Journal of Microbiology

Review

Apoptotic Factors, CaNma111 and CaYbh3, Function in Candida albicans Filamentation by Regulating the Hyphal Suppressors, Nrg1 and Tup1: Suyoung Kim , Se Hyeon Kim , Eunjoong Kweon , Jinmi Kim; J. Microbiol. 2023;61(4):403-409. Published online March 27, 2023; DOI: https://doi.org/10.1007/s12275-023-00034-8

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Abstract: The morphological switch from the yeast to hyphal form is a key virulence attribute of the opportunistic fungal pathogen, Candida albicans. Our recent report showed that deletion of the newly identified apoptotic factor, CaNma111 or CaYbh3, leads to hyperfilamentation and increased virulence in a mouse infection model. CaNma111 and CaYbh3 are homologs of the pro-apoptotic protease, HtrA2/Omi, and BH3-only protein, respectively. In this study, we examined the effects of CaNMA111 and CaYBH3 deletion mutations on the expression levels of the hypha-specific transcr!ption factors, Cph1 (a hyphal activator), Nrg1 (a hyphal repressor), and Tup1 (a hyphal repressor). The protein levels of Nrg1 were decreased in Caybh3/Caybh3 cells while those of Tup1 were decreased in both Canma111/Canma111 and Caybh3/Caybh3 cells. These effects on Nrg1 and Tup1 proteins were retained during serum-induced filamentation and appear to explain the hyperfilamentation phenotypes of the CaNMA111 and CaYBH3 deletion mutants. Treatment with the apoptosis-inducing dose of farnesol decreased the Nrg1 protein levels in the wild-type strain and more evidently in Canma111/Canma111 and Caybh3/Caybh3 mutant strains. Together, our results suggest that CaNma111 and CaYbh3 are key regulators of Nrg1 and Tup1 protein levels in C. albicans.

Journal Articles

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

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

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

Soil water content as a critical factor for stable bacterial community structure and degradative activity in maritime Antarctic soil: Dockyu Kim , Namyi Chae , Mincheol Kim , Sungjin Nam , Eungbin Kim , Hyoungseok Lee; J. Microbiol. 2020;58(12):1010-1017. Published online December 2, 2020; DOI: https://doi.org/10.1007/s12275-020-0490-9

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Abstract

Recent increases in air temperature across the Antarctic Peninsula may prolong the thawing period and directly affect the soil temperature (Ts) and volumetric soil water content (SWC) in maritime tundra. Under an 8°C soil warming scenario, two customized microcosm systems with maritime Antarctic soils were incubated to investigate the differential influence of SWC on the bacterial community and degradation activity of humic substances (HS), the largest constituent of soil organic carbon and a key component of the terrestrial ecosystem. When the microcosm soil (KS1-4Feb) was incubated for 90 days (T = 90) at a constant SWC of ~32%, the initial HS content (167.0 mg/g of dried soil) decreased to 156.0 mg (approximately 6.6% loss, p < 0.05). However, when another microcosm soil (KS1-4Apr) was incubated with SWCs that gradually decreased from 37% to 9% for T = 90, HS degradation was undetected. The low HS degradative activity persisted, even after the SWC was restored to 30% with water supply for an additional T = 30. Overall bacterial community structure remained relatively stable at a constant SWC setting (KS1-4Feb). In contrast, we saw marked shifts in the bacterial community structure with the changing SWC regimen (KS1-4Apr), suggesting that the soil bacterial communities are vulnerable to drying and re-wetting conditions. These microcosm experiments provide new information regarding the effects of constant SWC and higher Ts on bacterial communities for HS degradation in maritime Antarctic tundra soil.

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Microbial metabolic responses and CO2 emissions differentiated by soil water content variation in subarctic tundra soils
Dockyu Kim, Namyi Chae, Mincheol Kim, Sungjin Nam, Tai Kyoung Kim, Ki-Tea Park, Bang Yong Lee, Eungbin Kim, Hyoungseok Lee
Journal of Microbiology.2022; 60(12): 1130. CrossRef
Temperature sensitivity of Antarctic soil‐humic substance degradation by cold‐adapted bacteria
Dockyu Kim, Ha Ju Park, Mincheol Kim, Seulah Lee, Soon Gyu Hong, Eungbin Kim, Hyoungseok Lee
Environmental Microbiology.2022; 24(1): 265. CrossRef
Seasonal patterns of rhizosphere microorganisms suggest carbohydrate-degrading and nitrogen-fixing microbes contribute to the attribute of full-year shooting in woody bamboo Cephalostachyum pingbianense
Lushuang Li, Tize Xia, Hanqi Yang
Frontiers in Microbiology.2022;[Epub] CrossRef

