- Volume 49(2); April 2011
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Review
- REVIEW] Candida albicans, a Major Human Fungal Pathogen
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Joon Kim , Peter Sudbery
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J. Microbiol. 2011;49(2):171-177. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-1064-7
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Abstract
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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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Research Support, Non-U.S. Gov'ts
- Isolation and Characterization of a Family VII Esterase Derived from Alluvial Soil Metagenomic Library
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Weixin Tao , Myung Hwan Lee , Jing Wu , Nam Hee Kim , Seon-Woo Lee
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J. Microbiol. 2011;49(2):178-185. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-1102-5
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Abstract
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A novel esterase gene, estDL30, was isolated from an alluvial metagenomic library using function-driven screening. estDL30 consisted of 1,524 nucleotides and encoded a 507-amino acid protein. Sequence analysis revealed that EstDL30 is similar to many type B carboxylesterases, containing a G-E-S-A-G pentapeptide with
a catalytic Ser residue. Phylogenetic analysis suggested that EstDL30 belongs to the family VII lipases, together with esterases from Bacillus subtilis (P37967), Streptomyces coelicolor A3(2) (CAA22794), and Arthrobacter oxydans (Q01470). Purified EstDL30 showed its highest catalytic efficiency toward p-nitrophenyl butyrate, with a kcat of 229.3 s-1 and kcat/Km of 176.4 s-1mM-1; however, little activity was detected when the acyl chain length exceeded C8. Biochemical characterization of EstDL30 revealed that it is an alkaline esterase that possesses maximal activity at pH 8 and 40°C. The effects of denaturants and divalent cations were also investigated. EstDL30 tolerated well the presence of methanol and Tween 20. Its activity was strongly inhibited by 1 mM Cu2+ and Zn2+, but stimulated by Fe2+. The unique properties of EstDL30, its high activity under alkaline conditions and stability in the presence of organic solvents, may render it applicable to
organic synthesis.
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- Expression and characterization of an esterase belonging to a new family via isolation from a metagenomic library of paper mill sludge
Mei-Lu Jia, Xiao-Lin Zhong, Zhi-Wei Lin, Bing-Xue Dong, Gang Li
International Journal of Biological Macromolecules.2019; 126: 1192. CrossRef - Characterization of an alkaline esterase from an enriched metagenomic library derived from an oil-spill area
Seung Cheol Baek, Jeong Min Jo, Soo-Mi Jeong, Jae Pil Lee, Hyun Woo Lee, Jungho Kim, Hoon Kim
Journal of Applied Biological Chemistry.2019; 62(1): 73. CrossRef - Cloning, expression and characterization of the esterase estUT1 from Ureibacillus thermosphaericus which belongs to a new lipase family XVIII
Yuliya V. Samoylova, Ksenia N. Sorokina, Margarita V. Romanenko, Valentin N. Parmon
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- Correlations of Fecal Bacterial Communities with Age and Living Region for the Elderly Living in Bama, Guangxi, China
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Liang Zhao , Xuewei Qiao , Jun Zhu , Xiaoying Zhang , Jingli Jiang , Yanling Hao , Fazheng Ren
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J. Microbiol. 2011;49(2):186-192. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0405-x
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Bama County (Guangxi, China) is famous for its longevous population. In this study, intestinal microflora of 17 healthy elderly subjects of different ages and from different regions (rural and urban) in Bama, were analyzed by denaturing gradient gel electrophoresis (DGGE). Significant effects of age and living region on the whole intestinal bacterial communities were observed by redundancy analysis (RDA). A total of 11 bacterial strains that were correlated with age and living region were identified using a t-value biplot combined with band sequencing. Four bacterial strains were correlated with both age and living region of the elderly in Bama. Two Bacteroides strains and one Ruminococcaceae strain were abundant in the
rural, younger elderly; conversely, one Desulfovibrio strain was high in the urban, older elderly. Another Bacteroidetes strain was only correlated with the participant’s age, and its abundance increased with the age of the elderly. The richness of one Clostridium sordellii strain, which was only correlated with the elderly living region, was high in the urban elderly. The study also found five other novel bacterial strains that were correlated with the age or living region of the elderly in Bama. These results expand our understanding of age- and region-effects on the intestinal microflora of the elderly and raise the possibility of developing probiotics originating from centenarians.
- Inhibitory Effect of Lactobacillus reuteri on Periodontopathic and Cariogenic Bacteria
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Mi-Sun Kang , Jong-Suk Oh , Hyun-Chul Lee , Hoi-Soon Lim , Seok-Woo Lee , Kyu-Ho Yang , Nam-Ki Choi , Seon-Mi Kim
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J. Microbiol. 2011;49(2):193-199. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0252-9
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215
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The interaction between Lactobacillus reuteri, a probiotic bacterium, and oral pathogenic bacteria have not been studied adequately. This study examined the effects of L. reuteri on the proliferation of periodontopathic bacteria including Aggregatibacter actinomycetemcomitans, Fusobacterium nucleatum, Porphyromonas gingivalis, and Tannerella forsythia, and on the formation of Streptococcus mutans biofilms. Human-derived L. reuteri strains (KCTC 3594 and KCTC 3678) and rat-derived L. reuteri KCTC 3679 were used. All strains exhibited significant inhibitory effects on the growth of periodontopathic bacteria and the formation of S. mutans
biofilms. These antibacterial activities of L. reuteri were attributed to the production of organic acids, hydrogen peroxide, and a bacteriocin-like compound. Reuterin, an antimicrobial factor, was produced only by L. reuteri KCTC 3594. In addition, L. reuteri inhibited the production of methyl mercaptan by F. nucleatum and P. gingivalis. Overall, these results suggest that L. reuteri may be useful as a probiotic agent for improving oral health.
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Journal Article
- Screening-Level Assays for Potentially Human-Infectious Environmental Legionella spp.
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Helen Y. Buse , Abby Brehm , Jorge W. Santo Domingo , Nicholas J. Ashbolt
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J. Microbiol. 2011;49(2):200-207. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0233-z
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Abstract
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In spite of the fact that various Legionella species are isolated from nonclinical water settings, there is no standard method to determine whether environmental legionellae may be infectious to humans. Here we provide a screening-level approach based on an in vivo murine (A/J mouse) model and three in vitro
proliferation assays using Acanthamoeba polyphaga, and THP-1 human and J774 murine macrophage cell lines to identify potentially human-infectious legionellae. As an initial demonstration the infectivity potential of three clinical (Legionella pneumophila, L. longbeacheae, and L. micdadei) and three environmental (L.
dumoffii, L. maceachernii, and L. sainthelensi) legionellae were evaluated. A/J mice were intranasally infected and by 6 h post infection (p.i.), there were significant bacterial titers in the lungs. L. pneumophila, L. dumoffii, and L. micdadei densities were higher than L. longbeacheae, L. maceacherni, and L. sainthelensi
at 24 h p.i. However, only L. pneumophila and L. micdadei persisted in the lungs after 48 h, indicating that the other isolates were rapidly cleared. Results from the in vitro assays showed that only L. pneumophila significantly multiplied within A. polyphaga, THP-1 and J774 cells after 72 h, but lysis of any of the in vitro hosts also flagged the strains for potential concern (e.g. L. dumoffii and L. micdadei). The results demonstrate the value of using multiple approaches to assess the potential level of pathogenicity of Legionella strains isolated from different environmental matrices.
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Citations
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- Study of Legionella pneumophila treatment with copper in drinking water by single cell-ICP-MS
Lei Xu, Austin Sigler, Anna Chernatynskaya, Lindsey Rasmussen, Jingrang Lu, Endalkachew Sahle-Demessie, David Westenberg, Hu Yang, Honglan Shi
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Research Support, Non-U.S. Gov't
- Physiological and Metabolic Responses for Hexadecane Degradation in Acinetobacter oleivorans DR1
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Jaejoon Jung , Jaemin Noh , Woojun Park
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J. Microbiol. 2011;49(2):208-215. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0395-8
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The hexadecane degradation of Acinetobacter oleivorans DR1 was evaluated with changes in temperature and ionic salt contents. Hexadecane degradation of strain DR1 was reduced markedly by the presence of sodium chloride (but not potassium chloride). High temperature (37°C) was also shown to inhibit the motility, biofilm formation, and hexadecane biodegradation. The biofilm formation of strain DR1 on the oil-water interface might prove to be a critical physiological feature for the degradation of hexadecane. The positive relationship between biofilm formation and hexadecane degradation could be observed at 30°C, but not at low temperatures (25°C). Alterations in cell hydrophobicity and EPS production by temperature and
salts were not correlated with biofilm formation and hexadecane degradation. Our proteomic analyses have demonstrated that metabolic changes through the glyoxylate pathway are important for efficient degradation of hexadecane. Proteins involved in fatty acid metabolism, gluconeogenesis, and oxidative stress defense
proteins appear to be highly expressed during biodegradation of hexadecane. These results suggested that biofilm formation and oxidative stress defense are important physiological responses for hexadecane degradation along with metabolic switch to glyoxylate pathway in strain DR1.
