• Journal of Plant Biotechnology
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• 제31권1호
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• pp.1-6
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• 2004

한약재로 사용되는 방풍류는 절단되어 유통되므로 외부 형태적인 특징만으로 구분하기가 어려워 방풍류로 사용되는 방풍, 식방풍, 석방풍, 갯방풍 등 4종에 대해 PCR에 기초한 RAPD 마커를 이용하여 SCAR 마커를 개발하고자 하였다. RAPD 분석결과 밴드의 패턴은 다양하게 나타났으며 다형성의 밴드 수는 총 215개로 전체 밴드수의 98%였다. RAPD 분석에서 각 방풍류를 구별 할 수 있는 특이적인 밴드를 나타내는 primer는 방풍에서 4개의 primer, 식방풍은 6개의 primer, 석방풍은 4개의 primer, 갯방풍은 6개의 primer를 선발하였고, 그 중 특히 primer 425는 4종의 방풍류의 감별에 유용하였고, 이를 이용하여 SCAR마커로 전환하는데 이용하였다. 특이적인 단편을 클로닝하여 염기서열 분석으로 특이 primer를 제작하고 제작된 primer로 방풍류 시료 16개에 적용하였을 때, 국내의 야생에서 주로 자생하는 석방풍은 215 bp, 그리고 국내에서 가장 많이 재배 또는 생산되는 갯방풍은 177 bp와 300 bp에서 뚜렷하게 나타났다. 따라서 갯방풍과 석방풍의 감별 가능성을 제시할 수 있으며 개발된 SCAR 마커를 이용하여 시중에 유통되고 있는 방풍류 건조약재의 감별에 유용한 마커로 활용될 수 있을 것이다.

• Fisheries and Aquatic Sciences
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• 제9권2호
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• pp.70-74
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• 2006

DNA sequence-based typing is considered a robust tool for the discrimination of dinoflagellate species because of the availability of extensive rDNA sequences. Here, we present a rapid, cost-effective DNA-sequencing technique for various PCR products. This sequencing strategy relies on 'nested' or 'tailed' primer labeled with near-infrared dye, and uses a minimal volume of unpurified PCR product (ca. $5{\mu}L$) as the DNA template for sequencing reactions. Reliable and accurate base identification was obtained for several hundred PCR fragments of rRNA genes. This quick, inexpensive technique is widely applicable to sequence-based typing in clinical applications, as well as to large-scale DNA sequencing of the same genomic regions from related species for studies of molecular evolution.

• 한국수산과학회지
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• 제29권6호
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• pp.876-881
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• 1996

To determine the amount of genetic variation among populations of Penaeus chinensis (Osbeck) in the Yellow Sea, 342 bp region of the mitochondrial cytochrome c oxidase subunit I gene was amplified and sequenced. Six haplotypes, which differ by from one to four nucleotide sustitutions, were detected from 34 individuals of 4 populations examined. Mean sequence divergence between pairs of haplotypes was $0.68\%$. Most individuals from 4 populations were shared by the most common genotype. This genotype was distributed evenly in the Korean and Chinese populations. This result is in accordance with findings observed using RFLPs analysis of mtDNA (Hwang et al., 1997). Therefore, it is suggested that P. chinensis should be treated as one unit stock in the Yellow Sea.

• Journal of the Korean Physical Society
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• 제73권12호
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• pp.1908-1917
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• 2018

The binding affinity between the T-cell receptors (TCRs) and antigenic peptides mainly determines immunological recognition. It is not a trivial task that T cells identify the digital sequences of peptide amino acids by simply relying on the integrated binding affinity between TCRs and antigenic peptides. To address this problem, we examine whether the affinity-based discrimination of peptide sequences is learnable and generalizable by artificial neural networks (ANNs) that process the digital experimental amino acid sequence information of receptors and peptides. A pair of TCR and peptide sequences correspond to the input for ANNs, while the success or failure of the immunological recognition correspond to the output. The output is obtained by both theoretical model and experimental data. In either case, we confirmed that ANNs could learn the immunological recognition. We also found that a homogenized encoding of amino acid sequence was more effective for the supervised learning task.

