Journal of Microbiology

Article

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

884 View
14 Download
10 Web of Science
10 Crossref

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

Citations

Citations to this article as recorded by

Exploring Psychrobacter sp. EQ05 (bacterial symbiont of Entaqmea quadricolor): A natural anti-quorum-sensing agent against Vibrio parahaemolyticus
Baso Manguntungi, Iman Rusmana, Apon Zaenal Mustopa, Anja Meryandini
Journal of Biosciences.2026;[Epub] CrossRef
Programming Low-Molecular-Weight Hyaluronic Acid Biosynthesis in Bacillus amyloliquefaciens Via an Autoinducible Molecular Switch
Qian Zhong, Zhen Li, Waibin Duan, Peng Lei, Xiaoqi Xu, Hong Xu, Sha Li, Yibin Qiu
ACS Synthetic Biology.2026; 15(3): 1008. CrossRef
The rhizosphere as a hidden pharmacy: A review of bioactive compounds from plant–soil interfaces
Tamer Ali Sweellum, Dia Soltan, Hosam A. El Adawy, Deyala M. Naguib, Hanan Gahin
Rhizosphere.2026; 37: 101298. CrossRef
Study of N-acyl homoserine lactone (AHL) degradation potential of bacteria isolated from environmental samples and their impact on quorum sensing regulated biofilm formation of Pseudomonas aeruginosa
Anju Tomy, Rakesh Yasarla
Journal of Environmental Chemical Engineering.2025; 13(2): 115974. CrossRef
Hepatotoxicity of imidacloprid in zebrafish and the alleviating role of 10-hydroxy-2-decenoi acid: Insights into oxidative stress, inflammation, and gut microbiota
Yujing Tang, Yandong Zhan, Shuangshuang Gao, Ting Li, Hongzhuan Xuan
Journal of Hazardous Materials.2025; 494: 138695. CrossRef
Description of Humidisolicoccus flavus gen. nov., sp. nov., a novel actinobacterium isolated from riverside soil
Da Chan Kim, Seung Bum Kim
International Journal of Systematic and Evolutionary Microbiology .2025;[Epub] CrossRef
The Causative Agent of Soft Rot in Plants, the Phytopathogenic Bacterium Pectobacterium carotovorum subsp. carotovorum: A Brief Description and an Overview of Methods to Control It
Alla I. Perfileva, Elena I. Strekalovskaya, Nadezhda V. Klushina, Igor V. Gorbenko, Konstantin V. Krutovsky
Agronomy.2025; 15(7): 1578. CrossRef
SynCom‐mediated herbicide degradation activates microbial carbon metabolism in soils
Yuxiao Zhang, Jack A. Gilbert, Xuan Liu, Li Nie, Xiyuan Xu, Guifeng Gao, Lihui Lyu, Yuying Ma, Kunkun Fan, Teng Yang, Yumeng Zhang, Jiabao Zhang, Haiyan Chu
iMeta.2025;[Epub] CrossRef
Research progress of bacterial quorum sensing systems in synthetic biology applications
Boyu Luo, Tuoyu Liu, Zhi Sun, Yue Teng
Chinese Science Bulletin.2024; 69(36): 5213. CrossRef
Validation List no. 220. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, Markus Göker
International Journal of Systematic and Evolutionary Microbiology .2024;[Epub] CrossRef

Article

Helicobacter pylori-mediated gastric pathogenesis is attenuated by treatment of 2-deoxyglucose and metformin: Hanfu Su , Eun-Jung Bak , Aeryun Kim , Kavinda Tissera , Jeong-Heon Cha , Sungil Jang; J. Microbiol. 2022;60(8):849-858. Published online June 22, 2022; DOI: https://doi.org/10.1007/s12275-022-2130-z

692 View
3 Download
5 Web of Science
4 Crossref

Abstract PDF

Helicobacter pylori infection causes chronic inflammation in the stomach, which is linked to the development of gastric cancer. The anti-inflammatory and anticancer effects of a glycolysis inhibitor 2-deoxyglucose (2DG) and an antidiabetic medication metformin (Met) have gotten attention. Using a Mongolian gerbil animal model, we investigated H. pylorimediated gastric pathogenesis and how this pathogenesis is influenced by 2DG and Met. Five-week-old male gerbils were infected with H. pylori strain 7.13. After 2 weeks of infection, gerbils were fed 2DG-containing food (0.03% w/w), Met-containing water (0.5% w/v), or both (Combi) for 2 (short-term) or 10 weeks (long-term). Gastric pathogenesis and host response to H. pylori infection were examined by macroscopic and histopathologic analysis of gerbils’ stomach. As a result, indicators of gastric pathogenesis by H. pylori infection including infiltration of polymorphonuclear neutrophils and lymphocytes, intestinal metaplasia, atrophy, and proliferation of gastric epithelial cells were attenuated by short-term administration of 2DG, Met, or Combi. When the infection was sustained for long-term, gastric pathogenesis in drug-treated gerbils was equivalent to that in untreated gerbils, with the exception that the infiltration of neutrophil was reduced by 2DG. Colonization of H. pylori in stomach was unaffected by both short- and long-term treatments. Our findings demonstrate that the progression of gastric pathogenesis induced by H. pylori infection can be attenuated by the shortterm individual or combinational treatment of 2DG and Met, implying that 2DG or Met could be considered as a treatment option for gastric diseases in the early stages of infection.

Citations

Citations to this article as recorded by

Metabolic reprogramming as a key regulator in Helicobacter pylori-infected gastric cancer
Ruofan Cao, Feifei Zhou, Cuiyu Zhu, Hongwei Xu
Gastric Cancer.2026; 29(1): 1. CrossRef
Chemoprevention strategies for precancerous gastric lesions beyond Helicobacter pylori eradication
Tai Zhang, Xudong Tang
QJM: An International Journal of Medicine.2025; 118(6): 385. CrossRef
Antibacterial and Immunoregulatory Effects of Metformin against Helicobacter pylori Infection in Rat Model
Hassan Valadbeigi, Saeed Khoshnood, Babak Negahdari, Mohd Azmuddin Abdullah, Mohammad Hossein Haddadi, Abhimanyu Abhimanyu
BioMed Research International.2023;[Epub] CrossRef
Effect of Metformin on the Prognosis of Gastric Cancer Patients with Type 2 Diabetes Mellitus: A Meta-Analysis Based on Retrospective Cohort Studies
Lingna Li, Jianing Huang, Tongmin Huang, Jie Yao, Yeyuan Zhang, Meiling Chen, Haojie Shentu, Haiying Lou, Flavia Prodam
International Journal of Endocrinology.2023; 2023: 1. CrossRef

Article

Function of Rhs proteins in porcine extraintestinal pathogenic Escherichia coli PCN033: Wenjia Lu , Jia Tan , Hao Lu , Gaoyan Wang , Wenqi Dong , Chenchen Wang , Xiaodan Li , Chen Tan; J. Microbiol. 2021;59(9):854-860. Published online August 12, 2021; DOI: https://doi.org/10.1007/s12275-021-1189-2

591 View
1 Download
6 Web of Science
6 Crossref

Abstract PDF

Extraintestinal pathogenic Escherichia coli (ExPEC) is an important zoonotic pathogen that places severe burdens on public health and animal husbandry. There are many pathogenic factors in E. coli. The type VI secretion system (T6SS) is a nano-microbial weapon that can assemble quickly and inject toxic effectors into recipient cells when danger is encountered. T6SSs are encoded in the genomes of approximately 25% of sequenced Gram-negative bacteria. When these bacteria come into contact with eukaryotic cells or prokaryotic microbes, the T6SS assembles and secretes associated effectors. In the porcine ExPEC strain PCN033, we identified four classic rearrangement hotspot (Rhs) genes. We determined the functions of the four Rhs proteins through mutant construction and protein expression. Animal infection experiments showed that the Δrhs-1CT, Δrhs-2CT, Δrhs-3CT, and Δrhs-4CT caused a significant decrease in the multiplication ability of PCN033 in vivo. Cell infection experiments showed that the Rhs protein is involved in anti-phagocytosis activities and bacterial adhesion and invasion abilities. The results of this study demonstrated that rhs1, rhs3, and rh4 plays an important role in the interaction between PCN033 and host cell. Rhs2 has contribution to cell and mice infection. This study helps to elucidate the pathogenic mechanism governing PCN033 and may help to establish a foundation for further research seeking to identify potential T6SS effectors.

