• The Sea:JOURNAL OF THE KOREAN SOCIETY OF OCEANOGRAPHY
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• v.5 no.2
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• pp.157-168
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• 2000

Sea urchin S. intermedius occurring in the Korean east coast is a cold water species that belongs to the family Strongylocentrotidae of Echinoidea. Although it is known that there are nine species in the family, species identification criteria, phylogenetic relationships, time and process of evolution of the family members have not been uncovered clearly. In the present study, I tried to find some clues to such problems for S. intermedius by means of DNA sequences. For this, cytochrome c oxidase subunit I (COI), one of the mitochondrial genes that evolve fast and follow maternal inheritance was analyzed. DNA was extracted from the female gonad of S. intermedius, a segment of COI gene amplified by polymerase chain reaction (PCR), and finally a total of 1077 base pair sequence of COI obtained by cloning and sequencing the PCR product. The sequence was compared with homologous genes of other sea urchins and echinoderm species. Phylogenetic trees of the COI gene segment revealed that S. intenedius is a sister species of S. purpuratus which lives along the east coast of the Paciflc. With reference to the fossil records of sea urchins and genetic distances in the molecular phylogenies, it is estimated that the two species were separated about 0.89 million years ago when the earth temperature fluctuated significantly. The current disjunct distribution patterns of the two species and the climate change of the earth at the time of separation suggest that speciation might have occurred by vicariance. The COI gene sequence obtained here now can be used as a molecular character which discerns S. intermedius from the other sea urchin species of Strongylocentrotidae.

• Korean Journal of Plant Taxonomy
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• v.43 no.1
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• pp.34-45
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• 2013

The Polygonum amphibium complex (Poygonaceae) is a highly polymorphic taxon that can grow in aquatic environments as well as in moist terrestrial habitats. Aquatic and terrestrial plants of the P. amphibium complex vary significantly in morphology and exhibit very complicated patterns of morphological variation, resulting in the description of numerous infra-specific taxa. Principal components analysis of 107 individuals of the P. amphibium complex from Asia and North America using 11 morphological characters showed that the aquatic plants can be discerned from the terrestrial plants by leaf size, shape, and petiole length. In contrast, both aquatic and terrestrial plants collected from the same population or locality shared identical sequences in the matK, psbA-trnH IGS, rbcL-accD IGS and trnL-trnF regions of the chloroplast DNA (cpDNA), suggesting that aquatic and terrestrial forms of the P. amphibium complex are not genetically diverged; morphological differences between the two forms are probably due to the differences in environmental conditions of the habitats. In addition, results from the morphological analysis and the maximum parsimony analysis of the cpDNA data set revealed that the plants from Asia including Korea, Japan, China, Mongolia and Russia Far East are diverged from those in North America and Europe, suggesting that the Asian populations should be recognized as a distinct variety, P. amphibium var. amurense Korsh.

• Korean Journal of Environmental Biology
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• v.21 no.1
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• pp.45-51
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• 2003

Genetic diversity of local populations among geologically isolated groups of Rana amurensis was refined by sequence comparison of the mitochondrial (mt) 165 rDNA genes. Each 401 base pairs of DNA sequences, which was determined from four local populations of Rana amurensis, two local populations of R. nigromacutata, and three species of the genus Rana were used in this analysis. Despite morphological similarity of Rana amurensis, Korean populations were well distinguished from the other groups on the basis of 105 rDNA gene difference. Further analyses for additional local populations belonging to R. amurensis will be necessary to clarify the taxonomic status.

