• Korean Journal of Clinical Laboratory Science
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• v.36 no.1
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• pp.1-6
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• 2004

The enterobacterial repetitive intergenic consensus (ERIC)-PCR is a recently described DNA fingerprinting technique based on amplification of repetitive element distributed in bacteria. We applied of ERIC-PCR to clinical isolates of Vibrio parahaemolyticus and other bacteria associated diarrhea. Twenty isolates of V. parahaemolyticus were used for intragenic genotyping, which were isolated from 2001 to 2002 in Chungbuk National University hospital. For interspecies genotyping, V. vulnificus, V. alginolyticus, V. parahaemolyticus, Escherichia coli, Salmonella and Shigella spp. were used. The genotyping were analyzed by ERIC-PCR. The genotyping of V. parahaemolyticus were grouped two major pattern (A, B) and were subdivided into 10 subtypes (A1, A2, B1-B8) by ERIC-PCR. These method distinctly differentiated bacterial species associated diarrhea. Those results show that ERIC-PCR can be reliable and efficient method for genotyping of V. parahaemolyticus and bacteria associated diarrhea.

• Korean Journal of Medicinal Crop Science
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• v.21 no.6
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• pp.455-460
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• 2013

Collected germplasms of five representative species belonging to Curcuma genus (C. longa, C. aromatica, C. zedoaria, C. phaeocaulis and C. kwangsiensis) were 52 samples from different farmhouse in Korea and China. To elucidate the genetic diversity among the species, 52 samples were analyzed by genomic fingerprinting method using amplified fragment length polymorphism (AFLP). AFLP results of 6 primer combinations were revealed 643 total DNA fragments and 349 polymorphic bands with the 54.3% ratio of polymorphism. In the analysis of coefficient similarity using unweight pair group method with arithmetic averages (UPGMA), 52 Curcuma germplasm lines were ranged from 0.60 to 0.99 and clustered distinct five groups according to the species and collected geographical levels. However, the result of principal coordinate analysis (PCA) by multi-variate analysis was shown significantly greater differences among species than geographical origins based on AFLP profiling data of these samples.

• Bulletin of the Korean Chemical Society
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• v.33 no.7
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• pp.2320-2324
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• 2012

A novel approach for metabolite extraction and fingerprinting was introduced based upon the nano-baskets and emulsion liquid membrane-nuclear magnetic resonance (ELM-NMR) technique. The objective of this method is optimizing the fingerprints, minimizing the metabolic variation from analysis, increasing the likelihood differences, and obtaining the maximum extraction yield. Low molecular weight metabolites in rat serum were recovered by ELMs using 12 nano-baskets of calixarene, as both emulsifier and carrier. The yields of ELMs were optimized by the method of one-at-a-time. According to NMR data, the maximum metabolic variation was achieved using scaffold 4 (4 wt %), n-decane membrane, stirring rate of 300 rpm, treat and phase ratios of 0.3 and 0.8, respectively. The results revealed that some calixarenes tend to extract non-specific macromolecules; and repeatability of fingerprints for 7-mediated ELM was maximum and for 3-mediated ELM was minimum. The yield of extractions was obtained to be higher for n-decane and lower for carbon tetrachloride. Among different membranes, the fingerprints by chlorinated liquid membranes were more repeatable than using toluene or n-decane.

• Journal of dental hygiene science
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• v.19 no.2
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• pp.86-95
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• 2019