Citations

Citations to this article as recorded by

Neuraminidase and nitric oxide dual response via PSA-PLGA nanoparticles: A novel approach for controlling Glaesserella parasuis inflammation and infection
Zhixin Lei, Longfukang Yao, Yuqing Tan, Zhiqun Lei, Taolei Sun
International Journal of Biological Macromolecules.2025; 306: 141709. CrossRef
The Regulatory Role of EvfG Through Coordinated Control of Flagellar Biosynthesis and Energy Metabolism in Porcine Extraintestinal Pathogenic Escherichia coli (ExPEC)
Bingbing Zong, Peiyi Wang, Wei Liu, Aihua Wu, Yong Xiao, Shulin Fu, Yinsheng Qiu, Yanyan Zhang, Wentong Liu
Biology.2025; 14(7): 822. CrossRef
Molecular characterization of the integrative and conjugative elements harbouring multidrug resistance genes in Glaesserella parasuis
Yongliang Che, Renjie Wu, Hongjie Li, Longbai Wang, Xuemin Wu, Qiuyong Chen, Rujing Chen, Lunjiang Zhou
Veterinary Microbiology.2024; 291: 110014. CrossRef
Genome-wide identification of genes critical for in vivo fitness of multi-drug resistant porcine extraintestinal pathogenic Escherichia coli by transposon-directed insertion site sequencing usin
Fan Yin, Yan Hu, Zixuan Bu, Yuying Liu, Hui Zhang, Yawen Hu, Ying Xue, Shaowen Li, Chen Tan, Xiabing Chen, Lu Li, Rui Zhou, Qi Huang
Virulence.2023;[Epub] CrossRef
Dual RNA-Seq of Flavobacterium psychrophilum and Its Outer Membrane Vesicles Distinguishes Genes Associated with Susceptibility to Bacterial Cold-Water Disease in Rainbow Trout (Oncorhynchus mykiss)
Pratima Chapagain, Ali Ali, Mohamed Salem
Pathogens.2023; 12(3): 436. CrossRef
Distribution and diversity of type VI secretion system clusters in Enterobacter bugandensis and Enterobacter cloacae
Amy J. G. Anderson, Becca Morrell, Guillermo Lopez Campos, Miguel A. Valvano
Microbial Genomics .2023;[Epub] CrossRef

Article

Diversity of fungi associated with roots of Calanthe orchid species in Korea: Myung Soo Park , John A. Eimes , Sang Hoon Oh , Hwa Jung Suh , Seung-Yoon Oh , Seobihn Lee , Ki Hyeong Park , Hyuk Joon Kwon , Soo-Young Kim , Young Woon Lim; J. Microbiol. 2018;56(1):49-55. Published online January 4, 2018; DOI: https://doi.org/10.1007/s12275-018-7319-9

588 View
0 Download
12 Crossref

Abstract PDF

While symbiotic fungi play a key role in the growth of endangered Calanthe orchid species, the relationship between fungal diversity and Calanthe species remains unclear. Here, we surveyed root associated fungal diversity of six Calanthe orchid species by sequencing the internal transcribed spacer (ITS) region using 454 pyrosequencing. Our results revealed that Paraboeremia and Coprinopsis are dominant fungal genera among Calanthe species. In terms of overall relative abundance, Paraboeremia was the most common fungal genus associated with Calanthe roots, followed by Coprinopsis. Overall fungal diversity showed a significant degree of variation depending on both location and Calanthe species. In terms of number of different fungal genera detected within Calanthe species, C. discolor had the most diverse fungal community, with 10 fungal genera detected. This study will contribute toward a better understanding of those fungi that are required for successful cultivation and conservation of Korean Calanthe species.

Citations

Citations to this article as recorded by

Extreme Reproductive Constraints Under Pollinator Scarcity in the Endangered Orchid Calanthe aristulifera: Five-Year Preliminary Monitoring in South Korea
Seongjun Kim, Chang Woo Lee, Jung Eun Hwang, Hwan-Joon Park, Hyeong Bin Park, Young-Joong Kim, Yubin Lee
Diversity.2026; 18(2): 90. CrossRef
Preliminary Assessment of Mycobiome at Former Quarry Site That Hosts a Diverse and Abundant Orchid Population
Viswambharan Sarasan, Dean Williams, Zoe Ringwood
Microorganisms.2025; 13(10): 2390. CrossRef
Culture conditions of symbiotic fungus Coprinellus radians and its effects on seedlings of Cremastra appendiculata (D.Don.) Makino (Orchidaceae)
Liqin Wang, Jingyi Zhang, Qiuyu Lv, Gonggu Lv, Guangquan Lv, Xin Xiao, Fulin Yan, Miao Liu, Mingsheng Zhang
Canadian Journal of Plant Science.2025; 105: 1. CrossRef
Whole chloroplast genome sequence and phylogenetic analysis of Calanthe discolor (Orchidaceae)
Qiuping Liu, Qin Song, Yan Yu, Yiming Shi, Minghui Lu, Yan Chen, Leitao Tan
Mitochondrial DNA Part B.2024; 9(10): 1345. CrossRef
The rhizosphere microbiome and its influence on the accumulation of metabolites in Bletilla striata (Thunb.) Reichb. f
Shiqing Li, Xiaomei Li, Yueyu Ye, Man Chen, Haimin Chen, Dongfeng Yang, Meiya Li, Fusheng Jiang, Xiaobo Zhang, Chunchun Zhang
BMC Plant Biology.2024;[Epub] CrossRef
Geographic location shapes fungal communities associated with Epidendrum roots
Tiphany Nkomo, Tanay Bose, Brenda D. Wingfield, Rosa Knoppersen, Ongeziwe Mbhele, Miguel Nemesio-Gorriz, Carlos A. Rodas, Christian Paetz, Cornelius T. Cilliers, Maria A. Ferreira, Almuth Hammerbacher
Mycological Progress.2024;[Epub] CrossRef
Ethnobotany, phytochemistry, pharmacology, and conservation of the genus Calanthe R. Br. (Orchidaceae)
Consolata Nanjala, Jing Ren, Fredrick Munyao Mutie, Emmanuel Nyongesa Waswa, Elizabeth Syowai Mutinda, Wyclif Ochieng Odago, Moses Mutuse Mutungi, Guang-Wan Hu
Journal of Ethnopharmacology.2022; 285: 114822. CrossRef
Current Insight into Traditional and Modern Methods in Fungal Diversity Estimates
Ajay Kumar Gautam, Rajnish Kumar Verma, Shubhi Avasthi, Sushma, Yogita Bohra, Bandarupalli Devadatha, Mekala Niranjan, Nakarin Suwannarach
Journal of Fungi.2022; 8(3): 226. CrossRef
Fungal diversity driven by bark features affects phorophyte preference in epiphytic orchids from southern China
Lorenzo Pecoraro, Hanne N. Rasmussen, Sofia I. F. Gomes, Xiao Wang, Vincent S. F. T. Merckx, Lei Cai, Finn N. Rasmussen
Scientific Reports.2021;[Epub] CrossRef
Heavy metal tolerance of orchid populations growing on abandoned mine tailings: A case study in Sardinia Island (Italy)
Antonio De Agostini, Claudia Caltagirone, Alberto Caredda, Angela Cicatelli, Annalena Cogoni, Domenica Farci, Francesco Guarino, Alessandra Garau, Massimo Labra, Michele Lussu, Dario Piano, Cinzia Sanna, Nicola Tommasi, Andrea Vacca, Pierluigi Cortis
Ecotoxicology and Environmental Safety.2020; 189: 110018. CrossRef
GlobalFungi, a global database of fungal occurrences from high-throughput-sequencing metabarcoding studies
Tomáš Větrovský, Daniel Morais, Petr Kohout, Clémentine Lepinay, Camelia Algora, Sandra Awokunle Hollá, Barbara Doreen Bahnmann, Květa Bílohnědá, Vendula Brabcová, Federica D’Alò, Zander Rainier Human, Mayuko Jomura, Miroslav Kolařík, Jana Kvasničková, Sa
Scientific Data.2020;[Epub] CrossRef
Fungal colonization associated with phenological stages of a photosynthetic terrestrial temperate orchid from the Southern Iberian Peninsula
Irene Herrera-Rus, Julio E. Pastor, Rocío Juan
Journal of Plant Research.2020; 133(6): 807. CrossRef

