• Journal of Life Science
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• v.30 no.11
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• pp.947-955
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• 2020

The foot-and-mouth disease virus (FMDV), a member of the Aphthovirus genus in the Picornaviridae family, affects wild and domesticated ruminants and pigs. During replication of the FMDV RNA (ribonucleic acid) genome, FMDV-encoding RNA polymerase 3D acts in a highly location-specific manner. This suggests that specific RNA structures recognized by 3D polymerase within non-coding regions of the FMDV genome assist with binding during replication. One such region is the cis-acting replication element (CRE), which functions as a template for RNA replication. The FMDV CRE adopts a stem-loop conformation with an extended duplex stem, supporting a novel 15-17 nucleotide loop that derives stability from base-stacking interactions, with the exact RNA nucleotide sequence of the CRE producing different RNA secondary structures. Here, we show that CRE sequences of FMDVs isolated in Korea from 2010 to 2017 exhibit A and O genotypes. Interestingly, variations in the RNA secondary structure of the Korean FMDVs are consistent with the phylogenetic relationships between these viruses and reveal the specificity of FMDV infections for particular host species. Therefore, we conclude that each genetic clade of Korean FMDV is characterized by a unique functional CRE and that the evolutionary success of new genetic lineages may be associated with the invention of a novel CRE motif. Therefore, we propose that the specific RNA structure of a CRE is an additional criterion for FMDV classification dependent on the host species. These findings will help correctly analyze CRE sequences and indicate the specificity of host species for future FMDV epidemics.

• Geophysics and Geophysical Exploration
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• v.21 no.3
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• pp.171-182
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• 2018

We performed the seismic field data processing using an open-source software (Madagascar) to verify if it is applicable to processing of field data, which has low signal-to-noise ratio and high uncertainties in velocities. The Madagascar, based on Python, is usually supposed to be better in the development of processing technologies due to its capabilities of multidimensional data analysis and reproducibility. However, this open-source software has not been widely used so far for field data processing because of complicated interfaces and data structure system. To verify the effectiveness of the Madagascar software on field data, we applied it to a typical seismic data processing flow including data loading, geometry build-up, F-K filter, predictive deconvolution, velocity analysis, normal moveout correction, stack, and migration. The field data for the test were acquired in Gunsan Basin, Yellow Sea using a streamer consisting of 480 channels and 4 arrays of air-guns. The results at all processing step are compared with those processed with Landmark's ProMAX (SeisSpace R5000) which is a commercial processing software. Madagascar shows relatively high efficiencies in data IO and management as well as reproducibility. Additionally, it shows quick and exact calculations in some automated procedures such as stacking velocity analysis. There were no remarkable differences in the results after applying the signal enhancement flows of both software. For the deeper part of the substructure image, however, the commercial software shows better results than the open-source software. This is simply because the commercial software has various flows for de-multiple and provides interactive processing environments for delicate processing works compared to Madagascar. Considering that many researchers around the world are developing various data processing algorithms for Madagascar, we can expect that the open-source software such as Madagascar can be widely used for commercial-level processing with the strength of expandability, cost effectiveness and reproducibility.

• Korean Journal of Environment and Ecology
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• v.24 no.6
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• pp.723-734
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• 2010

