• Fisheries and Aquatic Sciences
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• 제26권9호
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• pp.548-557
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• 2023

The purposes of this research were to identify fish species using DNA barcodes or partial sequences of cytochrome b (Cytb) and to assess the diversity of fish in the Mae Tam reservoir, Phayao province, Thailand. Fish samples were collected 3 times, during the winter, summer, and rainy seasons, from 2 sampling sites using gillnets with 3 mesh sizes (30, 50, and 70 mm). A total of 34 representative samples were classified into 12 species, 7 families and 6 orders by morphological- and DNA barcoding-based identifications. However, one cichlid species, Cichlasoma trimaculatum, could only be identified using DNA barcoding. Family Cyprinidae had the greatest diversity, 50.00%. The diversity, richness and evenness indices ranged from 0.43-0.65, 0.64-1.46, and 0.27-0.40, respectively, indicating that fish diversity at both sampling sites was relatively low. A comparison of the catch per unit effort (CPUE) with 3 different mesh sizes found that the 50 mm mesh size was the best (474.80 ± 171.56 g/100 m²/night), followed by the 70 mm (417.41 ± 176.24 g/100 m²/night) and 30 mm mesh sizes (327.88 ± 115.60 g/100 m²/night). These results indicate that DNA barcoding is a powerful tool for species identification. Our data can be used for planning the sustainable management of fisheries resources in the Mae Tam reservoir.

• 대한본초학회지
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• 제31권5호
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• pp.15-23
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• 2016

Objectives : Araliae Continentalis Radix and Angelicae Pubescentis Radix have been used as the same medicinal name Korean and Chinese traditional medicines, respectively. The authentic Araliae Continentalis Radix is described only the root of Aralia continentalis in the Korean Pharmarcopoeia. However, the dried root of Angelica biserrata, Levisticum officinale, or Heracleum moellendorffii also has been distributed adulterants of Araliae Continentalis Radix. To develop a reliable method for identifying Araliae Continentalis Radix from adulterants, we carried out the analyses of universal DNA barcode sequences.Methods : Four plants species were collected from different habitate and nucleotide sequences of matK and rbcL were analyzed. The species-specific sequences and phylogenetic relationship were estimated using entire sequences of two DNA barcodes, respectively.Results : In comparative analysis of matK sequences, we were identified 104 positions of marker nucleotide for Ar. continentalis, 3 for An. biserrata, 4 for L. officinale and 8 for H. moellendorffii enough to distinguish individual species, respectively. Furthermore, we obtained marker nucleotides in rbcL at 42 positions for Ar. continentalis, 5 for An. biserrata and 2 for H. moellendorffii, but not for L. officinale. The phylogenetic tree of matK and rbcL were showed that all samples were clustered into four groups constituting homogeneous clades within the species.Conclusions : We confirmed that species-specific marker nucleotides of matK sequence provides distinct genetic information enough to identify four species. Therefore, we suggest that matK gene is useful DNA barcode for discriminating authentic Araliae Continentalis Radix from inauthentic adulterants.

• Fisheries and Aquatic Sciences
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• 제27권2호
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• pp.87-99
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• 2024

Global climate change, followed by an increase in anthropogenic activities in aquatic ecosystems, and species invasions, has resulted in a decline in aquatic organism biodiversity. The Batanghari River, Sumatra's longest river, is polluted by mercury-containing illegal gold mining waste (PETI), industrial pollution, and domestic waste. Several studies have provided evidence suggesting a decline in fish biodiversity within the Batanghari River. However, a comprehensive evaluation of the present status of biodiversity in this river is currently lacking. The species under investigation were identified through various molecular-based identification methods, as well as morphological identification, which involved the use of neighbor-joining (NJ) trees. All collected specimens were initially identified using morphological techniques and subsequently confirmed with molecular barcoding analysis. Morphological and DNA barcoding identification categorized all specimens (1,692) into 36 species, 30 genera and 16 families, representing five orders. A total of 36 DNA barcodes were generated from 30 genera using a 650-bp-long fragment of the mitochondrial cytochrome oxidase subunit I (COI) gene. Based on the Kimura two-parameter model (K2P), The minimum and maximum genetic divergences based on K2P distance were 0.003 and 0.331, respectively, and the average genetic divergence within genera, families, and orders was 0.05, 0.12, 0.16 respectively. In addition, the average interspecific distance was approximately 2.17 times higher than the mean intraspecific distance. Our results showed that the COI barcode enabled accurate fish species identification in the Batanghari River. Furthermore, the present work will establish a comprehensive DNA barcode library for freshwater fishes along Batanghari River and be significantly useful in future efforts to monitor, conserve, and manage fisheries in Indonesia.

