• Journal of Aquaculture
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• v.20 no.4
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• pp.255-259
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• 2007

Genetic diversity among four populations of Chinese shrimp Fenneropenaeus chinensis from Narodo, Yeonggwang, Taean and Chinese Bohai Bay was assessed by amplified fragment length polymorphism (AFLP) DNA fingerprinting. Total numbers of AFLP bands generated (ranging from 251 to 254) and average percent of polymorphic bands (27.1 to 28.1 %) were similar in the four populations. Heterozygosity and genetic diversity within or among the populations were very low for the populations with average values ranging from 0.1177 to 0.1288 and from 0.1099 to 0.1194, respectively. Analyses of pairwise distance, Fst index and genetic similarity among the populations also revealed the similar results with very low genetic differentiation each other. These results suggest that all the wild populations tested in the present analysis may be belonging to the same genetic origin, and also that they may have a close relationship in genetic structure without any significant differentiation.

• Korean Journal of Plant Resources
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• v.17 no.3
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• pp.227-238
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• 2004

Rhododendron micranthum is an endangered species in Korea. In order to develop the strategy of gene diversity conservation, estimation of the amount of genetic diversity, the genetic variation and relationship in the native populations of Rh. micranthum was performed on the basis of AFLP and RAPD analysis. Analysis of 56 accessions derived from 6 populations of Rh. micranthum with four AFLP primer combinations and ten RAPD primers detected a total of 33 polymorphic AFLP fragments and 15 polymorphic RAPD fragments, respectively. By UPGMA cluster analysis with molecular markers, the 56 accessions were grouped into three major clusters at 73.3% genetic similarity; group I consists of most accessions of populations I, II, IV, V and Ⅵ, group II consists of 7 accessions of population III, and group III consists of only two accessions of population IV. The geographic locations of the most accessions derived from six populations were not related to their position in the UPGMA cluster analysis, except for several accessions of populations III and IV. The genetic similarity of among six populations measured by AFLP and RAPD markers ranged from 0.66 to 0.99. Among them, population Ⅵ showed the highest GS with means of 0.87, while population I showed the lowest GS with means of 0.78. This result will be useful for designing the strategy of conservation in the native populations of Rh. micranthum.

• Electronics and Telecommunications Trends
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• v.32 no.1
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• pp.116-122
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• 2017

유전체 분석을 위한 시퀀싱 기술의 발전으로 유전체 데이터량이 폭발적으로 증가하고 있다. 저장 및 관리 비용 절감을 위해 유전체 데이터 압축 기술이 연구되고 있지만, 국제 표준의 부재로 다양한 포맷들이 사용되고 있다. 최근, MPEG에서 유전체 데이터의 압축 및 저장 표준에 대한 필요성을 받아들여 표준화 작업이 진행 중이다. 본고에서는 유전체 분석의 기본이 되는 염기서열의 분석 과정을 소개하고, 유전체 데이터 압축 및 저장 기술의 표준화 동향에 대해서 살펴보고자 한다.

• Proceedings of the Korean Aquaculture Society Conference
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• 2003.10a
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• pp.34-34
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• 2003

한국산 선발계통 및 일본산 양식계통과 이들 두 계통간 잡종 참돔 집단의 유전적 특성을 분석하기 위하여, RAPD (Random Amplified Polymorphic DNA) marker를 탐색하였다. 10개의 염기로 이루어진 200개의 random primer 분석을 통하여 polymorphic pattern을 나타내는 23개의 random primer를 선발하였으며, 각 primer의 재현성을 확인하였다. 이들 중 OPA-11 primer는 크기가 각각 600 bp, 650 bp 및 750 bp 인 3개의 DNA 단편에 의하여 4개의 genotype을 나타냈으며, 각 genotype의 빈도는 집단간차이를 보였고, 한국산 선발계통 집단에서는 4개의 genotype이 모두 발견되는 반면, 일본산 양식계통 및 일본산 양식계통을 포함한 교배집단에서는 특정 genotype만 발견되었다. OPA-11 primer 유래의 polymorphic DNA 단편을 cloning하고 염기서열을 결정하였으며, SCAR (Sequence Characterized Amplified Region) primer를 제작하고 분석하였다. 본 연구는 참돔집단의 유전적 특성 파악 및 집단 구별에 RAPD marker를 활용하였으며, 참돔 육종시 형질 및 기능관련 DNA marker 탐색에 적용하기 위하여, 이후의 연구에서는 SCAR과 RFLP 분석에 RAPD marker를 이용하여 100% 정확도를 갖는 RFLP maker를 찾고, MAS (Marker-Assisted Selection)에 적용하고자 한다.

