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Journal of Microbiology / the Microbiological Society of Korea

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https://www.readbyqxmd.com/read/28434085/exploring-the-oral-microflora-of-preschool-children
#1
Wen Ren, Qun Zhang, Xuenan Liu, Shuguo Zheng, Lili Ma, Feng Chen, Tao Xu, Baohua Xu
The oral cavity is one of the most important and complicated habitats in our body and supports diverse microbial communities. In this study, we aimed to determine the bacterial diversity and composition of various oral micro-niches. Samples were collected from supragingival plaque, saliva, and tongue coating from 10 preschool children (30 samples total). 16S rRNA gene pyrosequencing dataset generated 314,639 clean reads with an average of 10,488 ± 2,787 reads per sample. The phyla Firmicutes, Proteobacteria, Actinobacteria, Bacteroidetes, and Fusobacteria were predominant, accounting for more than 90% of the total sequences...
April 22, 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28432541/genome-characteristics-of-the-proteorhodopsin-containing-marine-flavobacterium-polaribacter-dokdonensis-dsw-5
#2
Kiyoung Yoon, Ju Yeon Song, Min-Jung Kwak, Soon-Kyeong Kwon, Jihyun F Kim
Bacteria in the genus Polaribacter, belonging to the family Flavobacteriaceae, are typically isolated from marine environments. Polaribacter dokdonensis DSW-5, the type strain of the species, is a Gram-negative bacterium isolated from the East Sea of Korea. Whole genome shotgun sequencing was performed with the HiSeq 2000 platform and paired-end reads were generated at 188-fold coverage. The sequencing reads were assembled into two contigs with a total length of 3.08 Mb. The genome sequences of DSW-5 contain 2,776 proteincoding sequences and 41 RNA genes...
April 22, 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28551876/identification-and-characterization-of-a-new-agar-degrading-strain-with-the-novel-properties-of-saccharides-inhibition-and-nitrogen-fixation
#3
Hao Wu, Guiguang Chen, Yaxi Bian, Wei Zeng, Bihong Sun, Zhiqun Liang
In this study, a new agar-degrading strain was isolated from soil with agar as a sole carbon source and energy. Based on its morphological, physiological, biochemical characterization and 16S rDNA sequence, the strain was identified as Streptomyces lavendulae UN-8. The extracellular agarase activity reached 0.03 U/ml after fermentation in shake flask (250 ml), which was close to other reported non-marine microorganisms. Furthermore, it is interesting that the growth of UN-8 would be inhibited by glucose (40 g/L) and maltose (40 g/L) with the inhibitory rate of 100% and 70%, respectively...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28551875/non-ureolytic-calcium-carbonate-precipitation-by-lysinibacillus-sp-ys11-isolated-from-the-rhizosphere-of-miscanthus-sacchariflorus
#4
Yun Suk Lee, Hyun Jung Kim, Woojun Park
Although microbially induced calcium carbonate precipitation (MICP) through ureolysis has been widely studied in environmental engineering fields, urea utilization might cause environmental problems as a result of ammonia and nitrate production. In this study, many non-ureolytic calcium carbonate-precipitating bacteria that induced an alkaline environment were isolated from the rhizosphere of Miscanthus sacchariflorus near an artificial stream and their ability to precipitate calcium carbonate minerals with the absence of urea was investigated...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28551874/coptidis-rhizoma-extract-inhibits-replication-of-respiratory-syncytial-virus-in-vitro-and-in-vivo-by-inducing-antiviral-state
#5
Byeong-Hoon Lee, Kiramage Chathuranga, Md Bashir Uddin, Prasanna Weeratunga, Myun Soo Kim, Won-Kyung Cho, Hong Ik Kim, Jin Yeul Ma, Jong-Soo Lee
