Peña, María De Jesús De Haro‐Cruz, Ma. Guadalupe Aguilera‐Arreola, María Dolores Alcántar‐Curiel, Gabriel Betanzos‐Cabrera, Janet Jan‐Roblero, Sonia Mayra Pérez‐Tapia, Sandra Rodríguez‐Martínez, Mario E. Cancino‐Di
MicrobiologyOpen.2019;[Epub] CrossRef

Antibiofilm effect of biofilm-dispersing agents on clinical isolates of Pseudomonas aeruginosa with various biofilm structures: Soo-Kyoung Kim , Xi-Hui Li , Hyeon-Ji Hwang , Joon-Hee Lee; J. Microbiol. 2018;56(12):902-909. Published online October 25, 2018; DOI: https://doi.org/10.1007/s12275-018-8336-4

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Abstract

Pseudomonas aeruginosa, an opportunistic human pathogen, causes many biofilm-mediated chronic infections. In this study, biofilm structures of various clinical strains of P. aeruginosa isolated from hospitalized patients were examined and their influence on the biofilm-dispersing effects of chemicals was investigated. The clinical isolates formed structurally distinct biofilms that could be classified into three different groups: 1) mushroom-like, 2) thin flat, and 3) thick flat structures. A dispersion of these differently structured biofilms was induced using two biofilm-dispersing agents, anthranilate and sodium nitroprusside (SNP). Although both SNP and anthranilate could disperse all types of biofilms, the thick flat biofilms were dispersed less efficiently than the biofilms of other structures. This suggests that biofilm-dispersing agents have higher potency on the biofilms of porous structures than on densely packed biofilms.

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Microbiology Spectrum.2021;[Epub] CrossRef
Thermoregulation of Pseudomonas aeruginosa Biofilm Formation
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Applied and Environmental Microbiology.2020;[Epub] CrossRef

Review

MINIREVIEW] Rapid and robust MALDI-TOF MS techniques for microbial identification: a brief overview of their diverse applications: Kyoung-Soon Jang , Young Hwan Kim; J. Microbiol. 2018;56(4):209-216. Published online February 28, 2018; DOI: https://doi.org/10.1007/s12275-018-7457-0

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Abstract

Advances in mass spectrometry have enabled the investigation of various biological systems by directly analyzing diverse sets of biomolecules (i.e., proteins, lipids, and carbohydrates), thus making a significant impact on the life sciences field. Over the past decade, matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) has been widely utilized as a rapid and reliable method for the identification of microorganisms. MALDI-TOF MS has come into widespread use despite its relatively low resolving power (full width at half maximum, FWHM: < 5,000) and its incompatibility with tandem MS analysis, features with which other high-resolution mass spectrometers are equipped. Microbial identification is achieved by searching databases containing mass spectra of peptides and proteins extracted from microorganisms of interest, using scoring algorithms to match analyzed spectra with reference spectra. In this paper, we give a brief overview of the diverse applications of rapid and robust MALDI-TOF MS-based techniques for microbial identification in a variety of fields, such as clinical diagnosis and environmental and food monitoring. We also describe the fundamental principles of MALDI-TOF MS. The general specifications of the two major MS-based microbial identification systems available in the global market (BioTyper® and VITEK® MS Plus) and the distribution of these instruments in Republic of Korea are also discussed. The current review provides an understanding of this emerging microbial identification and classification technology and will help bacteriologists and cell biologists take advantage of this powerful technique.

