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Inhibition of candidalysin production by methoxy-apo-enterobactin from Streptomyces ambofaciens CJD34 as a novel antifungal strategy against Candida albicans
Eui-Seong Kim, Hyeongju Jeong, Mustansir Abbas, Soohyun Um, Juntack Oh, Kyuho Moon, Kyung-Tae Lee
J. Microbiol. 2025;63(6):e2504019.   Published online June 30, 2025
DOI: https://doi.org/10.71150/jm.2504019
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AbstractAbstract PDF

Opportunistic fungal pathogens, responsible for over 300 million severe cases and 1.5 million deaths annually, pose a serious global health threat, especially in immunocompromised individuals. Among these, Candida albicans is a major cause of both superficial and invasive infections, which can progress to systemic candidiasis. One of the critical factors in C. albicans pathogenicity is the yeast-to-hyphal transition, which enables biofilm formation and promotes tissue invasion through the secretion of candidalysin, a cytolytic peptide toxin encoded by the ECE1 gene. In this study, metabolites produced by Streptomyces ambofaciens CJD34, isolated from soil samples, were screened for antifungal activity. Methoxy-apo-enterobactin (compound 1) was identified as a potential inhibitor of C. albicans virulence. Treatment with compound 1 significantly suppressed ECE1 expression and candidalysin production. In a murine subcutaneous infection model, topical application of compound 1 reduced subcutaneous colonization by C. albicans. Molecular docking analysis suggested that the inhibition of ECE1 expression was not mediated by direct binding to known upstream transcription factors, indicating an indirect mechanism of action. Collectively, these findings highlight compound 1 as a promising antivirulence agent targeting candidalysin-mediated pathogenicity in C. albicans.

Journal Article
Inhibition of Virulence Associated Traits by β-Sitosterol Isolated from Hibiscus rosa-sinensis Flowers Against Candida albicans: Mechanistic Insight and Molecular Docking Studies
Pallvi Mohana, Atamjit Singh, Farhana Rashid, Sharabjit Singh, Kirandeep Kaur, Rupali Rana, Preet Mohinder Singh Bedi, Neena Bedi, Rajinder Kaur, Saroj Arora
J. Microbiol. 2024;62(12):1165-1175.   Published online November 6, 2024
DOI: https://doi.org/10.1007/s12275-024-00174-5
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  • 1 Web of Science
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AbstractAbstract PDF
The emerging drug resistance and lack of safer and more potent antifungal agents make Candida infections another hot topic in the healthcare system. At the same time, the potential of plant products in developing novel antifungal drugs is also in the limelight. Considering these facts, we have investigated the different extracts of the flowers of Hibiscus rosa-sinensis of the Malvaceae family for their antifungal efficacy against five different pathogenic Candida strains. Among the various extracts, the chloroform extract showed the maximum zone of inhibition (26.6 ± 0.5 mm) against the Candida albicans strain. Furthermore, the chloroform fraction was isolated, and a sterol compound was identified as β-sitosterol. Mechanistic studies were conducted to understand the mechanism of action, and the results showed that β-sitosterol has significant antifungal activity and is capable of interrupting biofilm formation and acts by inhibiting ergosterol biosynthesis in Candida albicans cells. Microscopic and molecular docking studies confirmed these findings. Overall, the study validates the antifungal efficacy of Candida albicans due to the presence of β-sitosterol which can act as an effective constituent for antifungal drug development individually or in combination.

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Citations to this article as recorded by  
  • Extraction of Hibiscus rosa sinensis Flower
    Shubham Porte, Vinayak Kaushik, Geetanjali Sahu, Sharang Bali
    Asian Journal of Pharmacy and Technology.2025; : 339.     CrossRef
  • Hibiscus rosa‐sinensis: A Multifunctional Flower Bridging Nutrition, Medicine, and Molecular Therapeutics
    Hassan Raza, Muhammad Tauseef Sultan, Khalil Ahmad, Muhammad Maaz, Shehnshah Zafar, Ahmad Mujtaba Noman, Entessar Mohammad Al Jbawi
    Food Science & Nutrition.2025;[Epub]     CrossRef
Meta-Analysis
Exploring COVID-19 Pandemic Disparities with Transcriptomic Meta-analysis from the Perspective of Personalized Medicine
Medi Kori, Ceyda Kasavi, Kazim Yalcin Arga
J. Microbiol. 2024;62(9):785-798.   Published online July 9, 2024
DOI: https://doi.org/10.1007/s12275-024-00154-9
  • 426 View
  • 11 Download
  • 2 Web of Science
  • 2 Crossref
AbstractAbstract PDF
Infection with SARS-CoV2, which is responsible for COVID-19, can lead to differences in disease development, severity and mortality rates depending on gender, age or the presence of certain diseases. Considering that existing studies ignore these differences, this study aims to uncover potential differences attributable to gender, age and source of sampling as well as viral load using bioinformatics and multi-omics approaches. Differential gene expression analyses were used to analyse the phenotypic differences between SARS-CoV-2 patients and controls at the mRNA level. Pathway enrichment analyses were performed at the gene set level to identify the activated pathways corresponding to the differences in the samples. Drug repurposing analysis was performed at the protein level, focusing on host-mediated drug candidates to uncover potential therapeutic differences. Significant differences (i.e. the number of differentially expressed genes and their characteristics) were observed for COVID-19 at the mRNA level depending on the sample source, gender and age of the samples. The results of the pathway enrichment show that SARS-CoV-2 can be combated more effectively in the respiratory tract than in the blood samples. Taking into account the different sample sources and their characteristics, different drug candidates were identified. Evaluating disease prediction, prevention and/or treatment strategies from a personalised perspective is crucial. In this study, we not only evaluated the differences in COVID-19 from a personalised perspective, but also provided valuable data for further experimental and clinical efforts. Our findings could shed light on potential pandemics.

Citations

Citations to this article as recorded by  
  • Integrated multi-sample transcriptomic analysis of COVID-19 patients against controls using a bioinformatics pipeline
    Li Ying Khoo, Sarinder Kaur Dhillon
    Scientific Reports.2025;[Epub]     CrossRef
  • Differential Impact of Spike Protein Mutations on SARS-CoV-2 Infectivity and Immune Evasion: Insights from Delta and Kappa Variants
    Tae-Hun Kim, Sojung Bae, Jinjong Myoung
    Journal of Microbiology and Biotechnology.2024; 34(12): 2506.     CrossRef
Journal Articles
Fleagrass (Adenosma buchneroides Bonati) Acts as a Fungicide Against Candida albicans by Damaging Its Cell Wall
Youwei Wu, Hongxia Zhang, Hongjie Chen, Zhizhi Du, Qin Li, Ruirui Wang
J. Microbiol. 2024;62(8):661-670.   Published online July 3, 2024
DOI: https://doi.org/10.1007/s12275-024-00146-9
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  • 6 Download
AbstractAbstract PDF
Fleagrass, a herb known for its pleasant aroma, is widely used as a mosquito repellent, antibacterial agent, and for treating colds, reducing swelling, and alleviating pain. The antifungal effects of the essential oils of fleagrass and carvacrol against Candida albicans were investigated by evaluating the growth and the mycelial and biofilm development of C. albicans. Transmission electron microscopy was used to evaluate the integrity of the cell membrane and cell wall of C. albicans. Fleagrass exhibited high fungicidal activity against C. albicans at concentrations of 0.5% v/v (via the Ras1/cAMP/PKA pathway). Furthermore, transmission electron microscopy revealed damage to the cell wall and membrane after treatment with the essential oil, which was further confirmed by the increased levels of β-1,3-glucan and chitin in the cell wall. This study showed that fleagrass exerts good fungicidal and hyphal growth inhibition activity against C. albicans by disrupting its cell wall, and thus, fleagrass may be a potential antifungal drug.
Licochalcone A Protects Vaginal Epithelial Cells Against Candida albicans Infection Via the TLR4/NF-κB Signaling Pathway
Wei Li, Yujun Yin, Taoqiong Li, Yiqun Wang, Wenyin Shi
J. Microbiol. 2024;62(7):525-533.   Published online May 31, 2024
DOI: https://doi.org/10.1007/s12275-024-00134-z
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  • 3 Web of Science
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AbstractAbstract PDF
Vulvovaginal candidiasis (VVC) is a prevalent condition affecting a significant portion of women worldwide. Licochalcone A (LA), a natural compound with diverse biological activities, holds promise as a protective agent against Candida albicans (C. albicans) infection. This study aims to investigate the potential of LA to safeguard vaginal epithelial cells (VECs) from C. albicans infection and elucidate the underlying molecular mechanisms. To simulate VVC in vitro, VK2-E6E7 cells were infected with C. albicans. Candida albicans biofilm formation, C. albicans adhesion to VK2-E6E7 cells, and C. albicans-induced cell damage and inflammatory responses were assessed by XTT reduction assay, fluorescence assay, LDH assay, and ELISA. CCK-8 assay was performed to evaluate the cytotoxic effects of LA on VK2-E6E7 cells. Western blotting assay was performed to detect protein expression. LA dose-dependently hindered C. albicans biofilm formation and adhesion to VK2-E6E7 cells. Furthermore, LA mitigated cell damage, inhibited the Bax/Bcl-2 ratio, and attenuated the secretion of pro-inflammatory cytokines in C. albicans-induced VK2-E6E7 cells. The investigation into LA's impact on the Toll-like receptor 4 (TLR4)/nuclear factor-kappa B (NF-κB) pathway revealed that LA downregulated TLR4 expression and inhibited NF-κB activation in C. albicans-infected VK2-E6E7 cells. Furthermore, TLR4 overexpression partially abated LA-mediated protection, further highlighting the role of the TLR4/NF-κB pathway. LA holds the potential to safeguard VECs against C. albicans infection, potentially offering therapeutic avenues for VVC management.

