• Title, Summary, Keyword: DNA 바코드

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Discrimination of Echinochloa colona (L.) Link from other Echinochloa Species using DNA Barcode (국내에 유입되는 열대피(Echinochloa colona) 동정: DNA 바코드 중심)

  • Lee, Jeongran;Kim, Chang-Seok;Lee, In-Yong
    • Weed & Turfgrass Science
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    • v.4 no.3
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    • pp.225-229
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    • 2015
  • Echinochloa colona is one of the most problematic weeds in the paddy fields of the world. In recent years, this species is likely to be introduced in Korea due to global warming, the expansion of international trade including agricultural products, and increasing tourists. We tried to identify the species from Korean Echinochloa crus-galli and E. oryzicola in order to establish the control measures in case of the initial influx. For this study, Echinochloa colona collected from the National Plant Germplasm System, USA were examined and E. crus-galli and E. oryzicola were collected in Korea. It is, however, very difficult to identify for Echinochloa species using morphological characters because of numerous interspecific and intraspecific types found in nature. Thus, we barcoded the species using rbcL, matK, and ITS. All three markers identified E. colona very well from the others. ITS alone may be enough as a DNA barcode for E. colona identification, when considering cost and effectiveness. The barcode sequences were deposited to the National Center for Biotechnology Information database for public use.

Identification of Korean Poaceae Weeds Based on DNA Sequences (DNA 염기서열에 기초한 벼과 잡초의 분자생물학적 동정)

  • Lee, Jeongran;Kim, Chang-Seok;Lee, In-Yong;Oh, Hyun-Ju;Kim, Jung Hyun;Kim, Sun Yu
    • Weed & Turfgrass Science
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    • v.4 no.1
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    • pp.26-34
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    • 2015
  • Korean Poaceae includes approximately 80 species of the agricultural weeds. Precise species identification is the first step for more effective weed management in the agricultural fields. However, the identification of species in Poaceae is not easy without the assistance of taxonomists or identification experts although they are relatively easy to distinguish from the plants of the other family by the unique characteristics of caryopsis. Thus, DNA barcode was suggested as an alternative powerful technique for species identification by using short sections of DNA from a specific region of the genome. Two standard barcode markers of vascular plants, chloroplast rbcL and matK, and a supplementary nuclear ribosomal Internal Transcribed Spacer (ITS) region were used for barcode of major Korean Poaceae weeds, 403 individuals of 84 taxa. All the barcode markers revealed a good level of sequencing success with the lowest 73.7% for matK and the highest 88.8% for rbcL. The barcode sequences were deposited to the National Center for Biotechnology Information (NCBI) database for public use. Combined matK and ITS showed very high resolving power with 92.9%. Besides the identification of weeds for weed managment, the generated DNA barcode data could be used for many other applications such as rapid biodiversity assessment and conservation prioritization.

Error Correcting using the Check digit on Barcode, and the present and future of Barcode (바코드에 있어서 체크숫자를 이용한 오류수정과 바코드의 현재와 미래)

  • Kim, Hwa-Joon
    • Journal for History of Mathematics
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    • v.21 no.2
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    • pp.103-118
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    • 2008
  • Barcode technology is becoming an essential tool for every companies, and this makes help us to gain time, analysis of goods, an inventory control, a prevention of burglar and so on. In this paper, we have treated about the history of barcode, its error correcting using the check digit, and the present and future of barcode. We wish roles of mathematician on new barcode system which it bring on an economical efficiency and stability.

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Molecular Identification of Pooideae, Poaceae in Korea (국내 농경지에 발생하는 포아풀아과 잡초의 분자생물학적 동정)

