• The Korean Journal of Ecology
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• v.27 no.3
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• pp.161-164
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• 2004

The compositions of the leaf monoterpenoids in 7 species of Thuja (Thuja orientalis, T. orientalis 'Avrea Nana', T. orientalis cv. compacts, T. occidentalis, T. occidentalis 'Boothii', T. occidentalis 'Pumila', T. occidentalis 'Tiny Tim') were analyzed by GC-MS and compared between species. These Thuja contains 30 compounds and α -pinene, camphene, sabinene, myrcene, limonene, bonyl acetate, γ-terpinene, α -terpinenyl acetatee are occurred in these all species. Compounds in these leaf extracts are remarkably different between species. The simplest monoterpenoid (11 compounds) was found in T. orientalis 'Avrea Nana' the most complex monoterpenoid was in T. occidentalis 'Pumila'(26 compounds). Based on these data, similarities are computed using presence/absence matching by PAUP (Phylogenetic Analysis Using Parsimony). It appears that four taxa are present within these Thuja plants. The minimum spanning network reveals that Thuja occidentalis and Thuja occidentalis 'Boothii' were the most similar compounds.

• The Korean Journal of Malacology
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• v.21 no.2 s.34
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• pp.147-161
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• 2005

To elucidate the phylogenetic relation of the superfamily Veneroidea, we obtained partial 28S rRNA sequences of 14 heterodonts and three pteriomorphs which were collected from Korea and the sequence data of related taxa from GenBank, and analyzed maximum parsimony with PAUP program 750 of the nucleotide positions were variable, 560 of which were informative under conditions of parsimony. Total tree length was 2,765, and consistency index, homoplasy index (HI), and Retention index was 0.4843, 0.5157, and 0.6291, respectively. Intraspecific variation of 28 rRNA of Corbicula fluminea and Sinonovacula constricta was 3.1% and 1.3%, respectively. Pitarinae-Cyclininae-Meretrinae group had a clade and Samaranginae, Chioninae, and Dorsininae were clustered.

• Journal of Life Science
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• v.14 no.6 s.67
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• pp.938-950
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• 2004

We used portions of mitochondrial 125 ribosomal RNA gene sequences (339 bp) to investigate the phylogenetic and population genetic characteristics of the Japanese anchovy, Engraulis japonicus, in Korean waters. A total of 35 mtDNA haplotypes were obtained from the samples collected in 3 locations (the southern area of the Yellow Sea, the western coast of Jejudo, and the eastern area of the South Sea) in Korean waters. One haplotype, AN8T103, obtained from the southern area of the Yellow Sea, was formed according to an independent phylogenetic individual in the PAUP analysis, which was separated from the others by a $0.2-4.1\%$ sequence divergence. This distinct haplotype appeared to be one that was carried by immigrants from another study area, but further study is necessary. Genetic divergence, except for AN8T103, was moderate to substantial $(0.2-3.8\%)$ and nucleotide diversity within populations was 0.015 for Yellow Sea, 0.013 for Jejudo, and 0.D15 for South Sea, respectively. The female gene flow was substantial or high (Nm=25.5-36.4), and the genetic distances between regions were not statistically significant $(P>0.01)$. These results indicated that the Japanese anchovy populations occurring in Korean waters were consisted of individuals randomly dispersed over geographic areas.

• Journal of Life Science
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• v.12 no.6
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• pp.821-834
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• 2002

In order to measure the inter- and intraspecific genetic divergences within the genus Alexandrium, the variations within the internal transcribed spacer (ITS1 and ITS2) regions and 5.85 ribosomal RNA gene of eight Alexandrium species were examined for 33 strains from diverse geographical locations by direct sequencing. Five isolates of A. tamarense (AT-2, AT-6, AT-10, AT-A and AT-B) from Jinhae Bay, Korea were found to be completely identical to a Japanese strain OFX151-A. The length of the amplified ITSI-5.85-ITS2 region varied from 481 nucleotides (in A. margalefi) to 528 nucleotides (in A. affine CU1-1). ITS1 and ITS2 nucleotide lengths were negatively correlated, whereas a positive correlation was found between their G＋C content. The degree of sequence divergence ranged from 0.3% (1 bp) to a maximum of 53% (305 Up). Pairwise sequence comparisons revealed a small degree of divergence between A. tamarense and A. Pundyense isolates (1.2 - 2.3% ＝ 6-12 bp), but a high degree of divergence between A. tamarense and A. catenella (19.8% ＝ 102 bp), and between A. catenella and A. Pundyense (19.7%). Although most nodes were weakly supported by bootstrap values, some types tend to form independent molecular groups. A. catenella isolates also formed an independent molecular sub-group, with relaticula strong bootstrap values (94% or 85% and 79% or 98%, respectively in PAUP and NJ trees). Interestingly, A. cohorticula and A. frateculus always clustered within the same sub-group, this result being supported by strong bootstrap values. Our results indicate that the ITS regions provide useful informations on hierarchical population genetic structure and a high phylogenetic resolution in intraspecific and interspecific Alexandrium population.