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

Pedobacter aquicola sp. nov., isolated from freshwater: Yochan Joung , Hye-jin Jang , Miri Park , Jaeho Song , Jang-Cheon Cho; J. Microbiol. 2018;56(7):478-484. Published online June 14, 2018; DOI: https://doi.org/10.1007/s12275-018-7499-3

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Abstract

A non-motile, pink-pigmented bacterial strain designated IMCC25679T, was isolated from freshwater Lake Chungju of Korea. Phylogenetic trees based on 16S rRNA gene sequences showed that the strain IMCC25679T formed a lineage within the genus Pedobacter. The strain IMCC25679T was closely related to Pedobacter daechungensis Dae 13T (96.4% sequence similarity), Pedobacter rivuli HME8457T (95.3%) and Pedobacter lentus DS-40T (94.3%). The major fatty acids of IMCC- 25679T were iso-C15:0, iso-C16:0 and summed feature 3 (comprising C16:1 ω6c and/or C16:1 ω7c). The major respiratory quinone was MK-7. The major polar lipids were phosphatidylethanolamine (PE), an unidentified sphingolipid (SL), an unidentified aminolipid (AL) and three unidentified polar lipids (PL). The DNA G + C content of IMCC25679T was 32.2 mol%. Based on the evidence presented in this study, the strain IMCC25679T represents a novel species within the genus Pedobacter, with the proposed name Pedobacter aquicola, sp. nov. The type strain is IMCC25679T (= KACC 19486T = NBRC113131T).

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Genome-Based Classification of Pedobacter albus sp. nov. and Pedobacter flavus sp. nov. Isolated from Soil
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Pedobacter rhodius sp. nov. and Pedobacter punctiformis sp. nov., isolated from soil
Haejin Woo, Geeta Chhetri, Inhyup Kim, Yoonseop So, Sunho Park, Yonghee Jung, Taegun Seo
Antonie van Leeuwenhoek.2024;[Epub] CrossRef
Screening of potential microbial markers for lung cancer using metagenomic sequencing
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Pedobacter aquae sp. nov., a multi-drug resistant bacterium isolated from fresh water
Le Tran Tien Chau, Yong-Seok Kim, Chang-Jun Cha
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Pedobacter riviphilus sp. nov., isolated from stream sediment
Hong Sik Im, Yochan Joung, Sang-Seob Lee
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List of new names and new combinations previously effectively, but not validly, published
Aharon Oren, George Garrity
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Pedobacter indicus sp. nov., isolated from deep-sea sediment
Xiao-yan He, Na Li, Xiu-lan Chen, Yu-zhong Zhang, Xi-ying Zhang, Xiao-yan Song
Antonie van Leeuwenhoek.2020; 113(3): 357. CrossRef
Leeia aquatica sp. nov., isolated from freshwater
Jaeho Song, Yochan Joung, Shan-Hui Li, Juchan Hwang, Jang-Cheon Cho
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Sphingobacterium chungjuense sp. nov., isolated from a freshwater lake
Jaeho Song, Yochan Joung, Shan-Hui Li, Juchan Hwang, Jang-Cheon Cho
International Journal of Systematic and Evolutionary Microbiology .2020; 70(12): 6126. CrossRef
Rhodoferax lacus sp. nov., isolated from a large freshwater lake
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Research Support, Non-U.S. Gov'ts

Endophytic Fungi Diversity of Aquatic/Riparian Plants and Their Antifungal Activity In Vitro: Hai-Yan Li , Chun-An Zhao , Chen-Jian Liu , Xiao-Fei Xu; J. Microbiol. 2010;48(1):1-6. Published online March 11, 2010; DOI: https://doi.org/10.1007/s12275-009-0163-1

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Abstract

Two hundred and fourteen endophytic fungi were isolated from 500 segments of aquatic/riparian plants Ottelia acuminata, Myriophyllum verticillatum, Equisetum arvense, Cardamine multijuga, and Impatiens chinensis. They were identified to 31 taxa in which Cladosporium, Fusarium, and Geotrichum were the dominant genera. Among all isolates, 169 (79%) were anamorphic fungi, 1 (0.5%) was an teleomorphic ascomycete and 44 (21%) were sterile mycelia. There were significant differences in the colonization frequency of endophytes between the five plant species (X~2=51.128, P<0.001, Chi-square test). The riparian plants harboured more endophytes than the submerged plants. The antifungal activity of these isolates against Fusarium solani and Phytophthora nicotianae in vitro were tested and 28 (13.1%) isolates showed antifungal activities with more than 30% growth inhibition rate against the two pathogens.

