• 한국수산과학회지
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• 제29권6호
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• pp.876-881
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• 1996

To determine the amount of genetic variation among populations of Penaeus chinensis (Osbeck) in the Yellow Sea, 342 bp region of the mitochondrial cytochrome c oxidase subunit I gene was amplified and sequenced. Six haplotypes, which differ by from one to four nucleotide sustitutions, were detected from 34 individuals of 4 populations examined. Mean sequence divergence between pairs of haplotypes was $0.68\%$. Most individuals from 4 populations were shared by the most common genotype. This genotype was distributed evenly in the Korean and Chinese populations. This result is in accordance with findings observed using RFLPs analysis of mtDNA (Hwang et al., 1997). Therefore, it is suggested that P. chinensis should be treated as one unit stock in the Yellow Sea.

• Animal cells and systems
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• 제15권3호
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• pp.243-249
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• 2011

The genetic diversity and population history of the Asian shore crab, Hemigrapsus sanguineus, were investigated with a nucleotide sequence analysis of 536 base pairs (bp) of the mitochondrial cytochrome c oxidase subunit I gene (COI) in 111 samples collected from four populations in Korea and one in Japan. In total, 28 haplotypes were defined by 27 variable nucleotide sites in the COI region examined. The observed haplotypes had a shallow haplotype genealogy and no geographical associations. Most of the populations had high haplotype diversity (0.656-0.788) and low nucleotide diversity (0.00165-0.00244), and significant negative values for Fu's $F_S$, suggesting rapid and recent population growth from an ancestral population and sudden population expansion. The pairwise fixation indices ($F_{ST}$) estimated with the exact test and the migration rates indicate that substantial gene flow occurs among these populations as a result of sea currents, except between the Yellow Sea coast of Korea (BUA) and the Pacific Ocean coast of Japan (JPA). These two populations (BUA and JPA) showed significant genetic differentiation and low migration rate.

• BMB Reports
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• 제30권4호
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• pp.285-291
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• 1997

It is becoming increasingly evident that significant changes in gene expression occur during the course of neuronal differentiation. Thus, it should be possible to gain information about the biochemical events by identifying differentially expressed genes in neuronal differentiation The PC12 cell line is a useful model system to investigate the molecular mechanism underlying neuronal differentiation and has been used extensively for the study of the molecular events that underlie the biological actions of nerve growth factor (NGF). In this study, we report an application of the recently described mRNA differential display method to analyze differential gene expression during neuronal differentiation. Using this technique, we have identified several cDNA tags expressed differentially during neuronal differentiation. Interestingly, one of these clones was cytochrome c oxidase subunit I (COX I) gene. The differential expression of COX I gene was confirmed by Northern blot analysis as well as RT-PCR. Southern blot analysis of the genomic DNA of PC12 cells revealed that COX I is a single gene. Induction of the oxidative enzyme might reflect the energy requirement in neuronal differentiation.

• Journal of the Korean Wood Science and Technology
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• 제38권2호
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• pp.135-139
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• 2010

Reticulitermes speratus is commonly found in Asia, including Korea and Japan. We recently analyzed the 5' region of mitochondrial cytochrome c oxidase subunit I to perform a phylogenetic analysis of R. speratus KMT1, isolated in Seoul, Korea. Our results, using COXI, suggest that the taxonomy of R. speratus should be reconsidered with regard to the subgenus group. A similar phylogenetic analysis by COXI and COXII demonstrated the reliability of COXI genetic information in a molecular phylogenetic analysis of termites.

• 대한수의학회지
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• 제59권2호
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• pp.69-74
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• 2019

Avian malaria is one of the most important general blood parasites of poultry in Southeast Asia. Plasmodium (P.) juxtanucleare causes avian malaria in wild and domestic fowl. This study aimed to identify and characterize the Plasmodium species infecting in Thai native fowl. Blood samples were collected for microscopic examination, followed by detection of the Plasmodium cox I gene by using PCR. Five of the 10 sampled fowl had the desired 588 base pair amplicons. Sequence analysis of the five amplicons indicated that the nucleotide and amino acid sequences were homologous to each other and were closely related (100% identity) to a P. juxtanucleare strain isolated in Japan (AB250415). Furthermore, the phylogenetic tree of the cox I gene showed that the P. juxtanucleare in this study were grouped together and clustered with the Japan strain. The presence of P. juxtanucleare described in this study is the first report of P. juxtanucleare in the Thai native fowl of Thailand.

• Parasites, Hosts and Diseases
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• 제45권3호
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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.

