• Korean journal of applied entomology
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• v.51 no.4
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• pp.365-370
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• 2012

The two closely related major leguminous crop pests in Korea, Matsumuraeses phaseoli and M. falcana (Lepidoptera: Tortricidae) have very similar morphological characters, which occasionally give rise to a failure in distinguishing between the two. In this study, we report an easy PCR-SSP method to distinguish between them, with a sequence specific primer set (P-SF2, F-SF3, and C-SR3) based on single nucleotide mismatch in 3' terminal base of a primer, which is found in the mitochondrial cytochrome c oxidase subunit I DNA (mtCOI). Through application of this method, each species may be clearly identified in terms of its PCR band size and pattern, only one band (245 bp) for M. falcana and one (409 bp) or two bands (409 bp & 245 bp) for M. phaseoli.

• Parasites, Hosts and Diseases
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• v.42 no.2
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• pp.71-75
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• 2004

To determine the molecular phylogenie location of Plagiorchis muris, 28S D1 ribosomal DNA (rDNA) and mitochondrial cytochrome C oxidase subunit I (mtCOI) were sequenced and compared with other trematodes in the family Plagiorchiidae. The 28S D1 tree of P. muris was found to be closely related to those of P. elegans and other Plagiorchis species. And, the mtCOI tree also showed that P. muris is in a separate clade with genus Glypthelmins. These results support a phylogenie relationship between members of the Plagiorchiidae, as suggested by morphologic features.

• Parasites, Hosts and Diseases
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• v.42 no.3
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• pp.129-135
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• 2004

We compared the DNA sequences of the genus Metagonimus: M. yokogawai, M. takahashii, and M. miyatai. We obtained 288 D1 ribosomal DNA (rDNA) and mitochondrial cytochrome c oxidase subunit I (mtCOI) fragments from the adult worms by PCR, that were cloned and sequenced. Phylogenetic relationships inferred from the nucleotide sequences of the 28S D1 rDNA and mtCOI gene. M. takahashii and M. yokogawai are placed in the same clade supported by DNA sequence and phylogenie tree analysis in 28S D1 rDNA and mtCOI gene region. The above findings tell us that M. takahashii is closer to M. yokogawai than to M. miyatai genetically. This phylogenetic data also support the nomination of M. miyatai as a separate species.

• Animal Systematics, Evolution and Diversity
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• v.23 no.1
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• pp.75-85
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• 2007

A taxonomic study was carried out on the Perinereis nuntia species group of Korea by using morphological and molecular data (mitochondrial cytochrome c oxidase subunit I: mtCOI). Two species, P. mictodonta (Marenzeller, 1879) and P. wilsoni (Glasby and Hsieh, 2006), are recognized and redescribed. In this study, mtCOI gene showed a good resolution as molecular marker for species identification of the P. nuntia species group of Korea.

• Korean Journal of Ecology and Environment
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• v.53 no.3
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• pp.265-274
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• 2020

Silver croaker (Pennahia argentata) is a turbulent species that is widely distributed worldwide and is mainly found in the bottom of the ocean. In the study, we characterized the cytochrome c oxidase subunit I (COI) gene of the mitochondrial DNA (mtDNA) on P. argentata inhabiting Gwangyang Bay and analyzed the phylogenetic location of marine fish species. As a result of multiple arrangement of 605 bp COI sequences, high homology of mtDNA nucleotide sequences was confirmed in the silver croakers from Gwangyang Bay (98~100%). However, the nucleotide variation was different according to the catching points of the inland and the open seas of Gwangyang Bay. The nucleotide sequence variation in COI was high in P. argentata from the open seas of Gwangyang Bay (43.2~70.3%). Furthermore, the phylogenetic analysis of 13 fish showed that P. argentata from Gwangyang Bay were grouped into one clade with P. argentata reported in Taiwan, and the evolutionary distance was 0.036. In addition, it was identified that the evolutionary distance was close to that of fish belonging to the Mi-iuy croaker (Miichthys miiuy) and the Big-head pennah croaker (Pennahia Macrocephalus) (0.041~0.048). The result of these studies will be used as the key genetic information for fisheries resources monitoring and species diversity management according to the coastal environment.