Citations

Citations to this article as recorded by  
  • New Curcumin Analogue (PAC) Inhibits Candida albicans Virulence, Restricts Its Adhesion Potential, and Relieves Oral Epithelial Cell Inflammation and Defense Mechanisms
    Ghazoua Mezni, Hawraa Issa, Manal Dahdah, Anaïs Poulin, Adam Daïch, Abdulaziz Alamri, Mahmoud Rouabhia, Abdelhabib Semlali
    Antibiotics.2025; 14(5): 495.     CrossRef
  • Therapeutic potential of Licochalcone A in dermatological diseases: from basic to clinical research
    Deming Liu, Xue Jiang, Fujin Yang, Jingjing Zhou, Yanxi Li, Hua Yang
    Frontiers in Pharmacology.2025;[Epub]     CrossRef
Effects of Light and Dark Conditions on the Transcriptome of Aging Cultures of Candidatus Puniceispirillum marinum IMCC1322
Ji Hyen Lee, Hyun-Myung Oh
J. Microbiol. 2024;62(4):297-314.   Published online April 25, 2024
DOI: https://doi.org/10.1007/s12275-024-00125-0
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AbstractAbstract PDF
To elucidate the function of proteorhodopsin in Candidatus Puniceispirillum marinum strain IMCC1322, a cultivated representative of SAR116, we produced RNA-seq data under laboratory conditions. We examined the transcriptomes of six different cultures, including sets of expression changes under constant dark (DD), constant light (LL), and diel-cycled (LD; 14 h light: 10 h dark) conditions at the exponential and stationary/death phases. Prepared mRNA extracted from the six samples was analyzed on the Solexa Genome Analyzer with 36 cycles. Differentially expressed genes on the IMCC1322 genome were distinguished as four clusters by K-mean clustering and each CDS (n = 2546) was annotated based on the KEGG BRITE hierarchy. Cluster 0 (n = 1573) covered most constitutive genes including proteorhodopsin, retinoids, and glycolysis/TCA cycle. Cluster 1 genes (n = 754) were upregulated in stationary/death phase under constant dark conditions and included genes associated with bacterial defense, membrane transporters, nitrogen metabolism, and senescence signaling. Cluster 2 genes (n = 197) demonstrated upregulation in exponential phase cultures and included genes involved in genes for oxidative phosphorylation, translation factors, and transcription machinery. Cluster 3 (n = 22) contained light-stimulated upregulated genes expressed under stationary/phases. Stringent response genes belonged to cluster 2, but affected genes spanned various cellular processes such as amino acids, nucleotides, translation, transcription, glycolysis, fatty acids, and cell wall components. The coordinated expression of antagonistic stringent genes, including mazG, ppx/gppA, and spoT/relA may provide insight into the controlled cultural response observed between constant light and constant dark conditions in IMCC1322 cultures, regardless of cell numbers and biomass.

Citations

Citations to this article as recorded by  
  • Culture-supported ecophysiology of the SAR116 clade demonstrates metabolic and spatial niche partitioning
    Jordan T Coelho, Lauren Teubner, Michael W Henson, V Celeste Lanclos, Conner Y Kojima, J Cameron Thrash
    The ISME Journal.2025;[Epub]     CrossRef
  • Effect of Light Regime on Candidatus Puniceispirillum marinum IMCC1322 in Nutrient-Replete Conditions
    Hyun-Myung Oh, Ji Hyen Lee, Ahyoung Choi, Sung-Hyun Yang, Gyung-Hoon Shin, Sung Gyun Kang, Jang-Cheon Cho, Hak Jun Kim, Kae-Kyoung Kwon
    Journal of Microbiology and Biotechnology.2024;[Epub]     CrossRef
Review
Influence of Microbiota on Vaccine Effectiveness: “Is the Microbiota the Key to Vaccine‑induced Responses?”
So-Hee Hong
J. Microbiol. 2023;61(5):483-494.   Published online April 13, 2023
DOI: https://doi.org/10.1007/s12275-023-00044-6
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  • 17 Web of Science
  • 19 Crossref
AbstractAbstract PDF
Vaccines are one of the most powerful tools for preventing infectious diseases. To effectively fight pathogens, vaccines should induce potent and long-lasting immune responses that are specific to the pathogens. However, not all vaccines can induce effective immune responses, and the responses vary greatly among individuals and populations. Although several factors, such as age, host genetics, nutritional status, and region, affect the effectiveness of vaccines, increasing data have suggested that the gut microbiota is critically associated with vaccine-induced immune responses. In this review, I discuss how gut microbiota affects vaccine effectiveness based on the clinical and preclinical data, and summarize possible underlying mechanisms related to the adjuvant effects of microbiota. A better understanding of the link between vaccine-induced immune responses and the gut microbiota using high-throughput technology and sophisticated system vaccinology approaches could provide crucial insights for designing effective personalized preventive and therapeutic vaccination strategies.

Citations

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  • Parasite-microbiota interactions: a pathway to innovative interventions for Chagas disease, leishmaniasis, and ascariasis
    Juan David Ramírez, Sergio Castañeda, Jill Weatherhead, Cristina Poveda
    Future Microbiology.2025; 20(2): 149.     CrossRef
  • Antibiotic-mediated dysbiosis leads to activation of inflammatory pathways
    Jemma J. Taitz, Jian Tan, Duan Ni, Camille Potier-Villette, Georges Grau, Ralph Nanan, Laurence Macia
    Frontiers in Immunology.2025;[Epub]     CrossRef
  • Microbiome and mycobiome cross-talk from an immunobiotic perspective in COVID-19 and post-acute COVID-19 syndrome
    Sunny Kumar, Zeel Bhatia, Sriram Seshadri
    Exploration of Immunology.2025;[Epub]     CrossRef
  • Gut Microbiota and Postbiotic Metabolites: Biotic Intervention for Enhancing Vaccine Responses and Personalized Medicine for Disease Prevention
    Naheed Mojgani, Sumel Ashique, Mehran Moradi, Masoumeh Bagheri, Ashish Garg, Monika Kaushik, Md Sadique Hussain, Sabina Yasmin, Mohammad Yousuf Ansari
    Probiotics and Antimicrobial Proteins.2025;[Epub]     CrossRef
  • Immunomodulatory effects of gut microbiota on vaccine efficacy against respiratory pathogens
    Li Xue, Chunhua Wang, Chuanyu Liu
    Frontiers in Immunology.2025;[Epub]     CrossRef
  • Immunomodulatory Role of Milk on Gut Microbiota: Implications for Enhancing Oral Vaccine Efficacy
    Nur Ain Mohd Asri, Solehah Mohd Rosdan Bushra, Amiratul Aifa Mohamad Asri, Rapeah Suppian, Mohd Nor Norazmi
    Probiotics and Antimicrobial Proteins.2025;[Epub]     CrossRef
  • The Role of Gut Microbiota in the Modulation of Pulmonary Immune Response to Viral Infection Through the Gut-Lung Axis
    Na Chen, Lianke Li, Yanhua Han, Zhu Chen
    Journal of Inflammation Research.2025; Volume 18: 11755.     CrossRef
  • Impact of oral Chlamydia vaccination on host gut microbiome and metabolite composition
    Youyou Huang, Jiao Wan, Chuqiang Shu, Xichun Yan, Jingyue Ma, Tian Zhang, Jiarong He, Ziqing Wan, Guang Li, Qi Zhang, Zengzi Zhou, Xin Sun, Jing Zhao, Pu Zhang, Luying Wang, Tianyuan Zhang, Qi Tian, Ryan McClure
    mSystems.2025;[Epub]     CrossRef
  • Recent Advancements in Non-Invasive Vaccination Strategies
    Mahek Gulani, Tanisha Arte, Amarae Ferguson, Dedeepya Pasupuleti, Emmanuel Adediran, Yash Harsoda, Andrew Nicolas McCommon, Rikhav Gala, Martin J. D’Souza
    Vaccines.2025; 13(9): 978.     CrossRef
  • Associations between food consumption with T cell activation and antibody responses following SARS-CoV-2 mRNA vaccination
    Hiroki Negishi, Gaku Nakato, Rie Kadowaki, Hiroki Kono, Mami Minakata, Ayumi Ichikawa, Takayuki Toshimitsu, Seiya Makino, Hiroshi Kano, Sho Nakamura, Hiroto Narimatsu, Shinji Fukuda
    Gut Microbes Reports.2025;[Epub]     CrossRef
  • Intestinal Microbiota and Its Effect on Vaccine-Induced Immune Amplification and Tolerance
    Yixin Liu, Jianfeng Zhou, Yushang Yang, Xiangzheng Chen, Longqi Chen, Yangping Wu
    Vaccines.2024; 12(8): 868.     CrossRef
  • Immune Cells, Gut Microbiota, and Vaccines: A Gender Perspective
    Pierluigi Rio, Mario Caldarelli, Monica Chiantore, Francesca Ocarino, Marcello Candelli, Antonio Gasbarrini, Giovanni Gambassi, Rossella Cianci
    Cells.2024; 13(6): 526.     CrossRef
  • Ruhao Dashi granules exert therapeutic effects on H1N1 influenza virus infection by altering intestinal microflora composition
    Wei Pan, Rui Wu, Qianyun Zhang, Yuan Ma, Jinxiang Xiang, Jingbo Wang, Jing Chen
    Frontiers in Microbiology.2024;[Epub]     CrossRef
  • When inflammatory stressors dramatically change, disease phenotypes may transform between autoimmune hematopoietic failure and myeloid neoplasms
    Xi-Chen Zhao, Bo Ju, Nuan-Nuan Xiu, Xiao-Yun Sun, Fan-Jun Meng
    Frontiers in Immunology.2024;[Epub]     CrossRef
  • Long Prime–Boost Interval and Heightened Anti-GD2 Antibody Response to Carbohydrate Cancer Vaccine
    Irene Y. Cheung, Audrey Mauguen, Shakeel Modak, Ellen M. Basu, Yi Feng, Brian H. Kushner, Nai Kong Cheung
    Vaccines.2024; 12(6): 587.     CrossRef
  • Baseline Gut Microbiota Was Associated with Long-Term Immune Response at One Year Following Three Doses of BNT162b2
    Li-Na Zhang, Jing-Tong Tan, Ho-Yu Ng, Yun-Shi Liao, Rui-Qi Zhang, Kwok-Hung Chan, Ivan Fan-Ngai Hung, Tommy Tsan-Yuk Lam, Ka-Shing Cheung
    Vaccines.2024; 12(8): 916.     CrossRef
  • Immunologische Konsequenzen bei frühgeborenen Kindern
    Josina M. Hofer, Dimitra E. Zazara, Anke Diemert, Petra Clara Arck
    Gynäkologische Endokrinologie.2023; 21(4): 261.     CrossRef
  • Ginsenoside Rb1 enhanced immunity and altered the gut microflora in mice immunized by H1N1 influenza vaccine
    Chuanqi Wan, Rufeng Lu, Chen Zhu, Haibo Wu, Guannan Shen, Yang Yang, Xiaowei Wu, Bangjiang Fang, Yuzhou He
    PeerJ.2023; 11: e16226.     CrossRef
  • Factors Influencing Microbiota in Modulating Vaccine Immune Response: A Long Way to Go
    Francesca Romana Ponziani, Gaetano Coppola, Pierluigi Rio, Mario Caldarelli, Raffaele Borriello, Giovanni Gambassi, Antonio Gasbarrini, Rossella Cianci
    Vaccines.2023; 11(10): 1609.     CrossRef
Journal Articles
Those Nematode‑Trapping Fungi That are not Everywhere: Hints Towards Soil Microbial Biogeography
Wei Deng , Fa Zhang , Davide Fornacca , Xiao-Yan Yang , Wen Xiao
J. Microbiol. 2023;61(5):511-523.   Published online April 6, 2023
DOI: https://doi.org/10.1007/s12275-023-00043-7
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AbstractAbstract PDF
The existence of biogeography for microorganisms is a raising topic in ecology and researchers are employing better distinctions between single species, including the most rare ones, to reveal potential hidden patterns. An important volume of evidence supporting heterogeneous distributions for bacteria, archaea and protists is accumulating, and more recently a few efforts have targeted microscopic fungi. We propose an insight into this latter kingdom by looking at a group of soil nematode-trapping fungi whose species are well-known and easily recognizable. We chose a pure culture approach because of its reliable isolation procedures for this specific group. After morphologically and molecularly identifying all species collected from 2250 samples distributed in 228 locations across Yunnan province of China, we analyzed occurrence frequencies and mapped species, genera, and richness. Results showed an apparent cosmopolitan tendency for this group of fungi, including species richness among sites. However, only four species were widespread across the region, while nonrandom heterogeneous distributions were observed for the remaining 40 species, both in terms of statistical distribution of species richness reflected by a significant variance-to-mean ratio, as well as in terms of visually discernible spatial clusters of rare species and genera on the map. Moreover, several species were restricted to only one location, raising the question of whether endemicity exists for this microbial group. Finally, environmental heterogeneity showed a marginal contribution in explaining restricted distributions, suggesting that other factors such as geographical isolation and dispersal capabilities should be explored. These findings contribute to our understanding of the cryptic geographic distribution of microorganisms and encourage further research in this direction.