• Journal of information and communication convergence engineering
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• 제21권2호
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• pp.159-166
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• 2023

The COI gene is a sequence of approximately 650 bp at the 5' terminal of the mitochondrial Cytochrome c Oxidase subunit I (COI) gene. As an effective DeoxyriboNucleic Acid (DNA) barcode, it is widely used for the taxonomic identification and evolutionary analysis of species. We created a CNN-LSTM hybrid model by combining the gene features partially extracted by the Long Short-Term Memory ( LSTM ) network with the feature maps obtained by the CNN. Compared to K-Means Clustering, Support Vector Machines (SVM), and a single CNN classification model, after training 278 samples in a training set that included 15 genera from two orders, the CNN-LSTM hybrid model achieved 94% accuracy in the test set, which contained 118 samples. We augmented the training set samples and four genera into four orders, and the classification accuracy of the test set reached 100%. This study also proposes calculating the cosine similarity between the training and test sets to initially assess the reliability of the predicted results and discover new species.

• Fisheries and Aquatic Sciences
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• 제16권4호
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• pp.243-251
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• 2013

Genetic diversity and gene flow patterns in Pollicipes mitella were investigated with a nucleotide sequence analysis of 514 base pairs from the mitochondrial cytochrome c oxidase subunit I gene (COI) in 124 samples collected from six Korean populations. In total, 59 haplotypes were defined by 40 variable nucleotide sites in the COI region. The haplotypes had shallow haplotype genealogy and no geographic associations. All populations had high haplotype diversity (0.909 to 0.979) and low nucleotide diversity (0.0055 to 0.0098). The haplotypes with recently diverged nucleotides were distributed by long-range larvae dispersal among regional populations. The pairwise fixation indices ($F_{ST}$) estimated with the exact test and migration rates indicate that substantial gene flow has occurred among populations as a result of sea currents, except between the Uljin (East Sea coast) and other Korean populations. This suggests that significant genetic differentiation and low migration rates have affected the Uljin population.

• 한국식품위생안전성학회지
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• 제39권3호
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• pp.209-220
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• 2024

캐비어에 대한 수요가 증가하면서 캐비어 종류의 진위여부를 확인 할 수 있는 분석법 마련이 필요해졌다. 본 연구에서는 캐비어 종류을 나누는 철갑상어 종 특이 KASP 마커를 개발하였고 모니터링을 통해 국내 유통중인 불법 캐비어 제품을 확인하고자 하였다. 본 연구에서는 16S ribosomal RNA gene, cytochrome b gene, cytochrome coxidase subunit I gene, cytochrome c oxidase subunit II gene, NADH dehydrogenase subunit 5 gene에서 철갑상어종 특이적인 SNP를 선정하고 이를 표적하는 KASP 마커 11종을 개발하였다. 개발한 KASP 마커를 이용하여 한국의 온라인 마켓에서 유통중인 캐비어 10종을 모니터링 분석한 결과 2개의 제품에서 제품에 표기된 철갑상어 종과 다른 것으로 확인하였으며 두 제품 모두 실제보다 더 비싼 캐비어로 둔갑하여 판매한 것으로 확인되었다. 본 연구를 통해 제작한 KASP 분석방법으로 유통되는 캐비어 종류 분류가 가능하였고 모니터링을 통해 국내 유통되고 있는 불법 캐비어 제품도 확인하였다. 이에 따라 본 연구에서 개발한 SNP기반 KASP 분석법으로 불법 캐비어 제품 유통 근절에 기여 할 수 있을 것으로 기대한다.

• 생태와환경
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• 제53권3호
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• pp.265-274
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• 2020

보구치는 난류성으로 전 세계적으로 널리 분포하며 해양 저층에 주로 서식하는 어종이다. 광양만에 서식하는 보구치의 미토콘드리아 DNA에서 cytochrome c oxidase subunit I (COI) 유전자를 발굴하고 해양 어류종에서의 계통유전학적인 위치를 분석하였다. 발굴된 미토콘드리아 DNA 내 605 bp COI 시컨스의 다중배열 결과 광양만 보구치들에서는 높은 염기서열 상동성을 확인하였다 (98~100%). 하지만 광양만 내해와 외해의 어획지점에 따라 염기서열 변이가 다르게 나타나는 것을 확인하였다. 외해지점의 보구치들에서 COI 내 염기서열 변이가 높게 나타났다(43.2~70.3%). 나아가 13종 어류의 COI 계통유전학적 분석결과 광양만 보구치는 타이완에서 보고된 보구치와 하나의 계통군 (clade)으로 묶이고 진화적 거리는 0.036으로 나타났다. 또한 민어(M. miiuy)와 대두이석태(Pennahia Macrocephalus)에 속한 어종과 진화적 거리가 가까운 것으로 나타났다(0.041~0.048). 본 연구의 결과는 국내산 보구치의 분자 계통유전학적 정보를 제공함으로 연안환경에 따른 어류자원 모니터링 및 종다양성 관리에 주요한 유전적 자료로 활용될 것이다.