Article

Comprehensive analysis of fungal diversity and enzyme activity in nuruk, a Korean fermenting starter, for acquiring useful fungi: Emily Carroll , Tran Ngoc Trinh , Hokyoung Son , Yin-Won Lee , Jeong-Ah Seo; J. Microbiol. 2017;55(5):357-365. Published online April 29, 2017; DOI: https://doi.org/10.1007/s12275-017-7114-z

695 View
1 Download
39 Crossref

Abstract PDF

Nuruk is a fermenting starter that is involved in the pro-duction of alcoholic beverages, and has been used in South Korea for a very long time. To analyze the fungal diversity, we collected a total of 59 nuruk samples from several com-panies and persons in 2013 to 2014, and obtained 364 iso-lates. All of the single isolated fungi were identified, both morphologically and molecularly, based on the sequences of ribosomal RNA gene [18S, ITS1-5.8S-ITS2, and 26S (D1/D2 region)]. In 46 nuruk samples out of 59 (78%), Saccharo-mycopsis fibuligera, a dimorphic yeast, was most frequently isolated. Among the filamentous fungi, Aspergillus and Lich-theimia were found in more than 50% of the samples with lower colony forming unit (CFU/g of sample) than those of yeasts. The yeasts S. fibuligera and Wickerhamomyces ano-malus were counted with maximum 1.3 – 1.8 × 108 CFU/g. Among Mucorales fungi, Lichtheimia and Mucor were iso-lated in much higher numbers than Rhizopus and Rhizo-mucor. Overall, the home-made nuruks tend to contain more diverse filamentous fungi than the commercial nuruks. To acquire industrially useful filamentous fungi and yeasts, we analyzed the enzyme activities of α-amylase, glucoamylase and acid protease associated with brewing properties for 131 strains. Aspergillus oryzae and S. fibuligera had high α- and glucoamylase activities and most isolates of Lichtheimia ramosa had high acid protease activity. For further applica-tions, 27 fungal strains were chosen based on isolation fre-quencies from nuruk, and the ability to produce useful en-zyme.