  • Lee, Jeongran;Kim, Chang-Seok;Lee, In-Yong
    • Weed & Turfgrass Science
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    • v.4 no.1
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    • pp.18-25
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    • 2015
  • A universal DNA barcoding for agricultural noxious weeds is a powerful technique for species identification without morphological knowledge, by using short sections of DNA from a specific region of the genome. Two standard barcode markers, chloroplast rbcL and matK, and a supplementary nuclear ribosomal Internal Transcribed Spacer (ITS) region were used to examine the effectiveness of the markers for Pooideae barcoding using 163 individuals of 29 taxa across 16 genera of Korean Pooideae. The rbcL and ITS revealed a good level of amplification and sequencing success while matK did not. Barcode gaps were 78.6% for rbcL, 96.2% for matK, and 91.7% for ITS, respectively. Resolving powers were 89.3% for rbcL, 92.3% for matK, and 79.1% for ITS. The matK obtained the best both barcode gap and resolving power. However, it should be considered not to employ matK for Pooideae barcode because of low rate of PCR amplification and sequencing success. As a single DNA marker, rbcL and ITS were reasonable for Pooideae barcode. Barcode gap and resolving power were increased when ITS was incorporated into the rbcL. The barcode sequences were deposited to the National Center for Biotechnology Information (NCBI) database for public use.

Phylogenetic analysis of 14 Korean Araliaceae species using chloroplast DNA barcode analysis (엽록체 DNA 바코드 분석을 통한 한국산 두릅나무과 식물 14종의 유연관계 분석)

  • Hwang, Hwan Su;Choi, Yong Eui
    • Journal of Plant Biotechnology
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    • v.43 no.1
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    • pp.82-90
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    • 2016
  • Most Araliaceae plant species distributed in Korea are economically important because of their high medicinal values. This study was conducted to develop barcode markers from sequence analysis of chloroplast DNA in 14 taxa of Araliaceae species grown in South Korea. Sequencing of seven chloroplast DNA regions was performed to establish the DNA barcode markers, as suggested by the Consortium for the Barcode of Life (CBOL). From the sequence analysis of chloroplast DNA, we identified specific sequences and nucleotides that allowed us to discriminate among each other 14 Korean Araliaceae species. The sequence in the region of psbA-trnH revealed the most frequent DNA indels and substitutions of all 7 regions studied. This psbA-trnH marker alone can discriminate among all 14 species. There are no differences between Korean and Chinese Panax ginseng in all seven sequenced chloroplast DNA regions. A phylogenetic tree constructed using the seven chloroplast DNA regions revealed that Tetrapanax papyriferus should be classified as an independent clade. The Aralia and Panax genera showed a close phylogenetic relationship. Five species in the Eleutherococcus genus were more closely related to Kalopanax septemlobus than to any Panax species.

First Record of Nipponopsyche fuscescens Yazaki, 1926 (Lepidoptera, Psychidae) from Korea with a Redescription of External Morphology (한국미기록종 잔디주머니나방(나비목: 주머니나방과) 보고 및 형태특징 재기재)

  • Roh, Seung Jin;Kim, Da-Som;Park, Bo-Sun;Choi, Subin;Byun, Bong-Kyu
    • Korean journal of applied entomology
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    • v.58 no.1
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    • pp.1-8
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    • 2019
  • The genus Nipponopsyche Yazaki is reported from Korea with the species, N. fuscescens Yazaki for the first time. Adult including genitalia, larva, and pupa of the species are redescribed, and DNA barcode for precise identification of the species is also provided.

DNA barcoding of Raptor carcass collected in the Paju city, Korea (파주시에서 수집한 폐사체 맹금류의 DNA 바코드 연구)

  • Jin, Seon-Deok;Paik, In-Hwan;Lee, Soo-Young;Han, Gap-Soo;Yu, Jae-Pyoung;Paek, Woon-Kee
    • Korean Journal of Environment and Ecology
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    • v.28 no.5
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    • pp.523-530
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    • 2014
  • One juvenile raptor which was not able to be identified due to its head damage was discovered on a roadside in Janggok-ri, Jori-eup, Paju on 28th June, 2011. The species was identified by DNA barcoding. After polymerase chain reaction (PCR) of the mitochondrial cytochrome c oxidase subunit I gene (COI), we obtained 695 bp sequences. We analyzed the obtained COI sequence with similar sequences from the BOLD systems and BLAST of the NCBI Genbank, and discovered that its sequence showed 100 % similarity values with the one of the five gray-faced buzzards which were previously researched. In addition, it was confirmed to be a female through sex determination using DNA. Such results are important information as it confirms the breeding of the gray-faced buzzards for the first time in 43 years since its breeding was last recorded in 1968, in Paju. Wildlife rescue center needs to work with adjacent consigned registration and preservation institutions when carcass of wild animals is collected or DNA samples are obtained for more accurate both species and sex identification through a systematic management system in the future. Furthermore, the obtained DNA sample of the gray-faced buzzard and COI gene, DNA barcode, could be used as reference standards for similar researches in the future.

