• 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.

• Fisheries and Aquatic Sciences
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• v.27 no.3
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• pp.145-158
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• 2024

Life history characteristics, habitat landscape, and historical events are believed to have shaped the patterns of genetic variation in many taxa. The bony lip barb, Osteohilus vittatus, represent a potamodromous fish that complete all life cycle in freshwater and is widely distributed in Southeast Asia. It usually lives in small rivers and other freshwater habitats, and movement between habitats for either food or reproduction has been typical. These life history characteristics may promote gene flow, leading to less structured populations. However, many freshwater habitats are fragmented, which restricts gene flow. We investigate how this interplay has shaped patterns of genetic variation and phylogeographic structure within this species in the Sundaland, a biodiversity hotspot with a complex geological history, using mitochondrial cytochrome oxidase I (mtCOI) as a genetic marker. Forty-six mtCOI sequences of 506 bp long were collected from ten localities, eight geographically isolated and two connected. The sequences were used for population genetic and phylogeographic analyses. Our results showed a low genetic diversity within populations but high between populations. There was a deep phylogeographic structure among geographically isolated populations but a lack of such structure in the connected habitats. Among geographically isolated populations, sequence divergence was revealed, ranging from 1.8% between Java and Sumatra populations to 12.2% between Malaysia and Vietnam. An indication of structuring was also observed among localities that are geographically closer but without connectivity. We conclude that despite high dispersal capacity, the joint effects of historical events, long-term geographic isolation associated with sea level oscillation during the Pleistocene, and restricted gene flow related to lack of habitat connectivity have shaped the phylogeographic structure within the O. vittatus over the Sundaland.

• Fisheries and Aquatic Sciences
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• v.26 no.12
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• pp.752-761
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• 2023

Genetic diversity serves as the basis for selecting and genetically enhancing any culturable species in aquaculture. Here, two different strains of wild (River Ravi and River Kabul) and six captive-bred strains of Labeo rohita from various provinces were se- lected, and genetic diversity among them was evaluated using three different microsatellite markers, i.e., Lr-28, Lr-29, and Lr-37, and one mitochondrial CO1 (Cytochrome c oxidase subunit 1) gene. Different strains of L. rohita were collected, and part of their caudal fin was cut and preserved in ethanol for DNA extraction and determination of genetic diversity among them. Results in- dicated that selected markers were polymorphic with polymorphic information content (PIC) content values above 0.5 with the highest in Lr-28 followed by Lr-29 and then Lr-37. The observed heterozygosity (Ho) of all strains was higher (Avg: 0.731) but less than the expected heterozygosity (He). Moreover, TMs and WRs showed the highest He, while TKs showed the lowest, He. Over- all, inbreeding coefficient (FIS) values observed for all strains with selected markers were positive. The DNA barcoding with the CO1 gene revealed genetic variation among various strains, as demonstrated by the clades in the phylogenetic tree separating the strains into two distinct clusters that then divided into sub-clusters. In conclusion, TMs showed the highest heterozygosity as compared to other strains. Overall results provide the baseline data for the initiation of the genetic improvement program.

• Korean journal of applied entomology
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• v.62 no.2
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• pp.83-87
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• 2023

Nysius plebeius is a major lygaeid pest of various cereal crops and ornamental plants in East Asian countries, including Korea. The complete mitochondrial genome of N. plebeius was characterized and found to comprise a total of 17,367 bp, which included 13 protein-coding genes, NADH dehydrogenase components (complex I, ND), cytochrome oxidase subunits (complex VI, COX), cytochrome oxidase b (CYPB), two ATP synthases, two ribosomal RNA genes, and 22 transfer RNAs. The GC content of 23%. It showed high sequence similarity to other Lygaeidae species, such as N. cymoides (94.5%), N. fuscovittatus (91.7%), and an unknown Nysius species (94.1%). This new N. plebeius mitochondrial genome can be widely used for evolutionary studies of Lygaeidae and to improve pest management practices.

• 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.

• The Korean Journal of Malacology
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• v.32 no.3
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• pp.221-229
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• 2016

Fifty-five specimens of Octopus longispadiceus, belonging to the family Octopodidae, were collected for the first time from the East Sea of Korea and identified by DNA barcoding. This species is characterized by its long right third arm and ligula, the presence of enlarged suckers in the mature male, small white spots on the mantle, head, and arms, and no cirrus above the eye. A molecular analysis of the partial cytochrome c oxidase subunit I gene showed that these specimens are all the same species and have the smallest genetic distance with O. longispadiceus (Kimura- two-parameter distance = 0.002-0.003). A new Korean name, "Bal-mun-eo" is proposed for this species.

• Korean Journal of Environmental Biology
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• v.33 no.2
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• pp.205-208
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• 2015

Some euryalid specimens were collected with fishing nets from Mipo, Gyungsangnamdo and Aewol, Jejudo Island, Korea. They were identified as Gorgonocephalus eucnemis (${M\ddot{u}ller}$ & Troschel, 1842), belonging to family Gorgonocephalidae of order Euryalida, which was new to the Korean fauna. Their molecular analyses were done with newly intended COI primers of mitochondrial cytochrome oxidase I (COI) gene for the accurate molecular identification. The Korean G. eucnemis was coincident with this NCBI species as a result of Blast analysis, which showed the 99% similarity. In the current study, three Gorgonocephalus species have been reported from Korea.

• Fisheries and Aquatic Sciences
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• v.18 no.3
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• pp.317-320
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• 2015

A new record of Nomeus gronovii is described here based on a single specimen collected off the Jeju Island, Korea. The species has a blotched and spotted pattern on the body, 41 vertebrae, and a large pectoral fin with a white lower part. A molecular analysis of the partial (500 bp) cytochrome c oxidase subunit I gene showed that this specimen is closely related to specimens of N. gronovii collected in South Africa (Kimura-two-parameter distance = 0.006-0.012). A new Korean name, "Ga-neun-dong-gang-yeon-chi", is proposed for this species.

• Animal Systematics, Evolution and Diversity
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• v.36 no.1
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• pp.7-9
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• 2020

In the present study, the first mitochondrial cytochrome c oxidase subunit I gene (COI) sequence of Sterkiella multicirrata Li et al., 2018 is presented. To begin with, this species has been also morphologically recorded from South Korea, and this study was performed using genomic DNA of the Korean population. The newly obtained COI sequences of S. multicirrata were identical. And the inter-specific variation between S. multicirrata and S. histriomuscorum was noted at 14.3%. These values correspond well with the results of previous studies. However, because there are very few available COI sequences of stichotrichian in GenBank, it is concluded that continuous accumulation of data is needed for further study.

• Animal Systematics, Evolution and Diversity
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• v.29 no.2
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• pp.184-187
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• 2013

Korean species of the genus Elampus Spinola is taxonomically reviewed. Korean fauna of the genus Elampus was known by one sepcies, Elampus bidens (F$\ddot{o}$rster). This study reports new discover of another Korean species E. musashinus (Tsuneki). This species was described based on male, and the female has been still unknown. With comparison of partial mitochondrial cytochrome c oxidase I gene sequences, the sex-association of this species is established, the Korean specimens of both sexes completely identical in their sequences targeted. Herein the female description of E. musashinus is presented for the first time. A key to the Korean species, as well as diagnosis and digital images are provided.