This study aims to analyze the change in vegetation for 10 years after the construction, targeting Suwoncheon, the first domestic ecological stream construction project. As for the section for the study, the section from Gyeonggi bridge to Youngyeon bridge, the first restoration project section, was targeted. The research districts consisted of 3 districts depending on topographical structure. Investigation check cosisted of cross-sectional topographical structure, vegetation status and the structure of herbaceous plant community. As for the cross-sectional topographical structure of the stream, the width of entire stream was 26.5~28.0m and water channel is 10~20m. The area for hydrophilic space was securing spacious riverside. Upper stream of reservoir beam was shallow and slow in reservoir area above weir. Lower stream of reservoir beam, the width of water channel was narrow and ripples were formed. Among species, 9 plants were planted and 6 species plants including Salix gracilistyla, Phragmites communis and Zoysia japonica were planted at the time of construction. In the water side, there were 2 species, such as Zoysia japonica and Trifolium repens, etc, still remained after seeding at the time of constrcution. The planted plants which were observed through this investigation, were 2 species such as Festuca arundinacea and Dactylis glomerata. Apart from the planted plants, arid climate herbaceous plant such as Setaria viridis and Artemisia princeps var. orientalis formed power and the naturalized species variously emerged in 15 species. For revetment, natural stone stacking method was condicted and Salix gracilistyla, Aceriphyllum rossii, etc were planted. But all the planted plants disappeared and now it was covered with Equisetum arvense and Humulus japonicus. It was because that the base for growth and development of the plants was not constructed at the time of restoration in a way of attaching natural stones onto the concrete base. In the water channel, various wetland species including Typha orientalis, Acorus calamus var. angustatus and Phragmites communis, etc, were planted but only Salix gracilistyla, Phragmites communis and Zizania latifolia remained. As for species of the autochthons, Persicaria thunbergii was dominant. In the lower stream of reservoir beam, Humulus japonicus formed forces. In the hydrophilic space, it was necessary to direct the landscape of in-stream vegetation in cosideration of users. For this, planting Miscanthus sacchariflorus in a community was proposed. In the upper stream of reservoir beam, suplementary screen seeding was necessary so that Zizania latifolia, Typha orientalis and Phragmites communis can fit the depth of water. In the Lower stream of reservoir beam, it was necessary to constantly manage Humulus japonicus so that the wetland autochthons species, such as Phragmites communis and Persicaria thunbergii can establish power more stably.

• Journal of the Korean Geophysical Society
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• v.2 no.1
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• pp.39-44
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• 1999

High-resolution images are drawn from existing seismic data which were originally obtained by Korea Ocean Research & Development Institute (KORDI) during 1994-1997 for deep seismic studies on the East Sea of Korea. These images are analyzed for mapping Quaternary faults and near-bottom gas pockets. First 12 channels are selected from shot gathers for reprocessing. The processing sequence adopted for high-resolution seismic images comprises data copy, trace editing, true amplitude recovery, common-midpoint sorting, initial muting, prestack deconvolution, bandpass filtering, stacking, highpass filtering, poststack deconvolution, f-x migration, and automatic gain control (AGC). Among these processing steps, predictive deconvolution, highpass filtering, and short window AGC are the most significant in enhancement of resolution. More than 200 Quaternanry faults are interpreted on the migrated sections in the shallow depths beneath the seafloor. Although numerous faults are found mostly at the western continental slope and boundaries of the Ulleung Basin, significant amount of the faults are also indicated within the basin. Many of these faults are believed to be formed with reactivation of basement, from geotectonic activities including volcanism, and often originated in Tertiary, indicating that the tectonic regime of the East Sea might be unstable. Existence of shallow gas pockets casts real hazardous warnings to deep-sea drillings and/or to underwater constructions such as inter-island cables and gas pipelines. On the other hand, discovery of these gas pockets heightens the interests in developing natural resources in the East Sea. Reprocessed seismic sections, however, show no typical seismic characteristics for gas hydrates such as bottom-simulating reflectors in the western continental slope and ocean floor.

• 한국지구물리탐사학회:학술대회논문집
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• 2002.09a
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• pp.24-45
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• 2002

For the last several decades, high-resolution shallow marine seismic technique has been used for various resources, engineering and geological surveys. Even though the multichannel method is powerful to image subsurface structures, single channel analog survey has been more frequently employed in shallow water exploration, because it is more expedient and economical. To improve the quality of the high-resolution seismic data economically, we acquired digital seismic data using a small air gun, 6 channel streamer and PC-based system, performed data processing and produced high-resolution seismic sections. For many years, such test acquisitions were performed with other studies which have different purposes in the area of off Pohang, Yellow Sea and Gyeonggi-bay. Basic data processing was applied to the acquired data and the processing sequence included gain recovery, deconvolution, filtering, normal moveout, static corrections, CMP gathering and stacking. Examples of digitally processed sections were shown and compared with analog sections. Digital seismic sections have a much higher resolution after data processing. The results of acquisition and processing show that the high-resolution shallow marine seismic surveys using a small air gun, 6 channel streamer and PC-based system may be an effective way to image shallow subsurface structures precisely.