Citations

Citations to this article as recorded by  
  • Linking watershed formation with the phylogenetic distribution of a soil microscopic fungus in Yunnan Province, China
    Davide Fornacca, Wei Deng, Yaoquan Yang, Fa Zhang, Xiaoyan Yang, Wen Xiao
    BMC Microbiology.2024;[Epub]     CrossRef
  • Analysis of Nuclear Dynamics in Nematode-Trapping Fungi Based on Fluorescent Protein Labeling
    Liang Zhou, Zhiwei He, Keqin Zhang, Xin Wang
    Journal of Fungi.2023; 9(12): 1183.     CrossRef
Microbial co-occurrence network in the rhizosphere microbiome: its association with physicochemical properties and soybean yield at a regional scale
Sarbjeet Niraula , Meaghan Rose , Woo-Suk Chang
J. Microbiol. 2022;60(10):986-997.   Published online September 27, 2022
DOI: https://doi.org/10.1007/s12275-022-2363-x
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AbstractAbstract PDF
Microbial communities in the rhizosphere play a crucial role in determining plant growth and crop yield. A few studies have been performed to evaluate the diversity and co-occurrence patterns of rhizosphere microbiomes in soybean (Glycine max) at a regional scale. Here, we used a culture-independent
method
to compare the bacterial communities of the soybean rhizosphere between Nebraska (NE), a high-yield state, and Oklahoma (OK), a low-yield state. It is well known that the rhizosphere microbiome is a subset of microbes that ultimately get colonized by microbial communities from the surrounding bulk soil. Therefore, we hypothesized that differences in the soybean yield are attributed to the variations in the rhizosphere microbes at taxonomic, functional, and community levels. In addition, soil physicochemical properties were also evaluated from each sampling site for comparative study. Our result showed that distinct clusters were formed between NE and OK in terms of their soil physicochemical property. Among 3 primary nutrients (i.e., nitrogen, phosphorus, and potassium), potassium is more positively correlated with the high-yield state NE samples. We also attempted to identify keystone communities that significantly affected the soybean yield using co-occurrence network patterns. Network analysis revealed that communities formed distinct clusters in which members of modules having significantly positive correlations with the soybean yield were more abundant in NE than OK. In addition, we identified the most influential bacteria for the soybean yield in the identified modules. For instance, included are class Anaerolineae, family Micromonosporaceae, genus Plantomyces, and genus Nitrospira in the most complex module (ME9) and genus Rhizobium in ME23. This research would help to further identify a way to increase soybean yield in low-yield states in the U.S. as well as worldwide by reconstructing the microbial communities in the rhizosphere.

Citations

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  • Soybean productivity can be enhanced by understanding rhizosphere microbiota: evidence from metagenomics analysis from diverse agroecosystems
    Honglei Ren, Huilong Hong, Bire Zha, Sobhi F. Lamlom, Hongmei Qiu, Yongqiang Cao, Rujian Sun, Haorang Wang, Junkui Ma, Hengbin Zhang, Liping Sun, Qing Yang, Changjun Zhou, Xiulin Liu, Xueyang Wang, Chunlei Zhang, Fengyi Zhang, Kezhen Zhao, Rongqiang Yuan,
    Microbiome.2025;[Epub]     CrossRef
  • Impact of Bacterial Pustule Disease Occurrence on Bacterial and Fungal Communities Within Vegetable Soybean Plants
    Choosak Khaengraeng, Wuttichai Mhuantong, Usawadee Chaiprom, Sawita Suwannarat, Nattakorn Kuncharoen, Nutjarin Haewou, Warapon Bunkoed, Tiyakhon Chatnaparat
    Plant Pathology.2025; 74(5): 1228.     CrossRef
  • A molecular conveyor belt-associated protein controls the rotational direction of the bacterial type 9 secretion system
    Abhishek Trivedi, Jacob A. Miratsky, Emma C. Henderson, Abhishek Singharoy, Abhishek Shrivastava, Clay Fuqua
    mBio.2025;[Epub]     CrossRef
  • The rhizosphere microbiome of 51 potato cultivars with diverse plant growth characteristics
    Benoit Renaud Martins, Viviane Radl, Krzysztof Treder, Dorota Michałowska, Karin Pritsch, Michael Schloter
    FEMS Microbiology Ecology.2024;[Epub]     CrossRef
  • Response of Soil Microorganisms and Phenolic to Pseudostelariae heterophylla Cultivation in Different Soil Types
    Yingying Liu, Dan Wu, Yongjun Kan, Li Zhao, Chang Jiang, Wensheng Pang, Juan Hu, Meilan Zhou
    Eurasian Soil Science.2024; 57(3): 446.     CrossRef
  • Analysis of the rhizosphere bacterial diversity of Angelica dahurica var. formosana from different experimental sites and varieties (strains)
    Meiyan Jiang, Fei Yao, Yunshu Yang, Yang Zhou, Kai Hou, Yinyin Chen, Dongju Feng, Wei Wu
    PeerJ.2023; 11: e15997.     CrossRef
  • Long-term fertilization coupled with rhizobium inoculation promotes soybean yield and alters soil bacterial community composition
    Wanling Wei, Dawei Guan, Mingchao Ma, Xin Jiang, Fenliang Fan, Fangang Meng, Li Li, Baisuo Zhao, Yubin Zhao, Fengming Cao, Huijun Chen, Jun Li
    Frontiers in Microbiology.2023;[Epub]     CrossRef
Complete gammaproteobacterial endosymbiont genome assembly from a seep tubeworm Lamellibrachia satsuma
Ajit Kumar Patra , Yong min Kwon , Youngik Yang
J. Microbiol. 2022;60(9):916-927.   Published online August 1, 2022
DOI: https://doi.org/10.1007/s12275-022-2057-4
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AbstractAbstract PDF
Siboglinid tubeworms thrive in hydrothermal vent and seep habitats via a symbiotic relationship with chemosynthetic bacteria. Difficulties in culturing tubeworms and their symbionts in a laboratory setting have hindered the study of host-microbe interactions. Therefore, released symbiont genomes are fragmented, thereby limiting the data available on the genome that affect subsequent analyses. Here, we present a complete genome of gammaproteobacterial endosymbiont from the tubeworm Lamellibrachia satsuma collected from a seep in Kagoshima Bay, assembled using a hybrid approach that combines sequences generated from the Illumina and Oxford Nanopore platforms. The genome consists of a single circular chromosome with an assembly size of 4,323,754 bp and a GC content of 53.9% with 3,624 protein-coding genes. The genome is of high quality and contains no assembly gaps, while the completeness and contamination are 99.33% and 2.73%, respectively. Comparative genome analysis revealed a total of 1,724 gene clusters shared in the vent and seep tubeworm symbionts, while 294 genes were found exclusively in L. satsuma symbionts such as transposons, genes for defense mechanisms, and inorganic ion transportations. The addition of this complete endosymbiont genome assembly would be valuable for comparative studies particularly with tubeworm symbiont genomes as well as with other chemosynthetic microbial communities.