• Korean Journal of Ecology and Environment
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• v.41 no.1
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• pp.98-103
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• 2008

Genetic diversity and population genetic structure within or among three stream populations (Gab, Baekgok and Ji streams) of Korean endangered natural monument fish, Iksookimia choii, were assessed by amplified fragment length polymorphism (AFLP). AFLP analysis using three primer combinations generated 104 to 106 AFLP bands, and percent polymorphic bands were similar in those three populations ranging 21.5 to 24.5%. Heterozygosity and genetic diversity within or among populations were quite low for all of these populations with average values ranging from 0.067 to 0.084 and from 0.076 to 0.087, respectively. Analyses of pairwise distance and genetic similarity among three populations of I. choii also revealed the similar results with very low genetic differentiation one another. Although pairwise Fst values were very low, our data clearly indicated distinct genetic differentiation among the three populations. This is the first report concerning the genetic diversity and differentiation of this species, and provides basic genetic information that should facilitate attempts to conserve this species.

• Horticultural Science & Technology
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• v.31 no.3
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• pp.337-343
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• 2013

The aims of this study were to compare genetic distances among 14 Phalaenopsis varieties using simple sequence repeat (SSR) and sequence-related amplified polymorphism (SRAP) marker systems and to determine the discrimination using SSR. A total of 111 SSR primers and 30 SRAP combinations were initially screened. Twelve SSR primers and thirty SRAP combinations showed high polymorphism among the 14 Phalaenopsis varieties including domestic breeding varieties, conserved in National Institute of Horticultural & Herbal Science (NIHHS). The amplified DNA fragments were separated by denaturing acrylamide gels and detected by silver staining method. A total of 474 polymorphic bands, including 55 by SSRs and 419 by SRAPs, were identified and used for genetic diversity analysis. Polymorphic bands were scored for calculating a simple matching coefficient of genetic similarity and cluster analysis with multi-variate statistical package (MVSP) 3.1. Fourteen Phalaenopsis varieties were classified into three major groups at similarity coefficient value of 0.683 and 0.66 using SRAP and SSR, respectively. Also we could discriminate these domestic breeding Palaenopsis varieties using only SSR 20 and SSR 22. The results indicate that SSR analysis is effective for discrimination among Phalaenopsis varieties and SRAP is useful for genetic diversity when there is no sequence information. These studied SSR and SRAP markers will be useful tools for genotype identification, germplasm conservation and genetic relationship study in Phalaenopsis.

• Proceedings of the Plant Resources Society of Korea Conference
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• 2023.04a
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• pp.35-35
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• 2023

안정적인 유묘의 확보는 스마트작물생산을 위한 공정육묘 생산에서도 중요하며, 기내배양시 유전적 안정성이 높은 유묘의 대량증식은 유묘생산과 공정육묘생산에서 중요한 과정이다. 기내배양시 배양과 정에서 존재하는 체세포영양계변이(somaclonal variation)라는 장벽을 제거하는 것이 중요하다. 본 연구에서는 화본과 식물인 홍띠(Imperata cylindrica ‘Rubra’)로부터 기관분화 단계별 재분화체를 작성하여 기관분화 시 기내재생체의 유전적 안정성을 조사하였다. ISSR 마커에 기반하여 유전적 변이성을 조사하고자 7종류 총 21개체의 기관분화 단계별 재분화체 및 재분화식물체에 대하여 분석한 결과, 유전적 다형성은 기관분화 단계별 재분화체 및 순화 재분화체에서 대조구인 모식물체(1.4％) 대비 같거나 높게 나타나서 재분화체에서 유전적 안정성이 다소 낮은 것으로 나타났다. 또한, Jaccard 계수(Jaccard coefficient)로 총 21개체들 간의 유전적 유사도 지수를 평가한 결과, 유전적 유사도 지수는 0.747~1.0 사이에 분포하며, 평균 0.868로 나타났다. ISSR 마커 밴드에 기반하여 평균연결법(Average linkage method)으로 군집 분석한 결과, 모든 개체는 유사도 지수 0.809 ~ 1.000 내에 분포하였다. 유전적 유사도 지수 0.809에서 2개 그룹으로 유집되었으며, 모식물체와 실내재배, 노지재배 재분화 녹색 식물체가 같은 그룹으로 분류되었다. 이상의 결과는 화본과 식물의 기내배양에서 기관분화 시 존재하는 체세포영양계변이에 대한 기초 정보를 제공해 준다. 이들 기관분화에 따른 기내재생체의 안정성에 대한 연구자료는 향후 기내식물의 안정적인 대량번식에 있어 유익한 배경을 제공해 줄 것이다.

