• Journal of the Korean Institute of Landscape Architecture
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• v.33 no.1 s.108
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• pp.71-80
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• 2005

In order to search for ecologically indicative characteristics on the street tree plots in Daegu area, plant communities and their floras were investigated. A total of 105 plots were collected and numerically analyzed by PCoA(Principal Coordinates Analysis). These plots were classified into 4 types containing 139 species, 97 genera, 42 families(including 37 exotic species): urban-dry type, urban-wet type, rural-dry type, rural-wet type. Habitat connectivity to the surrounding vegetation cover, extent and frequency of human impacts, and soil moisture recognizably were the main factors to allow the plots differentiation. Indicative species composition to these four types was generated as Eleusine indica-Eragrostis multicaulis-Oxalis corniculata to the urban-wet, Digitaria ciliaris-Eleusine indica-Eragrostis multicaulis to the urban-dry, Setaria viri-dis-Artemisia-Lactuca indica var. laciniata to the rural-wet, and Setaria viridis-Digitaria ciliaris-Erigeron canadensis to the rural-dry, respectively. Mean species number per plot for rural type was 2.5 times higher than for urban types. Street tree species representative to the rural-wet type is Zelkova serrata, which is a key species of potential natural vegetation in the alluvial land of Daegu area. Street tree plots were characterized by Eleusine indica showing the highest r-NCD value and also C4-assimilation grass plants. Views on the efficacy of the rural-wet type and the reinforcement of vegetation connectivity and soil moisture in rehabilitating street tree plots, are discussed.

• Asian-Australasian Journal of Animal Sciences
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• v.32 no.4
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• pp.467-476
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• 2019

Objective: This research was conducted to study the genetic diversity in several Indonesian cattle breeds using microsatellite markers to classify the Indonesian cattle breeds. Methods: A total of 229 DNA samples from of 10 cattle breeds were used in this study. The polymerase chain reaction process was conducted using 12 labeled primers. The size of allele was generated using the multiplex DNA fragment analysis. The POPGEN and CERVUS programs were used to obtain the observed number of alleles, effective number of alleles, observed heterozygosity value, expected heterozygosity value, allele frequency, genetic differentiation, the global heterozygote deficit among breeds, and the heterozygote deficit within the breed, gene flow, Hardy-Weinberg equilibrium, and polymorphism information content values. The MEGA program was used to generate a dendrogram that illustrates the relationship among cattle population. Bayesian clustering assignments were analyzed using STRUCTURE program. The GENETIX program was used to perform the correspondence factorial analysis (CFA). The GENALEX program was used to perform the principal coordinates analysis (PCoA) and analysis of molecular variance. The principal component analysis (PCA) was performed using adegenet package of R program. Results: A total of 862 alleles were detected in this study. The INRA23 allele 205 is a specific allele candidate for the Sumba Ongole cattle, while the allele 219 is a specific allele candidate for Ongole Grade. This study revealed a very close genetic relationship between the Ongole Grade and Sumba Ongole cattle and between the Madura and Pasundan cattle. The results from the CFA, PCoA, and PCA analysis in this study provide scientific evidence regarding the genetic relationship between Banteng and Bali cattle. According to the genetic relationship, the Pesisir cattle were classified as Bos indicus cattle. Conclusion: All identified alleles in this study were able to classify the cattle population into three clusters i.e. Bos taurus cluster (Simmental Purebred, Simmental Crossbred, and Holstein Friesian cattle); Bos indicus cluster (Sumba Ongole, Ongole Grade, Madura, Pasundan, and Pesisir cattle); and Bos javanicus cluster (Banteng and Bali cattle).

• Korean Journal of Microbiology
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• v.51 no.3
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• pp.209-220
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• 2015

In this study, gut bacterial communities in xylophagous insects were analyzed using the pyrosequencing of 16S rRNA genes for their potential biotechnological applications in lignocelluloses degradation. The result showed that operational taxonomic units (OTUs), species richness and diversity index were higher in the hindgut than in the midgut of all insect samples analyzed. The dominant phyla or classes were Firmicutes (54.0%), Bacteroidetes (14.5%), ${\gamma}-Proteobacteria$ (12.3%) in all xylophagous insects except for Rhinotermitidae. The principal coordinates analysis (PCoA) showed that the bacterial community structure mostly clustered according to phylogeny of hosts rather than their habitats. In our study, the two carboxymethyl cellulose (CMC)-degrading isolates which showed the highest enzyme activity were most closely related to Bacillus toyonensis $BCT-7112^T$ and Lactococcus lactis subsp. hordniae $NCDO\;2181^T$, respectively. Cellulolytic enzyme activity analysis showed that ${\beta}-1,4-glucosidase$, ${\beta}-1,4-endoglucanase$ and ${\beta}-1,4-xylanase$ were higher in the hindgut of Cerambycidae. The results demonstrate that xylophagous insect guts harbor diverse gut bacteria, including valuable cellulolytic bacteria, which could be used for various biotechnological applications.