• 한국멀티미디어학회논문지
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• 제7권11호
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• pp.1505-1514
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• 2004

시퀀스 매칭은 시계열 데이터베이스로부터 질의 시퀀스와 변화의 추세가 유사한 데이터 시퀀스들을 검색하는 연산이다. 기존의 대부분의 연구에서는 효과적인 시퀀스 매칭을 위하여 다차원 인덱스를 사용하며, 데이터 시퀀스를 이산 푸리에 변환(Discrete Fourier Transform: DFT)한 후, 단순히 앞의 두 개 내지 세 개의 DFT 계수만을 구성 속성 (organizing attributes)으로 사용함으로써 고차원의 경우 발생하는 차원 저주(dimensionality curse) 문제를 해결한다. 본 논문에서는 기존의 단순한 기법이 가지는 성능 상의 문제점들을 지적하고, 이러한 문제점들을 해결하는 최적의 다차원 인덱스 구성 기법을 제안한다. 제안된 기법은 대상이 되는 시계열 데이터베이스의 특성을 사전에 분석함으로써 변별력이 뛰어난 요소들을 다차원 인덱스의 구성 속성으로 선정하며, 비용 모델(cost model)을 기반으로 한 시퀀스 매칭 비용의 추정을 통하여 다차원 인덱스에 참여하는 최적의 구성 속성의 수를 결정한다. 제안된 기법의 우수성을 규명하기 위하여 실험을 통한기존 기법과의 성능 비교를 수행하였다 실험 결과에 의하면, 제안된 기법은 기존의 기법에 비교하여 매우 큰 성능 개선 효과를 가지는 것으로 나타났다.

• Asian-Australasian Journal of Animal Sciences
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• 제24권12호
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• pp.1637-1643
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• 2011

Korean native chickens are a very valuable chicken population in Korea and their prices are higher than that of commercial broilers. In order to discriminate two commercial Korean native chicken populations (CCP1 and CCP2), single nucleotide polymorphisms (SNPs) from mitochondrial (mt) DNA D-loop sequences and LEI0258 marker polymorphisms in the major histocompatibility complex (MHC) region were investigated. A total of 718 birds from nine populations were sampled and 432 mtDNA sequences were obtained. Of these, two commercial Korean native chicken populations (363 birds) were used for investigation of their genetic relationship and breed differentiation. The sequence data classified the chickens into 20 clades, with the largest number of birds represented in clade 1. Analysis of the clade distribution indicated the genetic diversity and relation among the populations. Based on the mtDNA sequence analysis, three selected SNPs from mtDNA polymorphisms were used for the breed identification. The combination of identification probability (Pi) between CCP1 and CCP2 using SNPs from mtDNA and LEI0258 marker polymorphisms was 86.9% and 86.1%, respectively, indicating the utility of these markers for breed identification. The results will be applicable in designing breeding and conservation strategies for the Korean native chicken populations and also used for the development of breed identification markers.

• 한국약용작물학회지
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• 제19권3호
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• pp.185-190
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• 2011

The principal objective of this study was to develop a discrimination method using SSR markers in Korean ginseng cultivars. Five cultivars--Chunpoong, Yunpoong, Gopoong, Sunpoong, and Kumpoong--were evaluated by nine markers out of 22 SSR markers. A total of 23 alleles were detected, ranging from 1 to 4, with an average of 2.6 alleles per locus, and an averages of gene diversity (GD) of 0.480. Nine markers were tested in order to distinguish among five Korean ginseng cultivars. Two markers out of nine SSR markers, GB-PG-065 and GB-PG-142, were selected as key markers for discrimination among Korean ginseng cultivars. Two genotypes were detected in GB-PG-065. Chunpoong and Kumpoong shared the same allele type, and Yunpoong, Gopoong, and Sunpoong shared another identical allele type. In the case of GB-PG-142, a specific allele type differentiated from those of other four cultivars was observed only in Sunpoong cultivar. Consequently, the SSR markers developed in this study may prove useful for the identification of Korean ginseng cultivars and the development of ginseng seed management systems, as well as tests to guarantee the purity of ginseng seeds.

