Journal of Microbiology

Journal Articles

Inhibition of KIF20A suppresses the replication of influenza A virus by inhibiting viral entry: Hoyeon Jeon , Younghyun Lim , In-Gu Lee , Dong-In Kim , Keun Pil Kim , So-Hee Hong , Jeongkyu Kim , Youn-Sang Jung , Young-Jin Seo; J. Microbiol. 2022;60(11):1113-1121. Published online November 1, 2022; DOI: https://doi.org/10.1007/s12275-022-2436-x

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The influenza A virus (IAV) has caused several pandemics, and therefore there are many ongoing efforts to identify novel antiviral therapeutic strategies including vaccines and antiviral drugs. However, influenza viruses continuously undergo antigenic drift and shift, resulting in the emergence of mutated viruses. In turn, this decreases the efficiency of existing vaccines and antiviral drugs to control IAV infection. Therefore, this study sought to identify alternative therapeutic strategies targeting host cell factors rather than viruses to avoid infection by mutated viruses. Particularly, we investigated the role of KIF20A that is one of kinesin superfamily proteins in the replication of IAV. The KIF20A increased viral protein levels in IAV-infected cells by regulating the initial entry stage during viral infection. Furthermore, the KIF20A inhibitor significantly suppressed viral replication, which protected mice from morbidity and mortality. Therefore, our findings demonstrated that KIF20A is highly involved in the viral replication process and viral propagation both in vitro and in vivo, and could thus be used as a target for the development of novel antiviral drugs.

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Emerging roles of cytoskeletal transport and scaffold systems in human viral propagation
Younghyun Lim, Yong-Bin Cho, Young-Jin Seo
Animal Cells and Systems.2024; 28(1): 506. CrossRef

Effects of the loss of mismatch repair genes on single-strand annealing between divergent sequences in Saccharomyces cerevisiae: Ye-Seul Lim , Ju-Hee Choi , Kyu-Jin Ahn , Min-Ku Kim , Sung-Ho Bae; J. Microbiol. 2021;59(4):401-409. Published online March 29, 2021; DOI: https://doi.org/10.1007/s12275-021-1076-x

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Abstract: Eukaryotic genomes contain many duplicated genes closely located with each other, such as the hexose transporter (HXT) genes in Saccharomyces cerevisiae. They can potentially recombine via single-strand annealing (SSA) pathway. SSA between highly divergent sequences generates heteroduplex DNA intermediates with many mismatches, which can be corrected by mismatch repair (MMR), resulting in recombinant sequences with a single junction point. In this report, we demonstrate that SSA between HXT1 and HXT4 genes in MMR-deficient yeast cells produces recombinant genes with multiple-junctions resulting from alternating HXT1 and HXT4 tracts. The mutations in MMR genes had differential effects on SSA frequencies; msh6Δ mutation significantly stimulated SSA events, whereas msh2Δ and msh3Δ slightly suppressed it. We set up an assay that can identify a pair of recombinant genes derived from a single heteroduplex DNA. As a result, the recombinant genes with multiple-junctions were found to accompany genes with single-junctions. Based on the results presented here, a model was proposed to generate multiple-junctions in SSA pathway involving an alternative short-patch repair system.

Occurrence of four waterborne viruses at five typical raw water resources in the Republic of Korea during August 2013 to February 2019: Young Yil Bahk , Min-Ho Kim , Tong-Soo Kim , Sang Jung Park , Jeong-Myeong Kim , Ok-Jae Rhee , Sang-Seob Lee; J. Microbiol. 2020;58(11):915-925. Published online October 30, 2020; DOI: https://doi.org/10.1007/s12275-020-0231-0

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Abstract

Waterborne diseases have critical public health issues and socioeconomic relevancy worldwide. Various viral pathogens are ordinarily associated with waterborne diseases. Six-yearsurveillance (a total of 20 times) of norovirus, hepatitis A virus, group C rotavirus, and enterovirus was conducted at five raw water sampling sites including two lakes (Lakes Soyang and Juam), Hyundo region of Geum River in Daejeon City, and Guui region of Han River in Seoul Metropolitan City and Moolgeum region of Nakdong River in Gimhae City which are located near two water intake plants. In this study, we routinely investigated virus contamination in water samples through reverse transcription polymerase chain reaction (RTPCR) and integrated cell culture RT-PCR with high sensitivity and specificity. A total 100 samples were tested. Most of the targeted viruses were found in 32% of the samples and at least one of the indicator bacteria was detected in 65% of these occurrences. Among all the detected viruses, enterovirus was the most prevalent with a detection frequency of 12% and 2.71 MPN/10 L on average, while hepatitis A virus was the least prevalent with a detection frequency of 4%. Nearly all of the analyzed viruses (except for group C rotavirus) were present in samples from Han River (the Guui region), Geum River (the Hyundo region), Lake Juam, and Nakdong River (the Moolgeum region), while group C rotavirus was detected in those from the Guui region. During the six-year sampling period, the targeted waterborne viruses in water samples exhibited seasonal patterns in their occurrence that were different from the indicator bacteria levels in the water samples. The fact that they were detected in the five representative Korean water environments makes it necessary to establish the chemical and biological analysis systems for waterborne viruses and sophisticated management systems.

