• 한국유기농업학회지
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• 제27권3호
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• pp.353-363
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• 2019

To identify four cyst nematodes (Heterodera schachtii, H. trifolii, H. glycines, H. sojae) that are economically important plant-parasitic nematodes in Korea, restriction fragment length polymorphism (RFLP) by 8 endonucleases (PstI, VspI, AlwI, RsaI, MvaI, EcoRI, Eco72I, Hinf I) was performed based on sequence difference of mitochondrial DNA cytochrome c oxidase subunit I (COI) gene. As a result, species-specific DNA band patterns by RsaI endonuclease were observed in H. schachtii. The specific patterns was in H. trifolii by 3 endonucleases (VspI, AlwI, Hinf I), and was in H. glycines by Hinf I. While, H. sojae was not digested by 4 endonuclease (VspI, AlwI, RsaI, Hinf I). This study showed that four cyst nematodes could be distinguished using RFLP by 4 endonucleases (RsaI, VspI, AlwI, Hinf I) based on the sequence difference of COI gene.

• 한국동물학회:학술대회논문집
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• 한국동물학회 2000년도 한국생물과학협회 학술발표대회
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• pp.113.2-113
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• 2000

No Abstract, See Full Text

• Ocean and Polar Research
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• 제42권3호
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• pp.263-270
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• 2020

The distribution and genotypes of the sea nettle Chrysaora pacifica have been reported in the South Sea of Korea; however, little research work has been attempted in the East Sea. Here, we collected similar jellyfishes from the East Sea coasts (Goseong, Yangyang and Sokcho), and identified them to the sea nettle morphologically. In addition, the genotypes of these sea nettle were compared with those from the South Sea (Tongyeong and Geoje). Phylogenetic analysis by using the mitochondrial COI sequences showed that the genus Chrysaora was clearly separated from other taxa to be formed a monophyletic group, with each species distinctly separated. C. pacifica in the East and South Seas was separated geographically by the COI phylogeography, representing potentially different populations. The COI gene of the Korean C. pacifica had approximately 7 times more genetic variation than the nuclear ITS rDNA, and thus it might be considered as a useful marker for genetic analysis of the jellyfish population.

• Parasites, Hosts and Diseases
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• 제35권4호
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• pp.271-276
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• 1997

메타고니무스속 흡충의 형태학적인 차이점은 잘 알려져 있으나 이러한 미세한 형태학적 차이로 종을 분류할 수 있을 지에 대해서는 의문시되어 왔다. 이 연구는 비교적 유전자 염기서열이 잘 보존되어 있 어 종간 또는 strain간의 차이를 밝힐 수 있는 리보솜리보핵산 유전자 중 ITSI 유전자와 사립체 COI 유전자를 중합효소반응으로 증폭시킨 후 제한효소로 소화시켜 나타나는 밴드의 차이를 관찰하였다 요 코가와흡충 (M. yokogawai)의 피 낭유충은 삼척산 은어에서 , 미야타흡충 (Metagonim Miyata type) 은 충주산 피라미에서, 타카하시홉충 (M. tnkqhqsrii)은 충주산 붕어에서 분리하여 사용하였다. 세 종류 충체에서 얻은 ml 유전자 증폭산물은 제한효소 Rsc I, Ak I 및 Msp I에 의해 서로 다른 크기의 밴드 로 소화되었다. 세 종류 충체의 사립체 COI 유전자 증폭산물도 Rsc I과 AIu I에 의해 서로 다른 양상으로 잘라졌다. 추정 유전자 차이 (estimated genetic divergence)는 미야타홉충과 요코가와흡충이 0.034880, 요코가와흡충과 타카하시홉충이 0.018179, 미야타흡충과 타카하시흡충이 0.028098 이었다. 이 결과로 보면 미야타흡충은 별개의 종으로 볼 수 있으며,다른 충체보다 이른 시기에 진화하였음 을 알 수 있다.

• Fisheries and Aquatic Sciences
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• 제26권9호
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• pp.569-581
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• 2023

The morphology and genetic identification of Rasbora lateristriata and Rasbora argyrotaenia between cultivated and wild populations has never been reported. This study compares morphology and cytochrome c oxidase (COI) genes between farmed and wild stock Rasbora spp. in Java and Sumatra island, Indonesia. We analyzed the truss network measurement (TNM) characters of 80 fish using discriminant function analysis statistical tests. DNA was extracted from muscle tissue of 24 fish specimens, which was then followed by polymerase chain reaction, sequencing, phylogenetic analysis, fixation index analysis, and statistical analysis of haplotype networks. Basic Local Alignment Search Tool analysis validated the following species: R. lateristriata and R. argyrotaenia from farming (Jogjakarta); Rasbora agryotaenia (Purworejo), R. lateristriata (Purworejo and Malang), Rasbora dusonensis (Palembang), and Rasbora einthovenii (Riau) from natural resources. Based on TNM characters, Rasbora spp. were divided into four groups, referring to four distinct characters in the middle of the body. The phylogenetic tree is divided into five clades. The genetic distance between R. argyrotaenia (Jogjakarta) and R. lateristriata (Malang) populations (0.66) was significantly different (p < 0.05). R. lateristriata (Purworejo) has the highest nucleotide diversity (0.43). R. argyrotaenia from Jogjakarta and Purworejo shared the same haplotype. The pattern of gene flow among them results from the two populations' close geographic proximity and environmental effects. R. argyrotaenia had low genetic diversity, therefore, increasing heterozygosity in cultivated populations is necessary to avoid inbreeding. Otherwise, R. lateristriata (Purworejo) had a greater gene variety that could be used to develop breeding. In conclusion, the middle body parts are a distinguishing morphometric character of Rasbora spp., and the COI gene is more heterozygous in the wild population than in farmed fish, therefore, enrichment of genetic variation is required for sustainable Rasbora fish farming.