• 한국산림과학회지
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• 제105권4호
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• pp.422-428
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• 2016

은행나무는 이식성이 좋고 열악한 환경에서도 잘 자라기 때문에 도심 가로수나 조경수로 매우 적합한 수종이다. 은행나무는 암수딴그루 식물로 수나무와 암나무의 생식기관(수꽃과 암꽃)의 비교를 통하여 성을 식별할 수 있으나, 꽃이 달리기까지 약 20년 이상이 필요하다. 가로수용 은행나무는 주로 꽃이 생성되기 이전에 식재되기 때문에 암나무와 수나무 구분 없이 가로수로 식재되어왔다. 가로수로 식재된 암나무에서 열리는 은행나무 열매는 악취를 발산하고 거리 오염을 야기하고 있다. 따라서 본 연구에서는 유시에 수나무를 선별하기 위하여 기존에 보고된 수나무 특이 RAPD 변이체의 염기서열을 기반으로 수나무에서만 675 bp의 PCR 산물을 증폭하는 SCAR 마커(SCAR-GBM)를 개발하였다. SCAR-GBM 마커의 우성 마커 특성에 기인한 위음성(false-negative)문제를 해결하고 식별 효율을 향상시키기 위하여 SCAR-GBM 마커와 mtDNA의 atp1 영역을 증폭하는 범용 프라이머를 동시에 적용하는 multiplex PCR을 이용하였다. 그 결과 암나무와 수나무에서 공히 atp1 영역에 해당하는 1,039 bp의 PCR 산물이 증폭되었으며, 수나무에서만 특이적으로 SCAR-GBM 마커가 증폭되었다. 전국 8개 지역에서 채취된 암나무와 수나무 각 80개체에 대한 분석을 통하여 SCAR-GBM 마커와 multiplex PCR 방법의 재현성이 확인되었다.

• Journal of Microbiology and Biotechnology
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• 제24권9호
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• pp.1189-1195
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• 2014

A strain-specific identification method is required to secure Chlorella strains with useful genetic traits, such as a fast growth rate or high lipid productivity, for application in biofuels, functional foods, and pharmaceuticals. Microsatellite markers based on simple sequence repeats can be a useful tool for this purpose. Therefore, this study developed five novel microsatellite markers (mChl-001, mChl-002, mChl-005, mChl-011, and mChl-012) using specific loci along the chloroplast genome of Chlorella vulgaris. The microsatellite markers were characterized based on their allelic diversities among nine strains of C. vulgaris with the same 18S rRNA sequence similarity. Each microsatellite marker exhibited 2~5 polymorphic allele types, and their combinations allowed discrimination between seven of the C. vulgaris strains. The two remaining strains were distinguished using one specific interspace region between the mChl-001 and mChl-005 loci, which was composed of about 27 single nucleotide polymorphisms, 13~15 specific sequence sites, and (T)n repeat sites. Thus, the polymorphic combination of the five microsatellite markers and one specific locus facilitated a clear distinction of C. vulgaris at the strain level, suggesting that the proposed microsatellite marker system can be useful for the accurate identification and classification of C. vulgaris.

• 한국약용작물학회지
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• 제21권5호
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• pp.353-360
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• 2013

Korean ginseng (P. ginseng C. A. Meyer) is one of the most important medicinal plant in the world. Understanding genetic variability among the assortment of Korean ginseng is important for breeding. The aim of this study was to molecularly characterize Korean ginseng cultivar and breeding lines through the use of eight previously reported STS markers (MFGp183, MFGp130, MFGp110, UFGp74, UFGp163, MFGp108, MFGp81 and UFGp156). All STS markers produced interpretable electropherograms from 31 accessions consisting of 11 Korean ginseng cultivars and 20 breeding lines. When eight STS markers were combined, we identified to total 19 genetic patterns; in particular, nine cultivars (Chunpoong, Yunpoong, Gopoong, Gumpoong, Sunpoong, Sunone, Cheongseon, Sunhyang, Cheonryang) and 5 breeding lines (G08012, G04079, G04075, G08036, G04110) in ginseng samples can be discriminated from the others. Together with other available markers, these STS markers will contribute to the management of ginseng genetic resources and the protection of breeders' rights.