The modern era of microbial genome analysis began in earnest in the 2000s with the generalization of metagenomics and gene sequencing techniques. Studying complex microbial community such as oral cavity and colon by a pure culture is considerably ineffective in terms of cost and time. Therefore, various techniques for genomic analysis have been developed to overcome the limitation of the culture method and to explore microbial communities existing in the natural environment at the gene level. Among these, DNA fingerprinting analysis and microarray chip have been used extensively; however, the most recent method of analysis is metagenomics. The study summarily examined the overview of metagenomics analysis techniques, as well as domestic and foreign studies on disease genomics and cluster analysis related to oral metagenome. The composition of oral bacteria also varies across different individuals, and it would become possible to analyze what change occurs in the human body depending on the activity of bacteria living in the oral cavity and what causality it has with diseases. Identification, isolation, metabolism, and presence of functional genes of microorganisms are being identified for correlation analysis based on oral microbial genome sequencing. For precise diagnosis and treatment of diseases based on microbiome, greater effort is needed for finding not only the causative microorganisms, but also indicators at gene level. Up to now, oral microbial studies have mostly involved metagenomics, but if metatranscriptomic, metaproteomic, and metabolomic approaches can be taken together for assessment of microbial genes and proteins that are expressed under specific conditions, then doing so can be more helpful for gaining comprehensive understanding.

• Journal of the Korea Institute of Information and Communication Engineering
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• v.11 no.10
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• pp.1880-1885
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• 2007

In this paper, we propose the method that improve the performance of the Mowse. Mowse is the tool of the peptide mass fingerprinting that is used the identification of protein. In Mowse, frequency factor matrix is generated to regular interval for protein and peptide mass and the value of each elements is calculated to frequency of peptide. We propose new method for calculation of exact scoring value maintaining same size of matrix. The proposed method is that decide interval of matrix considering distribution of protein database. That is, interval of matrix is decided to small in many value of protein mass and is decided to large in few value of protein mass. We present the performance result both Mowse scoring method and the proposed scoring method.

• Journal of the Korean Society for Marine Environment & Energy
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• v.15 no.3
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• pp.247-256
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• 2012

Stable carbon isotope ratio of oil components are known to be unaffected by weathering processes and thus has been widely used to determine the origin of spilled oil. In this study, molecular index and composition of stable carbon isotope in 15 crude oils and petroleum product were analyzed and used as oil fingerprints to determine the discriminating power of each fingerprinting method among target crude oils. Through the fingerprints of alkane distribution only Bintulu and B-C(1%) were distinguishable from other crude oils. The pristane/phytane ratio can classify the crude oils into three groups but differentiation of crude oils within a group was impossible using the ratio. The crude oils of A.L., A.S.L., Foroozan and B-C(1%) were differentiated from the other oils using PAH source recognition indexes of C2D/C2P and C3D/C3P. The usage of 4-mD/1-mD and 2/3-mD/1-mD ratio was able to distinguish A.S.L., Bintulu and Oman from the other crude oils. However the PAH source recognition ratios in the other crude oils were similar and thus they were impractical to be used for source identification among the target crude oils. Stable carbon isotope ratios of alkanes were able to uniquely specify each crude oil in the plot of ${\delta}^{13}C_{C21}$ and ${\delta}^{13}C_{C25}$ except A.L., A.M., Qatar-Marine, B-C(1%). The oil fingerprinting method using stable carbon isotope ratios of individual alkane compounds showed more discriminating power among the target crude oils than the conventional source recognition indexes of PAHs or alkanes.

• Journal of Korea Multimedia Society
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• v.14 no.3
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• pp.433-439
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• 2011

The positioning system based on wireless AP collects AP information distributed in the real world, stores it into database, and measures the position objects by comparing with searched AP information. The existing fingerprinting method is a probabilistic modeling method that acquires much of the data collected from one location upon database composition, and stores the average of the data for the sake of use it in positioning objects. Using the average value, however, may cause the probability of errors Such errors are fatal weaknesses for services based on the accurate position. This paper described the characteristics and problems of the previously used wireless AP positioning system, and proposed a method of using the AP DB and an MSS mechanism for outdoor positioning in order to solve the aforementioned problems. And the results obtained from experimental tests showed that the proposed method achieved very low error rate(27%) compared with the existing method.