• Korean Journal of Environmental Biology
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• v.26 no.2
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• pp.66-75
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• 2008

The level of genetic diversity and genetic relationships among Korean ring-necked pheasant (Phasianus colchicus karpowi) habitat and subspecies have been investigated based on Inter Simple Sequence Repeat (ISSR) markers. Wild and domesticated Korean ring-necked pheasant, hybrids between domesticated Korean ring-necked and foreign subspecies, and four foreign subspecies; Chinese ring-necked (P. c. torquatus), Melanistic mutant (P. c. mut. tenebrosus), XL White (P. c. mut) and Southern green (P. c. versicolor) were used for comparison. On the basis of the results of AMOV A, 94.08% of genetic diversity in Korean ring-necked was allocated among individuals within habitat differences. Estimate of $\Phi$st, which represents the degree of genetic differentiation among habitats was 5.9%. Based on the dendrogram reconstructed by UPGMA, Yangpyung habitat of the eight habitats turned out to be distinct from others habitat. Interestingly, domesticated Korean ring-necked and hybrid mixture showed closer genetic relationship with four foreign subspecies than Korean ring-necked. As a consequence of AMOVA, 96.63% of genetic diversity in four foreign subspecies was allocated among individuals within subspecies. Estimate of $\Phi$st representing the degree of genetic differentiation among subspecies was 3.4%, which was lower than that among habitats of Korean ring-necked. The lower level of genetic difference among four foreign subspecies showed that these subspecies were genetically closer even though they were morphologically classified into four different subspecies. When seven habitats of Korean ring-necked pheasant and four foreign subspecies were divided into Korean and Foreign Pheasant Groups, respectively, more than 17% of genetic diversity was allocated between groups (about 4% among habitats/subspecies within groups). This observation implied that Korean ring-necked pheasant is genetically quite different from four foreign subspecies. On the basis of cluster analysis, three foreign subspecies (Chinese ring-necked pheasant, Melanistic mutant pheasant, and XL White pheasant) formed a distinct group with domesticated Korean ring-necked pheasant and hybrid mixture at 98% confidence interval.

• Korean Journal of Ecology and Environment
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• v.41 no.3
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• pp.395-401
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• 2008

Genetic diversity and differentiation within or among nine populations of introduced fish, largemouth bass Micropterus salmoides were assessed by AFLP. The AFLP analysis using three primer combinations generated 299.2. AFLP bands and percentage of polymorphic bands were similar in those nine populations, ranging 14.1 to 21%. Heterozygosity and genetic diversity within or among populations were quite low for all of these populations with average values ranging from 0.054 to 0.067 and from 0.069 to 0.085, respectively. Analyses of pairwise distance and genetic similarity among nine populations of Micropterus salmoides also revealed the similar results with low genetic differentiation one another. Although pairwise Fst values were low, they were indicated a clear distinct genetic differentiation among the nine populations. These results indicate that very small population of the largemouth bass was first introduced to Paldang reservoir and they are widely spread at most of aquatic habitats in Korea.

• The KIPS Transactions:PartD
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• v.18D no.2
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• pp.89-100
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• 2011

The CNV (Copy Number Variation) which is one of the genetic structural variations in human genome is closely related with the function of gene. In particular, the genome-wide association studies for genetic diseased persons have been researched. However, there have been few studies which infer the genetic function of CNV with normal human. In this paper, we propose the analysis method to reveal the functional relationship between common CNV and genes without considering their genomic loci. To achieve that, we propose the data integration method for heterogeneity biological data and novel measurement which can calculate the correlation between common CNV and genes. To verify the significance of proposed method, we has experimented several verification tests with GO database. The result showed that the novel measurement had enough significance compared with random test and the proposed method could systematically produce the candidates of genetic function which have strong correlation with common CNV.