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Nattawut Rungjindamai, E. B. Gareth Jones
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Novel Pseudomonas Species Prevent the Growth of the Phytopathogenic Fungus Aspergillus flavus
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New Species of Didymellaceae within Aquatic Plants from Southwestern China
Tong Chen, Siyuan Wang, Xinwei Jiang, Ying Huang, Minghe Mo, Zefen Yu
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Metabolite Chemical Composition of the Bletilla striata (Thunb.) Reichb. f. Endophyte Penicillium oxalicum
Ran Liu, Xuehua Han, Jing Gao, Min Luo, Dale Guo, Guangzhi Wang
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Maosheng Wang, Jialong Sun, Yali Wei, Yanlong Jia, Xiao Zou
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Beneficial and pathogenic plant‐microbe interactions during flooding stress
Clara Martínez‐Arias, Johanna Witzell, Alejandro Solla, Juan Antonio Martin, Jesús Rodríguez‐Calcerrada
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Hua Zheng, Min Qiao, Jianping Xu, Zefen Yu
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Xiaoxiang Duan, Fangfang Xu, Dan Qin, Tiancong Gao, Weiyun Shen, Shihao Zuo, Baohong Yu, Jieru Xu, Yajun Peng, Jinyan Dong
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Preuttiporn Supaphon, Chutima Keawpiboon, Sita Preedanon, Souwalak Phongpaichit, Vatcharin Rukachaisirikul
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Briana K. Whitaker, Jonathan T. Bauer, James D. Bever, Keith Clay, Wim van der Putten
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MicrobiologyOpen.2017;[Epub] CrossRef
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Hongmei An, Yan Liu, Xinfei Zhao, Qian Huang, Shenhong Yuan, Xingyong Yang, Jinyan Dong
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In Vitro Evaluation of Antagonism of Endophytic Colletotrichum gloeosporioides Against Potent Fungal Pathogens of Camellia sinensis
Aparna Jyoti Rabha, Ashok Naglot, Gauri Dutta Sharma, Hemant Kumar Gogoi, Vijay Veer
Indian Journal of Microbiology.2014; 54(3): 302. CrossRef
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Distribution of Marine Birnavirus in Cultured Olive Flounder Paralichthys olivaceus in Korea: Sung-Ju Jung , Seok-Ryel Kim , Il-Yong Joung , Shin-Ichi Kitamura , Hee-Taek Ceong , Myung-Joo Oh; J. Microbiol. 2008;46(3):265-273. Published online July 5, 2008; DOI: https://doi.org/10.1007/s12275-008-0004-7

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Abstract: Surveys of marine birnavirus (MABV) were undertaken in cultured olive flounder Paralichthys olivaceus from the south and west coastal areas and Jeju in Korea during the period January 1999 to April 2007. MABV was detected in all seasons from the fry, juveniles and adult fish from the areas examined. Evident cytopathic effects of the virus including rounding and cell lysis were observed in chinook salmon embryo (CHSE-214) and rainbow trout gonad (RTG-2) cells, but not in fathead minnow (FHM) and epithelial papilloma of carp (EPC) cells. Nucleotide sequences of the VP2/NS junction region of the Korean isolates showed 97.8%~100% similarity, and they belonged to the same genogroup. Cross neutralization tests with serotype-specific rabbit antisera against MABV strains exhibited a close antigenic relationships between strains, and were distinct from infectious pancreatic necrosis virus (IPNV) strains. Coinfection of MABV with bacteria (Streptococcus iniae, Vibrio spp.) and viruses (nervous necrosis virus, lymphocystis disease virus, viral hemorrhagic septicemia virus) was observed.

Reversible function of RapA with the C-terminus of RapC in Dictyostelium: Dongju Kim , Wonbum Kim , Taeck Joong Jeon; J. Microbiol. 2021;59(9):853-848.; DOI: https://doi.org/10.1007/s12275-021-1400-5

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Abstract

Rap small GTPases are involved in diverse signaling pathways associated with cell growth, proliferation, and cell migration. There are three Rap proteins in Dictyostelium, RapA, RapB, and RapC. RapA is a key regulator in the control of cell adhesion and migration. Recently RapA and RapC have been reported to have opposite functions in the regulation of cellular processes. In this study, we demonstrate that the C-terminus of RapC, which is not found in RapA, is essential for the opposite functions of RapC and is able to reverse the functions of RapA when fused to the tail of RapA. Cells lacking RapC displayed several defective phenotypes, including spread morphology, strong adhesion, and decreased cell migration compared to wild-type cells. These phenotypes were rescued by full-length RapC, but not by RapC missing the C-terminus. Furthermore, recombinant RapA fused with the C-terminus of RapC completely recovered the phenotypes of rapC null cells, indicating that the functions of RapA were modified to become similar to those of RapC by the C-terminus of RapC with respect to cell morphology, cell adhesion and migration, cytokinesis, and development. These results suggest that the C-terminal residues of RapC are able to suppress and change the functions of other Ras proteins in Ras oncogenic signaling pathways.

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RapB Regulates Cell Adhesion and Migration in Dictyostelium, Similar to RapA
Uri Han, Nara Han, Byeonggyu Park, Taeck Joong Jeon
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