• Korean Journal of Ecology and Environment
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• v.54 no.3
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• pp.170-189
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• 2021

Environmental DNA (eDNA) is a genetic material derived from organisms in various environments (water, soil, and air). eDNA has many advantages, such as high sensitivity, short investigation time, investigation safety, and accurate species identification. For this reason, it is used in various fields, such as biological monitoring and searching for harmful and endangered organisms. To collect eDNA from a freshwater ecosystem, it is necessary to consider the target organism and gene and a wide variety of items, such as on-site filtration and eDNA preservation methods. In particular, the method of collecting eDNA from the environment is directly related to the eDNA concentration, and when collecting eDNA using an appropriate collection method, accurate (good quality) analysis results can be obtained. In addition, in preserving and extracting eDNA collected from the freshwater ecosystem, when an accurate method is used, the concentration of eDNA distributed in the field can be accurately analyzed. Therefore, for researchers at the initial stage of eDNA research, the eDNA technology poses a difficult barrier to overcome. Thus, basic knowledge of eDNA surveys is necessary. In this study, we introduced sampling of eDNA and transport of sampled eDNA in aquatic ecosystems and extraction methods for eDNA in the laboratory. In addition, we introduced simpler and more efficient eDNA collection tools. On this basis, we hope that the eDNA technique could be more widely used to study aquatic ecosystems and help researchers who are starting to use the eDNA technique.

• Proceedings of the Korea Contents Association Conference
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• 2011.05a
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• pp.543-544
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• 2011

최근 유전자 염기서열분석방법이 새롭게 등장하면서 대량의 생물정보의 데이터가 축적되고 있다. 다양한 생물종의 유전체 정보에 대하여 관련 연구자들에게 유용한 정보를 제공하기 위해서는 분석된 유전체 정보를 빠르게 전달할 필요가 증가하고 있다. 본 연구에서는 분석된 유전체 정보에 대한 데이터베이스를 구축하고 이를 모바일 환경에서 손쉽게 탐색할 수 있는 클라이언트 앱을 개발하였다. 유전체 정보에 대한 데이터베이스는 BioMart를 사용하였다. BioMart의 데이터베이스 스키마를 기반으로 웹서비시스 방법을 통하여 모바일 환경의 기기와 연동할 수 있도록 하였다. 개발된 시스템의 검증을 위해서 BioMart의 유전자내용을 검색 할 수 있는 질의를 통하여 모바일기기에서 인간의 유전체 정보를 네비게이션 할 수 있도록 하였다.

• Korean Journal of Microbiology
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• v.55 no.3
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• pp.300-302
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• 2019

Glutamicibacter halophytocola DR408 isolated from the rhizospheric soil of soybean plant at Jecheon showed drought tolerance and plant growth promotion capacity. The complete genome of strain DR408 comprises 3,770,186 bp, 60.2% GC-content, which include 3,352 protein-coding genes, 64 tRNAs, 19 rRNA, and 3 ncRNA. The genome analysis revealed gene clusters encoding osmolyte synthesis and plant growth promotion enzymes, which are known to contribute to improve drought tolerance of the plant.

• Journal of Plant Biotechnology
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• v.31 no.3
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• pp.191-195
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• 2004

Arabidopsis NDPK2 (AtNDPK2) is a key singaling component that regulate cellular redox state and known to enhance multiple stress tolerance when over-expressed in Arabidopsis plant (Moon et al. 2003). In order to develop transgenic potato plants with enhanced tolerance to multiple stresses, we placed an AtNDPK2 cDNA under the control of a stress-inducible SWPA2 promoter or enhanced CaMV 35S promoter. Transgenic potato plants (cv. Superior and Atlantic) were generated using an Agrobacterium-mediated transformation system and selected on MS medium containing 100 mg/L kanamycin. Genomic Southern blot analysis confirmed the incorporation of AtNDPK2 cDNA into the potato genome. When potato leaf discs were treated with methyl viologen (MV) at 10 $\mu$M, transgenic plants showed higher tolerance to MV than non-transgenic or vector-transformed plants. The NDPK2 transgenic potato plants will be further used for analysis of stress-tolerance to multiple environmental stresses.

• Journal of Life Science
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• v.20 no.2
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• pp.176-182
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• 2010

Magnaporthe oryzae is destructive plant-pathogenic fungus and causes rice blast. The pathogen uses several mechanisms to circumvent the inhibitory actions of fungicides. ATP-binding cassette (ABC) transporters are known to provide protection against toxic compounds in the environment. PC facilitated bioinformatic analysis, particularly with respect to accessing and extracting database information and domain identification. We predicted ABC transporter genes from the M. oryzae genome sequence with computation and bioinformatics tools. A total of thirty three genes were predicted to encode ABC transporters. Three of thirty three putative genes corresponded to three known ABC transporter genes (ABC1, ABC2 and ABC3). Copy numbers of the ABC transporter genes were proven by Southern blot analysis, which revealed that twenty genes tested exist as a single copy. We amplified the DNA complementary to RNA corresponding to eleven of these by reverse transcriptase polymerase chain reaction.