• International Journal of Industrial Entomology and Biomaterials
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• 제7권2호
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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.

• 한국양봉학회지
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• 제32권2호
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• pp.119-131
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• 2017

벌집꼬마밑빠진벌레 (Small hive beetle; SHB; Aethina tumida)의 신속검출과 대량 조사를 위하여 SHB 특이 초고속 유전자 증폭법을 개발하였다. 3쌍의 Aethina tumida-특이 유전자 증폭용 프라이머들은 벌집꼬마밑빠진벌레의 미토콘드리아 유전체 중 cytochrome oxidase subunit I (COI) 유전자에 근거하여 선발하였다. 최적화된 초고속 PCR은 $2.1{\times}10^1$ 분자의 작은벌집딱정벌레 COI 유전자를 18분 40초만에 특이적으로 그리고 정량적으로 검출할 수 있었다. 양봉현장의 적용을 위하여, 봉변으로부터 쉽게 DNA를 추출하는 방법을 고안하였으며, 봉변 1g 중 $10^5$ 분자의 벌집꼬마밑빠진벌레 COI 유전자가 존재할 경우(1/1000의 SHB 유충 사체), 10분 이내에 벌집꼬마밑빠진벌레의 존재와 분자적 정량을 마칠 수 있었다. 제안하는 이 실험법이 양봉현장에 널리 적용되어, 벌통 내 벌집꼬마밑빠진벌레의 침입여부 판단, 증식의 수준, 그리고 침입지역의 파악 및 제어에 활용되기를 기대한다.

• ALGAE
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• 제37권2호
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• pp.135-147
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• 2022

The red algal genus Chondrus have long been used as raw materials for carrageenan and dietary fiber in health foods. Despite the importance of genetic information in safeguarding natural seaweed resources, knowledge of the population genetics of Chondrus in the northwest Pacific is limited. In this study, genetic diversity and phylogeographic structure of 45 populations (777 specimens) of Chondrus from Korea, China, and Japan were evaluated based on mitochondrial COI-5P gene sequences, and phylogenetic relationships were confirmed based on plastid rbcL gene sequences. Molecular analyses assigned the specimens in this study to three Chondrus species: C. nipponicus, C. ocellatus, and C. giganteus; phenotype-based species classification was impossible owing to their high morphological plasticity. We found moderate intraspecific genetic diversity and a shallow phylogeographic structure in both for C. nipponicus and C. ocellatus, and low intraspecific genetic diversity in C. giganteus. Each of the three species exhibited high-level intraspecific gene flow among regions based on the most common haplotypes (CN1 for C. nipponicus, CO1 for C. ocellatus, and CG1 for C. giganteus). Our comprehensive genetic information provides insights into the phylogeographic patterns and intraspecific diversity of the economically important Chondrus species. It also highlights the need to conserve existing natural Chondrus resources through continuous monitoring of genetic diversity and phylogeographic pattern.

• 한국환경생태학회지
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• 제29권5호
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• pp.693-702
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• 2015

동절기에 제주도 지역에서 도래하는 떼까마귀의 유전적 특성과 집단 간 유연관계를 구명하기 위해, 미토콘드리아 COI 유전자 서열의 다형성에 기반한 모계 계통 구조와 계통 유연관계를 분석하였다. 떼까마귀 DNA는 우도와 제주도 내에서 발견된 깃털과 사체 시료에서 분리하였다. 결정된 COI 서열들(n=41)은 떼까마귀(Corvus frugilegus)에서 기존에 보고된 서열들과 97.0% 이상 일치하였다. 제주도 떼까마귀 COI 서열들은 3가지 haplotype(J01-J03)으로 구분되었으나 지역-특이적인 양상을 보이지 않아, 이들이 하나의 모계 기원에서 유래한 집단임을 알 수 있었다. 떼까마귀 전체 COI 서열에서 8개의 COI haplotype들이 발견되었다. 이 중 3가지 haplotype들은 러시아 동부, 몽골, 한국 등 동북아시아의 COI 서열들을 포함하였고, 나머지 5가지는 중앙아시아, 중동아시아, 러시아 서부, 유럽국가의 떼까마귀에서 발견되었다. 계통수 상에서 떼까마귀의 COI 서열들은 측소적 종분화 단계인 2아종, C. f. frugilegus와 C. f. pastinator인 2개의 모계 계통으로 뚜렷하게 구분되었다. DNA barcoding 분석을 통한 연구결과는 모계 계통의 구조, 계통 유연관계 및 분자생태를 이해하는 데 중요한 정보를 제공할 것이다.

• Molecules and Cells
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• 제22권3호
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• pp.323-327
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• 2006

DNA barcoding, an inventory of DNA sequences from a standardized genomic region, provides a bio-barcode for identifying and discovering species. Several recent studies suggest that the sequence diversity in a 648 bp region of the mitochondrial gene for cytochrome c oxidase I (COI) might serve as a DNA barcode for identifying animal species such as North American birds, insects and fishes. The present study tested the effectiveness of a COI barcode in discriminating Korean bird species. We determined the 5' terminus of the COI barcode for 92 species of Korean birds and found that species identification was unambiguous; the genetic differences between closely related species were, on average, 25 times higher than the differences within species. We identified only one misidentified species out of 239 specimens in a genetic resource bank, so confirming the accuracy of species identification in the banking system. We also identified two potential composite species, calling for further investigation using more samples. The finding of large COI sequence differences between species confirms the effectiveness of COI barcodes for identifying Korean bird species. To bring greater reliability to the identification of species, increased intra- and interspecies sampling, as well as supplementation of the mitochondrial barcodes with nuclear ones, is needed.