Citations

Citations to this article as recorded by

Modern starter culturing and starter-based alcohol making experiments: A methodological rethinking in East Asian fermented beverage production
Yahui He, Li Liu
Journal of Archaeological Science: Reports.2026; 73: 105817. CrossRef
Review: Rhizopus sp. beyond tempeh. An Occidental approach to mold-based fermentations
José María Martín-Miguélez, Jordi Bross, Diego Prado, Esther Merino, Ramón Perisé Moré, Julián Otero, Andoni Luis Aduriz, Josué Delgado
International Journal of Gastronomy and Food Science.2025; 39: 101090. CrossRef
Analyzing fungal community succession and its correlation to flavor compounds in the Cupei fermentation process of Sichuan shai vinegar
Zhicheng Li, Yuting Liao, Cuixin Huang, Jun Liu, Xiangpeng Kong, Li Li, Zhongxuan Li, Yuan Gui
Food Microbiology.2025; 128: 104718. CrossRef
Comparative genome analyses of Aspergillus oryzae and Aspergillus flavus originated from a Korean fermentation starter, nuruk
Eunji Jeong, Jeong-Ah Seo
Food Microbiology.2025; 131: 104807. CrossRef
Protective effects of extracellular proteins extracted from Saccharomycopsis fibuligera on UVA-induced skin aging
Jingsha Zhao, Xiangying Qin, Qinxuan Yuan, Shiwei Wang, Changtao Wang, Dongdong Wang, Jiachan Zhang, Meng Li
International Journal of Biological Macromolecules.2025; 318: 145315. CrossRef
Unravelling the transcriptomic dynamics of Hyphopichia pseudoburtonii in co-culture with Botrytis cinerea
Evelyn Maluleke, Neil Paul Jolly, Hugh-George Patterton, Mathabatha Evodia Setati, Katherine A. Borkovich
PLOS ONE.2025; 20(1): e0316713. CrossRef
Macrogenomic and physicochemical analyses reveal microbial community and functional differences among traditional, commercial, and fortified Xiaoqu
Shaoji Zhang, Yao Lin, Tianxiang Wu, Dandan Yuan, Shoufa Jiang, Ping Fu, Wenqiang Nie
Food Bioscience.2025; 68: 106736. CrossRef
Targeted enhancement strategies for Sojae Semen Praeparatum: Impact of Aspergillus oryzae and Bacillus subtilis on microbial communities, flavor substances, and functional components
Bin Wang, Tianxing He, Yingying Cheng, Hongping Chen, Yuan Hu, Youping Liu, Fu Wang, Lin Chen
Food Chemistry: X.2025; 30: 102931. CrossRef
Quality Status and Skin-Related Functional Properties of Traditional Korean Fermented Vinegars
Hwan Hee Yu, So-Won Jang, Eungyeong Kim, Jong-Chan Kim, Mi Jang
Foods.2025; 14(15): 2728. CrossRef
Safety of Rhizomucor pusillus biomass powder as a novel food pursuant to Regulation (EU) 2015/2283
Dominique Turck, Torsten Bohn, Montaña Cámara, Jacqueline Castenmiller, Stefaan De Henauw, Karen Ildico Hirsch‐Ernst, Ángeles Jos, Alexandre Maciuk, Inge Mangelsdorf, Breige Mcnulty, Androniki Naska, Kristina Pentieva, Alfonso Siani, Frank Thies, Margarit
EFSA Journal.2025;[Epub] CrossRef
Distinction Between Aspergillus oryzae and Aflatoxigenic Aspergillus flavus by Rapid PCR Method Based on the Comparative Sequence Analysis of the Aflatoxin Biosynthesis Gene Cluster
Eunji Jeong, Yoo Jin Kwon, Jeong-Ah Seo
Journal of Fungi.2025; 12(1): 10. CrossRef
In silico evaluation of the potential allergenicity of a fungal biomass from Rhizomucor pusillus for use as a novel food ingredient
Kevin Scaife, Steve L. Taylor, Lucie Pařenicová, Richard E. Goodman, Trung D. Vo, Elisa Leune, Mohamed Abdelmoteleb, Yvonne Dommels
Regulatory Toxicology and Pharmacology.2024; 150: 105629. CrossRef
Human Health Benefits and Microbial Consortium of Stevia Fermented with Barley Nuruk
Hyun-Ju Han, Min Nyeong Ko, Chan Seong Shin, Chang-Gu Hyun
Fermentation.2024; 10(7): 330. CrossRef
Stabilization of jiuyao quality for huangjiu brewing by fortifying functional strains based on core microbial community analysis
Ying Zhu, Shuangping Liu, Donglin Ma, Yuezheng Xu, Chen Yang, Jian Mao
Food Bioscience.2023; 52: 102370. CrossRef
In silico and in vitro safety assessment of a fungal biomass from Rhizomucor pusillus for use as a novel food ingredient
Kevin Scaife, Trung D. Vo, Yvonne Dommels, Elisa Leune, Kaj Albermann, Lucie Pařenicová
Food and Chemical Toxicology.2023; 179: 113972. CrossRef
Effects of saccharification agents on the microbial and metabolic profiles of Korean rice wine (makgeolli)
Jeongmin Cha, Seong-Eun Park, Eun-Ju Kim, Seung-Ho Seo, Kwang-Moon Cho, Sun Jae Kwon, Mee-Hyun Lee, Hong-Seok Son
Food Research International.2023; 172: 113367. CrossRef
Unraveling multifunction of low-temperature Daqu in simultaneous saccharification and fermentation of Chinese light aroma type liquor
Yifu Zheng, Feng Liang, Yi Wu, Shibo Ban, Heqiang Huang, Yan Xu, Xuliang Wang, Qun Wu
International Journal of Food Microbiology.2023; 397: 110202. CrossRef
Genomic and functional features of yeast species in Korean traditional fermented alcoholic beverage and soybean products
Da Min Jeong, Hyeon Jin Kim, Min-Seung Jeon, Su Jin Yoo, Hye Yun Moon, Eun-joo Jeon, Che Ok Jeon, Seong-il Eyun, Hyun Ah Kang
FEMS Yeast Research.2023;[Epub] CrossRef
Enzymatic Hydrolysis of Tenebrio molitor (Mealworm) Using Nuruk Extract Concentrate and an Evaluation of Its Nutritional, Functional, and Sensory Properties
Legesse Shiferaw Chewaka, Chan Soon Park, Youn-Soo Cha, Kebede Taye Desta, Bo-Ram Park
Foods.2023; 12(11): 2188. CrossRef
The differences in carbohydrate utilization ability between six rounds of Sauce-flavor Daqu
Qi Zhu, Liangqiang Chen, Zheng Peng, Qiaoling Zhang, Wanqiu Huang, Fan Yang, Guocheng Du, Juan Zhang, Li Wang
Food Research International.2023; 163: 112184. CrossRef
Amylolytic Fungi in the Ethnic Beer Starter “emao” and Their Beer-Producing Attributes
Nitesh Boro, Diganta Narzary
Frontiers in Sustainable Food Systems.2022;[Epub] CrossRef
Enzyme activity of Aspergillus section Nigri strains isolated from the Korean fermentation starter, nuruk
Eunji Jeong, Jeong-Ah Seo
Journal of Microbiology.2022; 60(10): 998. CrossRef
Probiotic properties of lactic acid bacteria isolated from traditionally prepared dry starters of the Eastern Himalayas
Pooja Pradhan, Jyoti Prakash Tamang
World Journal of Microbiology and Biotechnology.2021;[Epub] CrossRef
Fermentation profiling of rice wine produced by Aspergillus oryzae KSS2 and Rhizopus oryzae KJJ39 newly isolated from Korean fermentation starter
Minjoo Kim, Jeong-Ah Seo
Applied Biological Chemistry.2021;[Epub] CrossRef
Integrated genomic and transcriptomic analysis reveals unique mechanisms for high osmotolerance and halotolerance in Hyphopichia yeast
Dong Wook Lee, Chang Pyo Hong, Eun Jung Thak, Sin‐Gi Park, Choong Hwan Lee, Jae Yun Lim, Jeong‐Ah Seo, Hyun Ah Kang
Environmental Microbiology.2021; 23(7): 3499. CrossRef
pH Changes Have a Profound Effect on Gene Expression, Hydrolytic Enzyme Production, and Dimorphism in Saccharomycopsis fibuligera
Mohamed El-Agamy Farh, Najib Abdellaoui, Jeong-Ah Seo
Frontiers in Microbiology.2021;[Epub] CrossRef
Saccharomycopsis fibuligera in liquor production: A review
Zai-Bin Xie, Kai-Zheng Zhang, Zhen-Hui Kang, Jian-Gang Yang
European Food Research and Technology.2021; 247(7): 1569. CrossRef
Diversity of Filamentous Fungi Isolated From Some Amylase and Alcohol-Producing Starters of India
Anu Anupma, Jyoti Prakash Tamang
Frontiers in Microbiology.2020;[Epub] CrossRef
Isolation and Identification of Fungi with Glucoamylase Activity from Loog-pang-khao-mak (A Thai Traditional Fermentation Starter)
Nawaphorn Roongrojmongkhon, Nattawut Rungjindamai, Tipachai Vatanavicharn, Duangjai Ochaikul
Journal of Pure and Applied Microbiology.2020; 14(1): 233. CrossRef
Natural Occurrence of Aflatoxigenic Aspergillus Species and Aflatoxins in Traditional Korean Fermentation Starters, Meju and Nuruk
So Young Woo, Sang Yoo Lee, Fei Tian, A-Yeong Jeong, Cha Nee Yoo, Seung Yoon Kang, Hyang Sook Chun
Journal of Food Hygiene and Safety.2020; 35(5): 438. CrossRef
Characterisation of physicochemical properties, flavour components and microbial community in Chinese Guojing roasted sesame-like flavourDaqu
Guangsen Fan, Yihua Du, Zhilei Fu, Min Chen, Zhou Wang, Pengxiao Liu, Xiuting Li
Journal of the Institute of Brewing.2020; 126(1): 105. CrossRef
Composition and Metabolic Functions of the Microbiome in Fermented Grain during Light-Flavor Baijiu Fermentation
Xiaoning Huang, Yi Fan, Ting Lu, Jiamu Kang, Xiaona Pang, Beizhong Han, Jingyu Chen
Microorganisms.2020; 8(9): 1281. CrossRef
Comprehensive analysis of different grades of roasted-sesame-like flavored Daqu
Guangsen Fan, Zhilei Fu, Chao Teng, Qiuhua Wu, Pengxiao Liu, Ran Yang, Karim a H M Minhazul, Xiuting Li
International Journal of Food Properties.2019; 22(1): 1205. CrossRef
A script for initiating molecular biology studies with non-conventional yeasts based on Saccharomycopsis schoenii
Yeseren Kayacan, Adam Griffiths, Jürgen Wendland
Microbiological Research.2019; 229: 126342. CrossRef
Designation of rice cake starters for fermented rice products with desired characteristics and fast fermentation
Jaruporn Rakmai, Benjamas Cheirsilp, Sirasit Srinuanpan
Journal of Food Science and Technology.2019; 56(6): 3014. CrossRef
Overexpression of RAD51 Enables PCR-Based Gene Targeting in Lager Yeast
Beatrice Bernardi, Yeseren Kayacan, Madina Akan, Jürgen Wendland
Microorganisms.2019; 7(7): 192. CrossRef
Expansion of a Telomeric FLO/ALS-Like Sequence Gene Family in Saccharomycopsis fermentans
Beatrice Bernardi, Yeseren Kayacan, Jürgen Wendland
Frontiers in Genetics.2018;[Epub] CrossRef
Comparison of volatile and non-volatile metabolites in rice wine fermented by Koji inoculated with Saccharomycopsis fibuligera and Aspergillus oryzae
Eun Yeong Son, Sang Mi Lee, Minjoo Kim, Jeong-Ah Seo, Young-Suk Kim
Food Research International.2018; 109: 596. CrossRef
Bioformation of Volatile and Nonvolatile Metabolites by Saccharomycopsis fibuligera KJJ81 Cultivated under Different Conditions—Carbon Sources and Cultivation Times
Sang Mi Lee, Ji Hye Jung, Jeong-Ah Seo, Young-Suk Kim
Molecules.2018; 23(11): 2762. CrossRef

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

Assessment of Soil Fungal Communities Using Pyrosequencing: Young Woon Lim , Byung Kwon Kim , Changmu Kim , Hack Sung Jung , Bong-Soo Kim , Jae-Hak Lee , Jongsik Chun; J. Microbiol. 2010;48(3):284-289. Published online June 23, 2010; DOI: https://doi.org/10.1007/s12275-010-9369-5

350 View
0 Download
89 Crossref

Abstract PDF

Pyrosequencing, a non-electrophoretic method of DNA sequencing, was used to investigate the extensive fungal community in soils of three islands in the Yellow Sea of Korea, between Korea and China. Pyrosequencing was carried out on amplicons derived from the 5′ region of 18S rDNA. A total of 10,166 reads were obtained, with an average length of 103 bp. The maximum number of fungal phylotypes in soil predicted at 99% similarity was 3,334. The maximum numbers of phylotypes predicted at 97% and 95% similarities were 736 and 286, respectively. Through phylogenetic assignment using BLASTN, a total of 372 tentative taxa were identified. The majority of true fungal sequences recovered in this study belonged to the Ascomycota (182 tentative taxa in 2,708 reads) and Basidiomycota (172 tentative taxa in 6,837 reads). The predominant species of Ascomycota detected have been described as lichen-forming fungi, litter/wood decomposers, plant parasites, endophytes, and saprotrophs: Peltigera neopolydactyla (Lecanoromycetes), Paecilomyces sp. (Sordariomycetes), Phacopsis huuskonenii (Lecanoromycetes), and Raffaelea hennebertii (mitosporic Ascomycota). The majority of sequences in the Basidiomycota matched ectomycorrhizal and wood rotting fungi, including species of the Agaricales and Aphyllophorales, respectively. A high number of sequences in the Thelephorales, Boletales, Stereales, Hymenochaetales, and Ceratobasidiomycetes were also detected. By applying high-throughput pyrosequencing, we observed a high diversity of soil fungi and found evidence that pyrosequencing is a reliable technique for investigating fungal communities in soils.