• Korean Journal of Ecology and Environment
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• v.48 no.1
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• pp.68-76
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• 2015

There is no willow riparian vegetation in Jeju Island, Korea. Instead, a genetically-isolated population of Adina rubella is found in some parts of the riparian system. We describe its syntaxonomy and synecology. A total of 27 phytosociological relev$\acute{e}$s were collected, 11 relev$\acute{e}$s from 91 sites and 16 relev$\acute{e}$s from the previously published relevant materials. Data were analyzed by traditional Braun-Blanquet method and multivariate PCoA (Principal coordinates analysis). New syntaxa are distinguished, Adinion rubellae all. nov. and its type association Tripogono-Adinetum rubellae ass. nov. with two subassociations, typicum and rhododendretosum poukhanensae. Adino-Rhododendretum poukhanensae Itow et al. 1993 was discarded owing to mismatch of syntaxonomy and syngeography of Adina and Rhododendron phytocoena. The alliance Adinion is Jeju's regional and partly ombrotrophic vegetation occurring in pothole and rock crevice where are independent on ground-water table. We also suggest a revised alliance, Rhododendrion poukhanensae Lee 2004 ex. hoc loco in Korean peninsula, as a corresponding syntaxon to Adinion, which completely differs from Phragmito-Salicion. Finally we pointed out that Adina phytocoena requiring an absolutely monitoring has been threatened by river maintenance project of local government.

• Korean Journal of Plant Resources
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• v.29 no.3
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• pp.322-330
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• 2016

Understanding the genetic variation among landrace collections is important for crop improvement and utilization of valuable genetic resources. The present study was carried out to analyse the genetic diversity and associated population structure of 621 foxtail millet accessions of Korean landraces using 22 EST-SSR markers. A total of 121 alleles were detected from all accessions with an average of 5.5 alleles per microsatellite locus. The average values of gene diversity, polymorphism information content, and expected heterozygosity were 0.518, 0.594, and 0.034, respectively. Following the unweighted neighbor-joining method with arithmetic mean based clustering using binary data of polymorphic markers, the genotypes were grouped into 3 clusters, and population structure analysis also separated into 3 populations. Principal coordinate analysis (PCoA) explained a variation of 13.88% and 10.99% by first and second coordinates, respectively. However, in PCoA analysis, clear population-level clusters could not be found. This pattern of distribution might be the result of gene flow via germplasm exchanges in nearby regions. The results indicate that these Korean landraces of foxtail millet exhibit a moderate level of diversity. This study demonstrated that molecular marker strategies could contribute to a better understanding of the genetic structure in foxtail millet germplasm, and provides potentially useful information for developing conservation and breeding strategies.

• The Korean Journal of Ecology
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• v.28 no.1
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• pp.15-23
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• 2005

The black locust (Robinia pseudoacacia L.) forests were studied by a phytosociological approach. Particular attention was given to characterize the vegetation classification, distribution pattern, and ecological flora of the syntaxa classified. A total of 38 releves were analyzed by using Correlation coefficient, UPGMA as the clustering method, and Principal Coordinates Analysis for ordination. Ecological flora analyzed by plant character sets such as scrambler, annual and biennial plants, forest elements, and actual urbanization index. The analyzed data are based on site-releve matrix with relative net contribution degree (r-NCD) of species. A total of 77 families, 193 genera and 323 species of vascular plants are recorded. Camellino-Robinietum pseudoacaciae ass. nov. and Phragmites-Robinia pseudoacacia community were described. Main cluster and ordination could be separated: 1) urban type, 2) rural type, 3) riparian type, and 4) combined type. It is defined that the Robinietum is a representative unit on the black locust afforestation, Phragmites-Robinia community on the lentic zone in the river ecosystem, and Cameliino-Robinietum ailanthetosum altissimae as an urban forest type. The Robinietum was considered as a perpetual community.

