• Horticultural Science & Technology
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• v.17 no.1
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• pp.23-28
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• 1999

To examine taxonomic relationships among 53 plums derived from Prunus cerasifera, P. domestica, and P. salicina, principal component analysis (PCA) and cluster analysis on 27 morphological characters were conducted. Of 27 characters, leaf size, leaf shape, and leaf hair were useful characters for plum identification and understanding of taxonomic relationships among them. Leaf length, petiole length, number of leaf nectaries, leaf shape, leaf base, and date of full blooming showed the clear differences between P. salicina group and P. domestica group. Results of cluster analysis using scores of the first three principal components indicated that 53 plums could be grouped into P. salicina-P. cerasifera, P. domestica, and P. spinosa phenon at 1.0 of average distance in UPGMA. Although PCA was useful for rough classification of plums, much more characters were needed for the exact classification.

• Korean Journal of Plant Resources
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• v.15 no.1
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• pp.26-35
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• 2002

Abeliophyllum distichum Nakai (O1eaceae) is a monotype of Korea and is distinguished from related genus Forsythia Vahl by the morphological characters such as fruit shape, flower color and etc. Even though several intraspecific taxa were reported according to the color of flowers and shape of fruits, there have been many controversals on the taxonomic indentity and status of rank on those taxa. In the present study, we performed the RAPD analysis to delimit the infraspecific taxa of Abeliophyllum distichum and to investigate the genetic polymorphism and relationships among 12 populations. 212 scorable RAPD markers with 70 common markers were found from the PCR reactions with 16 random oligoprimers and were analyzed by Nei's genetic distance. From 0.108 to 0.321 of genetic variations were showed among the taxa. Some regional groups instead of same taxa were clustered from the phonogram of UPGMA analysis. Also, we could not find distinct lineage among intraspecific taxa. The result from RAPD analysis supported that the infraspecific taxa of Abeliophyllum distichum might be the individual variations and treated as the same taxa. RAPD analysis was very useful to confirm the high gene pool with diverse genetic polymorphism among Abeliophyllum distichum populations.

• Journal of Microbiology and Biotechnology
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• v.23 no.10
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• pp.1347-1356
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• 2013

Tricholoma matsutake, an ectomycorrhiza that has mutual relationships with the rootlet of Pinus denisflora, forms a fruiting body that serves as a valuable food in Asia. However, the artificial culture of this fungus has not been successful. Soil fungi, including T. matsutake, coexist with many other microorganisms and plants; therefore, complex microbial communities have an influence on the fruiting body formation of T. matsutake. Here, we report on the structures of fungal communities associated with the fairy ring of T. matsutake through the pyrosequencing method. Soil samples were collected inside the fairy ring zone, in the fairy ring zone, and outside the fairy ring zone. A total of 37,125 sequencing reads were obtained and 728 to 1,962 operational taxonomic units (OTUs) were observed in the sampling zones. The fairy ring zone had the lowest OTUs and the lowest fungal diversity of all sampling zones. The number of OTUs and fungal taxa inside and outside the fairy ring zone was, respectively, about 2 times and 1.5 times higher than the fairy ring. Taxonomic analysis showed that each sampling zone has different fungal communities. In particular, out of 209 genera total, 6 genera in the fairy ring zone, such as Hemimycena, were uniquely present and 31 genera, such as Mycena, Boletopsis, and Repetophragma, were specifically absent. The results of metagenomic analysis based on the pyrosequencing indicate a decrease of fungal communities in the fairy ring zone and changes of fungal communities depending on the fairy ring growth of T. matsutake.

• Journal of Applied Biological Chemistry
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• v.59 no.4
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• pp.299-304
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• 2016

When used for amplicon sequencing, Illumina platforms produce more than hundreds of sequence artefacts, which affects operational taxonomic units based analyses such as differential abundance and network analyses. Nevertheless it has become a major tool for fecal microbial community analysis. In addition, results from sequence-based fecal microbial community analysis vary depending on conditions of samples (i.e., freshness, time of storage and quantity). We investigated if freeze-drying samples could improve quality of sequence data. Our results showed reduced number of possible artefacts while maintaining overall microbial community structure. Therefore, freeze-drying feces prior to DNA extraction is recommended for Illumina-based microbial community analysis.

• Korean Journal of Plant Taxonomy
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• v.38 no.1
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• pp.31-42
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• 2008

It was revaluated about taxonomic position of Bupleurum latissimum Nakai (Apiaceae) by the cluster analysis, the principal component analysis, and the discriminant analysis. Its diagnostic characteristics include bracteole length longer than umbellules, 16-21 pedicel numbers, plant with evergreen leaves, chromosome number 2n = 16 and cauline leaves with auriculate base. It is morphologically similar to B. euphorbioides in having ovate bracteoles, 16-21 pedicel numbers, chromosome number 2n = 16, and cauline leaves with auriculate base, but distinguished from B. longiradiatum with having linear bracteoles, 7-15 pedicel numbers, and chromosome number 2n = 12. Morphological characters support that Bupleurum latissimum Nakai is a Korean endemic species.