Coptidis Rhizoma is derived from the dried rhizome of Ranunculaceous plants and is a commonly used traditional Chinese medicine. Although Coptidis Rhizoma is commonly used for its many therapeutic effects, antiviral activity against respiratory syncytial virus (RSV) has not been reported in detail. In this study, we evaluated the antiviral activities of Coptidis Rhizoma extract (CRE) against RSV in human respiratory tract cell line (HEp2) and BALB/c mice. An effective dose of CRE significantly reduces the replication of RSV in HEp2 cells and reduces the RSV-induced cell death...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28551873/achromobacter-panacis-sp-nov-isolated-from-rhizosphere-of-panax-ginseng
#6
Priyanka Singh, Yeon Ju Kim, Hina Singh, Mohamed El-Agamy Farh, Deok-Chun Yang
A novel strain DCY105(T) was isolated from soil collected from the rhizosphere of ginseng (Panax ginseng), in Gochang, Republic of Korea. Strain DCY105(T) is Gram-reaction-negative, white, non-motile, non-flagellate, rod-shaped and aerobic. The bacteria grow optimally at 30°C, pH 6.5-7.0 and in the absence of NaCl. Phylogenetically, strain DCY105(T) is most closely related to Achromobacter marplatensis LMG 26219(T) (96.81%). The DNA G+C content of strain DCY105(T) was 64.4 mol%. Ubiquinone 8 was the major respiratory quinone, and phosphatidylethanolamine, phosphatidylglycerol, and diphosphatidylglycerol were amongst the major polar lipids...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28434086/the-inability-of-bacillus-licheniformis-perr-mutant-to-grow-is-mainly-due-to-the-lack-of-perr-mediated-fur-repression
#7
Jung-Hoon Kim, Yoon-Mo Yang, Chang-Jun Ji, Su-Hyun Ryu, Young-Bin Won, Shin-Yeong Ju, Yumi Kwon, Yeh-Eun Lee, Hwan Youn, Jin-Won Lee
PerR, a member of Fur family protein, is a metal-dependent H2O2 sensing transcription factor that regulates genes involved in peroxide stress response. Industrially important bacterium Bacillus licheniformis contains three PerR-like proteins (PerRBL, PerR2, and PerR3) compared to its close relative Bacillus subtilis. Interestingly, unlike other bacteria including B. subtilis, no authentic perR BL null mutant could be established for B. licheniformis. Thus, we constructed a conditional perR BL mutant using a xylose-inducible promoter, and investigated the genes under the control of PerRBL...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28429169/nocardioides-suum-sp-nov-isolated-from-the-air-environment-in-an-indoor-pig-farm
#8
Siwon Lee, Wonseok Lee, Hyen-Mi Chung, Sangjung Park
A bacterial strain PBT33-2(T) was isolated from the air environment in an indoor pig farm. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain PBT33-2(T) belonged to the genus Nocardioides in the phylum Actinobacteria, and was most closely related to Nocardioides daphnia D287(T) in a maximum-likelihood and neighbor-joining phylogenetic trees. Strain PBT33-2(T) shared 95.3% sequence identity with N. daphnia D287(T). However, the highest sequence similarity was shown with N. sediminis MSL-01(T) (96...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28429168/bedaquiline-susceptibility-test-for-totally-drug-resistant-tuberculosis-mycobacterium-tuberculosis
#9
Ji-Chan Jang, Yong-Gyun Jung, Jungil Choi, Hyunju Jung, Sungweon Ryoo
This study aimed to provide information that bedaquilline is significantly effective for treatment of totally drug resistant (TDR) Mycobacterium tuberculosis that shows resistant to all first- and second-line drugs-using an innovative disc agarose channel (DAC) system. Time-lapse images of single bacterial cells under culture conditions with different concentrations of bedaquiline were analysed by image processing software to determine minimum inhibitory concentrations (MICs). Bedaquiline inhibited the growth of TDR M...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28429167/corynebacterium-defluvii-sp-nov-isolated-from-sewage
#10
Qiu-Li Yu, Zheng-Fei Yan, Xin He, Feng-Hua Tian, Chuan-Wen Jia, Chang-Tian Li
A Gram-positive, aerobic, non-motile, rod-shapeds, catalase-positive, and oxidase-negative strain, designated Y49(T), was isolated from sewage collected from Jilin Agricultural University, China. It grew at 20-40°C (optimum at 30°C), at pH 6.0-8.0 (optimum at 7.0) and at 0-1.0% sodium chloride (optimum at 0%). The major isoprenoid quinone was menaquinone-8 (MK-8) and the polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmethylethanolamine, four unidentified lipids, and two unidentified aminolipids...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28281200/zntr-positively-regulates-t6ss4-expression-in-yersinia-pseudotuberculosis