• Korean Journal of Environment and Ecology
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• v.11 no.2
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• pp.160-165
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• 1997

The objective of this study was to analyze dominance-diversity of Quercus mongolica community which characterize the boreal-temperate deciduous forest in Korea. Employing the releve method of Muller-Domboes and Ellenberg, 100 quadrats were sampled in the natural forest of Mt. Odae, Mt. Chumbong and Mt. Jungwang in Kangwon-do, where Quercus mongolica community is in the situation of climax or subclimax. On the basis of Braun-Blanquet method, field survey, which accounts ffor the characters of the species structure of Quercus mongolica community, was carried out between 1991 and 1994. Quercus mongolica community was relatively in a stable condition because of the even distribution of its various indices: the species diversity index was 0.4~1.2; the species richness index was 2~11; the evenness index was 0.6~0.9. The dominance-diversity curve were comparatively of lognormal distrivution with a gentle slope in all communities. The species sewuence curve for Quercus mongolica - Lindera obtusiloba community had relatively a steep slope, which meant that the evenness of the community would be low. The species sequence curve for Quercus mongolica - Carpinus cordata community had a slow slope, which meant that the evenness and the stability of the community would be high.

• Bioinformatics and Biosystems
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• v.1 no.2
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• pp.99-102
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• 2006

The Basic Local Alignment Search Tool (BLAST) is one of the most established software in bioinformatics research and it compares a query sequence against the libraries of known sequences in order to investigate sequence similarity. Expressed Sequence Tags (ESTs) are single-pass sequence reads from mRNA (or cDNA) and represent the expression for a given cDNA library and the snapshot of genes expressed in a given tissue and/or at a given developmental stage. Therefore, ESTs can be very valuable information for functional genomics and bioinformatics researches. Although major bio database (DB) websites including NCBI are providing BLAST services and EST data, local DB and search system is demanding for better performance and security issue. Here we present animal EST DBs and local BLAST search system. The animal ESTs DB in NCBI Genbank were divided by animal species using the Perl script we developed. and we also built the new extended DB search systems fur the new data (Local Animal BLAST Search System: http://bioinfo.kohost.net), which was constructed on the high-capacity PC Cluster system fur the best performance. The new local DB contains 650,046 sequences for Bos taurus(cattle), 368,120 sequences for Sus scrofa (pig), 693,005 sequences for Gallus gallus (fowl), respectively.

• Proceedings of the KSAR Conference
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• 2003.06a
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• pp.40-40
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• 2003

형질전환체 제작 시 발현벡터가 삽입되는 위치에 따라 발현 또는 억제되는 현상인 ‘position effect(위치효과)’를 극복하기 위해 Matrix Attachment Region(MAR)을 포함하는 발현벡터를 제작하였다 MAR는 핵 기질(nuclear matrix) 부착 부위로 발현조절에 관여하는 전사인자 등이 존재하는 핵 기질 부착부위로, 삽입된 발현벡터가 전사활성을 할 수 있는 게놈 환경을 제공해 주어 형질전환 유전자 발현을 향상시켜 준다고 보고되고 있다. 본 연구에서는 사람에서 이미 분리되어 염기서열이 밝혀진 MAR를 PCR로 증폭하였다. 증폭된 1,270 bp의 human alpha-1-antitrypsin MAR와 1,080 bp human corticosteroid binding globulin promoter MAR를 T vector에 클로닝하여 염기서열을 확인했으며 발현벡터 클로닝에 사용하였다. 유용 유전자와 세포 형질전환에 사용할 선별 유전자로 neo를 포함하며, 그 외 벡터골격은 pGL3 control vector를 사용하여 기본 발현벡터를 제작하였다. 이 벡터에 MAR를 5', 3' 양쪽 또는 한쪽만 포함하도록 클로닝하였다. 이는 MAR의 위치에 따른 게놈내 삽입 및 발현효과를 확인하여 형질전환동물 생산용 발현벡터로 활용하고자 한다.

• Korean Journal of Ecology and Environment
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• v.54 no.3
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• pp.240-246
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• 2021

The Chironomidae is a benthic macroinvertebrate commonly found in freshwater ecosystems, along with Ephemeroptera and Trichoptera, which can be used for environmental health assessments. There are approximately 15,000 species of Chironomidae worldwide, but there are limited studies on species identification of domestic Chironomidae larvae. In the present study, we carried out species classification of the Chironomidae larvae that found in Jeju's tap water purification plants using morphological characteristics and genetic identification based on cytochrome c oxidase subunit I (COI) gene of the mitochondrial DNA. Body shape, mentum, antenna, mandible in the head capsule, and claws were observed in the larvae for morphological classification. Analysis of 17 larvae collected from faucets and fire hydrants of domestic tap water purification plants revealed the presence of two species, including 14 Orthocladius tamarutilus and 3 Paratrichocladius tammaater. These results will aid the use of the criteria information about species classification of the Chironomidae for water quality management in water purification plants and diversity monitoring of freshwater environments.

