• Journal of fish pathology
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• v.11 no.2
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• pp.143-150
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• 1998

Characteristics and distribution of the natural commensal flora in the surrounding environment and tissues of clam in Hadong area were studied under varying conditions of growth media and incubation temperatures. Total numbers of bacteria present in intestinal tract, gill, body fluid and surrounding mud were found to be not influenced by the used BHIA, STA and SNA media. Although the growth rate of bacteria at the condition of $15^{\circ}C$ incubation temperature was slower than that of $25^{\circ}C$ and $35^{\circ}C$, it showed the highest number of total bacteria compared with other two different conditions of incubation temperature. Interestingly, the proportion of bacteria able to form colony on several selective media was higher in replica analysis from nutrient media to selective media than that in direct smearing from samples. The generic diversity of bacteria isolated from the tissues and analyzed by API 20E and API 20NE kit showed similar pattern with each other and distinct from that of environment. The distribution of bacteria in the surrounding mud or mantle fluid of clam indicated a high diversity comparable to that found for the gill or intestinal tract microflora, with Pseudomonas being the prevalent group. It implies that the tissues of clam may probide a selective habitat for a commensal microflora.

• BMB Reports
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• v.37 no.1
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• pp.83-92
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• 2004

As a result of the enormous amount of information that has been collected with E. coli over the past half century (e.g. genome sequence, mutant phenotypes, metabolic and regulatory networks, etc.), we now have detailed knowledge about gene regulation, protein activity, several hundred enzyme reactions, metabolic pathways, macromolecular machines, and regulatory interactions for this model organism. However, understanding how all these processes interact to form a living cell will require further characterization, quantification, data integration, and mathematical modeling, systems biology. No organism can rival E. coli with respect to the amount of available basic information and experimental tractability for the technologies needed for this undertaking. A focused, systematic effort to understand the E. coli cell will accelerate the development of new post-genomic technologies, including both experimental and computational tools. It will also lead to new technologies that will be applicable to other organisms, from microbes to plants, animals, and humans. E. coli is not only the best studied free-living model organism, but is also an extensively used microbe for industrial applications, especially for the production of small molecules of interest. It is an excellent representative of Gram-negative commensal bacteria. E. coli may represent a perfect model organism for systems biology that is aimed at elucidating both its free-living and commensal life-styles, which should open the door to whole-cell modeling and simulation.

• Journal of Species Research
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• v.5 no.3
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• pp.517-529
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• 2016

Two scale worms of the family Polynoidae, Arctonoe vittata (Grube, 1855) and Hyperhalosydna striata (Kingberg, 1856) were found for the first time from Korea by SCUBA diving survey. The two species are free-living organisms or associated commensally with a wide variety of other invertebrates. Specimens of A. vittata were collected from the East Sea and were closely associated with asteroids, holothuroids, gastropods and nudibranchs species. Specimens of H. striata were collected from Jeju-do Island, and of these, one specimen was collected in a tube of eunicid species. The two species can be easily distinguished from their congeners by distinct morphological characteristics as follows: (1) A. vittata has pigmented band near segment eight and two kinds of neurochaetae; (2) H. striata has reddish-brown longitudinal striped elytra. The morphological key characteristics of both species agreed well with their original descriptions and redescriptions. In this study, the descriptions, detailed illustrations and ecological photographs of two species based on Korean materials were provided.

• Korean Journal of Pharmacognosy
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• v.53 no.3
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• pp.119-124
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• 2022

Vaginal microbiome deeply influences vaginal health via production of messenger molecules. The healthy vaginal pH ranges between 3.5 and 4.5. However, dysbiosis of vaginal microbiome increases the pH level, leading to the incidence of vaginitis. The commensal vaginal bacterium Dermabacter vaginalis-which was isolated from the vaginal fluid of a Korean female-was incubated in acidic and neutral pH to simulate healthy and vaginitis conditions, respectively. The chemical profiles of the two different cultures were compared using HPLC. The compound showing distinctive difference between the two sets of data was presumed to be a chemical messenger, which was identified as cyclo(L-pro-L-met) by analysis of NMR, MS, and specific rotation data. Synthesis was achieved in three steps (overall yield 15%), enabling structure confirmation and antimicrobial evaluation against vaginal pathogens. Cyclo(L-pro-L-met) showed antifungal activity against Candida albicans, a major cause of vulvovaginal candidiasis.

• Journal of Veterinary Science
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• v.23 no.2
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• pp.23.1-23.15
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• 2022

Background: Antibacterial agents play important roles in the treatment of bacterial infections. However, the development of antimicrobial resistance (AMR) and carry-over of substances into the environment are several problems arising during oral treatment of bacterial infections. We assessed AMR development in commensal Escherichia coli (E. coli) in enrofloxacin treated and untreated animals. In addition, we examined fluoroquinolone in the plasma and urine of treated and untreated animals, and in sedimentation dust and aerosol. Methods: In each trial, six pigs were treated with enrofloxacin via powder, granulate or pellet forms in two time periods (days 1-5 and 22-26). Four pigs served as untreated controls. The minimum inhibitory concentration (MIC) was determined to evaluate AMR development. Analysis of enro- and ciprofloxacin was performed with high performance liquid chromatography. Results: Non-wildtype E. coli (MIC > 0.125 ㎍/mL) was detected in the pellet treated group after the first treatment period, whereas in the other groups, non-wildtype isolates were found after the second treatment period. E. coli with MIC > 4 ㎍/mL was found in only the pellet trial. Untreated animals showed similar susceptibility shifts several days later. Bioavailability differed among the treatment forms (granulate > pellet > powder). Enro- and ciprofloxacin were detected in aerosols and sedimentation dust (granulate, powder > pellet). Conclusions: This study indicates that the kind of the oral dosage form of antibiotics affects environmental contamination and AMR development in commensal E. coli in treated and untreated pigs.