Citations

Citations to this article as recorded by

Exploring the diversity and potential of host-associated microorganisms in Hypnum leptothallum to enhance plant resilience to drought stress for karst desertification restoration
Shasha Wu, Yihong Xiang, Xiaofan Chen, Yueyan Lu, Yubi Li, Zheyu He, Qianya Zuo, Wei Cao, Jiaojiao Qu
Environmental Microbiome.2026;[Epub] CrossRef
Effect of Trichoderma atroviride Application on Tea Yield and Its Impact on the Soil Microbiome in a New Zealand Tea Plantation
Prashansani M. D. Silva, Travis R. Glare, John Graham Hampton, Diwakar R. W. Kandula, Josefina Narciso
Applied Microbiology.2026; 6(1): 9. CrossRef
Forest Soil Fungal Diversity in Stands of Norway Spruce (Picea abies (L.) Karst.) of Different Ages
Juris Katrevičs, Krišs Bitenieks, Āris Jansons, Baiba Jansone, Dainis Edgars Ruņģis
Forests.2025; 16(3): 500. CrossRef
Untrimmed ITS2 metabarcode sequences cause artificially reduced abundances of specific fungal taxa
Kathleen E. Kyle, Jonathan L. Klassen, Irina S. Druzhinina
Applied and Environmental Microbiology.2025;[Epub] CrossRef
Teosinte-derived SynCom and precision biofertilization modulate the maize microbiome, enhancing growth, yield, and soil functionality in a Mexican field
Juan Alfredo Hernández-García, Julio S. Bernal, Sanjay Antony-Babu, Lourdes Villa-Tanaca, César Hernández-Rodríguez, Esaú De-la-Vega-Camarillo
Frontiers in Microbiology.2025;[Epub] CrossRef
Study on Soil Nutrients and Microbial Community Diversity in Ancient Tea Plantations of China
Jiaxin Li, Wei Huang, Xinyuan Lin, Waqar Khan, Hongbo Zhao, Binmei Sun, Shaoqun Liu, Peng Zheng
Agronomy.2025; 15(7): 1608. CrossRef
Effects of straw mulching on soil nutrient content and microbial community on the gentle slope arable land in dryland farming
Zhixu Sun, Yu Wang, Ling Sun
Archives of Agronomy and Soil Science.2023; 69(13): 2510. CrossRef
Dynamic changes of microbial community composition and diversity in metal contaminated and reclaimed lands assessed by Illumina MiSeq sequencing
Kabwe Nkongolo, Ramya Narendrula- Kotha
Ecological Genetics and Genomics.2023; 26: 100163. CrossRef
Exploring the mycobiota of bromeliads phytotelmata in Brazilian Campos Rupestres
Vera Lúcia dos Santos, Ubiana Cássia Silva, Eduardo Horta Santos, Alessandra Abrão Resende, Marcela França Dias, Sara Cuadros-Orellana, Andréa Rodrigues Marques
Brazilian Journal of Microbiology.2023; 54(3): 1885. CrossRef
Logging has legacy effects on the structure of soil fungal communities several decades after cessation in Western Cascade forest stands
Max W. Spencer, Bitty A. Roy, Tiffany E. Thornton, Lucas C. R. Silva, Krista L. McGuire
Frontiers in Forests and Global Change.2023;[Epub] CrossRef
Exploring the Role of Fungal Endophytes in the Sudden Death Syndrome of the Invasive Shrub Chrysanthemoides monilifera subsp. rotundata in Australia
Louise Morin, Andrew B. Bissett, Rieks D. van Klinken
Phytobiomes Journal.2022; 6(1): 13. CrossRef
Migration and Transformation of Multiple Heavy Metals in the Soil–Plant System of E-Waste Dismantling Site
Jianming Lu, Ming Yuan, Lanfang Hu, Huaiying Yao
Microorganisms.2022; 10(4): 725. CrossRef
Full Issue PDF