Journal Article
- The Effect of Lipid Supplements on Ruminal Bacteria in Continuous Culture Fermenters Varies with the Fatty Acid Composition
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Ramesh B. Potu , Amer A. AbuGhazaleh , Darcie Hastings , Karen Jones , Salam A. Ibrahim
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J. Microbiol. 2011;49(2):216-223. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0365-1
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A single flow continuous culture fermenter system was used in this study to investigate the influence of dietary lipid supplements varying in their fatty acid content on the DNA concentration of selected rumen bacteria. Four continuous culture fermenters were used in a 4×4 Latin square design with four periods
of 10 d each. Treatment diets were fed at 45 g/d (DM basis) in three equal portions during the day. The diets were: 1) control (CON), 2) control with animal fat source (SAT), 3) control with soybean oil (SBO), and 4) control with fish oil (FO). Lipid supplements were added at 3% of diet DM. The concentrations of total volatile fatty acids and acetate were not affected (P>0.05) by lipid supplements. Concentrations of propionate, iso-butyrate, valerate and iso-valerate were highest (P<0.05) with the FO diet compared with the other treatment diets. The concentration of t11 C18:1 (vaccenic acid, VA) in effluents increased (P<0.05) with SBO and FO diets and was highest with the SBO diet. The concentrations of C18:0 in effluents were lowest (P<0.05) for the FO diet compared with the other treatment diets. Concentrations of DNA for Anaerovibrio lipolytica, and Butyrivibrio proteoclasticus in fermenters were similar (P>0.05) for all diets. The DNA concentrations of Butyrivibrio fibrisolvens and Ruminococcus albus in fermenters were lowest (P<0.05) with the FO diet but were similar (P>0.05) among the other treatment diets. Selenomonas ruminantium DNA concentration in fermenters was highest (P<0.05) with the FO diet. In conclusion, SBO had no effect on bacterial DNA concentrations tested in this study and the VA accumulation in the rumen observed on the FO diet may be due in part to FO influence on B. fibrisolvens, R. albus, and S. ruminantium.
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Kacper Libera, Malgorzata Szumacher-Strabel, Mina Vazirigohar, Wiktor Zieliński, Rafal Lukow, Klaudia Wysocka, Pawel Kołodziejski, Dorota Lechniak, Zora Varadyova, Amlan Kumar Patra, Adam Cieslak
Annals of Animal Science.2021; 21(3): 1007. CrossRef - Potential of walnut (Juglans regia) leave ethanolic extract to modify ruminal fermentation, microbial populations and mitigate methane emission
M. Sahebi Ala, R. Pirmohammadi, H. Khalilvandi-Behroozyar, E. Anassori
Animal Production Science.2020; 60(9): 1189. CrossRef - Ruminal fermentation, microbial population and lipid metabolism in gastrointestinal nematode-infected lambs fed a diet supplemented with herbal mixtures
Paulina Szulc, Dominika Mravčáková, Malgorzata Szumacher-Strabel, Zora Váradyová, Marián Várady, Klaudia Čobanová, Linggawastu Syahrulawal, Amlan Kumar Patra, Adam Cieslak, Simon Russell Clegg
PLOS ONE.2020; 15(4): e0231516. CrossRef - Dietary supplemental plant oils reduce methanogenesis from anaerobic microbial fermentation in the rumen
Julio Ernesto Vargas, Sonia Andrés, Lorena López-Ferreras, Timothy J. Snelling, David R. Yáñez-Ruíz, Carlos García-Estrada, Secundino López
Scientific Reports.2020;[Epub] CrossRef - Rapeseed and linseed oil supplementation affects hydrolytic activities in the rumen of sheep
Małgorzata P. Majewska, Renata Miltko, Agata Krawczyńska, Grzegorz Bełżecki, Barbara Kowalik
Livestock Science.2020; 240: 104175. CrossRef - Influence of grain type and oil concentration of dried corn distillers’ grain with solubles on ruminal fermentation and in vitro gas production in cattle fed high-concentrate diets
Faithe E. Keomanivong, Megan C. Ruch, Mary A. Rodenhuis, Matthew S. Crouse, James D. Kirsch, Marc L. Bauer, Md S. Borhan, Shafiqur Rahman, Kendall C. Swanson, J. Plaizier
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E.H. Yoshimura, N.W. Santos, E. Machado, B.C. Agustinho, L.M. Pereira, S.C. de Aguiar, R. Franzolin, E. Gasparino, G.T. dos Santos, L.M. Zeoula
Animal Feed Science and Technology.2018; 241: 163. CrossRef - Effect of soya bean oil supplementation and forage type on methane production and fibre digestibility using the in vitro gas production system
J. P. P. Rodrigues, M. Ramin, P. Huhtanen, F. Aru, E. Detmann, M. I. Marcondes
Grass and Forage Science.2018; 73(2): 368. CrossRef - Effect of Sunflower and Marine Oils on Ruminal Microbiota, In vitro Fermentation and Digesta Fatty Acid Profile
Julio E. Vargas, Sonia Andrés, Timothy J. Snelling, Lorena López-Ferreras, David R. Yáñez-Ruíz, Carlos García-Estrada, Secundino López
Frontiers in Microbiology.2017;[Epub] CrossRef - The effects of the unsaturated degree of long-chain fatty acids on the rumen microbial protein content and the activities of transaminases and dehydrogenase in vitro
Jian GAO, Yu-jia JING, Meng-zhi WANG, Liang-feng SHI, Shi-min LIU
Journal of Integrative Agriculture.2016; 15(2): 424. CrossRef - Impacts of the unsaturation degree of long-chain fatty acids on the volatile fatty acid profiles of rumen microbial fermentation in goats in vitro
Jian GAO, Meng-zhi WANG, Yu-jia JING, Xue-zhao SUN, Tian-yi WU, Liang-feng SHI
Journal of Integrative Agriculture.2016; 15(12): 2827. CrossRef - Quantitative analysis of ruminal bacterial populations involved in lipid metabolism in dairy cows fed different vegetable oils
E. Vargas-Bello-Pérez, N. Cancino-Padilla, J. Romero, P.C. Garnsworthy
Animal.2016; 10(11): 1821. CrossRef - Rumen fermentation, methane concentration and fatty acid proportion in the rumen and milk of dairy cows fed condensed tannin and/or fish-soybean oils blend
J. Szczechowiak, M. Szumacher-Strabel, M. El-Sherbiny, E. Pers-Kamczyc, P. Pawlak, A. Cieslak
Animal Feed Science and Technology.2016; 216: 93. CrossRef - The effects of cinnamaldehyde, monensin and quebracho condensed tannin on rumen fermentation, biohydrogenation and bacteria in continuous culture system
A. Ishlak, M. Günal, A.A. AbuGhazaleh
Animal Feed Science and Technology.2015; 207: 31. CrossRef - Tomato seeds as a novel by-product feed for lactating dairy cows
C.A. Cassinerio, J.G. Fadel, J. Asmus, J.M. Heguy, S.J. Taylor, E.J. DePeters
Journal of Dairy Science.2015; 98(7): 4811. CrossRef - Effects of incremental amounts of fish oil on trans fatty acids and Butyrivibrio bacteria in continuous culture fermenters
A. A. AbuGhazaleh, A. Ishlak
Journal of Animal Physiology and Animal Nutrition.2014; 98(2): 271. CrossRef - Short communication: Effect of blackberry and pomegranate oils on vaccenic acid formation in a single-flow continuous culture fermentation system
A. Ishlak, A.A. AbuGhazaleh, M. Günal
Journal of Dairy Science.2014; 97(2): 1067. CrossRef - Garlic derived compounds modify ruminal fatty acid biohydrogenation and induce shifts in the Butyrivibrio community in continuous-culture fermenters
E. Ramos-Morales, G. Martínez-Fernández, L. Abecia, A.I. Martin-García, E. Molina-Alcaide, D.R. Yáñez-Ruiz
Animal Feed Science and Technology.2013; 184(1-4): 38. CrossRef - Dietary Fish Oil Supplements Modify Ruminal Biohydrogenation, Alter the Flow of Fatty Acids at the Omasum, and Induce Changes in the Ruminal Butyrivibrio Population in Lactating Cows
Kevin J. Shingfield, Piia Kairenius, Anu Ärölä, Delphine Paillard, Stefan Muetzel, Seppo Ahvenjärvi, Aila Vanhatalo, Pekka Huhtanen, Vesa Toivonen, J. Mikko Griinari, R. John Wallace
The Journal of Nutrition.2012; 142(8): 1437. CrossRef - The effect of level of forage and oil supplement on biohydrogenation intermediates and bacteria in continuous cultures
P. Gudla, A.A. AbuGhazaleh, A. Ishlak, K. Jones
Animal Feed Science and Technology.2012; 171(2-4): 108. CrossRef - The Effect of Forage Level and Oil Supplement on Butyrivibrio fibrisolvens and Anaerovibrio lipolytica in Continuous Culture Fermenters
P. Gudla, A. Ishlak, A. A. AbuGhazaleh
Asian-Australasian Journal of Animal Sciences.2011; 25(2): 234. CrossRef
Research Support, Non-U.S. Gov't
- Seasonal Abundance and Distribution of Vibrio Species in the Treated Effluents of Wastewater Treatment Facilities in Suburban and Urban Communities of Eastern Cape Province, South Africa
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Etinosa O. Igbinosa , Chikwelu L. Obi , Anthony I. Okoh
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J. Microbiol. 2011;49(2):224-232. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0227-x
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We assessed the seasonal abundance and distribution of Vibrio species as well as some selected environmental parameters in the treated effluents of two wastewater treatment plants (WWTP), one each located in a suburban and urban community of Eastern Cape Province, South Africa. Vibrio population density ranged from 2.1×101 to 4.36×104 CFU/ml in the suburban community and from 2.80×101 to 1.80×105 CFU/ml in the urban community. Vibrio species associated with 180 μm, 60 μm, and 20 μm plankton sizes were observed at densities of 0-1.36×103 CFU/ml, 0-8.40×102 CFU/ml, and 0-6.80×102 CFU/ml, respectively at the suburban community’s WWTP. In the urban community, observed densities of culturable Vibrio were 0-2.80×102
CFU/ml (180 μm), 0-6.60×102 CFU/ml (60 μm), and 0-1.80×103 CFU/ml (20 μm). The abundance of free-living Vibrio species ranged from 0 to 1.0×102 and 1.0×103 CFU/ml in the suburban and urban communities’ WWTPs, respectively. Molecular confirmation of the presumptive Vibrio isolates revealed the presence of
V. fluvialis (41.38%), V. vulnificus (34.48%), and V. parahaemolyticus (24.14%) in the suburban community effluents. In the urban community molecular confirmation revealed that the same species were present at slightly different percentages, V. fluvialis (40%), V. vulnificus (36%), and V. parahaemolyticus (24%). There was no significant correlation between Vibrio abundance and season, either as free-living or planktonassociated entities, but Vibrio species abundance was positively correlated with temperature (r=0.565; p<0.01), salinity, and dissolved oxygen (p<0.05). Turbidity and pH showed significant seasonal variation (p<0.05)
across the seasons in both locations. This study underscores the potential of WWTPs to be sources of Vibrio pathogens in the watershed of suburban and urban communities in South Africa.