• The Korean Journal of Ecology
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• v.28 no.2
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• pp.85-92
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• 2005

This study emphasizes syntaxonomy and syndynamics of intermediate (Zwischen) moor (area: 14,000 $m^2$) at Mt. Shinbul in Yangsan, southeastern Korean Peninsula. A total of 105 vascular plant species including 26 monitor-species were recorded. Analysis by the $Z\"{u}rich$-Montpellier School's method distinguished eight vegetation units: Eleocharitis-Blyxetum echinospermae ass. nov., Eriocaulon sikokianum-Utricularia racemosa community, Eleocharis wichurai-Molinia japonica community, Platanthero-Molinietum japonicas, Miscanthus sinensis for. purpurascens community, Tripterygium regelii community, Symplocos chinensis-Quercus mongolica community, Symplocos chinensis-Quercus dentata community. PCoA (Principal Coordinates Analysis) shows that vegetation changes and distributional aspects are associated with both moisture condition and sunlight on the ground layer and soil nutrient level (mesotrophic to oligotrophic). Most important to Molinietea japonicas being representative intermediate moor vegetation at the southeasternmost fringe of the Korean Peninsula is the local cooling effect by mountainous cloud and mist zone resulting in shorter and wetter growing season. The Yangsan moor vegetation was compared with earlier descriptions of related Mujechi moor from anthropogenic and natural moor vegetations.

• Korean Journal of Plant Resources
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• v.32 no.3
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• pp.244-253
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• 2019

In crop breeding program, information about genetic dissimilarity on breeding resources is very important to corroborate genealogical relationships and to predict the most heterozygotic hybrid combinations and inbred breeding. This study aimed to evaluate the genetic variation in Kenyan sunflower breeding lines based on simple sequence repeat (SSR). A total of 83 alleles were detected at 32 SSR loci. The allele number per locus ranged from 2 to 7 with an average of 2.7 alleles per locus detected from the 24 sunflower accessions and the average value of polymorphic information contents (PIC) were 0.384. A cluster analysis based on the genetic similarity coefficients was conducted and the 24 sunflower breeding resources were classified into three groups. The principal coordinates (PCoA) revealed 34% and 13.38% respectively, and 47.38% of total variation. It was found that the genetic diversity within the Kenyan sunflower breeding resources was narrower than that in other sunflower germplasm resources, suggesting the importance and feasibility of introducing elite genotypes from different origins for selection of breeding lines with broader genetic base in Kenyan sunflower breeding program.

• Korean Journal of Agricultural Science
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• v.48 no.4
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• pp.693-702
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• 2021

The aim of this study was to analyze the genetic diversity and distance of the Korean native black goat line. Thus far, this Korean native black goat line has not been studied intensively, especially in genetic diversity and relationship studies in comparison with other breeds. In total, eleven microsatellite (MS) markers were used to evaluate alleles from 391 Korean native black goats and foreign hybrid animals. The genetic diversity index was evaluated based on the allele distributions. Four Korean native black goat lines showed expected ranges of observed heterozygosity, expected heterozygosity, and polymorphism information content (PIC) values for use in genetic diversity research (0.509 - 0.643, 0.434 - 0.623 and 0.356 - 0.567). Lines from the Korean native black goat and foreign hybrid were clearly separated according to principal coordinates analysis (PCoA), phylogenetic tree and tended to be clustered in each Korean native black goat line. Thus, this study can be used for analyzing the genetic relationships between Korean native black goats and foreign breeds for line preservation and for fundamental information to determine breed improvement strategies.

• Journal of Animal Reproduction and Biotechnology
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• v.36 no.3
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• pp.154-161
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• 2021

A number of Korean Chicken breeds were registered in Domestic Animal Diversity Information System (DAD-IS, http://dad.fao.org/) of the Food and Agriculture Organization (FAO). Evaluation of genetic diversity and relationship of local breeds is an important factor towards the identification of unique and valuable genetic resources. Therefore, this study aimed to analysis the genetic diversity and relationship of 22 Korean Chicken breeds using 12 microsatellite (MS) markers. The mean number of alleles for each variety was 5.52, ranging from a 3.75 (Leghorn F; NF) to a 7.0 (Ross). The most diverse breed was the Hanhyup3 (HCC), which had the highest expected heterozygosity (H_Exp) (0.754) and polymorphic information content (PIC) (0.711). The NF was the least diverse population, having the lowest H_Exp (0.467) and PIC (0.413). As a result of the principal coordinates analysis (PCoA) and factorial correspondence analysis (FCA) confirmed that Hy-line Brown (HL) and Lohmann Brown (LO) are very close to each other and that Leghorn and Rhode Island Red (RIR) are clearly distinguished from other groups. Thus, the reliability and power of identification using 12 types of MS markers were improved, and the genetic diversity and probability of individual discrimination were confirmed through statistical analysis. This study is expected to be used as basic data for the identification of Korean chicken breeds, and our results indicated that these multiplex PCR marker sets will have considerable applications in population genetic structure analysis.