• Korean Journal of Plant Taxonomy
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• v.34 no.3
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• pp.205-220
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• 2004

Numerical analysis based on the 67 morphological characters from 28 populations of 6 species of Korean Rhus sensu lato (Anacardiaceae) was performed for the taxonomic delimitation. Based on the results of PCA with 47 quantitative characters, the sum of contributions for the total variance of three major principal components was 77,9% (PCl 35.2%, PC2 22.5% and PC3 20.2%). The sum of contributions for the total variance of three major principal components were 90,7% (PCl 37.7%, PC2 33.0% and PC3 20.0%) based on the results of PCA with 20 qualitative The characters. Two dimensional plotting from PCA results recognized six distinct species. UPGMA phenogram based on simple matching coefficient method recognized clear taxonomic delimitations among six taxa. On the cluster analysis, qualitative characters were more useful for grouping the species treated. Numerical analysis was very valuable to delimit the Korean taxa of Rhus s.l.

• The Korean Journal of Mycology
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• v.19 no.4
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• pp.258-265
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• 1991

Ubiquinone compounds of strains in Leucosporidium scottii, Leucosporidium fellii, Leucosporidium lari-marini, and Rhodosporidium fluviale were analyzed by the high performance liquid chromatography. The Q-9 or Q-l0 compounds, independent on mating or self-sporulating type, were determined in the analyses of Leucosporidium scottii strains. Particularly, there is heterogenous in the quinone compounds in the same strain of L. scottii. These results showed reassessment of the quinone compounds as a taxonomic criterion; L. fellii had the Q-9 compound, L. lari-marini the Q-8 compound, and R. fluviale the Q-10 compound, Taxonomic position of L. lari-marini should be elucidated on the basis of analysis of Q-compound with other aspects.

• Parasites, Hosts and Diseases
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• v.43 no.1 s.133
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• pp.7-13
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• 2005

The taxonomy of Acanthamoeba spp., an amphizoic amoeba which causes granulomatous amoebic encephalitis and chronic amoebic keratitis, has been revised many times. The taxonomic validity of some species has yet to be assessed. In this paper, we analyzed the morphological characteristics, nuclear 18s rDNA and mitochondrial 16s rDNA sequences and the Mt DNA RFLP of the type strains of four Acanthamoeba species, which had been previously designated as A. divionensis, A. parasidionensis, A. mauritaniensis, and A. rhysodes. The four isolates revealed characteristic group II morphology. They exhibited 18S rDNA sequence differences of $0.2-1.1\%$ with each other, but more than $2\%$ difference from the other compared reference strains. Four isolates formed a different clade from that of A. castellanii Castellani and the other strains in morphological group lion the phylogenetic tree. In light of these results, A. paradivionensis, A. divionensis, and A. mauritaniensis should be regarded as synonyms for A. rhysodes.

• Fisheries and Aquatic Sciences
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• v.21 no.3
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• pp.8.1-8.6
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• 2018

Desmarestia japonica (Phaeophyceae, Desmarestiales) was recently established from the Japanese ligulate Desmarestia and is morphologically similar to D. ligulata. This species has been reported only from Japan. However, the taxonomic reports based on additional regional distributions are needed to clarify this taxonomic entity and its species boundaries. Because Desmarestia species have restricted distributions in Korea, we reexamined herbarium specimens of D. ligulata deposited at the National Institute of Biological Resources (South Korea). To improve the amplification efficiency of the polymerase chain reaction and avoid contamination by the DNA of other organisms, we developed taxon-specific molecular markers suitable for DNA barcoding of Desmarestia species. Nuclear ribosomal small subunit RNA (18S rDNA) and mitochondrial cytochrome c oxidase 1 (cox1) regions were selected as target DNA. As a result, both were successfully isolated from herbarium specimens of D. japonica acquired over 10 years. These molecular markers provide useful genetic information for herbarium specimens for which conventional molecular analysis is challenging.

• Mycobiology
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• v.43 no.3
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• pp.225-230
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• 2015

The polypore genus Abundisporus Ryvarden is characterized by resupinate to pileate fruitbodies with a purplish brown hymenophore, slightly thick-walled, pale yellowish and non-dextrinoid basidiospores, and causing white rot. A purple color hymenophore, an easily observable and striking character, was considered the main distinctive feature at the generic level within polypores. However, due to highly similar basidiocarp features, species identification within these purple polypores is particularly difficult. Three species of purple colored polypores have been reported in Korea (Abundisporus fuscopurpureus, A. pubertatis, and Fomitopsis rosea). Based on morphological re-examination, ecological information, and sequence analysis of the internal transcribed spacer, we showed that previous classification was incorrect and there is only one species (A. pubertatis) in Korea. We provide a detailed description of A. pubertatis in Korea, as well as a taxonomic key to distinguish wood rot fungi with a purple hymenophore.