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

Comparative Genomics Profiling of Clinical Isolates of Helicobacter pylori in Chinese Populations Using DNA Microarray: Yue-Hua Han , Wen-Zhong Liu , Yao-Zhou Shi , Li-Qiong Lu , Shudong Xiao , Qing-Hua Zhang , Guo-Ping Zhao; J. Microbiol. 2007;45(1):21-28.; DOI: https://doi.org/2496 [pii]

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Abstract: In order to search for specific genotypes related to this unique phenotype, we used whole genomic DNA microarray to characterize the genomic diversity of Helicobacter pylori (H. pylori) strains isolated from clinical patients in China. The open reading frame (ORF) fragments on our microarray were generated by PCR using gene-specific primers. Genomic DNA of H. pylori 26695 and J99 were used as templates. <br>Thirty-four H. pylori isolates were obtained from patients in Shanghai. Results were judged based on ln(x) transformed and normalized Cy3/Cy5 ratios. Our microarray included 1882 DNA fragments corresponding to 1636 ORFs of both sequenced H. pylori strains. Cluster analysis, revealed two diverse regions in the H. pylori genome that were not present in other isolates. Among the 1636 genes, 1091 (66.7%) were common to all H. pylori strains, representing the functional core of the genome. Most of the genes found in the H. pylori functional core were responsible for metabolism, cellular processes, transcription and biosynthesis of amino acids, functions that are essential to H. pylori’s growth and colonization in its host. In contrast, 522 (31.9%) genes were strain-specific genes that were missing from at least one strain of H. pylori. Strainspecific genes primarily included restriction modification system components, transposase genes, hypothetical proteins and outer membrane proteins. These strain-specific genes may aid the bacteria under specific circumstances during their long-term infection in genetically diverse hosts. Our results suggest 34 H. pylori clinical strains have extensive genomic diversity. Core genes and strain-specific genes both play essential roles in H. pylori propagation and pathogenesis. Our microarray experiment may help select relatively significant genes for further research on the pathogenicity of H. pylori and development of a <br>vaccine for H. pylori.

Published Erratum

Erratum to: Fungal Catastrophe of a Specimen Room: Just One Week is Enough to Eradicate Traces of Thousands of Animals: Ji Seon Kim , Yoonhee Cho , Chang Wan Seo , Ki Hyeong Park , Shinnam Yoo , Jun Won Lee , Sung Hyun Kim , Wonjun Lee , Young Woon Lim; J. Microbiol. 2023;61(6):653-653.; DOI: https://doi.org/10.1007/s12275-023-00060-6

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Abstract: Correction to: Journal of Microbiology (2023) 61:189–197 https://doi.org/10.1007/s12275-023-00017-9 In this article two author names are given erroneaously: Written incorrectly: Ki Hyung Park · Shin Nam Yoo It should be read: Ki Hyeong Park · Shinnam Yoo

Characterization of Quinolone-Resistant Clinical Isolates of Escherichia coli in Korea: Yoojung Oh , Seohyung Park , Misun Ha , Yeonhee Lee; J. Microbiol. 2002;40(2):98-103.

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Abstract: Twenty-eight clinical isolates of Escherichia coli, composed of thirteen norfloxacin resistant isolates (MIC of >16 ug/ml), one intermediately resistant isolate (MIC of 8 ug/ml), and fourteen susceptible isolates (MIC of <4 ug/ml), were randomly selected to study the norfloxacin resistance mechanism and phylogeny in clinical isolates in Korea. Eleven norfloxacin resistant isolates and one susceptible isolate were multi-drug resistant (MDR). Every norfloxacin resistant isolate with MIC higher than 32 ug/ml had the same three mutations: Ser83->Leu and Asp87->Asn or Tyr in GyrA and Ser80->Ile in ParC. Whereas a resistant isolate with MIC of 16 ug/ml had three mutations but Asp87 in GyrA was replaced with Gly instead of Asn. The intermediately resistant isolate had the same two mutations in GyrA but a different mutation in ParC, Glu84->Lys. Among the susceptible isolates, two isolates with MIC of 4 ug/ml had one mutation: Ser83->Leu in GyrA, and no mutation was found in the susceptible isolates. Resistant isolates showed higher efflux activity than the susceptible ones, with random amplification of polymorphic DNA (RAPD), six susceptible isolates form a separate group from the rest of the isolates.

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