Journal Article
- Oceanicoccus sagamiensis gen. nov., sp. nov., a Gammaproteobacterium Isolated from Sea Water of Sagami Bay in Japan
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Sanghwa Park , Kazuhiro Kogure , Akira Yokota
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J. Microbiol. 2011;49(2):233-237. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0368-y
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270
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A gram-negative, motile, coccoid- and amorphous-shaped, non-pigmented chemoheterotrophic bacterium, designated strain PZ-5T, was isolated from sea water of Sagami Bay in Japan and subjected to a polyphasic taxonomic study. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the novel isolate could be affiliated with the class Gammaproteobacteria. Strain PZ-5T showed below 93.9% similarity with validly published bacteria and demonstrated the highest sequence similarity to Dasania marina KOPRI 20902T (93.9%). Strain PZ-5T formed a monophyletic group with D. marina KOPRI 20902T. The DNA G+C content of strain PZ-5T was 49.8 mol%. The major isoprenoid quinone was Q-8 and redominant cellular fatty acids were C15:0 ISO 2OH (19%), C16:1 ω7c (17.4%), C17:1 ω8c (16.2%), C11:0 3OH (7.5%), and C15:1 ω8c (6.5%). Based on evidence from a polyphasic taxonomical study, it was concluded that the strain should be classified as representing a new genus and species of the class Gammaproteobacteria, for which the name Oceanicoccus sagamiensis gen. nov., sp. nov., (type strain PZ-5T =NBRC 107125T =KCTC 23278T) is proposed.
Research Support, Non-U.S. Gov'ts
- Sphingomonas jejuensis sp. nov., Isolated from Marine Sponge Hymeniacidon flavia
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Sanghwa Park , Akira Yokota , Takashi Itoh , Jin-Sook Park
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J. Microbiol. 2011;49(2):238-242. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0500-z
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516
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7
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A Gram-negative, non-motile, rod shaped, and orange-pigmented chemoheterotrophic bacterium, strain MS-31T was isolated from the marine sponge Hymeniacidon flavia, collected from near Jeju Island, Korea. The Strain MS-31T was subjected to a polyphasic taxonomic study. The phylogenetic analysis based on the
16S rRNA gene sequences revealed that the novel isolate could be affiliated within the genus Sphingomonas. The strain MS-31T showed 95.6% of 16S rRNA gene sequence similarity with the most closely related species Sphingomonas koreensis JSS26T. The DNA G+C content of the strain MS-31T was 69.4 mol%. The major
isoprenoid quinone was ubiqunone 10 and predominant cellular fatty acids were summed feature 7 (comprising C18:1 ω7c, C18:1 ω9t and/or C18:1 ω12t, 39.7%), C16:0 (16.3%), C14:0 2OH (15.9%) and summed feature 3 (comprising C16:1 ω7c and/or C15:0 iso 2OH, 11.7%). The polar lipids were sphingoglycolipid, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and unidentified glycolipid. Based on the evidence from the polyphasic taxonomic study, the strain should be classified as a new species of the genus Sphingomonas.
As a result, the name Sphingomonas jejuensis sp. nov. (type strain MS-31T =KCTC 23321T =NBRC 107775T) is proposed.
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Citations
Citations to this article as recorded by

- Genomic-based taxonomic classification of the order Sphingomonadales
Yuan Wang, Hao You, Yan-Hui Kong, Cong Sun, Lin-Huan Wu, Song-Gun Kim, Jung-Sook Lee, Lin Xu, Xue-Wei Xu
International Journal of Systematic and Evolutionary Microbiology
.2025;[Epub] CrossRef - Sustainability in the Production of Gellan Gum From Sphingomonas Species by Using the Best Optimum Conditions: Review
Raghad Abdl Karim Abdl Aali, Shayma Thyab Gddoa Al-Sahlany
IOP Conference Series: Earth and Environmental Science.2024; 1371(6): 062014. CrossRef - Prospective Source of Antimicrobial Compounds From Pigment Produced by Bacteria associated with Brown Alga ( Phaeophyceae ) Isolated from Karimunjawa island, Indonesia
A T Lunggani, Y S Darmanto, O K Radjasa, A Sabdono
IOP Conference Series: Earth and Environmental Science.2018; 116: 012088. CrossRef - Sphingomonas silvisoli sp. nov., isolated from forest soil
Yongseok Ko, Woon Mo Hwang, Minsun Kim, Keunsoo Kang, Tae-Young Ahn
International Journal of Systematic and Evolutionary Microbiology.2017; 67(8): 2704. CrossRef -
Sphingomonas gotjawalisoli sp. nov., isolated from soil of a lava forest
Keun Chul Lee, Kwang Kyu Kim, Mi Kyung Eom, Jong-Shik Kim, Dae-Shin Kim, Suk-Hyung Ko, Seung-Hoon Yang, Jung-Sook Lee
International Journal of Systematic and Evolutionary Microbiology
.2017; 67(8): 2975. CrossRef - Sphingomonas ginsenosidivorax sp. nov., with the ability to transform ginsenosides
Xue-Feng Jin, Jin-Kwang Kim, Qing-Mei Liu, Myung-Suk Kang, Dan He, Feng-Xie Jin, Sun-Chang Kim, Wan-Taek Im
Antonie van Leeuwenhoek.2013; 103(6): 1359. CrossRef - List of new names and new combinations previously effectively, but not validly, published
International Journal of Systematic and Evolutionary Microbiology
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- Acinetobacter baumannii Biofilms: Variations Among Strains and Correlations with Other Cell Properties
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Christin N. McQueary , Luis A. Actis
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J. Microbiol. 2011;49(2):243-250. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0343-7
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194
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62
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Acinetobacter baumannii is an opportunistic pathogen that causes serious infections in humans by colonizing and persisting on surfaces normally found in hospital settings. The capacity of this pathogen to persist in these settings could be due to its ability to form biofilms on inanimate surfaces. This report shows that
although the ATCC 19606T type strain and 8 different clinical isolates form biofilms, there are significant variations in the cell density and microscopic structures of these cell aggregates, with 3 of the isolates forming pellicles floating on the surface of stagnant broth cultures. PCR indicated that, like ATCC 19606T, all 8 clinical isolates harbor all the genetic components of the CsuA/BABCDE chaperone-usher pili assembly system, which is needed for biofilm formation on plastic. Pili detection in cells of all strains examined supports the presence and function of a pilus assembly system. However, only one of them produced the putative ATCC 19606T CsuA/B pilin subunit protein. Hydrophobicity tests and motility assays also showed significant variations among all tested strains and did not result in direct correlations between the biofilm phenotype and cell properties that could affect biofilm formation on abiotic surfaces. This lack of correlation among these 3 phenotypes may reflect some of the variations already reported with this pathogen, which may pose a challenge in the treatment of the infections this pathogen causes in humans using biofilm formation on abiotic surfaces as a target.