Phytobiomes Journal.2022; 6(1): 1. CrossRef
Influence of tea-Pleurotus ostreatus intercropping on soil fungal diversity and community structure
Zhanxia Ma, Krizler C. Tanalgo, Qiuli Xu, Weitao Li, Shanshan Wu, Qing Ji, Gengyun Pan, Ruifang Wang, M. Anne Naeth
Canadian Journal of Soil Science.2022; 102(2): 359. CrossRef
Effects of fertilizer and waterlogging on the diversity and functioning of the microbial community in greenhouse cultivation soil
Lina Deng, Lanyin Fu, Kaixin Zhang, Yuxiang Shen, Gongneng Feng, Li Zhang, Hongshan Li, Changqing Liu
Chemical and Biological Technologies in Agriculture.2022;[Epub] CrossRef
Modeling Root-Knot Nematode Regulation by the Biocontrol Fungus Pochonia chlamydosporia
Aurelio Ciancio, Ileana Miranda Cabrera, Leopoldo Hidalgo-Diáz, Ana Puertas, Yoannia Castillo Duvergel
Frontiers in Fungal Biology.2022;[Epub] CrossRef
Community structure of fungal pathogens causing spikelet rot disease of naked oat from different ecological regions of China
Longlong Liu, Mingchuan Ma, Zhang Liu, Lijun Zhang, Jianping Zhou
Scientific Reports.2021;[Epub] CrossRef
Soil ammonia-oxidizing archaea in a paddy field with different irrigation and fertilization managements
Limin Wang, Dongfeng Huang
Scientific Reports.2021;[Epub] CrossRef
Ecology and Evolution of Marine Fungi With Their Adaptation to Climate Change
Vinit Kumar, V. Venkateswara Sarma, Kasun M. Thambugala, Jun-Jie Huang, Xiang-Yang Li, Ge-Fei Hao
Frontiers in Microbiology.2021;[Epub] CrossRef
Soil microbial community composition in a paddy field with different fertilization managements
Limin Wang, Dongfeng Huang
Canadian Journal of Microbiology.2021; 67(12): 864. CrossRef
Seasonal Variation in Fungal Community Composition Associated with Tamarix chinensis Roots in the Coastal Saline Soil of Bohai Bay, China
Wei Zhang, Ali Bahadur, Wasim Sajjad, Xiukun Wu, Gaosen Zhang, Guangxiu Liu, Tuo Chen
Microbial Ecology.2021; 82(3): 652. CrossRef
Forest gaps mediate the structure and function of the soil microbial community in a Castanopsis kawakamii forest
Xuelin Wang, Jinfu Liu, Zhongsheng He, Cong Xing, Jing Zhu, Xinguang Gu, Yiqi Lan, Zeyan Wu, Peichun Liao, Dehuang Zhu
Ecological Indicators.2021; 122: 107288. CrossRef
Macrofungal diversity of urbanized areas in southern part of Korea
Sung Eun Cho, Young-Nam Kwag, Jong Won Jo, Sang-Kuk Han, Seung Hwan Oh, Chang Sun Kim
Journal of Asia-Pacific Biodiversity.2020; 13(2): 189. CrossRef
Climate and soil properties regulate soil fungal communities on the Loess Plateau
Quanchao Zeng, Yang Liu, Li Xiao, Shaoshan An
Pedobiologia.2020; 81-82: 150668. CrossRef
Advances in monitoring soil microbial community dynamic and function
K. K. Nkongolo, R. Narendrula-Kotha
Journal of Applied Genetics.2020; 61(2): 249. CrossRef
Biofertilisation with anaerobic digestates: A field study of effects on soil microbial abundance and diversity
Janerson Jose Coelho, Aoife Hennessy, Imelda Casey, Caio Roberto Soares Bragança, Tony Woodcock, Nabla Kennedy
Applied Soil Ecology.2020; 147: 103403. CrossRef
The soil fungal community of native woodland in Andean Patagonian forest: A case study considering experimental forest management and seasonal effects
Ayelen Inés Carron, Lucas Alejandro Garibaldi, Sebastian Marquez, Sonia Fontenla
Forest Ecology and Management.2020; 461: 117955. CrossRef
Comparison of Soil Higher Fungal Communities between Dead and Living Abies koreana in Mt. Halla, the Republic of Korea
Chang Sun Kim, Jong Won Jo, Hyen Lee, Young-Nam Kwag, Sung Eun Cho, Seung Hwan Oh
Mycobiology.2020; 48(5): 364. CrossRef
The diversity and ecological roles of Penicillium in intertidal zones
Myung Soo Park, Seung-Yoon Oh, Jonathan J. Fong, Jos Houbraken, Young Woon Lim
Scientific Reports.2019;[Epub] CrossRef
Soil Physicochemical Properties and the Rhizosphere Soil Fungal Community in a Mulberry (Morus alba L.)/Alfalfa (Medicago sativa L.) Intercropping System
Mengmeng Zhang, Ning Wang, Jingyun Zhang, Yanbo Hu, Dunjiang Cai, Jianhua Guo, Di Wu, Guangyu Sun
Forests.2019; 10(2): 167. CrossRef
Fluazinam positively affected the microbial communities in clubroot cabbage rhizosphere
Chunming Liu, Zhenfu Yang, Pengfei He, Shahzad Munir, Pengbo He, Yixin Wu, Honhing Ho, Yueqiu He
Scientia Horticulturae.2019; 256: 108519. CrossRef
Bacterial Communities in Acid Tea Soils Treated for 10 Years with Chemical vs. Integrated Fertilizers
Limin Wang, Dongfeng Huang, Fei Wang, Qinghua Li, Chunmei He, Cailing Liu, Yibin Huang
Communications in Soil Science and Plant Analysis.2019; 50(3): 307. CrossRef
Deciphering the bacterial and fungal communities in clubroot-affected cabbage rhizosphere treated with Bacillus Subtilis XF-1
Chunming Liu, Zhenfu Yang, Pengfei He, Shahzad Munir, Yixin Wu, Honhing Ho, Yueqiu He
Agriculture, Ecosystems & Environment.2018; 256: 12. CrossRef
Fungal Genetics and Functional Diversity of Microbial Communities in the Soil under Long-Term Monoculture of Maize Using Different Cultivation Techniques
Anna Gałązka, Jarosław Grządziel
Frontiers in Microbiology.2018;[Epub] CrossRef
Silage review: Using molecular approaches to define the microbial ecology of silage
T.A. McAllister, L. Dunière, P. Drouin, S. Xu, Y. Wang, K. Munns, R. Zaheer
Journal of Dairy Science.2018; 101(5): 4060. CrossRef
Trichoderma improves the growth of Leymus chinensis
Fengge Zhang, Yunqian Huo, Xixi Xu, Jian Hu, Xiao Sun, Yan Xiao, Yingjun Zhang
Biology and Fertility of Soils.2018; 54(6): 685. CrossRef
Characterization of fungi from different ecosystems of tropical peat in Sarawak, Malaysia
Nor Azizah Kusai, Zahidah Ayob, Mohd Shawal Thakib Maidin, Sakinah Safari, Siti Ramlah Ahmad Ali
Rendiconti Lincei. Scienze Fisiche e Naturali.2018; 29(2): 469. CrossRef
Irrigation water quality and microbial safety of leafy greens in different vegetable production systems: A review
Mosimanegape Jongman, Lise Korsten
Food Reviews International.2018; 34(4): 308. CrossRef
Survey of Soil Fungal Communities in Strawberry Fields by Illumina Amplicon Sequencing
S. M. Mirmajlessi, M. Bahram, M. Mänd, N. Najdabbasi, S. Mansouripour, E. Loit
Eurasian Soil Science.2018; 51(6): 682. CrossRef
Gut commensal Bacteroides acidifaciens prevents obesity and improves insulin sensitivity in mice
J-Y Yang, Y-S Lee, Y. Kim, S-H Lee, S. Ryu, S. Fukuda, K. Hase, C-S Yang, H.S. Lim, M-S Kim, H-M Kim, S-H Ahn, B-E Kwon, H-J Ko, M-N Kweon
Mucosal Immunology.2017; 10(1): 104. CrossRef
Microbial Response to Soil Liming of Damaged Ecosystems Revealed by Pyrosequencing and Phospholipid Fatty Acid Analyses
Ramya Narendrula-Kotha, Kabwe K. Nkongolo, Newton CM Gomes
PLOS ONE.2017; 12(1): e0168497. CrossRef
Fungal communities in a Korean red pine stand, Gwangneung Forest, Korea
Chang Sun Kim, Sang-Kuk Han, Jong Woo Nam, Jong Won Jo, Young-Nam Kwag, Jae-Gu Han, Gi-Ho Sung, Young Woon Lim, Seunghwan Oh
Journal of Asia-Pacific Biodiversity.2017; 10(4): 559. CrossRef
Changes in the composition and diversity of topsoil bacterial, archaeal and fungal communities after 22 years conventional and no-tillage managements in Northern China
Wenyi Dong, Enke Liu, Changrong Yan, Hengheng Zhang, Yanqing Zhang
Archives of Agronomy and Soil Science.2017; 63(10): 1369. CrossRef
Notes for genera: Ascomycota
Nalin N. Wijayawardene, Kevin D. Hyde, Kunhiraman C. Rajeshkumar, David L. Hawksworth, Hugo Madrid, Paul M. Kirk, Uwe Braun, Rajshree V. Singh, Pedro W. Crous, Martin Kukwa, Robert Lücking, Cletus P. Kurtzman, Andrey Yurkov, Danny Haelewaters, André Aptro
Fungal Diversity.2017; 86(1): 1. CrossRef
Bacterial biomes and potential human pathogens in irrigation water and leafy greens from different production systems described using pyrosequencing
M. Jongman, L. Chidamba, L. Korsten
Journal of Applied Microbiology.2017; 123(4): 1043. CrossRef
Genomic epidemiology of Cryptococcus yeasts identifies adaptation to environmental niches underpinning infection across an African HIV/AIDS cohort
Mathieu Vanhove, Mathew A. Beale, Johanna Rhodes, Duncan Chanda, Shabir Lakhi, Geoffrey Kwenda, Sile Molloy, Natasha Karunaharan, Neil Stone, Thomas S. Harrison, Tihana Bicanic, Matthew C. Fisher
Molecular Ecology.2017; 26(7): 1991. CrossRef
Bacterial and fungal core microbiomes associated with small grain silages during ensiling and aerobic spoilage
Lysiane Duniere, Shanwei Xu, Jin Long, Chijioke Elekwachi, Yuxi Wang, Kelly Turkington, Robert Forster, Tim A. McAllister
BMC Microbiology.2017;[Epub] CrossRef
Studies on seasonal dynamics of soil-higher fungal communities in Mongolian oak-dominant Gwangneung forest in Korea
Chang Sun Kim, Jong Woo Nam, Jong Won Jo, Sang-Yong Kim, Jae-Gu Han, Min Woo Hyun, Gi-Ho Sung, Sang-Kuk Han
Journal of Microbiology.2016; 54(1): 14. CrossRef
Powerful qPCR assays for the early detection of latent invaders: interdisciplinary approaches in clinical cancer research and plant pathology
Nicola Luchi, Paolo Capretti, Mario Pazzagli, Pamela Pinzani
Applied Microbiology and Biotechnology.2016; 100(12): 5189. CrossRef
Prevalence of the genus Cladosporium on the integument of leaf-cutting ants characterized by 454 pyrosequencing
A. P. M. Duarte, M. Ferro, A. Rodrigues, M. Bacci, N. S. Nagamoto, L. C. Forti, F. C. Pagnocca
Antonie van Leeuwenhoek.2016; 109(9): 1235. CrossRef
Distribution patterns of microbial communities in ultramafic landscape: a metagenetic approach highlights the strong relationships between diversity and environmental traits
L. Bordez, P. Jourand, M. Ducousso, F. Carriconde, Y. Cavaloc, S. Santini, J. M. Claverie, L. Wantiez, A. Leveau, H. Amir
Molecular Ecology.2016; 25(10): 2258. CrossRef