• Korean Journal of Environment and Ecology
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• v.21 no.4
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• pp.318-335
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• 2007

Floral study and present vegetation survey were conducted at a representative reclaimed wetland located behind the Rural Research Institute at Ansan, Gyeonggi-do. The importance values were calculated from the ground cover and frequency of recorded species within quadrats and detrended canonical correspondence analysis was conducted using environment variables, such as total nitrogen, electric conductivity, available phosphate, nitrate nitrogen and the distance from the inner roads. And basal areas for the trees encroaching on the reclaimed wetland were estimated to take a look at the on-going situation about the succession routes on land. As a result, 46 families and 158 species of plants were recorded and Pragmites communis was found to be a dominant species as the present vegetation. The ordination analysis results showed that species distribution was purposely explained by total nitrogen in soil and its content in nitrate nitrogen. The invasion of Robinia pseudoacacia and Pinus rigida whose basal areas were $22.3m^2$ and $1.6m^2$ respectively, into the interior areas of the reclaimed wetland was found to cause a disturbance making some parts of the wetland into land. The zoning program using water level control and migratory roads is becoming a contributing factor in destroying a wetland, so it's suggested that some adjustments should be needed to take care of it.

• Journal of Environmental Science International
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• v.12 no.12
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• pp.1207-1213
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• 2003

Osancheon creek is located in the southwest of the middle area in Korea. Weed community around the Osancheon creek, where various disturbances exert a bad influence directly on its community by human work or nature, was surveyed phytosocialogically. Our surveys have been accomplished from June, 2003 to September, 2003. Weed communities formed around the Osancheon creek were divided into several patterns and analysed. They have been divided into 8 communities. Community A: Humulus japonica community, B: Phragmites communiscommunity, C: Persicaria thunbergii community, D: Zi=ania latifolia community, E: Miscanthus saccharilflorus community, F: Echinochica crusgalli community, G: Typha orientalis community, H: Sataria viridis community. The flora surveyed in these communities was constituted of 19 families, 36 genera, 4 varieties, and 40 species. Wild plants such as Artemisia princeps var. orientalis Erigeron annuus, Bidens frondosa, Aeschynomene indica and Oenothera odorata were mostly light loving plants and higher resistant plants against the disturbance. Our result from the ranking all surveyed areas by the Bray-Curtis ordination method was very similar to the results from phytosocialogical table work.

• Research in Plant Disease
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• v.27 no.3
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• pp.115-119
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• 2021

Sclerotinia rot was occurred on the leaf and stem of Peucedanum japonicum Thunb. in greenhouse field of Pohang city of Gyeongbuk province in Korea. The typical symptom of the disease was light brown spot and tipburn on infected leaves. The colony of the isolated fungus was white to light gray in color. Asci were cylindrical shape and 75-240×5.9-17.3 ㎛ in size. Apothecia were cup-shaped with numerous asci and 0.5-0.9 cm in size. Ascospores were aseptate and ellipsoid in shape, and 8.4-10.7×4.8-5.8 ㎛ in size. Sclerotia formed on the plants and potato dextrose agar medium were globose to irregular in shape and black in color. Partial sequencing of rDNA of this isolate showed that it was 100% consistent with that of Sclerotinia sclerotiorum. It was confirmed that the same lesion was formed by reinoculating this pathogen on a healthy P. japonicum Thunb. and the same strain was isolated. This is the first report on the Sclerotinia rot of P. japonicum Thunb. caused by S. sclerotiorum in Korea.