• 한국응용곤충학회지
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• 제62권1호
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• pp.49-56
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• 2023

송충살이고치벌아과의 Aleiodes의 미기록종 4종(A. lipwigi, A. guidaae, A. subemarginatus, A. caprinus)을 국내 최초로 보고한다. 본 연구에선 종의 동정을 위한 진단, 분포, 삽화 및 DNA 바코드 서열을 제공한다.

• International Journal of Industrial Entomology and Biomaterials
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• 제36권2호
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• pp.42-48
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• 2018

We found the large narcissus fly, Merodon equestris (Fabricius), which has been doubted to occur in Korea. This species is an economically important in management of narcissus and also of quarantine pests. We therefore provide the morphological diagnosis and DNA barcode sequences for rapid species identification of M. equestris based on the five Korean specimens.

• Animal Systematics, Evolution and Diversity
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• 제35권3호
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• pp.151-155
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• 2019

Jesogammarus (Jesogammarus) hinumensis Morino, 1993 was discovered firstly from a brackish water region in Jeju Island, Korea. To identification of the specimens we conducted both of morphological and molecular analyses. This species is characterized by having large eyes and a robust seta on the mandibular palp article 1. The morphology of this Korean specimens was well matched with the original description without variation. The mitochondrial cytochrome c oxidase subunit I(COI) sequences of the present specimens were also completely identical to the sequences of J. (J.) hinumensis collected from the type locality of the species. Thus, we concluded that the Jesogammarus species from Jeju Island is J.(J.) hinumensis, based on both morphological and molecular data.

• Journal of Species Research
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• 제11권1호
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• pp.22-28
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• 2022

Two crinoid specimens of genus Tropiometra were collected from Busan and Tongyeong by SCUBA diving on August 2010 and October 2011, respectively. The specimens were identified as Tropiometra macrodiscus (Hara, 1895), which belongs to the family Tropiometridae of superfamily Tropiometroidea. The genus Tropiometra AH Clark, 1907 comprises four species worldwide at present, and it has not been reported in Korea. Tropiometra macrodiscus was first described by Hara (1895) in Japan. It is difficult to distinguish T. macrodiscus from T. afra (Hartlaub, 1890), there has been confusion with examination of their phylogenetic positions in crinoid morphological classification. Despite this, T. macrodiscus can be distinguished from T. afra based on longer arms, stouter whole-body parts, magnificently larger numbers of cirrus, and numerous segments. The morphological characteristics of T. macrodiscus collected in Korea have been described, and DNA barcode region representing cytochrome c oxidase subunit I was obtained for its molecular phylogenetic analysis.

• 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.

• 한국균학회소식:학술대회논문집
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• 한국균학회 2015년도 추계학술대회 및 정기총회
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• pp.41-41
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• 2015

Oomycetes belong to the kingdom Straminipila, a remarkably diverse group which includes brown algae and planktonic diatoms, although they have previously been classified under the kingdom Fungi. These organisms have evolved both saprophytic and pathogenic lifestyles, and more than 60% of the known species are pathogens on plants, the majority of which are classified into the order Peronosporales (includes downy mildews, Phytophthora, and Pythium). Recent phylogenetic investigations based on DNA sequences have revealed that the diversity of oomycetes has been largely underestimated. Although morphology is the most valuable criterion for their identification and diversity, morphological species identification is time-consuming and in some groups very difficult, especially for non-taxonomists. DNA barcoding is a fast and reliable tool for identification of species, enabling us to unravel the diversity and distribution of oomycetes. Accurate species determination of plant pathogens is a prerequisite for their control and quarantine, and further for assessing their potential threat to crops. The mitochondrial cox2 gene has been widely used for identification, taxonomy and phylogeny of various oomycete groups. However, recently the cox1 gene was proposed as a DNA barcode marker instead, together with ITS rDNA. To determine which out of cox1 or cox2 is best suited as universal oomycete barcode, we compared these two genes in terms of (1) PCR efficiency for 31 representative genera, as well as for historic herbarium specimens, and (2) in terms of sequence polymorphism, intra- and interspecific divergence. The primer sets for cox2 successfully amplified all oomycete genera tested, while cox1 failed to amplify three genera. In addition, cox2 exhibited higher PCR efficiency for historic herbarium specimens, providing easier access to barcoding type material. In addition, cox2 yielded higher species identification success, with higher interspecific and lower intraspecific divergences than cox1. Therefore, cox2 is suggested as a partner DNA barcode along with ITS rDNA instead of cox1. Including the two barcoding markers, ITS rDNA and cox2 mtDNA, the multi-locus phylogenetic analyses were performed to resolve two complex clades, Bremia lactucae (lettuce downy mildew) and Peronospora effuse (spinach downy mildew) at the species level and to infer evolutionary relationships within them. The approaches discriminated all currently accepted species and revealed several previously unrecognized lineages, which are specific to a host genus or species. The sequence polymorphisms were useful to develop a real-time quantitative PCR (qPCR) assay for detection of airborne inoculum of B. lactucae and P. effusa. Specificity tests revealed that the qPCR assay is specific for detection of each species. This assay is sensitive, enabling detection of very low levels of inoculum that may be present in the field. Early detection of the pathogen, coupled with knowledge of other factors that favor downy mildew outbreaks, may enable disease forecasting for judicious timing of fungicide applications.