Citations

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  • Comparative metagenomic analysis reveals the adaptive evolutionary traits of siboglinid tubeworm symbionts
    Jinyi Liu, Yingli Zhou, Jingchun Feng, Chaofeng Cai, Si Zhang
    Frontiers in Microbiology.2025;[Epub]     CrossRef
  • Genomic and transcriptomic analyses illuminate the molecular basis of the unique lifestyle of a tubeworm, Lamellibrachia satsuma
    Taiga Uchida, Yuki Yoshioka, Yu Yoshida, Manabu Fujie, Ayuta Yamaki, Akira Sasaki, Koji Inoue, Chuya Shinzato
    DNA Research.2023;[Epub]     CrossRef
Direct current exerts electricidal and bioelectric effects on Porphyromonas gingivalis biofilms partially via promoting oxidative stress and antibiotic transport
Peihui Zou , Peng Li , Jia Liu , Pei Cao , Qingxian Luan
J. Microbiol. 2022;60(1):70-78.   Published online November 26, 2021
DOI: https://doi.org/10.1007/s12275-022-1238-5
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  • 11 Crossref
AbstractAbstract PDF
Low electric current can inhibit certain microbial biofilms and enhance the efficacy of antimicrobials against them. This study investigated the electricidal and bioelectric effects of direct current (DC) against Porphyromonas gingivalis biofilms as well as the underlying mechanisms. Here, we firstly showed that DC significantly suppressed biofilm formation of P. gingivalis in time- and intensity-dependent manners, and markedly inhibited preformed P. gingivalis biofilms. Moreover, DC enhanced the killing efficacy of metronidazole (MTZ) and amoxicillin with clavulanate potassium (AMC) against the biofilms. Notably, DC-treated biofilms displayed upregulated intracellular ROS and expression of ROS related genes (sod, feoB, and oxyR) as well as porin gene. Interestingly, DC-induced killing of biofilms was partially reversed by ROS scavenger N-dimethylthiourea (DMTU), and the synergistic effect of DC with MTZ/AMC was weakened by small interfering RNA of porin gene (si-Porin). In conclusion, DC can exert electricidal and bioelectric effects against P. gingivalis biofilms partially via promotion of oxidative stress and antibiotic transport, which offers a promising approach for effective management of periodontitis.

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Effect of biostimulation and bioaugmentation on hydrocarbon degradation and detoxification of diesel-contaminated soil: a microcosm study
Patricia Giovanella , Lídia de Azevedo Duarte , Daniela Mayumi Kita , Valéria Maia de Oliveira , Lara Durães Sette
J. Microbiol. 2021;59(7):634-643.   Published online May 15, 2021
DOI: https://doi.org/10.1007/s12275-021-0395-2
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AbstractAbstract PDF
Soil contamination with diesel oil is quite common during processes of transport and storage. Bioremediation is considered a safe, economical, and environmentally friendly approach for contaminated soil treatment. In this context, studies using hydrocarbon bioremediation have focused on total petroleum hydrocarbon (TPH) analysis to assess process effectiveness, while ecotoxicity has been neglected. Thus, this study aimed to select a microbial consortium capable of detoxifying diesel oil and apply this consortium to the bioremediation of soil contaminated with this environmental pollutant through different bioremediation approaches. Gas chromatography (GC-FID) was used to analyze diesel oil degradation, while ecotoxicological bioassays with the bioindicators Artemia sp., Aliivibrio fischeri (Microtox), and Cucumis sativus were used to assess detoxification. After 90 days of bioremediation, we found that the biostimulation and biostimulation/ bioaugmentation approaches showed higher rates of diesel oil degradation in relation to natural attenuation (41.9 and 26.7%, respectively). Phytotoxicity increased in the biostimulation and biostimulation/bioaugmentation treatments during the degradation process, whereas in the Microtox test, the toxicity was the same in these treatments as that in the natural attenuation treatment. In both the phytotoxicity and Microtox tests, bioaugmentation treatment showed lower toxicity. However, compared with natural attenuation, this approach did not show satisfactory hydrocarbon degradation. Based on the microcosm experiments results, we conclude that a broader analysis of the success of bioremediation requires the performance of toxicity bioassays.

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    Larissa O. da Silva, Sara H. de Oliveira, Rafael G. C. da Silva, Magda R. S. Vieira, Ivanilda R. de Melo, Severino L. Urtiga Filho
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Review
Microbial source tracking using metagenomics and other new technologies
Shahbaz Raza , Jungman Kim , Michael J. Sadowsky , Tatsuya Unno
J. Microbiol. 2021;59(3):259-269.   Published online February 10, 2021
DOI: https://doi.org/10.1007/s12275-021-0668-9
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AbstractAbstract PDF
The environment is under siege from a variety of pollution sources. Fecal pollution is especially harmful as it disperses pathogenic bacteria into waterways. Unraveling origins of mixed sources of fecal bacteria is difficult and microbial source tracking (MST) in complex environments is still a daunting task. Despite the challenges, the need for answers far outweighs the difficulties experienced. Advancements in qPCR and next generation sequencing (NGS) technologies have shifted the traditional culture-based MST approaches towards culture independent technologies, where communitybased MST is becoming a method of choice. Metagenomic tools may be useful to overcome some of the limitations of community-based MST methods as they can give deep insight into identifying host specific fecal markers and their association with different environments. Adoption of machine learning (ML) algorithms, along with the metagenomic based MST approaches, will also provide a statistically robust and automated platform. To compliment that, ML-based approaches provide accurate optimization of resources. With the successful application of ML based models in disease prediction, outbreak investigation and medicine prescription, it would be possible that these methods would serve as a better surrogate of traditional MST approaches in future.

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Journal Articles
Genetic linkage map construction and quantitative trait loci mapping of agronomic traits in Gloeostereum incarnatum
Wan-Zhu Jiang , Fang-Jie Yao , Li-Xin Lu , Ming Fang , Peng Wang , You-Min Zhang , Jing-Jing Meng , Jia Lu , Xiao-Xu Ma , Qi He , Kai-Sheng Shao
J. Microbiol. 2021;59(1):41-50.   Published online November 17, 2020
DOI: https://doi.org/10.1007/s12275-021-0242-5
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AbstractAbstract PDF
Gloeostereum incarnatum is an edible medicinal mushroom widely grown in China. Using the whole genome of G. incarnatum, simple sequence repeat (SSR) markers were developed and synthetic primers were designed to construct its first genetic linkage map. The 1,048.6 cm map is composed of 10 linkage groups and contains 183 SSR markers. In total, 112 genome assembly sequences were anchored, representing 16.43 Mb and covering 46.41% of the genome. Selfing populations were used for quantitative trait loci (QTL) targeting, and the composite interval mapping method was used to co-localize the mycelium growth rate (potato dextrose agar and sawdust), growth period, yield and fruiting body length, and width and thickness. The 14 QTLs of agronomic traits had LOD values of 3.20–6.51 and contribution rates of 2.22– 13.18%. No linkage relationship was found between the mycelium growth rate and the growth period, but a linkage relationship was observed among the length, width and thickness of the fruiting bodies. Using NCBI’s BLAST alignment, the genomic sequences corresponding to the QTL regions were compared, and a TPR-like protein candidate gene was selected. Using whole-genome data, 138 candidate genes were found in four sequence fragments of two SSR markers located in the same scaffold. The genetic map and QTLs established in this study will aid in developing selective markers for agronomic traits and identifying corresponding genes, thereby providing a scientific basis for the further gene mapping of quantitative traits and the marker-assisted selection of functional genes in G. incarnatum breeding programs.

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  • Biochemistry and Chemoinformatics Guided Classification of Hirsutane Sesquiterpenes Isolated from Mushroom
    Yaping Liu, Jumpei Nishishita, Chengwei Liu, Hideaki Oikawa, Atsushi Minami
    JACS Au.2025; 5(2): 740.     CrossRef
  • Dicarboxylic Amino Acid Permease 7219 Regulates Fruiting Body Type of Auricularia heimuer
    Jia Lu, Lixin Lu, Fangjie Yao, Ming Fang, Xiaoxu Ma, Jingjing Meng, Kaisheng Shao
    Journal of Fungi.2023; 9(9): 876.     CrossRef
  • Identification of quantitative trait loci for growth traits in red swamp crayfish (Procambarus clarkii)
    Junxiao Sun, Cuirong Luo, Bo Peng, Guohui Peng, Yunfei Tan, Xufeng Bai
    Aquaculture and Fisheries.2023; 8(6): 727.     CrossRef
  • Improved Genetic Map and Localization of Quantitative Trait Loci for Quality Traits in Auricularia heimuer
    Jia Lu, Ming Fang, Fangjie Yao, Lixin Lu, Xiaoxu Ma, Jingjing Meng, Kaisheng Shao
    Horticulturae.2023; 9(7): 763.     CrossRef
  • Assemblies of the genomes of parasitic wasps using meta-assembly and scaffolding with genetic linkage
    Kameron T Wittmeyer, Sara J Oppenheim, Keith R Hopper, J Hesselberth
    G3 Genes|Genomes|Genetics.2022;[Epub]     CrossRef
  • EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski
    Zhen Li, Lan Yun, Zhiqi Gao, Tian Wang, Xiaomin Ren, Yan Zhao
    Frontiers in Plant Science.2022;[Epub]     CrossRef
  • Analysis of the Genome Sequence of Strain GiC-126 of Gloeostereum incarnatum with Genetic Linkage Map
    Wan-Zhu Jiang, Fang-Jie Yao, Ming Fang, Li-Xin Lu, You-Min Zhang, Peng Wang, Jing-Jing Meng, Jia Lu, Xiao-Xu Ma, Qi He, Kai-Sheng Shao, Asif Ali Khan, Yun-Hui Wei
    Mycobiology.2021; 49(4): 406.     CrossRef
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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AbstractAbstract PDF
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
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    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
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  • 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
[Protocol]Rapid method for chromatin immunoprecipitation (ChIP) assay in a dimorphic fungus, Candida albicans
Jueun Kim , Jung-Shin Lee
J. Microbiol. 2020;58(1):11-16.   Published online June 11, 2019
DOI: https://doi.org/10.1007/s12275-020-9143-2
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AbstractAbstract PDF
A chromatin immunoprecipitation (ChIP) assay is a method to identify how much a protein of interest binds to the DNA region. This method is indispensable to study the mechanisms of how the transcription factors or chromatin modifications regulate the gene expression. Candida albicans is a dimorphic pathogenic fungus, which can change its morphology very rapidly from yeast to hypha in response to the environmental signal. The morphological change of C. albicans is one of the critical factors for its virulence. Therefore, it is necessary to understand how to regulate the expression of genes for C. albicans to change its morphology. One of the essential methods for us to understand this regulation is a ChIP assay. There have been many efforts to optimize the protocol to lower the background signal and to analyze the results accurately because a ChIP assay can provide very different results even with slight differences in the experimental procedure. We have optimized the rapid and efficient ChIP protocol so that it could be applied equally for both yeast and hyphal forms of C. albicans. Our method in this protocol is also comparatively rapid to the method widely used. In this protocol, we described our rapid method for the ChIP assay in C. albicans in detail.