#11
Tietao Wang, Keqi Chen, Fen Gao, Yiwen Kang, Muhammad Tausif Chaudhry, Zhuo Wang, Yao Wang, Xihui Shen
The type VI secretion system (T6SS) is a widespread and versatile protein secretion system found in most Gram-negative bacteria. Studies of T6SS have mainly focused on its role in virulence toward host cells and inter-bacterial interactions, but studies have also shown that T6SS4 in Yersinia pseudotuberculosis participates in the acquisition of zinc ions to alleviate the accumulation of hydroxyl radicals induced by multiple stressors. Here, by comparing the gene expression patterns of wild-type and zntR mutant Y...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28281199/unraveling-new-functions-of-superoxide-dismutase-using-yeast-model-system-beyond-its-conventional-role-in-superoxide-radical-scavenging
#12
REVIEW
Woo-Hyun Chung
To deal with chemically reactive oxygen molecules constantly threatening aerobic life, cells are readily equipped with elaborate biological antioxidant systems. Superoxide dismutase is a metalloenzyme catalytically eliminating superoxide radical as a first-line defense mechanism against oxidative stress. Multiple different SOD isoforms have been developed throughout evolution to play distinct roles in separate subcellular compartments. SOD is not essential for viability of most aerobic organisms and intriguingly found even in strictly anaerobic bacteria...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28281198/crystal-structure-of-the-inactive-state-of-the-receiver-domain-of-spo0a-from-paenisporosarcina-sp-tg-14-a-psychrophilic-bacterium-isolated-from-an-antarctic-glacier
#13
Chang Woo Lee, Sun-Ha Park, Sung Gu Lee, Seung Chul Shin, Se Jong Han, Han-Woo Kim, Hyun Ho Park, Sunghwan Kim, Hak Jun Kim, Hyun Park, HaJeung Park, Jun Hyuck Lee
The two-component phosphorelay system is the most prevalent mechanism for sensing and transducing environmental signals in bacteria. Spore formation, which relies on the two-component phosphorelay system, enables the long-term survival of the glacial bacterium Paenisporosarcina sp. TG-14 in the extreme cold environment. Spo0A is a key response regulator of the phosphorelay system in the early stage of spore formation. The protein is composed of a regulatory N-terminal phospho-receiver domain and a DNA-binding C-terminal activator domain...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28251548/jindonia-aestuariivivens-gen-nov-sp-nov-isolated-from-a-tidal-flat-on-the-south-western-sea-in-republic-of-korea
#14
Sooyeon Park, Sun Young Yoon, Min-Ji Ha, Jung-Hoon Yoon
A Gram-stain-negative, aerobic, non-flagellated, and coccoid, ovoid or rod-shaped bacterium, designated JDTF-65(T), was isolated from a tidal flat on the south-western sea in Republic of Korea. Strain JDTF-65(T) grew optimally at 25°C, at pH 7.0-8.0 and in the presence of 2.0% (w/v) NaCl. Strain JDTF-65(T) exhibited 16S rRNA gene sequence similarities of 97.1-97.6% to the type strains of 'Aliisedimentitalea scapharcae', Phaeobacter gallaeciensis, Phaeobacter inhibens, Leisingera aquimarina, Tropicibacter litoreus, Sulfitobacter pseudonitzschiae, and Pseudoseohaeicola caenipelagi...
June 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28455591/mutational-analysis-of-the-rna-helicase-dhh1-in-ste12-expression-and-yeast-mating
#15
Daehee Jung, Jihye Ahn, Boram Rhee, Jinmi Kim
Dhh1 and Dhh1 homologues (RCK/p54/DDX6) are members of the DEAD-box protein family of RNA helicases. These proteins display conserved sequence motifs for ATPase and RNA binding activities. Dhh1 is a component of the P-bodies (processing bodies) of mRNA granules and functions as an mRNA decapping activator in Saccharomyces cerevisiae. Dhh1 also contributes to gene-specific regulation during yeast mating. The dhh1 deletion mutation results in a significant decrease in the expression of Ste12, a mating-specific transcription factor, showing severe mating defects...