• 대한본초학회지
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• 제39권2호
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• pp.1-9
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• 2024

Objectives : Paeng-hwal is described as an insect herbal medicine used for digestive diseases in the Dong-ui-bo-gam. The origin of this herbal medicine is limited to several small crabs, such as Helice tridens. These crab species cohabitat in the same environment and share similar morphological characteristics, making it very difficult to distinguish and collect the individual species for use in dietary supplements or herbal medicines. This study was conducted to develop a genetic identification tool for discriminating among these closely related small crab species. Methods : CO1 DNA barcode regions of 15 samples from 6 species of small crabs were analyzed to obtain the individual sequences. To identify the correct species, comparative analyses were carried out using the database of the NCBI GenBank and the NIBR. SCAR primers were designed to develop simple and rapid assay methods using inter-species specific sequences. Optimal SCAR assay conditions were established through gradient PCR, and the limit of detection (LOD) was determined. Results : Six species of small crabs (Helicana tridens, Macrophthalmus abbreviatus, Helicana tientsinensis, Helicana wuana, Chiromantes dehaani, and Hemigrapsus penicillatus), which are distributed as Paeng-hwal, were identified through CO1 sequences analysis. We also developed SCAR markers to distinguish between six small crabs at the species level. Furthermore, we established the optimal PCR assay methods and the LOD of each individual species. Conclusions : The rapid and simple SCAR-PCR assay methods were developed to identify the species and control the quality of herbal medicines for Paeng-hwal based on the genetic analyses of CO1 DNA barcodes.

• 한국식품위생안전성학회지
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• 제35권6호
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• pp.574-580
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• 2020

본 연구에서는 민어과 수산물의 표준시료 DNA 염기서열을 분석한 후 DNA barcode 염기서열을 확정하고 검증한 후 시중 유통 중인 민어과 수산가공식품의 위변조 현황을 조사하였다. 표준시료의 미토콘드리아 cytochrome c oxidase subunit I유전자를 증폭한 후 증폭된 PCR 산물의 염기서열을 분석하였다. 분석결과 종 판별에 특이적인 655 bp를 선정하여 DNA barcode 염기서열로 하였다. DNA barcode information과 primer set을 이용한 진위판별 정확성을 확인한 결과 PCR 증폭은 모두 확인되었다. NCBI에 등록된 각각 어류의 유전자 염기서열과 비교하였을 때 참조기 100%, 부세 100%, 보구치 100%, 민어 100%의 상동성을 나타내어 실험에 사용된 DNA barcode information과 primer set의 정확성을 확인하였다. DNA barcode 시험법을 이용해 시중 유통되는 민어과 수산가공품 32건에 대해 조사한 결과 위변조 사례는 나타나지 않았다. 그러나 식품공전에 등재된 보구치 대신 백조기라는 일반명이 사용되고 있어 소비자에게 혼란을 야기하고 있었다. 따라서 수산가공품 원재료 표시에 일반명과 더불어 표준명 또는 학명을 표시하여야 할 것으로 판단되었다.

• Journal of Species Research
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• 제6권spc호
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• pp.152-163
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• 2017

Four feather mite species, Grallobia fulicae (Trouessart, 1885), Grallobia gallinulae Gaud, 1968, Grallolichus proctogamus (Trouessart, 1885) and Megniniella gallinulae (Buchholz, 1869), previously unrecorded in South Korea are reported. Specimens of Grallobia fulicae and Grallolichus proctogamus were collected from the eurasian coot, Fulica atra in Cheongju-si. Grallobia gallinulae and M. gallinulae were found on the common moorhen, Gallinula chloropus in Yesan-gun. The genera Grallobia Hull, 1934, Grallolichus Gaud, 1960 and Megniniella Gaud, 1958 are new records for South Korea. Here, we provide illustrations and morphological descriptions of these four feather mite species as well as the partial sequences of the mitochondrial cytochrome c oxidase subunit I (COI) as DNA barcodes.