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  • Set1 is a critical transcriptional regulator in response to external signals in Candida albicans
    Jueun Kim, Jiyeon Park, Eun-Jin Lee, Yong-Joon Cho, Jung-Shin Lee
    Nucleic Acids Research.2025;[Epub]     CrossRef
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    Xueqin Shu, Yingying Shi, Yi Huang, Dan Yu, Baolin Sun
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    Mohsen A. Sayed, Gihad A. Sayed, Eman Abdullah M. Ali
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    Liu Zhang, Xiangyu Wang, Wenqiang Che, Yongjun Yi, Shuoming Zhou, Yongjian Feng
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    Qun Zhao, Baodi Dai, Hongyu Wu, Wencheng Zhu, Jiangye Chen
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    Jueun Kim, Shinae Park, Sohee Kwon, Eun-Jin Lee, Jung-Shin Lee
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β-1,3-Glucan/CR3/SYK pathway-dependent LC3B-II accumulation enhanced the fungicidal activity in human neutrophils
Ding Li , Changsen Bai , Qing Zhang , Zheng Li , Di Shao , Xichuan Li
J. Microbiol. 2019;57(4):263-270.   Published online February 5, 2019
DOI: https://doi.org/10.1007/s12275-019-8298-1
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AbstractAbstract PDF
Since molecular genotyping has been established for the Candida species, studies have found that a single Candida strain (endemic strain) can persist over a long period of time and results in the spread of nosocomial invasive candidiasis without general characteristics of horizontal transmissions. Our previous study also found the existence of endemic strains in a cancer center in Tianjin, China. In the current study, we performed further investigation on endemic and non-endemic Candida albicans strains, with the aim of explaining the higher morbidity of endemic strains. In an in vivo experiment, mice infected with endemic strains showed significantly shorter survival time and higher kidney fungal burdens compared to mice infected with non-endemic strains. In an in vitro experiment, the killing percentage of neutrophils to endemic strains was significantly lower than that to non-endemic strains, which is positively linked to the ratio of LC3B-II/I in neutrophils. An immunofluorescence assay showed more β-1,3-glucan exposure on the cell walls of nonendemic strains compared to endemic strains. After blocking the β-glucan receptor (CR3) or inhibiting downstream kinase (SYK) in neutrophils, the killing percent to C. albicans (regardless of endemic and non-endemic strains) and the ratio of LC3B-II/I of neutrophils were significantly decreased. These data suggested that the killing capability of neutrophils to C. albicans was monitored by β-1,3-glucan via CR3/SYK pathway-dependent LC3B-II accumulation and provided an explanation for the variable killing capability of neutrophils to different strains of C. albicans, which would be beneficial in improving infection control and therapeutic strategies for invasive candidiasis.

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Candida krusei isolated from fruit juices ultrafiltration membranes promotes colonization of Escherichia coli O157:H7 and Salmonella enterica on stainless steel surfaces
María Clara Tarifa , Jorge Enrique Lozano , Lorena Inés Brugnoni
J. Microbiol. 2017;55(2):96-103.   Published online January 26, 2017
DOI: https://doi.org/10.1007/s12275-017-6300-3
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AbstractAbstract PDF
To clarify the interactions between a common food spoilage yeast and two pathogenic bacteria involved in outbreaks associated with fruit juices, the present paper studies the effect of the interplay of Candida krusei, collected from UF membranes, with Escherichia coli O157:H7 and Salmonella enterica in the overall process of adhesion and colonization of abiotic surfaces. Two different cases were tested: a) co-adhesion by pathogenic bacteria and yeasts, and b) incorporation of bacteria to pre-adhered C. krusei cells. Cultures were made on stainless steel at 25°C using apple juice as culture medium. After 24 h of co-adhesion with C. krusei, both E. coli O157:H7 and S. enterica increased their counts 1.05 and 1.11 log CFU cm2, respectively. Similar increases were obtained when incorporating bacteria to pre-adhered cells of Candida. Nevertheless C. krusei counts decreased in both experimental conditions, in a) 0.40 log CFU cm2 and 0.55 log CFU cm2 when exposed to E. coli O157:H7 and S. enterica and in b) 0.18 and 0.68 log CFU cm2, respectively. This suggests that C. krusei, E. coli O157:H7, and S. enterica have a complex relationship involving physical and chemical interactions on food contact surfaces. This study supports the possibility that pathogen interactions with members of spoilage microbiota, such as C. krusei, might play an important role for the survival and dissemination of E. coli O157:H7 and Salmonella enterica in food-processing environments. Based on the data obtained from the present study, much more attention should be given to prevent the contamination of these pathogens in acidic drinks.

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Reviews
MINIREVIEW] The therapeutic applications of antimicrobial peptides (AMPs): a patent review
Hee-Kyoung Kang , Cheolmin Kim , Chang Ho Seo , Yoonkyung Park
J. Microbiol. 2017;55(1):1-12.   Published online December 30, 2016
DOI: https://doi.org/10.1007/s12275-017-6452-1
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AbstractAbstract PDF
Antimicrobial peptides (AMPs) are small molecules with a broad spectrum of antibiotic activities against bacteria, yeasts, fungi, and viruses and cytotoxic activity on cancer cells, in addition to anti-inflammatory and immunomodulatory activities. Therefore, AMPs have garnered interest as novel therapeutic agents. Because of the rapid increase in drug-resistant pathogenic microorganisms, AMPs from synthetic and natural sources have been developed using alternative antimicrobial strategies. This article presents a broad analysis of patents referring to the therapeutic applications of AMPs since 2009. The review focuses on the universal trends in the effective design, mechanism, and biological evolution of AMPs.

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REVIEW] Plasma membrane organization promotes virulence of the human fungal pathogen Candida albicans
Lois M. Douglas , James B. Konopka
J. Microbiol. 2016;54(3):178-191.   Published online February 27, 2016
DOI: https://doi.org/10.1007/s12275-016-5621-y
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AbstractAbstract PDF
Candida albicans is a human fungal pathogen capable of causing lethal systemic infections. The plasma membrane plays key roles in virulence because it not only functions as a protective barrier, it also mediates dynamic functions including secretion of virulence factors, cell wall synthesis, invasive hyphal morphogenesis, endocytosis, and nutrient uptake. Consistent with this functional complexity, the plasma membrane is composed of a wide array of lipids and proteins. These components are organized into distinct domains that will be the topic of this review. Some of the plasma membrane domains that will be described are known to act as scaffolds or barriers to diffusion, such as MCC/eisosomes, septins, and sites of contact with the endoplasmic reticulum. Other zones mediate dynamic processes, including secretion, endocytosis, and a special region at hyphal tips that facilitates rapid growth. The highly organized architecture of the plasma membrane facilitates the coordination of diverse functions and promotes the pathogenesis of C. albicans.

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REVIEW] Hgc1-Cdc28–how much does a single protein kinase do in the regulation of hyphal development in Candida albicans?
Yue Wang
J. Microbiol. 2016;54(3):170-177.   Published online February 27, 2016
DOI: https://doi.org/10.1007/s12275-016-5550-9
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AbstractAbstract PDF
The fungal human pathogen Candida albicans can cause invasive infection with high mortality rates. A key virulence factor is its ability to switch between three morphologies: yeast, pseudohyphae and hyphae. In contrast to the ovalshaped unicellular yeast cells, hyphae are highly elongated, tube-like, and multicellular. A long-standing question is what coordinates all the cellular machines to construct cells with distinct shapes. Hyphal-specific genes (HSGs) are thought to hold the answer. Among the numerous HSGs found, only UME6 and HGC1 are required for hyphal development. UME6 encodes a transcription factor that regulates many HSGs including HGC1. HGC1 encodes a G1 cyclin which partners with the Cdc28 cyclin-dependent kinase. Hgc1- Cdc28 simultaneously phosphorylates and regulates multiple substrates, thus controlling multiple cellular apparatuses for morphogenesis. This review is focused on major progresses made in the past decade on Hgc1’s roles and regulation in C. albicans hyphal development and other traits important for infection.

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MINIREVIEW] Histone deacetylase-mediated morphological transition in Candida albicans
Jueun Kim , Ji-Eun Lee , Jung-Shin Lee
J. Microbiol. 2015;53(12):805-811.   Published online December 2, 2015
DOI: https://doi.org/10.1007/s12275-015-5488-3
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AbstractAbstract
Candida albicans is the most common opportunistic fungal pathogen, which switches its morphology from single-cell yeast to filament through the various signaling pathways responding to diverse environmental cues. Various transcriptional factors such as Nrg1, Efg1, Brg1, Ssn6, and Tup1 are the key components of these signaling pathways. Since C. albicans can regulate its transcriptional gene expressions using common eukaryotic regulatory systems, its morphological transition by these signaling pathways could be linked to the epigenetic regulation by chromatin structure modifiers. Histone proteins, which are critical components of eukaryotic chromatin structure, can regulate the eukaryotic chromatin structure through their own modifications such as acetylation, methylation, phosphorylation and ubiquitylation. Recent studies revealed that various histone modifications, especially histone acetylation and deacetylation, participate in morphological transition of C. albicans collaborating with well-known transcription factors in the signaling pathways. Here, we review recent studies about chromatin-mediated morphological transition of C. albicans focusing on the interaction between transcription factors in the signaling pathways and histone deacetylases.

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Research Support, Non-U.S. Gov'ts
Deletion analysis of LSm, FDF, and YjeF domains of Candida albicans Edc3 in hyphal growth and oxidative-stress response
Eung-Chul Kim , Jinmi Kim
J. Microbiol. 2015;53(2):111-115.   Published online January 28, 2015
DOI: https://doi.org/10.1007/s12275-015-4727-y
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AbstractAbstract
Candida albicans is an opportunistic fungal pathogen whose responses to environmental changes are associated with the virulence attributes. Edc3 is known to be an enhancer of the mRNA decapping reactions and a scaffold protein of cytoplasmic processing bodies (P-bodies). Recent studies of C. albicans Edc3 suggested its critical roles in filamentous growth and stress-induced apoptotic cell death. The edc3/edc3 deletion mutant strain showed increased cell survival and less ROS accumulation upon treatment with hydrogen peroxide. To investigate the diverse involvement of Edc3 in the cellular processes, deletion mutations of LSm, FDF, or YjeF domain of Edc3 were constructed. The edc3-LSmΔ or edc3-YjeFΔ mutation showed the filamentation defect, resistance to oxidative stress, and decreased ROS accumulation. In contrast, the edc3-FDFΔ mutation exhibited a wild-type level of filamentous growth and a mild defect in ROS accumulation. These results suggest that Lsm and YjeF domains of Edc3 are critical in hyphal growth and oxidative stress response.

