• Genomics & Informatics
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• v.13 no.2
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• pp.53-59
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• 2015

In developing countries threat of cholera is a significant health concern whenever water purification and sewage disposal systems are inadequate. Vibrio cholerae is one of the responsible bacteria involved in cholera disease. The complete genome sequence of V. cholerae deciphers the presence of various genes and hypothetical proteins whose function are not yet understood. Hence analyzing and annotating the structure and function of hypothetical proteins is important for understanding the V. cholerae. V. cholerae O139 is the most common and pathogenic bacterial strain among various V. cholerae strains. In this study sequence of six hypothetical proteins of V. cholerae O139 has been annotated from NCBI. Various computational tools and databases have been used to determine domain family, protein-protein interaction, solubility of protein, ligand binding sites etc. The three dimensional structure of two proteins were modeled and their ligand binding sites were identified. We have found domains and families of only one protein. The analysis revealed that these proteins might have antibiotic resistance activity, DNA breaking-rejoining activity, integrase enzyme activity, restriction endonuclease, etc. Structural prediction of these proteins and detection of binding sites from this study would indicate a potential target aiding docking studies for therapeutic designing against cholera.

• Journal of KIISE:Databases
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• v.32 no.1
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• pp.24-42
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• 2005

Characteristics of biological data including genome sequences are heterogeneous and various. Although the need of management systems for genome sequencing which should reflect biological characteristics has been raised, most current biological databases provide restricted function as repositories for biological data. Therefore, this paper describes a management system of nucleotide sequences at the level of biological laboratories. It includes format transformation, editing, storing and retrieval for collected nucleotide sequences from public databases, and handles sequence produced by experiments. It uses BSML based on XML as a common format in order to extract data fields and transfer heterogeneous sequence formats. To manage sequences and their changes, version management system for originated DNA is required so as to detect transformed new sequencing appearance and trigger database update. Our experimental results show that applying active trigger rules to manage changes of sequences can automatically store changes of sequences into databases.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.206-206
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• 2022

Sustainable agriculture is a potential strategy to enable agricultural cultivation systems to feed the growing population under climate change. Sustainable agriculture consists of environment-friendly farming methods that allow the production of crops with minimal harm to the ecosystem. Early establishment in rice might be helpful to adopt sustainable agriculture with less inputs, such as water and phosphorus fertilizer. Two QTLs conferring tolerance to abiotic stress and low nutrition condition, DTY4.1 and Pup1, respectively, are effective for good establishment in the early growth stage under low water and phosphorus fertilizer application. We developed 'Sechanmi' and 'MSI 1-DTY' harboring Pup1 and DTY4.1 into MS11, a japonica rice variety adaptable to tropical regions, using Marker-Assisted Backcrossing (MABC). MS 11-PD lines were developed to meet the demand for less water and P fertilizer application throughout the growth stage of rice. In the F5 generation, water-saving or rainfed cultivation was performed in different P (phosphorus) content. Irrigation was applied only when severe drought was observed one month after transplanting. There was no significant difference observed between the parents and MS11-PD lines in low P conditions. However, MS11-PD lines had more tillers in P-supplied conditions compared to that of the parents 40 and 50 days after transplanting. Under the same amount of P, MS11-PD lines might have higher phosphorus uptake capacity than the parents, increasing the number of tillers and showing better early establishment. The better vegetative growth stage is one of the factors that can potentially increase production by way of higher number of panicles. Through this breeding strategy, it is possible to attain sustainable agriculture by applying less P and water to address the need of a growing population.

• The Plant Pathology Journal
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• v.40 no.1
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• pp.30-39
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• 2024