The Gut Microbiomes of Two Pachysoma MacLeay Desert Dung Beetle Species (Coleoptera: Scarabaeidae: Scarabaeinae) Feeding on Different Diets
Philippa Z. N. Franzini, Jean-Baptiste Ramond, Clarke H. Scholtz, Catherine L. Sole, Sandra Ronca, Don A. Cowan, Robert J Forster
PLOS ONE.2016; 11(8): e0161118. CrossRef
Using environmental (e)DNA sequencing for aquatic biodiversity surveys: a beginner’s guide
Jennifer L. A. Shaw, Laura Weyrich, Alan Cooper
Marine and Freshwater Research.2016; 68(1): 20. CrossRef
Use of mulberry–soybean intercropping in salt–alkali soil impacts the diversity of the soil bacterial community
Xin Li, Minglong Sun, Huihui Zhang, Nan Xu, Guangyu Sun
Microbial Biotechnology.2016; 9(3): 293. CrossRef
Exploring fungal diversity in deep-sea sediments from Okinawa Trough using high-throughput Illumina sequencing
Xiao-Yong Zhang, Guang-Hua Wang, Xin-Ya Xu, Xu-Hua Nong, Jie Wang, Muhammad Amin, Shu-Hua Qi
Deep Sea Research Part I: Oceanographic Research Papers.2016; 116: 99. CrossRef
Trichoderma species occurring on wood with decay symptoms in mountain forests in Central Europe: genetic and enzymatic characterization
Lidia Błaszczyk, Judyta Strakowska, Jerzy Chełkowski, Agnieszka Gąbka-Buszek, Joanna Kaczmarek
Journal of Applied Genetics.2016; 57(3): 397. CrossRef
Metabarcoding-based fungal diversity on coarse and fine particulate organic matter in a first-order stream in Nova Scotia, Canada
Christian Wurzbacher, Ivan J. Grimmett, Felix Bärlocher
F1000Research.2016; 4: 1378. CrossRef
Metabarcoding-based fungal diversity on coarse and fine particulate organic matter in a first-order stream in Nova Scotia, Canada
Christian Wurzbacher, Ivan J. Grimmett, Felix Bärlocher
F1000Research.2015; 4: 1378. CrossRef
Phenotype MicroArrays as a complementary tool to next generation sequencing for characterization of tree endophytes
Kathrin Blumenstein, David Macaya-Sanz, Juan A. Martín, Benedicte R. Albrectsen, Johanna Witzell
Frontiers in Microbiology.2015;[Epub] CrossRef
Cucumber Rhizosphere Microbial Community Response to Biocontrol Agent Bacillus subtilis B068150
Lihua Li, Jincai Ma, A. Ibekwe, Qi Wang, Ching-Hong Yang
Agriculture.2015; 6(1): 2. CrossRef
Pyrosequencing Reveals Fungal Communities in the Rhizosphere of Xinjiang Jujube
Peng Liu, Xiao-Hui Wang, Jian-Gui Li, Wei Qin, Cheng-Ze Xiao, Xu Zhao, Hong-Xia Jiang, Jun-Kang Sui, Rong-Bo Sa, Wei-Yan Wang, Xun-Li Liu
BioMed Research International.2015; 2015: 1. CrossRef
Survey of Annual and Seasonal Fungal Communities in Japanese <i>Prunus mume</i> Orchard Soil by Next-Generation Sequencing
Yoshinao Aoki, Keiko Fujita, Hiroyuki Shima, Shunji Suzuki
Advances in Microbiology.2015; 05(13): 817. CrossRef
Characterizing the diversity of active bacteria in soil by comprehensive stable isotope probing of DNA and RNA with H218O
Elizabeth A. Rettedal, Volker S. Brözel
MicrobiologyOpen.2015; 4(2): 208. CrossRef
Diversity and distribution of bacterial community in the coastal sediments of Bohai Bay, China
Liping Wang, Binghui Zheng, Kun Lei
Acta Oceanologica Sinica.2015; 34(10): 122. CrossRef
Metatranscriptome analysis of fungal strains Penicillium camemberti and Geotrichum candidumreveal cheese matrix breakdown and potential development of sensory properties of ripened Camembert-type cheese
Marie-Hélène Lessard, Catherine Viel, Brian Boyle, Daniel St-Gelais, Steve Labrie
BMC Genomics.2014;[Epub] CrossRef
An investigation of the biodiversity of thermophilic and thermotolerant fungal species in composts using culture-based and molecular techniques
Adrian Langarica-Fuentes, Pauline S. Handley, Ashley Houlden, Graeme Fox, Geoffrey D. Robson
Fungal Ecology.2014; 11: 132. CrossRef
The significance of cellulolytic enzymes produced by Trichoderma in opportunistic lifestyle of this fungus
Judyta Strakowska, Lidia Błaszczyk, Jerzy Chełkowski
Journal of Basic Microbiology.2014;[Epub] CrossRef
Variation in forest soil fungal diversity along a latitudinal gradient
Ling-Ling Shi, Peter E. Mortimer, J. W. Ferry Slik, Xiao-Ming Zou, Jianchu Xu, Wen-Ting Feng, Lu Qiao
Fungal Diversity.2014; 64(1): 305. CrossRef
A next-generation sequencing approach to river biomonitoring using benthic diatoms
Lenaïg Kermarrec, Alain Franc, Frédéric Rimet, Philippe Chaumeil, Jean-Marc Frigerio, Jean-François Humbert, Agnès Bouchez
Freshwater Science.2014; 33(1): 349. CrossRef
Fungal Community Responses to Past and Future Atmospheric CO 2 Differ by Soil Type
Andrew C. Procter, J. Christopher Ellis, Philip A. Fay, H. Wayne Polley, Robert B. Jackson, D. Cullen
Applied and Environmental Microbiology.2014; 80(23): 7364. CrossRef
Eukaryotic microbial communities in hypersaline soils and sediments from the alkaline hypersaline Huama Lake as revealed by 454 pyrosequencing
Kaihui Liu, Xiaowei Ding, Hong-Fei Wang, Xiaomei Zhang, Wael N. Hozzein, Mohammed A. M. Wadaan, Afeng Lan, Bo Zhang, Wenjun Li
Antonie van Leeuwenhoek.2014; 105(5): 871. CrossRef
Study on the effects of near-future ocean acidification on marine yeasts: a microcosm approach
Evamaria Krause, Antje Wichels, René Erler, Gunnar Gerdts
Helgoland Marine Research.2013; 67(4): 607. CrossRef
Effects on Diversity of Soil Fungal Community and Fate of an Artificially Applied Beauveria bassiana Strain Assessed Through 454 Pyrosequencing
Jacqueline Hirsch, Sandhya Galidevara, Stephan Strohmeier, K. Uma Devi, Annette Reineke
Microbial Ecology.2013; 66(3): 608. CrossRef
Combining high-throughput sequencing with fruit body surveys reveals contrasting life-history strategies in fungi
Otso Ovaskainen, Dmitry Schigel, Heini Ali-Kovero, Petri Auvinen, Lars Paulin, Björn Nordén, Jenni Nordén
The ISME Journal.2013; 7(9): 1696. CrossRef
Tracking Fungal Community Responses to Maize Plants by DNA- and RNA-Based Pyrosequencing
Eiko E. Kuramae, Erik Verbruggen, Remy Hillekens, Mattias de Hollander, Wilfred F. M. Röling, Marcel G. A. van der Heijden, George A. Kowalchuk, Mari Moora
PLoS ONE.2013; 8(7): e69973. CrossRef
Structural and functional variation in soil fungal communities associated with litter bags containing maize leaf
Eiko E. Kuramae, Remy H.E. Hillekens, Mattias de Hollander, Marcel G. A. van der Heijden, Marlies van den Berg, Nico M. van Straalen, George A. Kowalchuk
FEMS Microbiology Ecology.2013; 84(3): 519. CrossRef
454 Pyrosequencing Analysis of Fungal Assemblages from Geographically Distant, Disparate Soils Reveals Spatial Patterning and a Core Mycobiome
Alberto Orgiazzi, Valeria Bianciotto, Paola Bonfante, Stefania Daghino, Stefano Ghignone, Alexandra Lazzari, Erica Lumini, Antonietta Mello, Chiara Napoli, Silvia Perotto, Alfredo Vizzini, Simonetta Bagella, Claude Murat, Mariangela Girlanda
Diversity.2013; 5(1): 73. CrossRef
Diversity of microorganisms from forest soils differently polluted with heavy metals
Marcin Chodak, Marcin Gołębiewski, Justyna Morawska-Płoskonka, Katarzyna Kuduk, Maria Niklińska
Applied Soil Ecology.2013; 64: 7. CrossRef
Hypholoma lateritiumisolated from coarse woody debris, the forest floor, and mineral soil in a deciduous forest in New Hampshire
Therese A. Thompson, R. Greg Thorn, Kevin T. Smith
Botany.2012; 90(6): 457. CrossRef
Next‐generation sequencing technologies for environmental DNA research
SHADI SHOKRALLA, JENNIFER L. SPALL, JOEL F. GIBSON, MEHRDAD HAJIBABAEI
Molecular Ecology.2012; 21(8): 1794. CrossRef
Coarse woody debris retention in subalpine clearcuts affects ectomycorrhizal root tip community structure within fifteen years of harvest
J.K.M. Walker, V. Ward, C. Paterson, Melanie D. Jones
Applied Soil Ecology.2012; 60: 5. CrossRef
A molecular method to assess Phytophthora diversity in environmental samples
Silvia Scibetta, Leonardo Schena, Antonio Chimento, Santa O. Cacciola, David E.L. Cooke
Journal of Microbiological Methods.2012; 88(3): 356. CrossRef
Molecular approaches for AM fungal community ecology: A primer
Monika A. Gorzelak, Taylor C. Holland, Xiaoke Xing, Miranda M. Hart
Journal of Microbiological Methods.2012; 90(2): 108. CrossRef
Pyrosequencing as a tool for the detection ofPhytophthoraspecies: error rate and risk of false Molecular Operational Taxonomic Units
A.M. Vettraino, P. Bonants, A. Tomassini, N. Bruni, A. Vannini
Letters in Applied Microbiology.2012; 55(5): 390. CrossRef
Quantitative methods for the analysis of zoosporic fungi
Agostina V. Marano, Frank H. Gleason, Felix Bärlocher, Carmen L.A. Pires-Zottarelli, Osu Lilje, Steve K. Schmidt, Serena Rasconi, Maiko Kagami, Marcelo D. Barrera, Télesphore Sime-Ngando, Sammy Boussiba, José I. de Souza, Joan E. Edwards
Journal of Microbiological Methods.2012; 89(1): 22. CrossRef
Zoosporic true fungi and heterotrophic straminipiles assemblages from soil of Brazilian Cerrado areas
Cristiane de A. Nascimento, Eduardo P.C. Gomes, José I. de Souza, Carmen Lidia A. Pires-Zottarelli
Fungal Ecology.2012; 5(2): 114. CrossRef
Application of bio-organic fertilizer can control Fusarium wilt of cucumber plants by regulating microbial community of rhizosphere soil
Meihua Qiu, Ruifu Zhang, Chao Xue, Shusheng Zhang, Shuqing Li, Nan Zhang, Qirong Shen
Biology and Fertility of Soils.2012; 48(7): 807. CrossRef
Species Accumulation Curves and Incidence-Based Species Richness Estimators to Appraise the Diversity of Cultivable Yeasts from Beech Forest Soils
Andrey M. Yurkov, Martin Kemler, Dominik Begerow, Jürg Bähler
PLoS ONE.2011; 6(8): e23671. CrossRef
Functional diversity of terrestrial microbial decomposers and their substrates
Stephan Hättenschwiler, Nathalie Fromin, Sandra Barantal
Comptes Rendus. Biologies.2011; 334(5-6): 393. CrossRef