• 원예과학기술지
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• 제30권3호
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• pp.278-285
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• 2012

춘란(Cymbidium goeringii)은 동북아시아에서 난류중에서 가장 잘 알려진 중요한 종이다. 본 연구에서는 8개의 simple sequence repeats(SSR) 마커(CG409, CG415, CG709, CG722,CG787, CG1023, CG1210, and CG1281)를 동시증폭할 수 있는 multiplex PCR 시스템을 개발하여, 춘란의 40품종에 대한 유전자형을 분석하하는데 활용하였다. 품종은 모든 품종은 서로 다른 복합 유전자형을 가졌으며, 개체간 평균 복합식별력은 $7.14{\times}10^{-10}$로 매우 높게 나타났다. 관찰 이형접합도(Ho = 0.466)는 한국 내 야생집단과 유사한 값(동해안: 0.438, 서해안: 0.583)을 보였는데, 이 사실은 각 품종이 원래 야생에서 채집되어 품종으로 등록된 후 영양번식을 통해 번식을 하면서 유전적 본질이 변형되지 않았음을 의미한다. 본 연구에서 아울러 확립한 8개의 SSR 마커의 복합 유전자형을 이용하여 SSR DNA ID를 2차원 바코드로 표현하는 프로그램을 개발하였다. 복합 유전자형을 사용하여 개발된 개체별 고유 DNA ID의 개체 식별력은 통계적으로 99.999999% 이상이 되므로 높은 정확도로 개체간 구분이 가능해진다. 본 연구에서 개발한 SSR DNA ID와 2차원 바코드는 춘란 품종간 식별, 유지 등에 유용하게 활용될 수 있을 것이다.

• ALGAE
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• 제28권1호
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• pp.31-43
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• 2013

This review provides a comprehensive summary of the PCR primers and profiles currently in use in our laboratory for red algal DNA barcoding and phylogenetic research. While work focuses on florideophyte taxa, many of the markers have been applied successfully to the Bangiales, as well as other lineages previously assigned to the Bangiophyceae sensu lato. All of the primers currently in use with their respective amplification profiles and strategies are provided, which can include full fragment, overlapping fragments and what might best be called "informed overlapping fragments", i.e., a fragment for a marker is amplified and sequenced for a taxon and those sequence data are then used to identify the best primers to amplify the remaining fragment(s) for that marker. We extend this strategy for the more variable markers with sequence from the external PCR primers used to "inform" the selection of internal sequencing primers. This summary will hopefully serve as a useful resource to systematists in the red algal community.

• Animal Systematics, Evolution and Diversity
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• 제36권3호
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• pp.228-231
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• 2020

Pseudohelice subquadrata (Dana, 1851) is endangered due to its restricted habitat; hence, it has been designated as a marine protected species and endangered species by law in Korea. It has been recorded only Jeju-do and Geomun-do, Republic of Korea. The present study, is the first report on a cytochrome c oxidase subunit I DNA barcode for P. subquadrata. The maximum intra-specific genetic distance among all P. subquadrata individuals was found to be 0.5%, whereas inter-genetic distance within the same genus was 17.2-21.5% compared with Helice tientsinensis (Rathbun, 1931), H. tridens (De Haan, 1835), H. epicure (Ng et al., 2018), and Helicana wuana (Rathbun, 1931). Our barcoding data can thus be used as reference for restoration and conservation studies on P. subquadrata, which are designated as marine protected species.

• Entomological Research
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• 제48권6호
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• pp.559-566
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• 2018

In Korea, the centipede called "Wang-ji-ne" or "O-gong" is used as an important medicinal resource. This centipede has been known as Scolopendra subspinipes mutilans Koch 1878. Recent studies have assessed its taxonomic treatment in several geographical populations from China, Japan and Taiwan, but not Korea. We therefore attempted to assess exact species status for the Korean population of this subspecies using both morphological and DNA barcode methods. The result inferred from DNA barcoding showed that the Korean population is S. mutilans explicitly separated from S. subspinipes. Within S. mutilans, the Korean population is morphologically identical and genetically closer to the Chinese population rather than island populations of Japan and Taiwan. Particularly, the mainland populations from Korea and China share six haplotypes from 17 despite being far apart geographically.