The conservation of the endangered Korean fir, Abies koreana, is of critical ecological importance. In our previous study, a yeast-like fungus identified as Aureobasidium pullulans AK10, was isolated and shown to enhance drought tolerance in A. koreana seedlings. In this study, the effectiveness of Au. pullulans AK10 treatment in enhancing drought tolerance in A. koreana was confirmed. Furthermore, using transcriptome analysis, we compared A. koreana seedlings treated with Au. pullulans AK10 to untreated controls under drought conditions to elucidate the molecular responses involved in increased drought tolerance. Our findings revealed a predominance of downregulated genes in the treated seedlings, suggesting a strategic reallocation of resources to enhance stress defense. Further exploration of enriched Kyoto Encyclopedia of Genes and Genomes pathways and protein-protein interaction networks revealed significant alterations in functional systems known to fortify drought tolerance, including the terpenoid backbone biosynthesis, calcium signaling pathway, pyruvate metabolism, brassinosteroid biosynthesis, and, crucially, flavonoid biosynthesis, renowned for enhancing plant drought resistance. These findings deepen our comprehension of how AK10 biostimulation enhances the resilience of A. koreana to drought stress, marking a substantial advancement in the effort to conserve this endangered tree species through environmentally sustainable treatment.

• Asian-Australasian Journal of Animal Sciences
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• v.12 no.4
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• pp.629-632
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• 1999

Constructed wetlands are being used for the removal of nutrients from livestock wastewater. However, natural vegetation typically used in constructed wetlands does not have marketable value. As an alternative, agronomic plants grown under flooded or saturated soil conditions that promote denitrification can be used. Studies on constructed wetlands for swine wastewater were conducted in wetland cells that contained either natural wetland plants or a combination of soybeans and rice for two years with the objective of maximum nitrogen reduction to minimize the amount of land required for terminal treatment. Three systems, of two 3.6 by 33.5 m wetland cells connected in series were used; two systems each contained a different combination of emergent wetland vegetation: rush/bulrush (system 1) and bur-reed/cattail (system 2). The third system contained soybean (Glycine max) in saturated-soil-culture (SSC) in the first cell, and flooded rice (Oryza sativa) in the second cell. Nitrogen (N) loading rates of 3 and $10kg\;ha^{-1}\;day^{-1}$ were used in the first and second years, respectively. These loading rates were obtained by mixing swine lagoon liquid with fresh water before it was applied to the wetland. The nutrient removal efficiency was similar in the rush/bulrush, bur-reed/cattails and agronomic plant systems. Mean mass removal of N was 94 % at the loading rate of $3kg\;N\;ha^{-1}\;day^{-1}$ and decreased to 71% at the higher rate of $10kg\;N\;ha^{-1}\;day^{-1}$. The two years means for above-ground dry matter production for rush/bulrushes and bur-reed/cattails was l2 and $33Mg\;ha^{-1}$, respectively. Flooded rice yield was $4.5Mg\;ha^{-1}$ and soybean grown in saturation culture yielded $2.8Mg\;ha^{-1}$. Additionally, the performance of seven soybean cultivars using SSC in constructed wetlands with swine wastewater as the water source was evaluated for two years, The cultivar Young had the highest yield with 4.0 and $2.8Mg\;ha^{-1}$ in each year, This indicated that production of acceptable soybean yields in constructed wetlands seems feasible with SSC using swine lagoon liquid. Two microcosms studies were established to further investigate the management of constructed wetlands. In the first microcosm experiment, the effects of swine lagoon liquid on the growth of wetland plants at half (about 175 mg/l ammonia) and full strength (about 350 mg/l ammonia) was investigated. It was concluded that wetland plants can grow well in at least half strength lagoon liquid. In the second microcosm experiment, sequencing nitrification-wetland treatments was studied. When nitrified lagoon liquid was added in batch applications ($48kg\;N\;ha^{-1}\;day^{-1}$) to wetland microcosms the nitrogen removal rate was four to five times higher than when non-nitrified lagoon liquid was added. Wetland microcosms with plants were more effective than those with bare soil. These results suggest that vegetated wetlands with nitrification pretreatment are viable treatment systems for removal of large quantities of nitrogen from swine lagoon liquid.