- Identification of S-Nitrosylation of Proteins of Helicobacter pylori in Response to Nitric Oxide Stress
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Wei Qu , Yabin Zhou , Yundong Sun , Ming Fang , Han Yu , Wenjuan Li , Zhifang Liu , Jiping Zeng , Chunyan Chen , Chengjiang Gao , Jihui Jia
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J. Microbiol. 2011;49(2):251-256. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0262-7
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281
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9
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Innate and adaptive immune responses are activated in humans when Helicobacter pylori invades the gastric mucosa. Nitric oxide (NO) and reactive nitrogen species are important immune effectors, which can exert their functions through oxidation and S-nitrosylation of proteins. S-nitrosoglutathione and sodium nitroprusside were used as NO donors and H. pylori cells were incubated with these compounds to analyze the inhibitory effect of NO. The suppressing effect of NO on H. pylori has been shown in vitro. Furthermore, the proteins modified by S-nitrosylation in H. pylori were identified through the biotin switch method in association with matrix-assisted laser desorption ionization/time-of-flight tandem mass spectrometry (MALDITOF-
MS/MS). Five S-nitrosylated proteins identified were a chaperone and heat-shock protein (GroEL), alkyl hydroperoxide reductase (TsaA), urease alpha subunit (UreA), HP0721, and HP0129. Importantly, S-nitrosylation of TsaA and UreA were confirmed using purified recombinant proteins. Considering the importance of these enzymes in antioxidant defenses, adherence, and colonization, NO may exert its antibacterial actions by targeting enzymes through S-nitrosylation. Identification of protein S-nitrosylation may contribute to an understanding of the antibacterial actions of NO. Our findings provide an insight into potential targets for the development of novel therapeutic agents against H. pylori infection.
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Citations
Citations to this article as recorded by

- Posttranslational modifications in Helicobacter pylori-associated gastric pathogenesis: Bridging inflammation and carcinogenesis
Wei Li, Tong Liu, Tianhua Wu, Ting Cai, Fen Wang, Minglin Zhang
Biochimica et Biophysica Acta (BBA) - Reviews on Cancer.2025; 1880(6): 189492. CrossRef - Effect of CO2 on Peroxynitrite-Mediated Bacteria Killing: Response to Tsikas et al.
Alain P. Gobert, Keith T. Wilson
Trends in Microbiology.2017; 25(8): 602. CrossRef - Helicobacter pullorum induces nitric oxide release in murine macrophages that promotes phagocytosis and killing
Margarida R. Parente, João T. Monteiro, Gabriel G. Martins, Lígia M. Saraiva
Microbiology.2016; 162(3): 503. CrossRef - The Immune Battle against Helicobacter pylori Infection: NO Offense
Alain P. Gobert, Keith T. Wilson
Trends in Microbiology.2016; 24(5): 366. CrossRef - Oxidative and nitrosative stress defences ofHelicobacterandCampylobacterspecies that counteract mammalian immunity
Annika Flint, Alain Stintzi, Lígia M. Saraiva, Michael Bott
FEMS Microbiology Reviews.2016; 40(6): 938. CrossRef - FrxA is an S‐nitrosoglutathione reductase enzyme that contributes to Helicobacter pylori pathogenicity
Marta C. Justino, Margarida R. Parente, Ivo G. Boneca, Lígia M. Saraiva
The FEBS Journal.2014; 281(19): 4495. CrossRef - Nitrite modulates bacterial antibiotic susceptibility and biofilm formation in association with airway epithelial cells
Anna C. Zemke, Sruti Shiva, Jane L. Burns, Samuel M. Moskowitz, Joseph M. Pilewski, Mark T. Gladwin, Jennifer M. Bomberger
Free Radical Biology and Medicine.2014; 77: 307. CrossRef - Expression of three essential antioxidants of Helicobacter pylori in clinical isolates
Yan-yan Shi, Mo Chen, Yue-xia Zhang, Jing Zhang, Shi-gang Ding
Journal of Zhejiang University SCIENCE B.2014; 15(5): 500. CrossRef - Nitrosothiols in Bacterial Pathogens and Pathogenesis
Jay R. Laver, Samantha McLean, Lesley A.H. Bowman, Laura J. Harrison, Robert C. Read, Robert K. Poole
Antioxidants & Redox Signaling.2013; 18(3): 309. CrossRef
- A Thermostable Phytase from Neosartorya spinosa BCC 41923 and Its Expression in Pichia pastoris
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Patcharaporn Pandee , Pijug Summpunn , Suthep Wiyakrutta , Duangnate Isarangkul , Vithaya Meevootisom
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J. Microbiol. 2011;49(2):257-264. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0369-x
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A phytase gene was cloned from Neosartorya spinosa BCC 41923. The gene was 1,455 bp in size, and the mature protein contained a polypeptide of 439 amino acids. The deduced amino acid sequence contains the consensus motif (RHGXRXP) which is conserved among phytases and acid phosphatases. Five possible
disulfide bonds and seven potential N-glycosylation sites have been predicted. The gene was expressed in Pichia pastoris KM71 as an extracellular enzyme. The purified enzyme had specific activity of 30.95 U/mg at 37°C and 38.62 U/mg at 42°C. Molecular weight of the deglycosylated recombinant phytase, determined by SDS-PAGE, was approximately 52 kDa. The optimum pH and temperature for activity were pH 5.5 and 50°C. The residual phytase activity remained over 80% of initial activity after the enzyme was stored in pH 3.0 to 7.0 for 1 h, and at 60% of initial activity after heating at 90°C for 20 min. The enzyme exhibited broad substrate specificity, with phytic acid as the most preferred substrate. Its Km and Vmax for sodium phytate were 1.39 mM and 434.78 U/mg, respectively. The enzyme was highly resistant to most metal ions tested, including Fe2+, Fe3+, and Al3+. When incubated with pepsin at a pepsin/phytase ratio of 0.02 (U/U) at 37°C for 2 h, 92% of its initial activity was retained. However, the enzyme was very sensitive to trypsin, as 5% of its initial activity was recovered after treating with trypsin at a trypsin/phytase ratio of 0.01 (U/U).
Research Support, U.S. Gov't, Non-P.H.S.
- Transcriptional Control of Genes Involved in Yeast Phospholipid Biosynthesis
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Roshini Wimalarathna , Chen-Han Tsai , Chang-Hui Shen
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J. Microbiol. 2011;49(2):265-273. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-1130-1
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250
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11
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Abstract
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Phospholipid biosynthetic genes encode enzymes responsible for phospholipid biosynthesis. They are coordinately regulated by the availability of phospholipid precursors through the inositol-sensitive upstream activating sequence (UASINO). However, not all phospholipid genes are UASINO-containing genes and not all UASINO-containing genes have the same response to the phospholipid precursors. Therefore, the transcriptional regulation of phospholipid genes in response to the availability of phospholipid precursors is still unclear. Here, 22 out of 47 phospholipid biosynthetic genes were identified as UASINO-containing genes, including EKI1, EPT1, INM1, IPK2, KCS1, PAH1, and PIK1 which have never been reported before. We also showed, using qRTPCR technique, that 12 UASINO-containing genes are down-regulated by 100 μM inositol in the wild type cells and up-regulated by 100 μM inositol in the ino2Δ cells. Therefore, it is possible that these genes are transcriptionally regulated by the UASINO through the negative response of Ino2p to inositol. One other UASINO-containing gene might be regulated by the positive response of Ino2p to 100 μM inositol. Surprisingly, we found 9 UASINO-containing genes are not dependent on the response of Ino2p to 100 μM inositol, indicating that they may be regulated by other pathway. Furthermore, we identified 9 and 3 non-UASINO-containing genes that are possibly regulated by the negative and positive response of Ino2p to 100 μM inositol, respectively.
Therefore, these observations provide insight into the understanding of the co-regulated phospholipid biosynthetic genes expression.