May 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28455590/crystal-structure-of-streptomyces-coelicolor-rraas2-an-unusual-member-of-the-rnase-e-inhibitor-rraa-protein-family
#16
Nohra Park, Jihune Heo, Saemee Song, Inseong Jo, Kangseok Lee, Nam-Chul Ha
Bacterial ribonuclease E (RNase E) plays a crucial role in the processing and decay of RNAs. A small protein named RraA negatively regulates the activity of RNase E via protein-protein interaction in various bacteria. Recently, RraAS1 and RraAS2, which are functional homologs of RraA from Escherichia coli, were identified in the Gram-positive species Streptomyces coelicolor. RraAS1 and RraAS2 inhibit RNase ES ribonuclease activity in S. coelicolor. RraAS1 and RraAS2 have a C-terminal extension region unlike typical bacterial RraA proteins...
May 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28455589/n-acetylcysteine-prevents-the-development-of-gastritis-induced-by-helicobacter-pylori-infection
#17
Sungil Jang, Eun-Jung Bak, Jeong-Heon Cha
Helicobacter pylori (H. pylori) is a human gastric pathogen, causing various gastric diseases ranging from gastritis to gastric adenocarcinoma. It has been reported that combining N-acetylcysteine (NAC) with conventional antibiotic therapy increases the success rate of H. pylori eradication. We evaluated the effect of NAC itself on the growth and colonization of H. pylori, and development of gastritis, using in vitro liquid culture system and in vivo animal models. H. pylori growth was evaluated in broth culture containing NAC...
May 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28455588/a-diversity-study-of-saccharomycopsis-fibuligera-in-rice-wine-starter-nuruk-reveals-the-evolutionary-process-associated-with-its-interspecies-hybrid
#18
Mohamed El-Agamy Farh, Yunjoo Cho, Jae Yun Lim, Jeong-Ah Seo
The amylolytic yeast Saccharomycopsis fibuligera is the predominant yeast in the starter product, nuruk, which is utilized for rice wine production in South Korea. Latest molecular studies explore a recently developed interspecific hybridization among stains of S. fibuligera with a unique genetic feature. However, the origin of the natural hybridization occurrence is still unclear. Thus, to respectively distinguish parental and hybrid strains, specific primer sets were applied on 141 yeast strains isolated from different nuruk samples fermented in different provinces...
May 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28455587/comprehensive-analysis-of-fungal-diversity-and-enzyme-activity-in-nuruk-a-korean-fermenting-starter-for-acquiring-useful-fungi
#19
Emily Carroll, Tran Ngoc Trinh, Hokyoung Son, Yin-Won Lee, Jeong-Ah Seo
Nuruk is a fermenting starter that is involved in the production 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 companies and persons in 2013 to 2014, and obtained 364 isolates. 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%), Saccharomycopsis fibuligera, a dimorphic yeast, was most frequently isolated...
May 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28455586/primary-lymphocyte-infection-models-for-kshv-and-its-putative-tumorigenesis-mechanisms-in-b-cell-lymphomas
#20
REVIEW
Sangmin Kang, Jinjong Myoung
Kaposi's sarcoma-associated herpesvirus (KSHV) is the latest addition to the human herpesvirus family. Unlike alpha- and beta-herpesvirus subfamily members, gamma-herpesviruses, including Epstein-Barr virus (EBV) and KSHV, cause various tumors in humans. KSHV primarily infects endothelial and B cells in vivo, and is associated with at least three malignancies: Kaposi's sarcoma and two B cell lymphomas, respectively. Although KSHV readily infects endothelial cells in vitro and thus its pathogenic mechanisms have been extensively studied, B cells had been refractory to KSHV infection...
May 2017: Journal of Microbiology / the Microbiological Society of Korea
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