• The Sea:JOURNAL OF THE KOREAN SOCIETY OF OCEANOGRAPHY
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• v.14 no.1
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• pp.56-62
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• 2009

Stable carbon isotope analysis was used to investigate the autotrophic carbon sources supporting fisheries in three coastal bay systems of the southern coast of Korea. Carbon isotope ratios (${\delta}^{13}C$) of 31 fish species were analysed and compared with those of a range of potential primary food sources [e.g., seagrass (Zostera marina), seagrass epiphytes, benthic microalgae, macroalgae, marine particulate organic matter (marine POM), marsh plant (Phragmites australis) and terrestrial POM]. ${\delta}^{13}C$ values (range, -16.2${\sim}$-8.3‰) of fishes from the coastal embayment systems were overlapped with those of seagrass (-8.3${\pm}$1.9‰), seagrass epiphytes (-12.4${\pm}$0.6‰), benthic microalgae (-15.4${\pm}$1.6‰) and macroalgae (-16.0${\pm}$1.8‰). In addition, fishes (-12.9${\pm}$1.5‰) from the study area had distinctly higher ${\delta}^{13}C$ values compared to those collected in offshore sites (-17.3${\pm}$0.8‰) of the southern sea of Korea and Nakdong River (-23.2${\pm}$1.6‰). This result indicates that carbon supporting fish communities of these coastal bay systems is mainly derived from the local benthic producers.

• The Journal of Korean Institute of Electromagnetic Engineering and Science
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• v.29 no.6
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• pp.407-410
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• 2018

As the operating frequency of an electromagnetic wave increases, the maximum output and wavelength of the wave decreases, so that the size of the circuit cannot be reduced. As a result, the fabrication of a circuit with high power (of the order of or greater than kW range) and terahertz wave frequency band is limited, due to the problem of circuit size, to the order of ${\mu}m$ to mm. In order to overcome these limitations, we propose a source design technique for 0.1 THz~0.3 GW level with cylindrical shape (diameter ~2.4 cm). Modeling and computational simulations were performed to optimize the design of the high-power electromagnetic sources based on Cherenkov radiation generation technology using the principle of plasma wakefield acceleration with ponderomotive force and artificial dielectrics. An effective design guideline has been proposed to facilitate the fabrication of high-power terahertz wave vacuum devices of large diameter that are less restricted in circuit size through objective verification.

• Journal of Pharmaceutical Investigation
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• v.34 no.5
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• pp.351-362
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• 2004

The basic concept underlying gene therapy is that human diseases may be treated by the transfer of genetics material into specific cells of a patient in order to correct or supplement defective genes responsible for disease development. There are several systems that can be used to transfer foreign genetic material into the human body. Both viral and non-viral vectors are developed and evaluated for delivering therapeutic genes. Viral vectors are biological systems derived from naturally evolved viruses capable of transferring their genetics materials into host cells. However, the limitations associated with viral vectors, in terms of their safety, particularly immunogenecity, and their limited capacity of transgenic materials, have encouraged researchers to increasingly focus on non-viral vectors as an alternative to viral vectors. Although non-viral vectors are less efficient than viral ones, they have the advantages of safety, simplicity of preparation and high gene encapsulation capability. This article reviews the most recent studies highlighting the advantages and the limitation of gene delivery systems focused on non-viral systems compared to viral systems.

• Journal of the Korea Academia-Industrial cooperation Society
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• v.11 no.5
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• pp.1768-1772
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• 2010

Intra-molecular association is an important contribution to the overall hydrogen bonding in surfactant systems, especially in systems of colloidal and biological interest. Amphiphile systems, especially micelle and microemulsion systems, showed highly non-ideal behavior due to the intermolecular association and intra-molecular association. The objective of this research is to present a lattice fluid equation of state that combines the quasi-chemical nonrandom lattice fluid model with modified Veytsman statistics for intra + inter molecular association to calculate phase behavior for mixture containing surfactant systems. The lattice model could describe the literature data well for alkane and surfactant systems.

• Journal of The Korean Society of Agricultural Engineers
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• v.56 no.5
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• pp.29-36
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• 2014

The purpose of this study is to improve the Generic Agricultural Systems Simulator (GASS) which can simulate various rural systems based on object-oriented model. GASS provides the configuration platform of various system components to simplify integrated agricultural system models such as irrigation systems for rice farming. The new connection and communication modules of GASS improve applicability for modelling diverse systems. The geometric connection of GASS replaces topological connection, and communication protocols expand to analyze not only homogeneous system but also heterogeneous system. In this paper, we applied GASS2 to simulate the water heights of linked tanks and the simulation outputs were verified through comparing with analytical solutions of differential equations. The two new modules make it possible to analyze the 4-tank problem which includes topological and heterogenous issues with GASS2.