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Citations
Citations to this article as recorded by

-
Identification of a crucial
INO2
allele for enhancing ethanol resistance in an industrial fermentation strain of
Saccharomyces cerevisiae
Sonia Albillos-Arenal, Javier Alonso del Real, Ana Cristina Adam, María Lairón-Peris, Eladio Barrio, Amparo Querol, Pedro H. Oliveira
mSystems.2025;[Epub] CrossRef - Opi1-mediated transcriptional modulation orchestrates genotoxic stress response in budding yeast
Giovanna Marques Panessa, Eduardo Tassoni-Tsuchida, Marina Rodrigues Pires, Rodrigo Rodrigues Felix, Rafaella Jekabson, Nadja Cristhina de Souza-Pinto, Fernanda Marques da Cunha, Onn Brandman, José Renato Rosa Cussiol, J Surtees
GENETICS.2023;[Epub] CrossRef - Effect of magnesium ions on glucaric acid production in the engineered Saccharomyces cerevisiae
Yunying Zhao, Jie Li, Ruifang Su, Yingli Liu, Jing Wang, Yu Deng
Journal of Biotechnology.2021; 332: 61. CrossRef - Opi1p translocation to the nucleus is regulated by hydrogen peroxide inSaccharomyces cerevisiae
Carolina Camelo, Filipe Vilas-Boas, Andreia Pereira Cepeda, Carla Real, Joana Barros-Martins, Francisco Pinto, Helena Soares, H. Susana Marinho, Luisa Cyrne
Yeast.2017; 34(9): 383. CrossRef - The Transcriptional Activator Ino2p Dissociates from the Yeast INM1 Promoter in Induction
Lingzhi Zhang, Jing Di
DNA and Cell Biology.2014; 33(12): 863. CrossRef - Co-dependent recruitment of Ino80p and Snf2p is required for yeast CUP1 activation
Roshini N. Wimalarathna, Po Yun Pan, Chang-Hui Shen
Biochemistry and Cell Biology.2014; 92(1): 69. CrossRef - Artificial transcription regulator as a tool for improvement of cellular property in Saccharomyces cerevisiae
Sang-Woo Lee, Eunji Kim, Jin-Soo Kim, Min-Kyu Oh
Chemical Engineering Science.2013; 103: 42. CrossRef - Neuroprotective role of taurine during aging
Abdeslem El Idrissi, Chang Hui Shen, William J. L’Amoreaux
Amino Acids.2013; 45(4): 735. CrossRef - Regulation of lipid biosynthesis by phosphatidylinositol‐specific phospholipase C through the transcriptional repression of upstream activating sequence inositol containing genes
Sunny D. Rupwate, Preeti S. Rupwate, Ram Rajasekharan
FEBS Letters.2012; 586(10): 1555. CrossRef - INO1 induction requires chromatin remodelers Ino80p and Snf2p but not the histone acetylases
Paulina Konarzewska, Michelle Esposito, Chang-Hui Shen
Biochemical and Biophysical Research Communications.2012; 418(3): 483. CrossRef - Chromatin repositioning activity and transcription machinery are both recruited by Ace1p in yeast CUP1 activation
Roshini N. Wimalarathna, Po Yun Pan, Chang-Hui Shen
Biochemical and Biophysical Research Communications.2012; 422(4): 658. CrossRef
Research Support, Non-U.S. Gov'ts
- Genome Sequence Analysis of H5N1 Influenza A Virus Isolated from a Vietnamese in 2007
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Dieu Linh Tran , Kangmo Kim , Jae Yoo Choi , Hyun Dong Paik , Si-Woo Choi , Jin Yeul Ma , Sung-Soon Kim , Sung Joon Ahn , Young Bong Kim
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J. Microbiol. 2011;49(2):274-279. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0311-2
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252
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1
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Abstract
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Highly pathogenic H5N1 avian influenza A virus (AIV) crossed the species barrier and caused a number of deaths in humans in Vietnam and 14 other countries. Since the last report of human H5N1 infection in November 2005, the first documented H5N1 human infection was reported in June 2007 in Vietnam and was followed by 7 more cases, including 5 fatalities. In this study, we isolated and analyzed the full length of the H5N1 genome from a sample from the first patient in 2007. Phylogenetic analysis of eight genomic segments of the H5N1 virus strain (A/Vietnam/HN/2007, VNH07) revealed that this strain appears to be of genotype V and contains the HA gene, which is classified into clade 2.3.4. The deduced amino acid sequence of the HA protein has a typical affinity sequence for α2,3 linkage (SAα2,3-Gal) receptors
and typical multibasic cleavage sequences. Compared with other H5N1 isolates, VNH07 showed that the possible reassortments for the NA and NP segments occurred between A/goose/Guangxi/3017/2005-like isolates (2.3.2) and A/human/Zhejiang/16/2006-like isolates (2.3.4).
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- Rethinking Approaches to Improve the Utilization of Nucleic Acid Amplification Tests for Detection and Characterization of Influenza A in Diagnostic and Reference Laboratories
Kanti Pabbaraju, Sallene Wong, Steven J Drews
Future Microbiology.2011; 6(12): 1443. CrossRef
- Molecular Characterization Reveals Involvement of Altered El Tor Biotype Vibrio cholerae O1 Strains in Cholera Outbreak at Hyderabad, India
-
Ajay Kumar Goel , Meenu Jain , Pramod Kumar , Pennagaram Sarguna , Meera Bai , Neha Ghosh , Natrajan Gopalan
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J. Microbiol. 2011;49(2):280-284. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0317-9
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298
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Abstract
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Thirty-four Vibrio cholerae isolates collected from a cholera outbreak in Hyderabad, South India were found to belong to serogroup O1 biotype El Tor serotype Ogawa. The genotype of all the isolates was confirmed by PCR assays. All the isolates were found PCR positive for ctxAB, ompW, rfbO1, rtxC, and tcpA genes. All the isolates but one harboured rstREl Tor allele. However, one isolate carried both rstREl Tor as well as rstRClassical alleles. Cholera toxin (ctxB) genotyping of the isolates confirmed the presence of altered cholera toxin B of classical biotype in all the isolates. All the isolates except VCH35 harboured an RS1-CTX prophage array on the large chromosome. The isolate VCH35 contained a tandem repeat of classical CTX prophage on the small chromosome. The clonal relationship among the V. cholerae isolates as carried out by enterobacterial repetitive intergenic consensus sequences PCR, BOX PCR and randomly amplified polymorphic DNA, uniformly showed a genetic relationship among the outbreak isolates. The results of this study suggest that altered El Tor biotype V. cholerae with the classical cholera toxin gene are involved in cholera outbreaks in India.
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Citations
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- CtxB7 Genotypes of Vibrio cholerae O1 Causing the 2022 Cholera Epidemic in Tribal Areas of Odisha, India
Smruti Ranjan Nayak, Bibhuti Bhusan Pal, Swatishree Pany, Debasish Samal, Suryakanta Samal, Rojalini Tarai, Bhagyalaxmi Biswal, Arttatrana Pal, G. Nageswar Rao, Sanghamitra Pati
Journal of Pure and Applied Microbiology.2025; 19(3): 2111. CrossRef - Spread of Haitian Variant Vibrio cholerae O1 Causing Cholera Outbreaks in Odisha, India
Smruti Ranjan Nayak, Ashish Kumar Nayak, Bhagya Laxmi Biswal, Sanghamitra Pati, Bibhuti Bhusan Pal
Japanese Journal of Infectious Diseases.2021; 74(2): 137. CrossRef - Cholera in selected countries in Asia
Anna Lena Lopez, Shanta Dutta, Firdausi Qadri, Ly Sovann, Basu Dev Pandey, Wan Mansor Bin Hamzah, Iqbal Memon, Sopon Iamsirithaworn, Duc Anh Dang, Fahima Chowdhury, Seng Heng, Suman Kanungo, Vittal Mogasale, Ashraf Sultan, Michelle Ylade
Vaccine.2020; 38: A18. CrossRef - Changing epidemiology and antimicrobial resistance in Vibrio cholerae: AMR surveillance findings (2006–2016) from Nepal
Nisha Rijal, Jyoti Acharya, Shailaja Adhikari, Bishnu Psd Upadhaya, Geeta Shakya, Palpasa Kansakar, Piyush Rajbhandari
BMC Infectious Diseases.2019;[Epub] CrossRef - Vibrio cholerae O1 Ogawa Strains Carrying the ctxB7 Allele Caused a Large Cholera Outbreak during 2014 in the Tribal Areas of Odisha, India
Bibhuti Bhusan Pal, Hemant Kumar Khuntia, Smruti Ranjan Nayak, Anima Mohanty, Bhagyalaxmi Biswal
Japanese Journal of Infectious Diseases.2017; 70(5): 549. CrossRef - Retrospective genomic analysis ofVibrio choleraeO1 El Tor strains from different places in India reveals the presence ofctxB-7allele found in Haitian isolates
R. DE, T. RAMAMURTHY, B. L. SARKAR, A. K. MUKHOPADHYAY, G. P. PAZHANI, S. SARKAR, S. DUTTA, G. B. NAIR
Epidemiology and Infection.2017; 145(11): 2212. CrossRef - Vibrio cholerae O1 El Tor variant and emergence of Haitian ctxB variant in the strains isolated from South India