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Occurrence characteristics, removal efficiencies and potential health risks of typical viruses in rural domestic sewage: A review
Yingming Zhu, Su Xu, Yu Zhou, Xuesong Guo, Yunping Han, Jun Zhan, Lin Li, Junxin Liu
Journal of Water Process Engineering.2025; 69: 106611. CrossRef
Occurrence of Hepatitis A Virus in Water Matrices: A Systematic Review and Meta-Analysis
Guy Roussel Takuissu, Sebastien Kenmoe, Jean Thierry Ebogo-Belobo, Cyprien Kengne-Ndé, Donatien Serge Mbaga, Arnol Bowo-Ngandji, Juliette Laure Ndzie Ondigui, Raoul Kenfack-Momo, Serges Tchatchouang, Josiane Kenfack-Zanguim, Robertine Lontuo Fogang, Elisa
International Journal of Environmental Research and Public Health.2023; 20(2): 1054. CrossRef

Sutterella faecalis sp. nov., isolated from human faeces: Byeong Seob Oh , Ji-Sun Kim , Seung Yeob Yu , Seoung Woo Ryu , Seung-Hwan Park , Se Won Kang , Jam-Eon Park , Seung-Hyeon Choi , Kook-Il Han , Keun Chul Lee , Mi Kyung Eom , Min Kuk Suh , Han Sol Kim , Dong Ho Lee , Hyuk Yoon , Byung-Yong Kim , Je Hee Lee , Jung-Sook Lee , Ju Huck Lee; J. Microbiol. 2020;58(2):99-104. Published online January 29, 2020; DOI: https://doi.org/10.1007/s12275-020-9396-9

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Abstract

An obligately anaerobic, Gram-stain-negative, non-motile, non-spore-forming, and coccobacilli-shaped bacterial strain, designated KGMB03119T, was isolated from human faeces from a Korean. Phylogenetic analysis based on the 16S rRNA gene sequence revealed that the isolate was a member of the genus Sutterella and most closely related to Sutterlla wadsworthensis KCTC 15691T (96.8% 16S rRNA gene sequence similarity). The DNA G + C content of strain KGMB03119T was 58.3 mol% as determined from its whole genome sequence. Strain KGMB03119T was asaccharolytic, catalase-positive, oxidase- and urease-negative. Furthermore, the isolate was positive for alkaline phosphatase, leucine arylamidase, acid phosphatase, arginine arylamidase, alanine arylamidase, and glycine arylamidase. The major cellular fatty acids (> 10%) of the isolate were C18:1ω9c and C16:0. Methylmenaquinone-5 (MMK-5, 100%) was the predominant isoprenoid quinone in the isolate. Based on the phylogenetic, physiological, and chemotaxonomic characteristics, strain KGMB03119T represents a novel species, for which the name Sutterella faecalis sp. nov. is proposed. The type strain is KGMB03119T (= KCTC 15823T = NBRC 114254T).