DNA barcode and phylogenetic study of the tribe Desmodieae (Fabaceae) in Korea (한국산 도둑놈의갈고리족(콩과)의 DNA 바코드 및 계통학적 연구)

  • JIN, Dong-Pil;PARK, Jong-Won;PARK, Jong-Soo;CHOI, Byoung-Hee
    • Korean Journal of Plant Taxonomy
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    • v.49 no.3
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    • pp.224-239
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    • 2019
  • Species identification for the Korean tribe Desmodieae was conducted using the DNA barcoding genes rbcL, matK (from chloroplast DNA) and ITS (from nuclear ribosomal DNA). A total of 25 taxa (n = 75) in five genera were sequenced, and neighbor-joining trees were constructed using different combinations of DNA barcodes. When comparing these phylogenetic trees, a tree with all loci combined (rbcL + matK + ITS) showed the highest rate of identification success (72%). On this tree, two subtribes and five genera within the tribe were supported as monophyletic. In the Desmodiinae clade, Desmodium and Hylodesmum were more closely related to each other than to Ohwia. In the Hylodesmum clade, H. oldhamii was found to be a sister to H. podocarpum complex, and all taxa within the complex were identified successfully. Subsp. fallax, regarded as a variety of subsp. oxyphyllum, is closely clustered with subsp. podocarpum. Although var. mandshuricum has been regarded as a synonym of var. oxyphyllum, this taxon is supported as a distinct variety. For the Lespedezinae clade, all species of Kummerowia were monophyletic, while nine of 16 Lespedeza taxa were identified successfully. In particular, the resolution of Macrolespedeza (28.5%) was lower than that of Junceae (77.8%). Among the Lespedeza taxa, L. cuneata was distinguishable from L. lichiyuniae, despite morphological similarities. It has been suggested that both L. maritima and L. inschanica are hybrids. The former is thought to be an independent species. While it is difficult to determine whether the latter originated via hybridization, this study showed that it is closely related to L. juncea.

Taxonomy of introduced commercial insect, Zophobas atratus (Coleoptera: Tenebrionidae) and a comparison of DNA barcoding with similar tenebrionids, Promethis valgipes and Tenebrio molitor in Korea (도입된 상업용 거저리(Zophobas atratus)의 분류 및 형태유사종 갈색거저리 (Tenebrio molitor)와 대왕거저리(Promethis valgipes)와의 DNA 바코드 특성 분석)

  • Park, Hae Chul;Jung, Boo Hee;Han, Taeman;Lee, Young Bo;Kim, Seong-Hyun;Kim, Nam Jeong
    • Journal of Sericultural and Entomological Science
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    • v.51 no.2
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    • pp.185-190
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    • 2013
  • The superworm, as known the larva of Zophobas morio, has been officially imported from 2011 and bred commercially in Korea. But it is named as the corrected scientific name, Zophobas atratus by junior synonym throughout traditional taxonomy in this study and newly designated Korean name as 'a-me-ri-ca-wang-geo-jeo-ri' in terms of resource management. Z. atratus was compared with wild native tenebrionids, Promethis valgipes and a commercial reared Tenebrio molitor on the basis of DNA barcode analysis. As the results, the average genetic divergence was 21.4% between Z. atratus and P. valgipes, and 20.9% between Z. atratus and T. molitor. These large divergences imply these tenebrionids species can be easily identified by DNA barcodes. The results of genetic divergences within species also suggest that Korean populations of Z. atratus, having the same haplotype, might be introduced from the same area of foreign country. On the other hand, a population of T. molitor was separated into two distinct intra-specific groups with DNA barcoding gaps ranged from 1.17- 2.19%. We suppose that domestic breeding entities of T. molitor might be introduced and mixed from two different local groups. Through this study, we expect that classification for two tenebrionid introduced from foreign countries can be used for the management of insect resources in Korea.