• Journal of Species Research
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• 제6권spc호
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• pp.177-184
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• 2017

Two feather mites, Scutomegninia phalacrocoracis Dubinin and Dubinina, 1940 and Ptiloxenus major ($M{\acute{e}}gnin$ and Trouessart, 1884) are reported for the first time in Korea. Specimens of S. phalacrocoracis and P. major were collected from the great cormorant, Phalacrocorax carbo and great crested grebe, Podiceps cristatus, respectively. The genera Scutomegninia Dubinin, 1951 and Ptiloxenus Hull, 1934 are also new reports for South Korea. Here, we provide morphological descriptions and illustrations of these two species. Additionally, we provide partial sequences of the mitochondrial cytochrome c oxidase subunit I (COI) as DNA barcodes.

• Animal Systematics, Evolution and Diversity
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• 제36권3호
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• pp.222-227
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• 2020

In this study, we identified three monogonont rotifers from South Korea: Kellicottia bostoniensis (Rousselet, 1908), Trichocerca tenuior (Gosse, 1886), and Lepadella triptera (Ehrenberg, 1830). The distribution records of K. bostoniensis were mainly located in the Nearctic, Neotropic and Western Palearctic regions. After Japan, this is the second record of it in Asia. Trichocerca tenuior and Lepadella triptera have already been recorded in Korea, but the data of two species were insufficient in previous study. Here, we describe the morphological characteristics of the three species and the trophi structures of K. bostoniensis and T. tenuior. This study is the first to characterize the trophi structure of K. bostoniensis, observed using a scanning electron microscope. In addition, we have determined the partial cytochrome c oxidase subunit 1 (COI) and 18S rRNA gene sequences of T. tenuior and L. triptera for their DNA barcodes.

• Molecules and Cells
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• 제44권5호
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• pp.328-334
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• 2021

The advent of the major histocompatibility complex (MHC) multimer technology has led to a breakthrough in the quantification and analysis of antigen-specific T cells. In particular, this technology has dramatically advanced the measurement and analysis of CD8 T cells and is being applied more widely. In addition, the scope of application of MHC multimer technology is gradually expanding to other T cells such as CD4 T cells, natural killer T cells, and mucosal-associated invariant T cells. MHC multimer technology acts by complementing the T-cell receptor-MHC/peptide complex affinity, which is relatively low compared to antigen-antibody affinity, through a multivalent interaction. The application of MHC multimer technology has expanded to include various functions such as quantification and analysis of antigen-specific T cells, cell sorting, depletion, stimulation to replace antigen-presenting cells, and single-cell classification through DNA barcodes. This review aims to provide the latest knowledge of MHC multimer technology, which is constantly evolving, broaden understanding of this technology, and promote its widespread use.

• Animal Systematics, Evolution and Diversity
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• 제35권3호
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• pp.105-113
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• 2019

Feather mites comprise two superfamilies(Analgoidea and Pterolichoidea) and are highly specialized ectosymbionts of birds. To date, this group contains more than 2,500 species worldwide. Fifty-five feather mite species have been reported in Korea, and only one species of genus Alloptes has been recorded from black-tailed godwit Limosa limosa. Three new records of feather mites from the L. limosa in Korea are added in this study: Avenzoaria punctata Gaud, 1972, Bregetovia limosae (Buchholz, 1869), and Montchadskiana buchholzi (Canestrini, 1878). The genus Bregetovia Dubinin, 1951 is also new report for this country. In this paper, we provide the morphological descriptions and illustrations based on the present specimens. Additionally, we determined partial sequences of the mitochondrial cytochrome c oxidase subunit I(COI) from three feather mites as DNA barcodes.