• YAKHAK HOEJI
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• v.57 no.4
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• pp.272-281
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• 2013

In this study, we developed and validated the HPLC method using the isolated components from Erycibae caulis. Their structures were elucidated by spectroscopic methods including UV, $^1H$-NMR, $^{13}C$-NMR, FAB-Mass and ESI-Mass as Compound 1 (crypto-chlorogenic acid), Compound 2 (scopolin), Compound 3 (neochlorogenic acid) and Compound 4 (3,4-di-O-caffeoylquinic acid). Major three compounds and scopoletin were decided as representative components of Erycibae caulis. We established HPLC analytical method by using the representative components and 20 commercial samples which were collected considering to various cultivated area. The HPLC fingerprinting was successfully achieved with an AKZO NOBEL Kromasil 100-5C18 column. The mobile phase consisted of 0.5% acetic acid in water (A) and methanol (B) using gradient method of 85(A) to 50(A) for 35min. The fingerprints of chromatograms were recorded at an optimized wavelength of 330 nm. This developed analytical method was validated with specificity, selectivity, accuracy and precision. And it is suggested that scopolin, scopoletin, neochlorogenic acid, 3,4-di-O-caffeoylquinic acid were more than 0.162%, 0.133%, 0.057%, 0.044%, respectively. In addition, principal component analysis (PCA) was performed on the analytical data of 20 different Erycibae caulis samples in order to classify samples collected from different regions. We hope that this assay can be readily utilized as quality control method for Erycibae caulis.

• Microbiology and Biotechnology Letters
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• v.36 no.4
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• pp.336-342
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• 2008

The effect of methyl tert-butyl ether (MTBE) and its metabolites like tert-butyl alcohol (TBA), and formaldehyde (FA) on microbial activity and diversity in tidal mud flat was studied. MTBE, TBA, and FA with different concentrations were added into microcosms containing tidal mud samples, and placed at room temperature for 30 days. Then the physico-chemical properties such as pH, moisture contents and organic matter contents in the microcosms were measured. In addition, the total viable cell number and dehydrogenase activity were measured. Bacterial communities in the microcosms were monitored using a 16S rRNA-PCR-DGGE (Denaturing gradient gel electrophoresis) fingerprinting method. As a result, the exposure concentrations of MTBE and its metabolites showed no correlation with the physico-chemical factors (P>0.05). Dehydrogenase activity and total viable cell number were decreased with increasing MTBE, TBA and FA concentrations (P<0.05). The toxic effect was higher the following order: FA > MTBE > TBA. Dominant species in the microcosms contaminated with MTBE and its metabolites were Sphingobacteria, Flavobacteria, delta-proteobacteria, gamma-proteobacteria. The diversity of bacterial community was not significantly influenced by MTBE and its metabolites.

• Microbiology and Biotechnology Letters
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• v.35 no.2
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• pp.150-157
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• 2007

The advanced bioremediation of diesel-contaminated soil through the exploration of bacterial interaction with plants was studied. A diesel-degrading rhizobacterium, Rhodococcus sp.412, and a plant species, Zea mays, having tolerant against diesel was selected. Zea mays was seeded in uncontaminated soil or diesel-contaminated soil with or without Rhodococcus sp. 412. After cultivating for 30 days, the growth of Zea mays in the contaminated soil inoculated with Rhodococcus sp. 412 was better than that in the contaminated soil without the bacterium. The residual diesel concentrations were lowered by seeding Zea mays or inoculating Rhodococctis sp. 412. These results Indicate that the simultaneous use of Zea mays and Rhodococcus sp. 412 can give beneficial effect to the remediation of oil-contaminated soil. Bacterial community was characterized using a 16S rDNA PCR and denaturing gradient gel electrophoresis (DGGE) fingerprinting method. The similarities of DGGE fingerprints were $20.8{\sim}39.9%$ between the uncontaminated soil and diesel contaminated soil. The similarities of DGGE fingerprints were $21.9%{\sim}53.6%$ between the uncontaminated soil samples, and $31.6%{\sim}50.0%$ between the diesel-contaminated soil samples. This results indicated that the structure of bacterial community was significantly influence by diesel contamination.