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Cyclic Dipeptides from Lactic Acid Bacteria Inhibit the Proliferation of Pathogenic Fungi
Min-Kyu Kwak , Rui Liu , Min-Kyu Kim , Dohyun Moon , Andrew HyoungJin Kim , Sung-Hyun Song , Sa-Ouk Kang
J. Microbiol. 2014;52(1):64-70.   Published online January 4, 2014
DOI: https://doi.org/10.1007/s12275-014-3520-7
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AbstractAbstract PDF
Lactobacillus plantarum LBP-K10 was identified to be the most potent antifungal strain from Korean traditional fermented vegetables. The culture filtrate of this strain showed remarkable antifungal activity against Ganoderma boninense. Five fractions from the culture filtrate were observed to have an inhibitory effect against G. boninense. Also, the electron ionization and chemical ionization indicated that these compounds might be cyclic dipeptides. Of the five active fractions, two fractions showed the most significant anti-Ganoderma activity, and one of these fractions inhibited the growth of Candida albicans. These compounds were identified to be cis-cyclo(L-Val-L-Pro) and cis-cyclo(L-Phe-L-Pro), as confirmed by X-ray crystallography.

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    çisem Bulut Albayrak
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Azole-synergistic Anti-Candidal Activity of Altenusin, a Biphenyl Metabolite of the Endophytic Fungus Alternaria alternata Isolated from Terminalia chebula Retz.
Jatuporn Phaopongthai , Suthep Wiyakrutta , Duangdeun Meksuriyen , Nongluksna Sriubolmas , Khanit Suwanborirux
J. Microbiol. 2013;51(6):821-828.   Published online December 19, 2013
DOI: https://doi.org/10.1007/s12275-013-3189-3
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AbstractAbstract PDF
In this study, a tropical endophytic fungus, Alternaria alternata Tche-153 was isolated from a Thai medicinal plant Terminalia chebula Rezt. The ethyl acetate extract prepared from the fermentation broth exhibited significant ketoconazole- synergistic activity against Candida albicans. Bioassaydirected fractionation of the ethyl acetate extract led to the isolation of altenusin (1), isoochracinic acid (2), and altenuic acid (3) together with 2,5-dimethyl-7-hydroxychromone (4). Using the disc diffusion method and the microdilution chequerboard technique, only altenusin (1) in combination with each of three azole drugs, ketoconazole, fluconazole or itraconazole at their low sub-inhibitory concentrations exhibited potent synergistic activity against C. albicans with the fractional inhibitory concentration index range of 0.078 to 0.188. This first discovery of altenusin (1) as a new azole-synergistic prototype possessing a biphenyl structure is of significance for further development of new azole-synergists to treat invasive candidiasis.

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Saccharomyces cerevisiae Can Secrete Sapp1p Proteinase of Candida parapsilosis But Cannot Use It for Efficient Nitrogen Acquisition
Zuzana Vinterová , Václava Bauerová , Ji&# , Hana Sychrová , Olga Hru&# , Iva Pichová
J. Microbiol. 2013;51(3):336-344.   Published online June 28, 2013
DOI: https://doi.org/10.1007/s12275-013-2422-4
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AbstractAbstract PDF
Secreted aspartic proteinase Sapp1p of Candida parapsilosis represents one of the factors contributing to the pathogenicity of the fungus. The proteinase is synthesized as an inactive pre-pro-enzyme, but only processed Sapp1p is secreted into extracellular space. We constructed a plasmid containing the SAPP1 coding sequence under control of the ScGAL1 promoter and used it for proteinase expression in a Saccharomyces cerevisiae kex2Δ mutant. Because Sapp1p maturation depends on cleavage by Kex2p proteinase, the kex2Δ mutant secreted only the pro-form of Sapp1p. Characterization of this secreted proteinase form revealed that the Sapp1p signal peptide consists of 23 amino acids. Additionally, we prepared a plasmid with the SAPP1 coding sequence under control of its authentic CpSAPP1 promoter, which contains two GATAA motifs. While in C. parapsilosis SAPP1 expression is repressed by good low molecular weight nitrogen sources (e.g., ammonium ions), S. cerevisiae cells harboring this plasmid secreted a low concentration of active proteinase regardless of the type of nitrogen source used. Quantitative real-time PCR analysis of a set of genes related to nitrogen metabolism and uptake (GAT1, GLN3, STP2, GAP1, OPT1, and PTR2) obtained from S. cerevisiae cells transformed with either plasmid encoding SAPP1 under control of its own promoter or empty vector and cultivated in media containing various nitrogen sources also suggested that SAPP1 expression can be connected with the S. cerevisiae regulatory network. However, this regulation occurs in a different manner than in C. parapsilosis.

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    Xiufang Liu, Mulin Lian, Mouming Zhao, Mingtao Huang
    World Journal of Microbiology and Biotechnology.2024;[Epub]     CrossRef
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Enhancement of Anti-candidal Activity of Endophytic Fungus Phomopsis sp. ED2, Isolated from Orthosiphon stamineus Benth, by Incorporation of Host Plant Extract in Culture Medium
Tong Woei Yenn , Chong Chai Lee , Darah Ibrahim , Latiffah Zakaria
J. Microbiol. 2012;50(4):581-585.   Published online July 21, 2012
DOI: https://doi.org/10.1007/s12275-012-2083-8
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AbstractAbstract PDF
This study examined the effect of host extract in the culture medium on anti-candidal activity of Phomopsis sp. ED2, previously isolated from the medicinal herb Orthosiphon stamineus Benth. Interestingly, upon addition of aqueous host extract to the culture medium, the ethyl acetate extract prepared from fermentative broth exhibited moderate anticandidal activity in a disc diffusion assay. The minimal inhibitory concentration of this extract was 62.5 μg/ml and it only exhibited fungistatic activity against C. albicans. In the time-kill study, a 50% growth reduction of C. albicans was observed at 31.4 h for extract from the culture incorporating host extract. In the bioautography assay, only one single spot (Rf 0.59) developed from the extract exhibited anti-candidal activity. A spot with the a similar Rf was not detected for the crude extract from YES broth without host extract. This indicated that the terpenoid anti-candidal compound was only produced when the host extract was introduced into the medium. The study concluded that the incorporation of aqueous extract of the host plant into the culture medium significantly enhanced the anti-candidal activity of Phomopsis sp. ED2.

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Review
REVIEW] Candida albicans, a Major Human Fungal Pathogen
Joon Kim , Peter Sudbery
J. Microbiol. 2011;49(2):171-177.   Published online May 3, 2011
DOI: https://doi.org/10.1007/s12275-011-1064-7
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AbstractAbstract PDF
Candida albicans is the most common human fungal pathogen (Beck-Sague and Jarvis, 1993). It is normally a harmless commensal organism. However, it is a opportunistic pathogen for some immunologically weak and immunocompromised people. It is responsible for painful mucosal infections such as the vaginitis in women and oral-pharangeal thrush in AIDS patients. In certain groups of vulnerable patients it causes severe, life-threatening bloodstream infections and it causes severe, life-threatening bloodstream infections and subsequent infections in the internal organs. There are various fascinating features of the C. albicans life cycle and biology that have made the pathogen the subject of extensive research, including its ability to grow in unicellular yeast, psudohyphal, and hyphal forms (Fig. 1A); its ability to switch between different but stable phenotypic states, and the way that it retains the ability to mate but apparently loses the ability to go through meiosis to complete the sexual cycle. This research has been greatly facilitated by the derivation of the complete C. albicans genome sequence (Braun et al., 2005), the development of a variety of molecular tools for gene manipulation, and a store of underpinning knowledge of cell biology borrowed from the distantly related model yeast Saccharomyces cerevisiae (Berman and Sudbery, 2002; Noble and Johnson, 2007). This review will provide a brief overview of the importance of C. albicans as a public health issue, the experimental tools developed to study its fascinating biology, and some examples of how these have been applied.

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    André Moraes Nicola, Patrícia Albuquerque, Luis R. Martinez, Rafael Antonio Dal-Rosso, Carolyn Saylor, Magdia De Jesus, Joshua D. Nosanchuk, Arturo Casadevall, G. S. Deepe
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Research Support, Non-U.S. Gov'ts
Cloning, Expression, and Characterization of Xylose Reductase with Higher Activity from Candida tropicalis
Feiwei Zhang , Dairong Qiao , Hui Xu , Chong Liao , Shilin Li , Yi Cao
J. Microbiol. 2009;47(3):351-357.   Published online June 26, 2009
DOI: https://doi.org/10.1007/s12275-008-0225-9
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AbstractAbstract PDF
Xylose reductase (XR) is a key enzyme in xylose metabolism because it catalyzes the reduction of xylose to xylitol. In order to study the characteristics of XR from Candida tropicalis SCTCC 300249, its XR gene(xyl1) was cloned and expressed in Escherichia coli BL21 (DE3). The fusion protein was purified effectively by Ni2+-chelating chromatography, and the kinetics of the recombinant XR was investigated. The Km values of the C. tropicalis XR for NADPH and NADH were 45.5 uM and 161.9 uM, respectively, which demonstrated that this XR had dual coenzyme specificity. Moreover, this XR showed the highest catalytic efficiency (kcat=1.44x04 min-1) for xylose among the characterized aldose reductases. Batch fermentation was performed with Saccharomyces serivisiae W303-1A:pYES2XR, and resulted in 7.63 g/L cell mass, 93.67 g/L xylitol, and 2.34 g/Lh xylitol productivity. This XR coupled with its dual coenzyme specificity, high activity, and catalytic efficiency proved its utility in in vitro xylitol production.