• Journal of the Korean Vacuum Society
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• v.19 no.4
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• pp.307-313
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• 2010

One-dimensional cubic phase silicon carbide nanowires (${\beta}$-SiC NWs) were efficiently synthesized by thermal chemical vapor deposition (TCVD) with mixtures containing Si powders and nickel chloride hexahydrate $(NiCl_2{\cdot}6H_2O)$ in an alumina boat with a carbon source of methane $(CH_4)$ gas. SEM images are shown that the growth temperature (T) of $1,300^{\circ}C$ is not enough to synthesize the SiC NWs owing to insufficient thermal energy for melting down a Si powder and decomposing the methane gas. However, the SiC NWs could be synthesized at T>$1,300^{\circ}C$ and the most efficient temperature for growth of SiC NWs is T=$1,400^{\circ}C$. The synthesized SiC NWs have the diameter with an average range between 50~150 nm. Raman spectra clearly revealed that the synthesized SiC NWs are forming of a cubic phase (${\beta}$-SiC). Two distinct peaks at 795 and $970 cm^{-1}$ in Raman spectra of the synthesized SiC NWs at T=$1,400^{\circ}C$ represent the TO and LO mode of the bulk ${\beta}$-SiC, respectively. XRD spectra are also supported to the Raman spectra resulting in the strongest (111) peaks at $2{\Theta}=35.7^{\circ}$, which is the (111) plane peak position of 3C-SiC. Moreover, the gas flow rate of 300 sccm for methane is the optimal condition for synthesis of a large amount of ${\beta}$-SiC NW without producing the amorphous carbon structure shown at a high methane flow rate of 800 sccm. TEM images are shown two kinds of the synthesized ${\beta}$-SiC NWs structures. One is shown the defect-free ${\beta}$-SiC NWs with a (111) interplane distance of 0.25 nm, and the other is the stacking-faulted ${\beta}$-SiC NWs. Also, TEM images exhibited that two distinct SiC NWs are uniformly covered with $SiO_2$ layer with a thickness of less 2 nm.

• The Korean Journal of Petroleum Geology
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• v.10 no.1_2 s.11
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• pp.23-33
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• 2004

The Lago Sofia conglomerate in southern Chile is a lenticular unit encased within mudstone-dominated, deep-sea successions (Cerro Toro Formation, upper Cretaceous), extending from north to south for more than $120{\cal}km$. The Lago Sofia conglomerate is a unique example of long, gravelly deep-sea channels, which are rare in the modern environments. In the northern part (areas of Lago Pehoe and Laguna Goic), the conglomerate unit consists of 3-5 conglomerate bodies intervened by mudstone sequences. Paleocurrent data from these bodies indicate sediment transport to the east, south, and southeart. The conglomerate bodies in the northern Part are interpreted as the tributary channels that drained down the Paleoslope and converged to form N-S-trending trunk channels. In the southern part (Lago Sofia section), the conglomerate unit comprises a thick (> 300 m) conglomerate body, which probably formed in axial trunk channels of the N-5-trending foredeep trough. The well-exposed Lago Sofia section allowed for detailed investigation of sedimentary facies and large-scale architecture of the deepsea channel conglomerate. The conglomerate in Lago Sofia section comprises stratified conglomerate, massive-to-graded conglomerate, and diamictite, which represent bedload deposition under turbidity currents, deposition by high-density turbidity currents, and muddy debris flows, respectively. Paleocurrent data suggest that the debris flows originated from the failure of nearby channel banks or slopes flanking the channel system, whereas the turbidity currents flowed parallel to the orientation of the overall channel system. Architectural elements produced by turbidity currents represent vertical stacking of gravel sheets, lateral accretion of gravel bars, migration of gravel dunes, and filling of channel thalwegs and scoured hollows, similar to those in terrestrial gravel-bed braided rivers. Observations of large-scale stratal pattern reveal that the channel bodies are offset stacked toward the east, suggestive of an eastward migration of the axial trunk channel. The eastward channel migration is probably due to tectonic tilting related to the uplift of the Andean protocordillera just west of the Lago Sofia deep-sea channel system.