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In vitro gastrointestinal digestion and colonic fermentation of Mangiferin: Impacts on gut microbiota and metabolite profiles
Huilin Deng, Yaozhong Zheng, Qiongyao Wang, Jiaqi Peng, Weibin Bai, Lingmin Tian, Zouyan He, Rui Jiao
Journal of Functional Foods.2025; 124: 106667. CrossRef
An Analysis of the Digestive and Reproductive Tract Microbiota in Infertile Women with Obesity
Jose Bellver, Marta Gonzalez-Monfort, Sandra González, Bruno Toson, Elena Labarta, Gemma Castillón, Giulia Mariani, Carmina Vidal, Juan Giles, Fabio Cruz, Agustin Ballesteros, Marcos Ferrando, Juan Antonio García-Velasco, Diana Valbuena, Felipe Vilella, M
International Journal of Molecular Sciences.2024; 25(23): 12600. CrossRef
Update on novel validly published and included bacterial taxa derived from human clinical specimens and taxonomic revisions published in 2023
Arianna Carella, Karen C. Carroll, Erik Munson, Romney M. Humphries
Journal of Clinical Microbiology.2024;[Epub] CrossRef
Short-chain fatty acids: Important components of the gut-brain axis against AD
Yan Huang, Yi Feng Wang, Jing Miao, Rui Fang Zheng, Jin Yao Li
Biomedicine & Pharmacotherapy.2024; 175: 116601. CrossRef
Bioinformatic Analysis of Sulfotransferases from an Unexplored Gut Microbe, Sutterella wadsworthensis 3_1_45B: Possible Roles towards Detoxification via Sulfonation by Members of the Human Gut Microbiome
Lauryn Langford, Dhara D. Shah
International Journal of Molecular Sciences.2024; 25(5): 2983. CrossRef
Validation List no. 212. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, Markus Göker
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Longitudinal Study of the Effects of Flammulina velutipes Stipe Wastes on the Cecal Microbiota of Laying Hens
Jiali Wei, Huanwei Xiao, Yingbo Wei, Ivan Stève Nguepi Tsopmejio, Chang Sun, Haoyuan Wu, Zhouyu Jin, Hui Song, Suzanne Lynn Ishaq, Yunhe Xu
mSystems.2023;[Epub] CrossRef

Anaerotignum faecicola sp. nov., isolated from human faeces: Seung-Hyeon Choi , Ji-Sun Kim , Jam-Eon Park , Keun Chul Lee , Mi Kyung Eom , Byeong Seob Oh , Seung Yeob Yu , Se Won Kang , Kook-Il Han , Min Kuk Suh , Dong Ho Lee , Hyuk Yoon , Byung-Yong Kim , Je Hee Lee , Ju Huck Lee , Jung-Sook Lee , Seung-Hwan Park; J. Microbiol. 2019;57(12):1073-1078. Published online November 4, 2019; DOI: https://doi.org/10.1007/s12275-019-9268-3

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Abstract

A strictly anaerobic bacterium, designated as strain KGMB- 03357T, was isolated from the faeces of a healthy Korean selected by Bundang Seoul National University based on health status. Cells of strain KGMB03357T are Gram-stain-positive, non-motile, non-spore-forming, and observed as straight or curved rods. The isolate grew at 10–45°C (optimum temperature of 40°C) and a pH range of 5.1–10.5 (optimum pH of 6.8). Analysis of phylogenetic trees based on the 16S rRNA gene sequences revealed that strain KGMB03357T forms a lineage within the genus Anaerotignum, and is most closely related to Anaerotignum lactatifermentans G17T (= KCTC 15066T, 96.1%), Anaerotignum propionicum DSM 1682T (= KCTC 5582T, 94.9%), Anaerotignum neopropionicum DSM 03847T (= KCTC 15564T, 94.9%), and Anaerotignum aminivorans SH021T (= KCTC 15705T, 94.8%). The ANI values between strain KGMB 03357T and members of the genus Anaerotignum were 73.3–71.0%, which are below the ANI criterion for interspecies identity. The DNA G + C content based on the whole-genome sequence is 47.3 mol%. The major cellular fatty acids of strain KGMB03357T are C16:0, C18:0, C18:1 cis 9, and anteiso-C15:0. Strain KGMB03357T contains meso-diaminopimelic acid as the diagnostic amino acid in the cell wall peptidoglycan. Based on the phenotypic, phylogenetic, and genomic properties, strain KGMB 03357T represents a novel species of the genus Anaerotignum, for which the name Anaerotignum faecicola sp. nov. is proposed. The type strain is KGMB03357T (= KCTC 15736T = DSM 107953T).