• Fisheries and Aquatic Sciences
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• v.9 no.3
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• pp.101-106
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• 2006

The cytochrome c oxidase subunit I (COI) gene region of mitochondrial DNA (mtDNA) was examined in four abalone species to estimate its utility as a genetic marker using restriction fragment length polymorphism (RFLP) analysis. The utility was evaluated in terms of genetic divergence and relationships among Haliotis discus hannai, H. rufescens, H. rubra, and H. midae in both hemispheres of the world. There was clear genetic divergence in the mtDNA COI region between all pairs of the four species. Moreover, relationships among the abalone species were reflected in their geographical distributions and morphological characteristics. Therefore, RFLP analysis of the mtDNA COI region is a suitable genetic marker for the estimation of genetic divergence and relationships among abalone species. However, it is not effective for the evaluation of genetic differences within abalone species.

• Journal of Life Science
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• v.24 no.6
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• pp.626-632
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• 2014

The genetic structure and phylogenetic relationship were investigated in Korean red spotted grouper populations using the nucleotide sequence polymorphisms of the mitochondrial DNA (mtDNA) cytochrome c oxidase subunit I (COI) gene. The COI gene was sequenced showed 99.1-99.8% identity with the EF607565 sequence previously reported. A total of twenty haplotypes were found, and the Korean population showed nineteen haplotypes. Among those, Hap_03 and Hap_08 showed Jeju-do and China-specific COI sequences, respectively. However, Hap_07 had twelve COI sequences from South Korea and records from Hong Kong and Taiwan. Neighbor-joining (NJ) trees constructed from the phylogenetic analyses based on the polymorphisms of the COI haplotypes showed a monophyletic branching pattern within the genus Epinephelus. This indicated that the red spotted grouper populations had evolved from common maternal ancestors. In addition, the Hap_08, which had the COI sequence recorded only from China Sea, was found in the middle of the NJ tree nearby Hap_07 and showed a close relationship with Hap_07. This indicates that Chinese red spotted grouper is also maternally related to other populations in East Asia. Consequently, East Asian red spotted grouper populations are maternally related, as well as sharing the same evolutionary history, and are still affected by the East Asian ocean current (Kuroshio). These findings help to explain the genetic structure and phylogenetic relationship of red spotted grouper and also contribute to research on artificial breeding and industrialization.

• Korean Journal of Ichthyology
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• v.29 no.4
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• pp.244-251
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• 2017

A total of 15 larvae [3.53~19.49 mm standard length (SL)] belonging to the family Bothidae collected from the southern sea of Korea in 2016 were identified as Psettina tosana based on 434 base-pair sequences of mitochondrial DNA cytochrome c oxidase subunit I. Larvae of Psettina tosana have anterior-most two elongated dorsal fin rays. Uniserial melanophores present on the dorsal and anal fin base, whereas melanophores on the body absent. An inflection point in the relative growth of head length and head depth against SL was shown between 9.93 mm and 10.73 mm SL. The examined larvae of Psettina tosana are clearly distinguished from the most similar species, Psettina iijimae in having no melanophore patches in the proximity of dorsal and anal fin base.

• Fisheries and Aquatic Sciences
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• v.18 no.3
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• pp.311-316
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• 2015

Ten specimens of Brama dussumieri (family Bramidae) were collected from waters off Jeju Island, Busan, and Gangneung, Korea, during 2013-2014. The specimens were characterized by having 58-64 lateral line scales and 13-15 gill rakers. An analysis of 567 base pair sequences of mitochondrial DNA cytochrome c oxidase subunit I showed that sequences in our ten specimens are concordant with those of B. dussumieri from the USA, India, and Japan, although with slight differences (genetic distance = 0.000-0.018). Brama dussumieri was distinguished from the most similar species, Brama japonica, by the number of lateral line scales (57-65 in B. dussumieri vs. 65-75 in B. japonica) and the number of gill rakers (13-15 in B. dussumieri vs. 17-20 in B. japonica). We propose the new Korean name "Wae-sae-da-rae" for B. dussumieri in Korea.

• Korean Journal of Fisheries and Aquatic Sciences
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• v.47 no.1
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• pp.79-83
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• 2014

Thirty five juveniles belonging to the genus Collichthys were collected using a bag net at Gang-wha-do, in the eastern Yellow Sea, between July and September, 2012, and identified using combined genetic and morphological methods. We sequenced 316 base pairs of mitochondrial DNA cytochrome c oxidase subunit I of 35 individuals, of which 22 individuals were identified as Collichthys niveatus (12.9-47.6 mm in SL) and 13 as Collichthys lucidus (13.4-40.3 mm SL). Morphologically, the number of occipital crests, an important taxonomic character during the adult stage, could not distinguish the two species during the juvenile stage, but the shape of the first anal fin spine clearly distinguished the two species even among juveniles.