Article

Characterization of Cultivated Fungi Isolated from Grape Marc Wastes Through the Use of Amplified rDNA Restriction Analysis and Sequencing: Spyridon Ntougias , Nektarios Kavroulakis , Kalliope K. Papadopoulou , Constantinos Ehaliotis , Georgios I. Zervakis; J. Microbiol. 2010;48(3):297-306. Published online June 23, 2010; DOI: https://doi.org/10.1007/s12275-010-9193-y

404 View
0 Download
5 Crossref

Abstract PDF

Microbial assessment of grape marc wastes, the residual solid by-product of the wine-industry, was performed by identifying phylogenetically the fungal culturable diversity in order to evaluate environmental and disposal safety issues and to discuss ecological considerations of applications on agricultural land. Fungal spores in grape marc were estimated to 4.7×106 per g dry weight. Fifty six fungal isolates were classified into eight operational taxonomic units (OTUs) following amplified ribosomal DNA restriction analysis (ARDRA) and colony morphology. Based on 18S rRNA gene and 5.8S rRNA gene-ITS sequencing, the isolates representing OTUs #1, #2, #3, and #4, which comprised 44.6%, 26.8%, 12.5%, and 5.3%, respectively, of the number of the total isolates, were identified as Aspergillus fumigatus, Bionectria ochroleuca, Haematonectria haematococca, and Trichosporon mycotoxinivorans. The isolates of OTU#5 demonstrated high phylogenetic affinity with Penicillium spp., while members of OTUs #6 and #7 were closer linked with Geotrichum candidum var. citri-aurantii and Mycocladus corymbifer, respectively (95.4 and 97.9% similarities in respect to their 5.8S rRNA gene-ITS sequences). The OTU#8 with a single isolate was related with Aspergillus strains. It appears that most of the fungal isolates are associated with the initial raw material. Despite the fact that some of the species identified may potentially act as pathogens, measures such as the avoidance of maintaining large and unprocessed quantities of grape marc wastes in premises without adequate aeration, together with its suitable biological treatment (e.g., composting) prior to any agriculture-related application, could eliminate any pertinent health risks.

Citations

Citations to this article as recorded by

High impact biowastes from South European agro-industries as feedstock for second-generation biorefineries
Alberto Scoma, Stefano Rebecchi, Lorenzo Bertin, Fabio Fava
Critical Reviews in Biotechnology.2016; 36(1): 175. CrossRef
Microbial community structure and disposal issues of table olive wastewaters generated from the fermentation of the olive cultivar ‘Kalamon’
Marina Papadelli, Spyridon Ntougias
Annals of Microbiology.2014; 64(4): 1483. CrossRef
Dynamics of Panax ginseng Rhizospheric Soil Microbial Community and Their Metabolic Function
Yong Li, YiXin Ying, WanLong Ding, Shilin Chen
Evidence-Based Complementary and Alternative Medicine.2014;[Epub] CrossRef
Two Trichosporon species isolated from Central-European mygalomorph spiders (Araneae: Mygalomorphae)
Petr Heneberg, Milan Řezáč
Antonie van Leeuwenhoek.2013; 103(4): 713. CrossRef
Characterization of Soil Bacterial Communities in Rhizospheric and Nonrhizospheric Soil of Panax ginseng
Yi Xin Ying, Wan Long Ding, Yong Li
Biochemical Genetics.2012; 50(11-12): 848. CrossRef

First
Prev
Page of 1
Next
Last

Search