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  • Characterization of d-xylose reductase, XyrB, from Aspergillus niger
    Agata Terebieniec, Tania Chroumpi, Adiphol Dilokpimol, Maria Victoria Aguilar-Pontes, Miia R. Mäkelä, Ronald P. de Vries
    Biotechnology Reports.2021; 30: e00610.     CrossRef
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    Adriane Mouro, Angela A. dos Santos, Denis D. Agnolo, Gabriela F. Gubert, Elba P. S. Bon, Carlos A. Rosa, César Fonseca, Boris U. Stambuk
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The Three-Dimensional Morphology of Candida albicans as Seen by High-Resolution Scanning Electron Microscopy
Michela Isola , Raffaella Isola , Maria Serenella Lantini , Alessandro Riva
J. Microbiol. 2009;47(3):260-264.   Published online June 26, 2009
DOI: https://doi.org/10.1007/s12275-008-0212-1
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AbstractAbstract PDF
The fine structure of Candida albicans has been repeatedly described by transmission electron microscopy, whereas studies by high-resolution scanning electron microscopy (HRSEM) are rare and devoted solely to the study of its external morphology. This report describes the results of an HRSEM study on C. albicans carried out by an osmium maceration protocol modified to better retain the structural characteristics of this yeast. Thus, we visualized various intracellular structures including invaginations of cell membrane (plasmalemmasomes), nuclear envelope, mitochondria, the vacuolar system, and two additional structures that might represent a form of endoplasmic reticulum and the Golgi apparatus. The present investigation, which for the first time shows the organelles of C. albicans at the 3D level, may lead to a better understanding of its cell physiology.

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  • Three-dimensional analysis of the intracellular architecture by scanning electron microscopy
    Daisuke Koga, Satoshi Kusumi, Hirokazu Yagi, Koichi Kato
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    Humberto H. Lara, Dulce G. Romero-Urbina, Christopher Pierce, Jose L. Lopez-Ribot, M. Josefina Arellano-Jiménez, Miguel Jose-Yacaman
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    Marizela Delic, Minoska Valli, Alexandra B. Graf, Martin Pfeffer, Diethard Mattanovich, Brigitte Gasser
    FEMS Microbiology Reviews.2013; 37(6): 872.     CrossRef
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    Younhee Kim
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    Andrea Richards, Neil A.R. Gow, Veronica Veses
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Characterization of Osh3, an Oxysterol-binding Protein, in Filamentous Growth of Saccharomyces cerevisiae and Candida albicans
Hyang-sook Hur , Ji-Ho Ryu , Kwang-Hoon Kim , Jinmi Kim
J. Microbiol. 2006;44(5):523-529.
DOI: https://doi.org/2445 [pii]
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AbstractAbstract PDF
OSH3 is one of the seven yeast homologues of the oxysterol binding proteins (OSBPs) which have the major binding affinity to the oxysterols and function as regulator of cholesterol biosynthesis in mammals. Mutational analysis of OSH3 showed that OSH3 plays a regulatory role in the yeast-to-hyphal transition through its oxysterol-binding domain in Saccharomyces cerevisiae. The OSH3 gene was also identified in the pathogenic yeast Candida albicans. Deletion of OSH3 caused a defect in the filamentous growth, which is the major cause of the C. albicans pathogencity. The filamentation defect of the mutation in the MAPK-associated transcription factor, namely cph1Δ was suppressed by overexpression of OSH3. These findings suggest the regulatory roles of OSH3 in the yeast filamentous growth and the functional conservations of OSH3 in S. cerevisiae and C. albicans.
Role of CaBud6p in the Polarized Growth of Candida albicans
Yunkyoung Song , Jeong-Yoon Kim
J. Microbiol. 2006;44(3):311-319.
DOI: https://doi.org/2381 [pii]
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AbstractAbstract PDF
Bud6p is a component of a polarisome that controls cell polarity in Saccharomyces cerevisiae. In this study, we investigated the role of the Candida albicans Bud6 protein (CaBud6p) in cell polarity and hyphal development. CaBud6p, which consists of 703 amino acids, had 37% amino-acid sequence identity with the Bud6 protein of S. cerevisiae. The homozygous knock-out of CaBUD6 resulted in several abnormal phenotypes, such as a round and enlarged cells, widened bud necks, and a random budding pattern. In hypha-inducing media, the mutant cells had markedly swollen tips and a reduced ability to switch from yeast to hypha. In addition, a yeast two-hybrid analysis showed a physical interaction between CaBud6p and CaAct1p, which suggests that CaBud6p may be involved in actin cable organization, like Bud6p in S. cerevisiae. Taken together, these results indicate that CaBud6 plays an important role in the polarized growth of C. albicans.
Strain Improvement of Candida tropicalis for the Production of Xylitol:Biochemical and Physiological Characterization of Wild-type and Mutant Strain CT-OMV5
Ravella Sreenivas Rao , Cherukuri Pavana Jyothi , Reddy Shetty Prakasham , Chaganti Subba Rao , Ponnupalli Nageshwara Sarma , Linga Venkateswar Rao
J. Microbiol. 2006;44(1):113-120.
DOI: https://doi.org/2328 [pii]
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AbstractAbstract PDF
Candida tropicalis was treated with ultraviolet (UV) rays, and the mutants obtained were screened for xylitol production. One of the mutants, the UV1 produced 0.81g of xylitol per gram of xylose. This was further mutated with N-methyl-N’-nitro-N-nitrosoguanidine (MNNG), and the mutants obtained were screened for xylitol production. One of the mutants (CT-OMV5) produced 0.85g/g of xylitol from xylose. Xylitol production improved to 0.87 g/g of xylose with this strain when the production medium was supplemented with urea. The CT-OMV5 mutant strain differs by 12 tests when compared to the wild-type Candida tropicalis strain. The XR activity was higher in mutant CT-OMV5. The distinct difference between the mutant and wild-type strain is the presence of numerous chlamydospores in the mutant. In this investigation, we have demonstrated that mutagenesis was successful in generating a superior xylitol-producing strain, CT-OMV5, and uncovered distinctive biochemical and physiological characteristics of the wild-type and mutant strain, CT-OMV5.
Journal Article
Molecular Epidemiological Analysis of Bloodstream Isolates of Candida albicans from a University Hospital over a Five-Year Period
Jong Hee Shin , Yu Gyung Og , Duck Cho , Seung Jung Kee , Myung Geun Shin , Soon Pal Suh , Dong Wook Ryang
J. Microbiol. 2005;43(6):546-554.
DOI: https://doi.org/2291 [pii]
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AbstractAbstract PDF
We assessed the genetic relations and epidemiological links among bloodstream isolates of Candida albicans, which were obtained from a university hospital over a period of five years. The 54 bloodstream isolates from the 38 patients yielded 14 different karyotypes, 29 different patterns after digestion with SfiI (REAG-S), and 31 different patterns after digestion with BssHII (REAG-B) when analyzed using three different pulsed-field gel electrophoresis (PFGE) typing methods. In 11 patients with serial bloodstream isolates, all strains from each patient had the same PFGE pattern. The dendrograms for all of the strains revealed that the distribution of similarity values ranged from 0.70 to 1.0 in the REAG-S patterns, and from 0.35 to 1.0 in the REAG-B patterns. Overall, the combination of the three different PFGE methods identified 31 distinct types, reflecting the results obtained using the REAG-B alone different. different Five PFGE types were shared among 22 isolates from 12 patients. These types of strains were more frequently associated with central venous catheter-related fungemia than the other 26 type strains (92% versus 31%; P < 0.005). Of five PFGE types, four isolates were determined to be epidemiologically related: each of these types was primarily from two or three patients who had been hospitalized concurrently within the same intensive care unit. Our results suggest that the REAG-B constitutes perhaps the most useful PFGE method for investigating C. albicans candidemia and also shows that a relatively high proportion of C. albicans candidemia may be associated with exogenous acquisition of clonal strains.
Research Support, Non-U.S. Gov't
Complete Sequence of a Gene Encoding KAR3-Related Kinesin-like Protein in Candida albicans
Min-Kyoung Kim , Young Mi Lee , Wankee Kim , Wonja Choi
J. Microbiol. 2005;43(5):406-410.
DOI: https://doi.org/2283 [pii]
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AbstractAbstract PDF
In contrast to Saccharomyces cerevisiae, little is known about the kinesin-like protein (KLP) in Candida albicans. The motor domain of kinesin, or KLP, contains a subregion, which is well conserved from yeast to humans. A similarity search, with the murine ubiquitous kinesin heavy chain region as a query, revealed 6 contigs that contain putative KLPs in the genome of C. albicans. Of these, the length of an open reading (ORF) of 375 amino acids, temporarily designated CaKAR3, was noticeably short compared with the closely related S. cerevisiae KAR3 (ScKAR3) of 729 amino acids. This finding prompted us to isolate a [lambda] genomic clone containing the complete CaKAR3 ORF, and here the complete sequence of CaKAR3 is reported. CaKAR3 is a C-terminus motor protein, of 687 amino acids, encoded by a non-disrupting gene. When compared with ScKAR3, the amino terminal region of 112 amino acids was unique, with the middle part of the 306 amino acids exhibiting 25% identity and 44% similarity, while the remaining C-terminal motor domain exhibited 64% identity and 78% similarity, and have been submitted to GeneBank under the accession number AY182242.
Journal Article
Molecular Investigation of Two Consecutive Nosocomial Clusters of Candida tropicalis Candiduria Using Pulsed-Field Gel Electrophoresis
Joon Rho , Jong Hee Shin , Jeong Won Song , Mi-Ra Park , Seung Jung Kee , Sook Jin Jang , Young Kyu Park , Soon Pal Suh , Dong Wook Ryang
J. Microbiol. 2004;42(2):80-86.
DOI: https://doi.org/2041 [pii]
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AbstractAbstract PDF
Pulsed-field gel electrophoresis (PFGE) typing was applied to the epidemiological investigation of 21 Candida tropicalis isolates collected from urine specimens of 11 patients and one healthcare worker, in an intensive care unit (ICU) over a 4-month period. Seventeen epidemiologically unrelated strains from 14 patients were also tested to determine the discriminatory power of PFGE. PFGE typing consisted of electrophoretic karyotyping (EK) and restriction endonuclease analysis of genomic DNA (REAG), using two restriction enzymes (BssHII and SfiI). The EK pattern was the same in all 38 isolates, while REAG using SfiI separated the isolates into nine types. However, 16 different PFGE types were identified by REAG with BssHII, and the same results were obtained when the results of both REAG tests were combined. In serial urinary isolates from 10 patients, all strains from each patient had the same PFGE pattern. While the epidemiologically unrelated strains from 14 patients consisted of 13 different PFGE types, the 20 isolates from the 11 ICU patients fell into only two PFGE types (types C1 and C2), and these apparently originated from the two different outbreaks. All strains of type C1 (n = 12) were isolated from six patients, between November 1999 and January 2000, and all of the type C2 strains (n=8) were isolated from five patients, during January and February 2000. This study shows two consecutive clusters of C. tropicalis candiduria in an ICU, defined by PFGE typing, and also demonstrates that a PFGE typing method using BssHII is perhaps the most useful method for investigating C. tropicalis candiduria.
Research Support, Non-U.S. Gov't
EDITORIAL] Human fungal pathogens: Why should we learn?
Jeong-Yoon Kim
J. Microbiol. 2016;54(3):145-148.
DOI: https://doi.org/10.1007/s12275-016-0647-8
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AbstractAbstract PDF
Human fungal pathogens that cause invasive infections are hidden killers, taking lives of one and a half million people every year. However, research progress in this field has not been rapid enough to effectively prevent or treat life-threatening fungal diseases. To update recent research progress and promote more active research in the field of human fungal pathogens, eleven review articles concerning the virulence mechanisms and host interactions of four major human fungal pathogens–Candida albicans, Cryptococcus neoformans, Aspergillus fumigatus, and Histoplasma capsulatum–are presented in this special issue.