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Dietary supplementation of solubles from shredded, steam-exploded pine particles modulates cecal microbiome composition in broiler chickens
Chris Major Ncho, Akshat Goel, Vaishali Gupta, Chae-Mi Jeong, Ji-Young Jung, Si-Young Ha, Jae-Kyung Yang, Yang-Ho Choi
Journal of Animal Science and Technology.2023; 65(5): 971. CrossRef
Cordyceps militaris polysaccharides modulate gut microbiota and improve metabolic disorders in mice with diet‐induced obesity
Shishi Huang, Yuan Zou, Hongbiao Tang, Jingyu Zhuang, Zhiwei Ye, Tao Wei, Junfang Lin, Qianwang Zheng
Journal of the Science of Food and Agriculture.2023; 103(4): 1885. CrossRef
Anaeropeptidivorans aminofermentans gen. nov., sp. nov., a mesophilic proteolytic salt-tolerant bacterium isolated from a laboratory-scale biogas fermenter, and emended description of Clostridium colinum
Nora Köller, Sarah Hahnke, Vladimir Zverlov, Daniel Wibberg, Andreas Klingl, Tobias Busche, Michael Klocke, Alfred Pühler, Andreas Schlüter, Wolfgang Liebl, Irena Maus
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Chakrabartyella piscis gen. nov., sp. nov., a member of the family Lachnospiraceae, isolated from the hindgut of the marine herbivorous fish Kyphosus sydneyanus
Bikiran Pardesi, Anthony M. Roberton, Emily M. Wollmuth, Esther R. Angert, Douglas I. Rosendale, William Lindsey White, Kendall D. Clements
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
New Insights into the Physiology of the Propionate Producers Anaerotignum propionicum and Anaerotignum neopropionicum (Formerly Clostridium propionicum and Clostridium neopropionicum)
Tina Baur, Peter Dürre
Microorganisms.2023; 11(3): 685. CrossRef
Update on Accepted Novel Bacterial Isolates Derived from Human Clinical Specimens and Taxonomic Revisions Published in 2020 and 2021
Erik Munson, Karen C. Carroll, Romney M. Humphries
Journal of Clinical Microbiology.2023;[Epub] CrossRef
Genome-scale metabolic modelling enables deciphering ethanol metabolism via the acrylate pathway in the propionate-producer Anaerotignum neopropionicum
Sara Benito-Vaquerizo, Ivette Parera Olm, Thijs de Vroet, Peter J. Schaap, Diana Z. Sousa, Vitor A. P. Martins dos Santos, Maria Suarez-Diez
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Diarrhea with deficiency kidney-yang syndrome caused by adenine combined with Folium senna was associated with gut mucosal microbiota
Jiayuan Zhu, Xiaoya Li, Na Deng, Xinxin Peng, Zhoujin Tan
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The novel oligopeptide utilizing species Anaeropeptidivorans aminofermentans M3/9T, its role in anaerobic digestion and occurrence as deduced from large-scale fragment recruitment analyses
Irena Maus, Daniel Wibberg, Peter Belmann, Sarah Hahnke, Liren Huang, Cathrin Spröer, Boyke Bunk, Jochen Blom, Alexander Sczyrba, Alfred Pühler, Michael Klocke, Andreas Schlüter
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The Gut Bacterial Community Potentiates Clostridioides difficile Infection Severity
Nicholas A. Lesniak, Alyxandria M. Schubert, Kaitlin J. Flynn, Jhansi L. Leslie, Hamide Sinani, Ingrid L. Bergin, Vincent B. Young, Patrick D. Schloss, Martin J. Blaser
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List of new names and new combinations previously effectively, but not validly, published
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Mediterraneibacter butyricigenes sp. nov., a butyrate-producing bacterium isolated from human faeces: Ji-Sun Kim , Keun Chul Lee , Min Kuk Suh , Kook-Il Han , Mi Kyung Eom , Ju Huck Lee , Seung-Hwan Park , Se Won Kang , Jam-Eon Park , Byeong Seob Oh , Seung Yeob Yu , Seung-Hyeon Choi , Dong Ho Lee , Hyuk Yoon , Byung-Yong Kim , Seung-Jo Yang , Jung-Sook Lee; J. Microbiol. 2019;57(1):38-44. Published online December 29, 2018; DOI: https://doi.org/10.1007/s12275-019-8550-8

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Abstract

A Gram-stain-positive, obligately anaerobic, non-motile, nonspore- forming, and rod-shaped bacterial strain, designated KGMB01110T, was isolated from a faecal sample of a healthy male in South Korea. Phylogenetic analysis based on 16S rRNA gene showed that strain KGMB01110T belonged to Clostridium cluster XIVa and was most closely related to Mediterraneibacter glycyrrhizinilyticus KCTC 5760T (95.9% 16S rRNA gene sequence similarity). The DNA G + C content of strain KGMB01110T based on its whole genome sequence was 44.1 mol%. The major cellular fatty acids (> 10%) of the isolate were C14:0 and C16:0. The strain KGMB01110T was positive for arginine dihydrolase, β-galactosidase-6-phosphatase, and alkaline phosphatase. The strain KGMB01110T also produced acid from D-glucose and D-rhamnose, and hydrolyzed gelatin and aesculin. Furthermore, HPLC analysis and UV-tests of culture supernatant revealed that the strain KGMB01110T produced butyrate as the major end product of glucose fermentation. Based on the phylogenetic and phenotypic characteristics, strain KGMB01110T represent a novel species of the genus Mediterraneibacter in the family Lachnospiraceae. The type strain is KGMB01110T (= KCTC 15684T = CCUG 72830T).

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