• Parasites, Hosts and Diseases
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• v.35 no.4
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• pp.277-282
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• 1997

The only observed morphological difference between Spirometra erinqsei and S. mcnsonoides is the uterine shape of the mature proglottid. Two species of worms are thought to be evolutionarily closely related. Biomolecular colnparison of the ho worms by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis was conducted to observe the genetic distance. The 285 rDNA, mitochondrial cytochrome c oxidase subunit I (mCOI), and ribosomal internal transcribed spacer 1 (ITSI) fragments were obtained from the worms by PCR. The PCR products were cleaved by 5 four-base pair restriction enzyme combinations (Msp I, Hae III, Alu I, Cfo I, Rsa I) , electrophoresed and analyzed with PAUP 3.1.1. The fragment Patterns or 285 rDNA and Lni demonstrated that two worms were in identical systematic tree with bootstrap number 94 and 100, respectively As for mCOI, bootstrap number was 74 in a different tree. Above results are indicative of recent common ancestry between S. etinocei and S. mansonoides.

• The Korean Journal of Ecology
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• v.24 no.6
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• pp.359-364
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• 2001

Regional variations of Dictyostelid cellular slime molds were examined using molecular data. The intertranscribed spacer regions including the 5.8S ribosomal DNA of 2 species(D. purpureum, P. violaceum) of Cellular Slime Molds were sequenced and analyzed. Among 13 strains of D. purpureum and 12 strains of P. violaceum analyzed, each two strains were obtained from ATCC and the others were isolated from the forest soils in Korea. The sequences of the 5.8S ribosomal DNA were conserved among the strains of the same species, but unexpectedly highly variable among species. A high level of genetic diversity was found which was best resolved at the genus/species level as well as the family level by sequence data from the ITS 1 and ITS 2 regions. According to the sequence alignments by CLUSTAL X and the phylogeographic analyses by PAUP, 12 strains of P. violaceum were divided into three groups among which there were no difference of the morphological characteristics. Among 13 strains of D. purpureum, genetic variations were related to two morphological types, the temperate and subtropical type. There was no variation pattern according to geography in Korea, but there were some variations between Korea and other countries.

• Parasites, Hosts and Diseases
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• v.45 no.3
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• pp.181-190
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• 2007

The phylogenie relationships existing among 14 parasitic Platyhelminthes in the Republic of Korea were investigated via the use of the partial 28S ribosomal DNA (rDNA) D1 region and the partial mitochondrial cytochrome c oxidase subunit 1 (mCOI) DNA sequences. The nucleotide sequences were analyzed by length, G + C %, nucleotide differences and gaps in order to determine the analyzed phylogenie relationships. The phylogenie patterns of the 28S rDNA D1 and mCOI regions were closely related within the same class and order as analyzed by the PAUP 4.0 program, with the exception of a few species. These findings indicate that the 28S rDNA gene sequence is more highly conserved than are the mCOI gene sequences. The 28S rDNA gene may prove useful in studies of the systematics and population genetic structures of parasitic Platyhelminthes.

• Animal cells and systems
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• v.3 no.1
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• pp.79-87
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• 1999

Mitochondrial DNA (mtDNA) from 54 specimens of the blue mussel (Mytilus edulis) species complex sampled from the southern coast of Korea was assayed for polymorphism with a portion of the COIII gene (336 bp). Fifteen haplotypes were found. PAUP, one-step networks, and PHYLIP analyses revealed the presence of two clearly differentiated mitochondrial clades (termed clades B and E), separated by 3.6% of minimum sequence divergence. The distribution pattern of the species appears to be consistent with category II of the phylogeographic pattern sensu (Avise et al., 1987): the presence of two discontinuous and distinct mtDNA genotypes in the same geographic region. This unusual mitochondrial polymorphism was explained by the presence of the Mediterranean species, M. galloprovincialis, possessing mtDNA of both M. galloprovincialis and M. edulis.

• Journal of Plant Biotechnology
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• v.30 no.3
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• pp.221-226
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• 2003

Genetic variation of Perilla germplasms was investigated using RAPD markers. Forty-two Perilla frutescens lines and cultivars collected form locals were subjected to RAPD analysis using 220 primers. Among them only 13 primers showed polymorphic bands and these 13 primers provided a total of 144 bands, consist of 115 polymorphic and 29 monomorphic ones. The polymorphic bands were subjected to phylogenetic analysis using UPGMA and maximum parsimony (MP) methods. In the UPGMA method, similarity coefficiency of 42 Perilla frutescens lines and cultivars ranged from 0 to 0.7842. The dendrogram of 42 lines and cultivars obtained through UPGMA method resulted in two major groups, and the similar clustering pattern was found by MP method, suggesting Perilla germplasms utilized in this study truly can be divided into two major groups. Although the two major groups were consistent roughly with their phenotypes (under of node, weight of 1,000 grains, and oil content), in detail, much inconsistency also was present.

• International Journal of Industrial Entomology and Biomaterials
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• v.7 no.2
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• pp.181-189
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• 2003

We describe here the complete nucleotide sequence and the exon-intron structure of the luciferase gene of the firefly, Pyrocoelia rufa. The luciferase gene of the P. rufa firefly consisted of six introns and seven exons coding for 548 amino acid residues. From the translational start site to the end of last exon, however, the genomic DNA length of the P. rufa luciferase gene from the Korean and Chinese samples spans 1,968 bp and 1983 bp, respectively, and 3 amino acid residues were different to each other. Additionally, we also analyzed mitochondrial cytochrome oxidase I(COI) gene of the Chinese P. rufa fireflies. Analysis of DNA sequences from the mitochondrial COI protein-coding gene revealed 4 mitochondrial DNA sequence-based haplotypes with a maximum divergence of 0.7％. With the 20 P. rufa haplotypes found in Korea, phylogenetic analyses using PAUP and PHYLIP subdivided the P. rufa into three clades, termed clades A and B for the Korean sample, and clade C for the Chinese sample.