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Purification and characterization of extracellular aspartic proteinase of candida albicans
Na, Byoung-Kuk , Lee, Seong Il , Kim, Sin Ok , Park, Young Kil , Bai, Gill Han , Kim, Sang Jae , Song, Chul Yong
J. Microbiol. 1997;35(2):109-116.
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AbstractAbstract PDF
An extracellular proteinase of Candida albicans was purified by a combination of 0-75% ammonium sulfate precipitation, DEAE Sepharose Fast Flow ion exchange chromatography, and Sephacryl S-200 HR molecular sieve chromatography. Its mlecular weight was approximately 41 kDa on SDS-PAGE and isoelectric point was 4.4. The enzyme was inhibited by pepstain A. Optimum enzyme activity ranged from pH 2.0 to 3.5 with its maximum at pH 2.5 and a temperature of 45℃. The addition of divalent cations, Ca^2+, Zn^2+ and Mg^2+, resulted in no significant inhibition of enzymatic activity. However, some inhibitory effects were observed by Fe^2+, Ag^2+ and Cu^2+. With BSA as substrate, an apparent K_m was determined to be 7 × 10^7 M and K_I, using pepstatin A as an inhibitor, was 8.05 × 10^8 M. N-terminal amino acid sequence was QAVPVTLXNEQ. Degradation of BSA and fibronectin was shown but not collagen, hemoglobin, immunoglobulin G, or lysozyme. The enzyme preferred peptides with Glu and Leu at the P₁position, but the enzyme activity was highly reduced when the P₂position was Phe or Pro. This enzyme showed antigenicity against sera of patients with candidiasis.
Molecular Cloning and Characterization of Mn-Superoxide Dismutase Gene from Candida sp.
Hong, Yun Mi , Nam, Yong Sik , Choi, Soon Yong
J. Microbiol. 1997;35(4):309-314.
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AbstractAbstract PDF
The manganese-containing superoxide dismutase (MnSOD) is a major component of the cellular defence mechanisms against the toxic effects of the superoxide radical. Within the framework of studies on oxidative stress=responsible enzymes in the Candida sp., the gene encoding the MnSOD was isolated and examined in this study. A specific primer was designed based on conserved regions of MnSOD sequences from other organisms, and was used to isolate the gene by PCR on reverse-transcribed Candida poly(A^+) RNA. The PCR product was used to screen a Candida genomic lambda library and the nucleotide wequence of positive clone was determined. The deduced primary sequence encodes a 25kDa protein which has the conserved residues for enzyme activity and metal binding. The 28 N-terminal amino acids encoded by the Candida cDNA comprise a putatice mitochondrial transit peptide. Potential regulatory elements were identified in the 5' flanking sequences. Northern blot analysis showed that the transcription of the MnSOD gene is induced 5-to 10-fold in response to mercury, cadmium ions and hydrogen peroxide.
Protective Effects of Antoxidant Enzymes of Candida albicans against Oxidative Killing by Macrophages
Kim, Hye Jin , Na, Byoung Kuk , Kim, Moon Bo , Choi, Duk Young , Song, Chul Yong
J. Microbiol. 1999;37(2):117-122.
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AbstractAbstract PDF
Protective roles of antioxidant enzymes, copper-zinc superoxide dismutase (CuZnSOD), manganese superoxide dismutase (MnSOD), and catalase of Candida albicans against exogenous reactive oxygens and oxidative killing by macrophages were investigated. The initial growth of C. albicans was inhibited by reactive, oxygen-producing chemicals such as hydrogen peroxide, pyrogallol, and paraquat, but it was restored as the production of antioxidant enzymes were increased. The growth inhibition of C. albicans by reactive, oxygen-producing chemicals was reduced by treating the purified candidal SOD and catalase. Also, in the presence of SOD and catalase, the oxidative killing of C. albicans by macrophages was significantly inhibited. These results suggest that antioxidant enzymes, CuZnSOD, MnSOD, and catalase of C. albicans may play important roles in the protection of C. albicans not only from exogenous oxidative stress but also from oxidative killing by macrophages.
Rapid PCR Method for Detecting Candida albicans Using Primers Derived from the Integrin-like Protein Gene [alpha]INT1 of Candida albicans
Young-Hee Lim , Do-Hyun Lee
J. Microbiol. 2000;38(2):105-108.
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AbstractAbstract PDF
Oligonucleotide primers amplifying a 344 bp fragment on the integrin-like protein alpha-INT1p gene ([alpha]INT1) of Candida albicans were synthesized for screening of C. albicans from clinicalsamples by the polymerase chain reaction (PCR). The PCR specifically amplified DNA from C. albicans and none from any other Candida, fungal, or human DNA in standard strains used here. The PCR assay showed that the primers (LH1 and LH2) were specific for 26 isolates of C. albicans from clinical samples, whereas the positive fragment, 344 bp, was not amplified from 15 clinical isolates including 14 other medically important Candida species and an isolate of Saccharomyces cerevisiae. PCR was conducted on the urine samples of 20 patients and 4 samples were C. albicans positive. The detection limit of the PCR assay for C. albicans was shown to be approximately 10 cells/ml saline. The PCR system using 344 bp [alpha]INT1 as a target is more specific and rapid than the conventional culture method, and the sensitive detection method is applicable to clinical diagnosis of C. albicans infections.
Intracellular Posttranslational Modification of Aspartyl Proteinase of Candida albicans and the Role of the Glycan Region of the Enzyme
Byoung-Kuk Na , Chul-Yong Song
J. Microbiol. 2000;38(4):218-223.
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AbstractAbstract PDF
Using two drugs, tunicamycin and brefeldin A, which affect protein processing, we investigated the intracellular processing mechanism of secreted aspartyl proteinase 1 (SAP1) of Candida albicans. Three intracellular forms of SAP1 were detected by immunoblotting using monoclonal antibody (MAb) CAP1. Their molecular weights were approximately 40, 41 and 45 kDa, respectively. The 41 kDa protein is a glycoprotein and may be the same as the extracellular form judging by its molecular mass. The 40 kDa protein was the unglycosylated form and its molecular mass coincided with deglycosylated SAP1 and the 45 kDa protein was also the unglycosylated form. Neither the 40 and 45 kDa proteins were detected in the culture supernatant of C. albicans. These suggested that the 40 and 45 kDa proteins might be intracellular precursor forms of SAP1. These results show that SAP1 is translated as a 45 kDa precusor form in the endoplasmic reticulum and the 45 kDa precursor form undergoes proteolytic cleavage after translocation into the Golgi apparatus, generating the 40 kDa precursor form. This 40 kDa precursor is converted into a 41 kDa mature form through glycosylation in the Golgi apparatus. The mature form of the 41 kDa protein is sorted into secretory vesicles and finally released into the extracellular space through membrane fusion. When the glycan region of SAP1 was digested with N-glycosidase F, both stability and activity of the enzyme decreased. These results indicate that the glycan attached to the enzyme may, at least in part, be related to enzyme stability and activity.
Multiplex Polymerase Chain Reaction Assay for Simultaneous Detection of Candida albicans and Candida dubliniensis
Young-Hee Lim , Do-Hyun Lee
J. Microbiol. 2002;40(2):146-150.
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AbstractAbstract PDF
A multiplex polymerase chain reaction (PCR) assay was developed for the identification of two Candida species-albicans and dubliniensis. Three sets of primers were selected from different genomic sequences to specifically amplify a 516 bp fragment within the top2 gene, specific for several species of the genus Candida (CCL primers); a 239 bp fragment within the [alpha]INT1 gene, specific for Candida albicans (CAL primers); and a 175 bp fragment within the ALSD1 gene, specific for Candida dubliniensis (CDL primers). Using the primers in conjunction (multiplex PCR), we were able to detect both C. albicans and C. dubliniensis and to differentiate between them. The detection limit of the PCR assay was approximately 10 cells per milliliter of saline. Thus, this multiplex PCR assay can be applied for differentiation of C. albicans and C. dubliniensis from clinical specimens.
Laboratory Diagnosis of Invasive Candidiasis
Arjuna N.B. Ellepola , Christine J. Morrison
J. Microbiol. 2005;43(1):65-84.
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Invasive candidiasis is associated with high morbidity and mortality. Clinical diagnosis is complicated by a lack of specific clinical signs and symptoms of disease. Laboratory diagnosis is also complex because circulating antibodies to Candida species may occur in normal individuals as the result of commensal colonization of mucosal surfaces thereby reducing the usefulness of antibody detection for the diagnosis of this disease. In addition, Candida species antigens are often rapidly cleared from the circulation so that antigen detection tests often lack the desired level of sensitivity. Microbiological confirmation is difficult because blood cultures can be negative in up to 50% of autopsy-proven cases of deep-seated candidiasis or may only become positive late in the infection. Positive cultures from urine or mucosal surfaces do not necessarily indicate invasive disease although can occur during systemic infection. Furthermore, differences in the virulence and in the susceptibility of the various Candida species to antifungal drugs make identification to the species level important for clinical management. Newer molecular biological tests have generated interest but are not yet standardized or readily available in most clinical laboratory settings nor have they been validated in large clinical trials. Laboratory surveillance of at-risk patients could result in earlier initiation of antifungal therapy if sensitive and specific diagnostic tests, which are also cost effective, become available. This review will compare diagnostic tests currently in use as well as those under development by describing their assets and limitations for the diagnosis of invasive candidiasis. <br><br><br>

Journal of Microbiology : Journal of Microbiology
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