• Journal of Microbiology and Biotechnology
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• v.33 no.10
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• pp.1309-1316
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• 2023

To exert their beneficial effects, it is essential for the commensal bacteria of probiotic supplements to be sufficiently protected as they pass through the low pH environment of the stomach, and effectively colonize the intestinal epithelium downstream. Here, we investigated the effect of a multilayer coating containing red ginseng dietary fiber, on the acid tolerance, and the adhesion and proliferation capacities of three Lactobacillus strains (Limosilactobacillus reuteri KGC1901, Lacticaseibacillus casei KGC1201, Limosilactobacillus fermentum KGC1601) isolated from Panax ginseng, using HT-29 cells, mucin-coated plates, and human pluripotent stem cell-derived intestinal epithelial cells as in vitro models of human gut physiology. We observed that the multilayer-coated strains displayed improved survival rates after passage through gastric juice, as well as high adhesion and proliferation capacities within the various gut epithelial systems tested, compared to their uncoated counterparts. Our findings demonstrated that the multilayer coat effectively protected commensal microbiota and led to improved adhesion and colonization of intestinal epithelial cells, and consequently to higher probiotic efficacy.

• Proceedings of the Microbiological Society of Korea Conference
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• 2001.11a
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• pp.46-53
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• 2001

A commensal thermophile, Symbiobacterium toebii, isolated from hay compost (toebii) in Korea commensally interacted with a thermophilic Geobacillus toebii sp. nov., which was a new species within the genus Geobacillus on the basis of the phenotypic traits and molecular systematic data. S. toebii required the crude extracts and/or culture supernatant of the Geobacillus toebii for axenic growth and could grow on the temperature between 45 and $70^{\circ}C$ (optimum: $60^{\circ}C$; 2.4 h doubling time) and pH 6.0 and 9.0 (optimum: pH 7.5). The G+C content of the genomic DNA was $65 mol\%$, and the major quinones were MK-6 and MK-7. A phylogenetic analysis of its 16S rDNA sequence indicated that Symbiobacterium toebii was closely related with solely reported Symbiobacterium thermophilum. The presence of the commensal thermophile 16S rDNA and accumulation of indole in all the enriched cultures indicate that Symbiobacterium toebii is widely distributed in the various soils. The genome of S. toebii constituted a circular chromosome of 3,280,275 base pairs and there was not an extra-chromosomal element (ECE). It contained about 4,107 predicted coding sequences. Of these protein coding genes, about $45.6\%$ was encoded well-known proteins and annotated the functional assignment of 1,874 open reading frames (ORFs), and the rest predicted to have unknown functions. The genes encoding thermostable tyrosine phenol-lyase and tryptophan indole-lyase were cloned from the genomic DNA of S. toebii and the enzymatic production of L-tyrosine and L-tryptophan was carried out with two thermostable enzymes overexpressed in recombinant E. coli.

• Journal of the Society of Cosmetic Scientists of Korea
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• v.48 no.3
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• pp.197-212
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• 2022

This study was conducted to empirically analyze the effects and interactions among beneficial bacteria, commensal bacteria, and acne bacteria, which are factors in the skin microbiomes, on detrimental bacteria by 289 people, who are 20 to 49 years old among Koreans. As a result of multiple regression models using bio big data of skin microbiomes, when the difference in skin microbiomes according to the sex and age of the subjects was controlled, the beneficial bacteria showed a negative (-) effect on the detrimental bacteria, while the commensal and acne bacteria showed a positive (+) effect. Particularly, the negative (-) effect of beneficial bacteria on detrimental bacteria was different through interaction with acne bacteria according to the level of commensal bacteria. These results demonstrate that the activation of beneficial bacteria inhibits detrimental bacteria, and the effect of skin microbiomes on detrimental bacteria is balanced with skin microbiomes through interaction with independent influence. Therefore, it is suggested that when studying skin microbiomes products to help the proliferation of beneficial bacteria and to create a skin environment that inhibits detrimental bacteria in the personalized cosmetics manufacturing industry, it is necessary to consider the independent effects and interactions among skin microbiome factors together.

• Animal Systematics, Evolution and Diversity
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• v.25 no.2
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• pp.205-207
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• 2009

The specimens of Peregrinamor ohshimai, an ecto-commensal species to Upogebia major, were collected from the mudflat of Chilcheondo Is., Geoje-si, Gyungsangnam-do, Korea and diagnostic characters of P. ohshimai were analyzed. The genus Peregrinamor is reported in Korean fauna for the first time.

• Journal of Microbiology and Biotechnology
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• v.10 no.3
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• pp.405-409
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• 2000

We have studied the genome of an obligately commensal thermophile, Symbiobacterium toebii. The chromosome was extracted from pure cultures of S. toebii recently established. Total DNA of S. toebii was resolved by pulsed-field gel electrophoresis (PFGE) into discrete numbers of fragments by digenstion with the endonuclease SspI, SpeI, XbaI, and HpaI. Estimated sizes of fragments produced by the four enzymes and their sum consistently yielded a total genome size of 2.8 Mb. Because restriction endonucleases NotI and SwaI, recognizing 8 bp, released too many fragments, these enzymes could not be used for the estimation of the genome size. Considering no mobility of undigested genome under PFGE, the genome of S. toebii appears to be circular. The presence of extrachromosomal DNA in S. toebii was excluded by the results of the conventional 1% agarose gel electrophoresis and the field inversion gel electrophoresis of undigested S. toebii DNA.