Debdutta Bhattacharya, Shuchismita Dey, Gururaja Perumal Pazhani, Thandavarayan Ramamurthy, Mahantesh V. Parande, Sanjiva D. Kholkute, Subarna Roy
Medical Microbiology and Immunology.2016; 205(2): 195. CrossRef - Molecular epidemiology of Vibrio cholerae associated with flood in Brahamputra River valley, Assam, India
Soubhagya K. Bhuyan, Mohan G. Vairale, Neha Arya, Priti Yadav, Vijay Veer, Lokendra Singh, Pramod K. Yadava, Pramod Kumar
Infection, Genetics and Evolution.2016; 40: 352. CrossRef - ACTUAL PROBLEMS OF EPIDEMIOLOGIC CONTROL, LABORATORY DIAGNOSTICS AND PROPHYLAXIS OF CHOLERA IN RUSSIAN FEDERATION
G. G. Onischenko, A. Yu. Popova, V. V. Kutyrev, N. I. Smirnova, S. A. Scherbakova, E. A. Moskvitina, S. V. Titova
Journal of microbiology, epidemiology and immunobiology.2016; 93(1): 89. CrossRef - Trends in the genomic epidemiology of Vibrio cholerae O1 isolated worldwide since 1961
Abhishek Jaiswal, Sounak Sarkar, Parijat Das, Suman Nandy, Hemanta Koley, Banwarilal Sarkar
International Journal of Antimicrobial Agents.2015; 46(4): 460. CrossRef - Cholera outbreaks (2012) in three districts of Nepal reveal clonal transmission of multi-drug resistant Vibrio choleraeO1
Sameer M Dixit, Fatema-Tuz Johura, Sulochana Manandhar, Abdus Sadique, Rajesh M Rajbhandari, Shahnewaj B Mannan, Mahamud-ur Rashid, Saiful Islam, Dibesh Karmacharya, Haruo Watanabe, R Bradley Sack, Alejandro Cravioto, Munirul Alam
BMC Infectious Diseases.2014;[Epub] CrossRef - Genetic Characteristics and Relatedness of ImportedVibrio choleraeO1 Biotype El Tor in Korea
HyeonHee Kim, Semi Jeon, JunYoung Kim, SeongHan Kim, Deog-Yong Lee
Annals of Clinical Microbiology.2013; 16(1): 25. CrossRef - Molecular Characterization of Vibrio cholerae O1 Reveals Continuous Evolution of Its New Variants in India
M. Jain, K. S. Kushwah, P. Kumar, A. K. Goel
Indian Journal of Microbiology.2013; 53(2): 137. CrossRef - Prevalence and Molecular Characterization ofVibrio choleraeO1, Non-O1 and Non-O139 in Tropical Seafood in Cochin, India
Rakesh Kumar, Kuttannappilly V. Lalitha
Foodborne Pathogens and Disease.2013; 10(3): 278. CrossRef - Drug response and genetic properties of Vibrio cholerae associated with endemic cholera in north-eastern Thailand, 2003–2011
Chariya Chomvarin, Fatema-Tuz Johura, Shahnewaj B. Mannan, Warin Jumroenjit, Boonnapa Kanoktippornchai, Waraluk Tangkanakul, Napaporn Tantisuwichwong, Sriwanna Huttayananont, Haruo Watanabe, Nur A. Hasan, Anwar Huq, Alejandro Cravioto, Rita R. Colwell, Mu
Journal of Medical Microbiology
.2013; 62(4): 599. CrossRef - Genotypic and PFGE/MLVA Analyses of Vibrio cholerae O1: Geographical Spread and Temporal Changes during the 2007–2010 Cholera Outbreaks in Thailand
Kazuhisa Okada, Amonrattana Roobthaisong, Ichiro Nakagawa, Shigeyuki Hamada, Siriporn Chantaroj, Igor Mokrousov
PLoS ONE.2012; 7(1): e30863. CrossRef - Multidrug-resistant Vibrio cholerae O1 in Belgaum, south India
Subarna Roy, M. V. Parande, B. G. Mantur, S. Bhat, R. Shinde, A. M. Parande, Rajanish S. Meti, M. R. Chandrasekhar, S. D. Kholkute, A. Saini, M. Joshi, A. Gaonkar
Journal of Medical Microbiology
.2012; 61(11): 1574. CrossRef
Journal Article
- NOTE] Identification of PhoB Binding Sites of the yibD and ytfK Promoter Regions in Escherichia coli
-
Yusuke Yoshida , Shinichiro Sugiyama , Tomoya Oyamada , Katsushi Yokoyama , Soo-Ki Kim , Kozo Makino
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J. Microbiol. 2011;49(2):285-289. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0360-6
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185
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10
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By using a lacZ operon fusion genomic library of the Escherichia coli O157:H7 Sakai, we identified phosphatestarvation-inducible (psi) promoters located upstream of the yibD and ytfK genes. They have been previously proposed to belong to the phosphate regulon (pho regulon) by Beak and Lee (2006), based on the DNA array and in vivo transcriptional experiments. However, the direct interaction of these promoters with the activator protein of the pho regulon, PhoB, has not been determined. We determined the binding regions of PhoB in these promoter regions by DNase I footprinting. Both regions contained two pho boxes similar to the consensus sequence for PhoB binding.
Research Support, Non-U.S. Gov't
- NOTE] Pontibacter salisaro sp. nov., Isolated from a Clay Tablet Solar Saltern in Korea
-
Yochan Joung , Haneul Kim , Tae-Seok Ahn , Kiseong Joh
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J. Microbiol. 2011;49(2):290-293. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0093-6
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460
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23
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Abstract
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A Gram-negative, aerobic, rod-shaped, and red-pigmented bacterial strain, HMC5104T, was isolated from a solar saltern, found in Jeungdo, Republic of Korea (34°59′47′′N 126°10′02′′E). The major fatty acids were summed feature 4 (comprising iso-C17:1 I and/or anteiso-C17:1 B; 37.2%), iso-C15:0 (20.4%), and iso-C17:0
3OH (15.3%). The DNA G+C content was 46.0 mol%. The major isoprenoid quinone was menaquinone-7 (MK-7). A phylogenetic tree based on 16S rRNA gene sequences showed that strain HMC5104T formed a lineage within the genus Pontibacter, and was closely related to Pontibacter korlensis (95.9%), P. roseus
(94.9%), and P. actiniarum (94.3%). Similarities to all other Pontibacter species were between 95.9-93.9%. On the basis of the evidence presented in this study, strain HMC5104T represents a novel species of the genus Pontibacter, for which the name Pontibacter salisaro sp. nov. is proposed. The type strain is HMC5104T (=KCTC 22712T =NBRC 105731T).
-
Citations
Citations to this article as recorded by

-
Pontibacter aquaedesilientis sp. nov., isolated from Jeongbang Waterfall, Jeju Island
Geeta Chhetri, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology
.2021;[Epub] CrossRef - Culture-dependent and culture-independent characterization of bacterial community diversity in different types of sandy lands: the case of Minqin County, China
Yali Wei, Fang Wang, Jiangli Gao, Yaolong Huang, Wei Ren, Hongmei Sheng
BMC Microbiology.2021;[Epub] CrossRef - Pontibacter chitinilyticus sp. nov., a novel chitin-hydrolysing bacterium isolated from soil
Geeta Chhetri, Jiyoun Kim, Inhyup Kim, Myung Kyum Kim, Taegun Seo
Antonie van Leeuwenhoek.2019; 112(7): 1011. CrossRef - Pontibacter beigongshangensis sp. nov., Isolated from the Mash of Wine
Jialiang Xu, Leping Sun, Zhanbin Sun, Xuan Xing, Jia Li, Xin Lu, Ying Huang, Qing Ren
Current Microbiology.2019; 76(12): 1525. CrossRef - Vegetation succession influences soil carbon sequestration in coastal alkali-saline soils in southeast China
Niu Li, Tianyun Shao, Tingshuo Zhu, Xiaohua Long, Xiumei Gao, Zhaopu Liu, Hongbo Shao, Zed Rengel
Scientific Reports.2018;[Epub] CrossRef - Edaphorhabdus rosea gen. nov., sp. nov., a new member of the family Cytophagaceae isolated from soil in South Korea
Geeta Chhetri, Dahye Yang, Jiwon Choi, Hyungdong Kim, Taegun Seo
Antonie van Leeuwenhoek.2018; 111(12): 2385. CrossRef - Pontibacter locisalis Sy30T sp. nov. isolated from soil collected from an abandoned saltern
Yan-Xia Zhou, Zhi-Hong Xie, Jin-Xin Zhao, Zong-Jun Du, Guan-Jun Chen
Antonie van Leeuwenhoek.2016; 109(3): 415. CrossRef - Pontibacter amylolyticus sp. nov., isolated from a deep-sea sediment hydrothermal vent field
Yue-Hong Wu, Peng Zhou, Shu-Ling Jian, Zhen-Sheng Liu, Chun-Sheng Wang, Aharon Oren, Xue-Wei Xu
International Journal of Systematic and Evolutionary Microbiology.2016; 66(4): 1760. CrossRef - Pontibacter virosus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite
Puneet Kohli, Namita Nayyar, Anukriti Sharma, Amit Kumar Singh, Rup Lal
International Journal of Systematic and Evolutionary Microbiology.2016; 66(11): 4395. CrossRef - Pontibacter mucosus sp. nov., isolated from hexachlorocyclohexane-contaminated pond sediment
Namita Nayyar, Puneet Kohli, Nitish Kumar Mahato, Rup Lal
International Journal of Systematic and Evolutionary Microbiology.2016; 66(6): 2234. CrossRef -
Pontibacter aydingkolensis sp. nov., isolated from soil of a salt lake
Ghenijan Osman, Tao Zhang, Kai Lou, Yan Gao, Wei Chang, Qing Lin, Hong-Mei Yang, Xiang-Dong Huo, Ning Wang
International Journal of Systematic and Evolutionary Microbiology