• Journal of the Korea Academia-Industrial cooperation Society
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• v.16 no.10
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• pp.6715-6721
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• 2015

Recently, DNA data of missing person, killed person, and missing child continue to increase but most of statistical calculation for paternity confirmation is being done through manual methods or Excel. Therefore, we need development of a software which is able to facilitate both systematic management and effective analysis of Short Tandem Repeat (STR) derived from DNA data. Without extensive testing, through a twenty-month study was developed a web-based system which performs paternity analysis and kinship analysis easily based on the various options. The former uses an existing algorithm for paternity index and the latter does Identity by descent (IBD) formula. Due to our system validated over real datasets in terms of likelihood ratio and probability of paternity, it ensures increased reliability as well as effective management and analysis of DNA data in mass disaster. In addition, it includes advanced features such as an integrated environment, user-centered interface, process automation and so on.

• Korean Journal of Microbiology
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• v.46 no.2
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• pp.162-168
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• 2010

The sequence diversity of mcyA gene involved in synthesis of microcystins was analyzed in Microcystis spp. isolated from the Korean reservoirs and in the environmental samples taken from the Daechung, Chungju, Yongdam, Soyang, and Euam Reservoirs at the cyanobacterial blooming season. It was estimated that the sequences of mcyA gene in the isolated Microcystis spp. were much conserved when compared with those in GenBank database. A few kinds of clones were dominant in the investigated environmental samples, occupying 87 to 100% of total clones. No mcyA sequences originated from Anabaena spp. or Planktothrix spp. was found. These results indicated that microcystins are produced mainly by Microcystis spp. and the sequences of mcyA genes are much conserved in the investigated Korean reservoirs.

• Journal of the Korea Institute of Information and Communication Engineering
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• v.14 no.2
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• pp.287-295
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• 2010

In this paper, we introduce a novel approach to optimization algorithm which is a distributed Mean field Genetic algorithm (MGA) implemented in MPI(Message Passing Interface) environments. Distributed MGA is a hybrid algorithm of Mean Field Annealing(MFA) and Simulated annealing-like Genetic Algorithm(SGA). The proposed distributed MGA combines the benefit of rapid convergence property of MFA and the effective genetic operations of SGA. The proposed distributed MGA is applied to the channel routing problem, which is an important issue in the automatic layout design of VLSI circuits. Our experimental results show that the composition of heuristic methods improves the performance over GA alone in terms of mean execution time. It is also proved that the proposed distributed algorithm maintains the convergence properties of sequential algorithm while it achieves almost linear speedup as the problem size increases.

• Korean Journal of Microbiology
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• v.41 no.4
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• pp.287-292
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• 2005

The cyanobacterial diversity was analyzed by restriction fragment length polymorphism (RFLP) of PCR-amplified rpcBA-Intergenic Spacer (IGS) genes and cpcBA-IGS gene sequencing with a sample collected at Chuso-ri in Daechung Reservoir on March 15, 2005, The Shannon-Weiner diversity index was 0.65, indicating that the cyanobacterial community structure was simple. PCR-RFLP profiles obtained were Phormidium spp. (58 clones), Anabaena spp. (14 clones), Microcystis spp. (4 clones), Spirulina sp. (1 clone) and uncultured cyanobacteria (2 clones). The PCR-RFLP of cpcBA-IGS revealed that Phormidium spp. and Anabaena spp. dominated in the invested sample. As a consequence, it seems that the analysis of functional genes such as cpcBA-IGS can be used for the species identification and community analysis of cyanobacteria.

• Journal of the Korea Society of Computer and Information
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• v.25 no.12
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• pp.55-61
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• 2020

Genetic Algorithm(GA) is applied to a problem that could not figure out its solution in a straightway. It is called as NP-hard problem. GA requires a high-performance system to be run on since the high-cost operations are needed such as crossover, selection, and mutation. Moreover, the scale of the problem domain is normally huge. That is why the straightway cannot be applied. To reduce the drawback of high-cost requirements, we try to answer if all the operations including mutation are necessary for all cases. In the experiment, we set up two cases of with/without mutation operations and gather the number of generations and the fitness of a solution. The subject in the experiment is Travelling Salesman Problem(TSP), which is one of the popular problems solved by GA. As a result, the cases with mutation operation are not faster and the solution is fitter than the case with mutation operation. From the result, the conclusion is that mutation operation does not always need for a better solution in a faster way.