.2016; 66(12): 5523. CrossRef - Pontibacter ummariensis sp. nov., isolated from a hexachlorocyclohexane-contaminated soil
N. K. Mahato, C. Tripathi, N. Nayyar, A. K. Singh, R. Lal
International Journal of Systematic and Evolutionary Microbiology.2016; 66(2): 1080. CrossRef -
Pontibacter chinhatensis sp. nov., isolated from pond sediment containing discarded hexachlorocyclohexane isomer waste
Amit Kumar Singh, Nidhi Garg, Rup Lal
International Journal of Systematic and Evolutionary Microbiology
.2015; 65(Pt_7): 2248. CrossRef - Pontibacter humi sp. nov., Isolated from Mountain Soil
Sathiyaraj Srinivasan, Jae-Jin Lee, Sang-Seob Lee, Myung Kyum Kim
Current Microbiology.2014; 69(3): 263. CrossRef - Pontibacter diazotrophicus sp. nov., a Novel Nitrogen-Fixing Bacterium of the Family Cytophagaceae
Linghua Xu, Xian-Chun Zeng, Yao Nie, Xuesong Luo, Enmin Zhou, Lingli Zhou, Yunfan Pan, Wenjun Li, Paul Jaak Janssen
PLoS ONE.2014; 9(3): e92294. CrossRef - Pontibacter indicus sp. nov., isolated from hexachlorocyclohexane-contaminated soil
Amit Kumar Singh, Nidhi Garg, Pushp Lata, Roshan Kumar, Vivek Negi, Surendra Vikram, Rup Lal
International Journal of Systematic and Evolutionary Microbiology
.2014; 64(Pt_1): 254. CrossRef -
Pontibacter ruber sp. nov. and Pontibacter deserti sp. nov., isolated from the desert
Y. Subhash, Ch. Sasikala, Ch. V. Ramana
International Journal of Systematic and Evolutionary Microbiology
.2014; 64(Pt_3): 1006. CrossRef - Pontibacter jeungdoensis sp. nov., isolated from a solar saltern in Korea
Yochan Joung, Haneul Kim, Beom-Il Lee, Heeyoung Kang, Tae Yong Jang, O-Seob Kwon, Kiseong Joh
Journal of Microbiology.2013; 51(4): 531. CrossRef -
Pontibacter toksunensis sp. nov., isolated from soil, and emended descriptions of Pontibacter roseus and Pontibacter akesuensis
Lei Zhang, Lingfang Zhu, Linfang Wei, Changfu Li, Yao Wang, Xihui Shen
International Journal of Systematic and Evolutionary Microbiology
.2013; 63(Pt_12): 4462. CrossRef -
Pontibacter lucknowensis sp. nov., isolated from a hexachlorocyclohexane dump site
Vatsala Dwivedi, Neha Niharika, Rup Lal
International Journal of Systematic and Evolutionary Microbiology
.2013; 63(Pt_1): 309. CrossRef -
Pontibacter saemangeumensis sp. nov., isolated from seawater
Ji Young Kang, Yochan Joung, Jeesun Chun, Haneul Kim, Kiseong Joh, Kwang Yeop Jahng
International Journal of Systematic and Evolutionary Microbiology
.2013; 63(Pt_2): 565. CrossRef -
Pontibacter ramchanderi sp. nov., isolated from hexachlorocyclohexane-contaminated pond sediment
Amit Kumar Singh, Nidhi Garg, Naseer Sangwan, Vivek Negi, Roshan Kumar, Surendra Vikram, Rup Lal
International Journal of Systematic and Evolutionary Microbiology
.2013; 63(Pt_8): 2829. CrossRef - Draft Genome Sequence of Pontibacter sp. nov. BAB1700, a Halotolerant, Industrially Important Bacterium
M. N. Joshi, A. C. Sharma, R. V. Pandya, R. P. Patel, Z. M. Saiyed, A. K. Saxena, S. B. Bagatharia
Journal of Bacteriology.2012; 194(22): 6329. CrossRef
Research Support, U.S. Gov't, Non-P.H.S.
- NOTE] The Helicobacter pylori Ferric Uptake Regulator (Fur) Is Essential for Growth Under Sodium Chloride Stress
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Hanan Gancz , D. Scott Merrell
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J. Microbiol. 2011;49(2):294-298. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0396-7
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266
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19
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Epidemiological data and animal models indicate that Helicobacter pylori and dietary NaCl have a synergistic ill effect on gastric maladies. Here we show that the Ferric Uptake Regulator (Fur), which is a crucial regulatory factor required for H. pylori colonization, is essential for growth in the presence of high NaCl concentrations. Moreover, we demonstrate that the transcriptional response induced by sodium chloride stress exhibits similarities to that seen under iron depletion.
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Citations
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High salt condition alters LPS synthesis and induces the emergence of drug resistance mutations in
Helicobacter pylori
Hongming Huang, Huang Yang, Shunhang Feng, Xiaoyan Zhang, Chu Chen, Hongyu Yan, Rui Li, Mengxin Liu, Juan Lin, Yancheng Wen, Feifei She, Anne-Catrin Uhlemann
Antimicrobial Agents and Chemotherapy.2024;[Epub] CrossRef -
A Positively Selected
fur
-R88H Mutation Enhances Helicobacter pylori Fitness in a High-Salt Environment and Alters Fur-Dependent Regulation of Gene Expression
John T. Loh, Emily L. Struttmann, Natalie Favret, M. Lorena Harvey, Suman B. Pakala, Abha Chopra, Mark S. McClain, Timothy L. Cover, Denise Monack
Infection and Immunity.2023;[Epub] CrossRef - Metal binding and oligomerization properties of FurC (PerR) from Anabaena sp. PCC7120: an additional layer of regulation?
Cristina Sarasa-Buisan, Etienne Emonot, Marta Martínez-Júlvez, Emma Sevilla, Adrián Velázquez-Campoy, Serge Crouzy, M Teresa Bes, Isabelle Michaud-Soret, María F Fillat
Metallomics.2022;[Epub] CrossRef - Insights into the Orchestration of Gene Transcription Regulators in Helicobacter pylori
Andrea Vannini, Davide Roncarati, Federico D’Agostino, Federico Antoniciello, Vincenzo Scarlato
International Journal of Molecular Sciences.2022; 23(22): 13688. CrossRef - Interplay between Amoxicillin Resistance and Osmotic Stress in Helicobacter pylori
Ian H. Windham, D. Scott Merrell, George O’Toole
Journal of Bacteriology.2022;[Epub] CrossRef -
Transcriptional response to metal starvation in the emerging pathogen
Mycoplasma genitalium
is mediated by Fur-dependent and –independent regulatory pathways
Carlos Martínez-Torró, Sergi Torres-Puig, Marta Monge, Lucía Sánchez-Alba, Miguel González-Martín, Marina Marcos-Silva, Alex Perálvarez-Marín, Francesc Canals, Enrique Querol, Jaume Piñol, Oscar Q. Pich
Emerging Microbes & Infections.2020; 9(1): 5. CrossRef - High-Salt Conditions Alter Transcription of Helicobacter pylori Genes Encoding Outer Membrane Proteins
John T. Loh, Amber C. Beckett, Matthew B. Scholz, Timothy L. Cover, Vincent B. Young
Infection and Immunity.2018;[Epub] CrossRef - Bismuth-Induced Inactivation of Ferric Uptake Regulator from Helicobacter pylori
Xiaojun He, Xiangwen Liao, Hongyan Li, Wei Xia, Hongzhe Sun
Inorganic Chemistry.2017; 56(24): 15041. CrossRef - Characterization of Key Helicobacter pylori Regulators Identifies a Role for ArsRS in Biofilm Formation
Stephanie L. Servetas, Beth M. Carpenter, Kathryn P. Haley, Jeremy J. Gilbreath, Jennifer A. Gaddy, D. Scott Merrell, T. J. Silhavy
Journal of Bacteriology.2016; 198(18): 2536. CrossRef - Characterization of the mechanism of prolonged adaptation to osmotic stress of Jeotgalibacillus malaysiensis via genome and transcriptome sequencing analyses
Amira Suriaty Yaakop, Kok-Gan Chan, Robson Ee, Yan Lue Lim, Siew-Kim Lee, Fazilah Abd Manan, Kian Mau Goh
Scientific Reports.2016;[Epub] CrossRef -
Helicobacter pylori Adaptation
In Vivo
in Response to a High-Salt Diet
John T. Loh, Jennifer A. Gaddy, Holly M. Scott Algood, Silvana Gaudieri, Simon Mallal, Timothy L. Cover, S. R. Blanke
Infection and Immunity.2015; 83(12): 4871. CrossRef - Global Microarray Analysis of Alkaliphilic Halotolerant Bacterium Bacillus sp. N16-5 Salt Stress Adaptation
Liang Yin, Yanfen Xue, Yanhe Ma, Marie-Joelle Virolle
PLOS ONE.2015; 10(6): e0128649. CrossRef - Metabolic Shift of Escherichia coli under Salt Stress in the Presence of Glycine Betaine
A. Metris, S. M. George, F. Mulholland, A. T. Carter, J. Baranyi, J. Björkroth
Applied and Environmental Microbiology.2014; 80(15): 4745. CrossRef - Proteomic Analysis of a NAP1 Clostridium difficile Clinical Isolate Resistant to Metronidazole
Patrick M. Chong, Tarah Lynch, Stuart McCorrister, Pamela Kibsey, Mark Miller, Denise Gravel, Garrett R. Westmacott, Michael R. Mulvey, Axel Cloeckaert
PLoS ONE.2014; 9(1): e82622. CrossRef - Characterization of NaCl tolerance in Desulfovibrio vulgaris Hildenborough through experimental evolution
Aifen Zhou, Edward Baidoo, Zhili He, Aindrila Mukhopadhyay, Jason K Baumohl, Peter Benke, Marcin P Joachimiak, Ming Xie, Rong Song, Adam P Arkin, Terry C Hazen, Jay D Keasling, Judy D Wall, David A Stahl, Jizhong Zhou
The ISME Journal.2013; 7(9): 1790. CrossRef - Crosstalk between Helicobacter pylori and Gastric Epithelial Cells Is Impaired by Docosahexaenoic Acid
Marta Correia, Valérie Michel, Hugo Osório, Meriem El Ghachi, Mathilde Bonis, Ivo G. Boneca, Hilde De Reuse, António A. Matos, Pascal Lenormand, Raquel Seruca, Ceu Figueiredo, Jose Carlos Machado, Eliette Touati, Georgina L. Hold
PLoS ONE.2013; 8(4): e60657. CrossRef -
The Ferric Uptake Regulator of
Helicobacter Pylori
: a Critical Player in the Battle for Iron and Colonization of the Stomach
Oscar Q Pich, D Scott Merrell
Future Microbiology.2013; 8(6): 725. CrossRef - Detailed analysis of Helicobacter pylori Fur‐regulated promoters reveals a Fur box core sequence and novel Fur‐regulated genes
Oscar Q. Pich, Beth M. Carpenter, Jeremy J. Gilbreath, D. Scott Merrell
Molecular Microbiology.2012; 84(5): 921. CrossRef -
Analysis of
Helicobacter pylori cagA
Promoter Elements Required for Salt-Induced Upregulation of CagA Expression
John T. Loh, David B. Friedman, M. Blanca Piazuelo, Luis E. Bravo, Keith T. Wilson, Richard M. Peek, Pelayo Correa, Timothy L. Cover, S. R. Blanke
Infection and Immunity.2012; 80(9): 3094. CrossRef
Research Support, Non-U.S. Gov'ts
- NOTE] Kaposi’s Sarcoma-Associated Herpesvirus Infection of Endothelial Progenitor Cells Impairs Angiogenic Activity In Vitro
-
Seungchul Yoo , Sil Kim , Seungmin Yoo , In-Taek Hwang , Haewol Cho , Myung-Shin Lee
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J. Microbiol. 2011;49(2):299-304. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0408-7
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260
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2
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A recent study reported that endothelial progenitor cells (EPCs) are one of the reservoirs of Kaposi’s sarcoma associated herpesvirus (KSHV). Although EPCs are closely linked to angiogenesis and vasculogenesis, little is known about the angiogenic potential of KSHV in EPCs. In this study, we used EPCs isolated from
human umbilical cord blood to show that early infection by KSHV in vitro impaired the neovascularization of EPCs in matrigel. Our results suggest that KSHV may disrupt the angiogenic potential of EPCs and that the disseminated infection of KSHV could be associated with EPC dysfunction.
-
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- KSHV infection of endothelial precursor cells with lymphatic characteristics as a novel model for translational Kaposi’s sarcoma studies
Krista Tuohinto, Terri A. DiMaio, Elina A. Kiss, Pirjo Laakkonen, Pipsa Saharinen, Tara Karnezis, Michael Lagunoff, Päivi M. Ojala, Dirk P. Dittmer
PLOS Pathogens.2023; 19(1): e1010753. CrossRef - Kaposi’s sarcoma-associated herpesvirus infection of human bone-marrow-derived mesenchymal stem cells and their angiogenic potential
Seung-min Yoo, Jaehyuk Jang, Chansook Yoo, Myung-Shin Lee
Archives of Virology.2014; 159(9): 2377. CrossRef
- NOTE] Improved Antibiotic Resistance Gene Cassette for Marker Exchange Mutagenesis in Ralstonia solanacearum and Burkholderia Species
-
Hae Young Um , Eunsook Chung , Jai-Heon Lee , Seon-Woo Lee
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J. Microbiol. 2011;49(2):305-308. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0439-0
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182
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Marker exchange mutagenesis is a fundamental approach to understanding gene function at a molecular level in bacteria. New plasmids carrying a kanamycin resistance gene or a trimethoprim resistance gene were constructed to provide antibiotic resistance cassettes for marker exchange mutagenesis in Ralstonia
solanacearum and many antibiotic-resistant Burkholderia spp. Insertion sequences present in the flanking sequences of the antibiotic resistance cassette were removed to prevent aberrant gene replacement and polar mutation during mutagenesis in wild-type bacteria. Plasmids provided in this study would be convenient for use in gene cassettes for gene replacement in other Gram-negative bacteria.
- NOTE] Diversity Analysis of Burkholderia cepacia Complex in the Water Bodies of West Lake, Hangzhou, China
-
Yuan Fang , Guan-lin Xie , Miao-miao Lou , Bin Li , Ibrahim Muhammad
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J. Microbiol. 2011;49(2):309-314. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0267-2
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204
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A survey of Burkholderia cepacia complex (Bcc) species was conducted in water bodies of West Lake in China. A total of 670 bacterial isolates were recovered on selective media. Out of them, 39.6% (265 isolates) were assigned to the following species: Burkholderia multivorans, Burkholderia cenocepacia recA lineage IIIA,
IIIB, Burkholderia stabilis, Burkholderia vietnamiensis, and Burkholderia seminalis while B. cenocepacia is documented as a dominant Bcc species in water of West Lake. In addition, all Bcc isolates tested were PCR negative for the cblA and esmR transmissibility marker genes except B. cenocepacia IIIB A8 which was positive for esmR genelater. The present study raises great concerns on the role of West Lake as a “reservoir” for potential Bcc pathogenic strains.
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- NOTE] Development of Porphyromonas gingivalis-Specific Quantitative Real-Time PCR Primers Based on the Nucleotide Sequence of rpoB
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Soon-Nang Park , Jae-Yoon Park , Joong-Ki Kook
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J. Microbiol. 2011;49(2):315-319. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-1028-y
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178
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Species-specific quantitative real-time PCR (qPCR) primers were developed for the detection of Porphyromonas gingivalis. These primers, Pg-F/Pg-R, were designed based on the nucleotide sequences of RNA polymerase β-subunit gene (rpoB). Species-specific amplicons were obtained from the tested P. gingivalis strains but not in any of the other strains (46 strains of 46 species). The qPCR primers could detect as little as 4 fg of P. gingivalis chromosomal DNA. These findings suggest that these qPCR primers are suitable for applications in epidemiological studies.
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- NOTE] Development of a High-Throughput Screening Method for Recombinant Escherichia coli with Intracellular Dextransucrase Activity
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So-Ra Lee , Ah-Rum Yi , Hong-Gyun Lee , Myoung-Uoon Jang , Jung-Mi Park , Nam Soo Han , Tae-Jip Kim
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J. Microbiol. 2011;49(2):320-323. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-1078-1
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174
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To efficiently engineer intracellular dextransucrase (DSase) expression in Escherichia coli, a high-throughput screening method was developed based on the polymer-forming activity of the enzyme. Recombinant E. coli containing the Leuconostoc citreum DSase (LcDS) gene was grown on Luria-Bertani agar plates, containing 2% sucrose, at 37°C for 8 h. The plates were then evenly overlaid with 0.6% soft agar, containing 1.2 mg/ml D-cycloserine, and incubated at 30°C to allow gradual cell disruption until a dextran polymer grew through the overlaid layer. A significant correlation between dextran size and enzyme activity was established and applied for screening truncated mutants with LcDS activity.
- NOTE] A Simple and Reliable Method for Obtaining Entomosporium Monoconidial Isolates
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Mi-Jeong Park , Quinn A. Holtslag , Hyeon-Dong Shin
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J. Microbiol. 2011;49(2):324-326. Published online May 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-1117-y
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160
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Monoconidial isolates of Entomosporium mespili were successfully cultured using a simple isolation procedure. A detailed description of the steps required for isolating E. mespili is provided. The characteristic pattern of conidial germination and growth on potato dextrose agar is also described. The process that was successful
in obtaining pure isolates involved collecting material in the morning, picking a glistening white mass of conidia under dissecting microscope magnification, depositing a mass of conidia onto a drop of water on a glass slide, streaking the conidial mass onto potato dextrose agar, incubating the plate for 48 h, and
transferring the characteristic fan-shaped colonies to fresh medium.