• Mycobiology
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• v.45 no.4
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• pp.401-408
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• 2017

Colletotrichum gloeosporioides is an economically important fungal pathogen causing substantial yield losses indifferent host plants. To understand the genetic diversity and molecular epidemiology of this fungus, we have developed a novel, high-resolution multi-locus microsatellite typing (MLMT) method. Bioinformatic analysis of C. gloeosporioides unannotated genome sequence yielded eight potential microsatellite loci, of which five, CG1 $(GT)_n$, CG2 $(GT1)_n$, CG3 $(TC)_n$, CG4 $(CT)_n$, and CG5 $(CT1)_n$ were selected for further study based on their universal amplification potential, reproducibility, and repeat number polymorphism. The selected microsatellites were used to analyze 31 strains of C. gloeosporioides isolated from 20 different host plants from India. All microsatellite loci were found to be polymorphic, and the approximate fragment sizes of microsatellite loci CG1, CG2, CG3, CG4, and CG5 were in ranges of 213-241, 197-227, 231-265, 209-275, and 132-188, respectively. Among the 31 isolates, 55 different genotypes were identified. The Simpson's index of diversity (D) values for the individual locus ranged from 0.79 to 0.92, with the D value of all combined five microsatellite loci being 0.99. Microsatellite data analysis revealed that isolates from Ocimum sanctum, Capsicum annuum (chili pepper), and Mangifera indica (mango) formed distinct clusters, therefore exhibited some level of correlation between certain genotypes and host. The developed MLMT method would be a powerful tool for studying the genetic diversity and any possible genotype-host correlation in C. gloeosporioides.

• Parasites, Hosts and Diseases
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• v.58 no.2
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• pp.181-184
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• 2020

Blastocystis, an enteric protist, has been reported to be an important cause of protozoal gastrointestinal manifestations in humans and animals worldwide. Animals harboring certain Blastocystis subtypes (STs) may serve as a potential source of human infection. However, information about the prevalence and genetic diversity of Blastocystis in alpacas is limited. In the present study, a total of 366 fecal samples from alpacas in Shanxi Province, northern China, were examined for Blastocystis by PCR amplification of the small subunit rRNA gene, followed by sequencing and phylogenetic analysis. The prevalence of Blastocystis in alpacas was 23.8%, and gender difference in the prevalence of Blastocystis was observed. The most predominant Blastocystis ST was ST10, followed by ST14 and ST5. The detection of ST5, a potentially zoonotic genotype, indicates that alpacas harboring ST5 could be a potential source of human infection with Blastocystis. These data provide new insight into the prevalence and genetic diversity of Blastocystis in alpacas.

• Journal of Life Science
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• v.22 no.3
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• pp.293-297
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• 2012

The movement of vesicles from the neuronal cell body to specific destinations requires molecular motors. The squid giant axon represents a powerful model for studies of the axonal transport mechanism because the axoplasm can readily be separated from the sheath by simple extrusion. In a previous study, vesicular movements in the axoplasm of the squid giant axon were inhibited by the kinesin antibody. In the present study, we cloned and sequenced the cDNAs for squid brain KIFs. Amplification of the conserved nucleotide sequences of the motor domain by polymerase chain reaction (PCR) using first-strand cDNAs of the squid optic lobe identified six new KIF proteins. Motif analysis of the motor domains revealed that the squid KIFs are homologous to the consensus sequences of the mouse KIFs. The phylogenetic tree generated by using the maximum parsimony (MP) method, the neighbor-joining (NJ) method, the minimum evolution (ME) method, and the maximum likelihood (ML) method showed that squid KIFs are closest to mouse KIFs. These data prove the phylogenetic relationships between squid KIFs and mouse ones.

• KSII Transactions on Internet and Information Systems (TIIS)
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• v.9 no.10
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• pp.4002-4014
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• 2015

ITU-R M.1842-1, as a well-known specification dedicated to maritime mobile applications, has standardized wireless transmission protocols according to the particular characteristics of a maritime communications scenario. A time division multiple access (TDMA) frame structure, along with modulation schemes to achieve a high data rate, has been described clearly in ITU-R M.1842-1. However, several specification items are still under "to be decided" status, which brings ambiguity to research works. In addition, the current version of ITU-R M.1842-1 is focused mainly on maritime transmissions in open-sea areas, where the cyclic prefix (CP) is set to zero and only 16-QAM is used in the multi-carrier (MC) system. System performance might be dramatically degraded in coastline areas due to the inter-symbol interference (ISI) caused by selective fading. This is because there is a higher probability that the signal will be reflected by obstacles in coastline areas. In this paper, we introduce the transmission resource block (TRB) dedicated to ITU-R M.1842-1 for a ship ad-hoc network (SANET), where the pilot pattern of TRB is based on the terrestrial trunked radio (TETRA). After that, we evaluated SANET performance under the maritime channel model in a coastline area. In order to avoid noise amplification and to overcome the ISI caused by selective fading, several strategies are suggested and compared in the channel estimation and equalization procedures, where the link-level simulation results finally validate our proposals.

• The Journal of Korean Institute of Information Technology
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• v.17 no.11
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• pp.17-26
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• 2019

RAID-5 technology is one of the choice for flash storage device to enhance its reliability. However, RAID-5 has inherent parity update overhead, especially, parity overhead for partial stripe write is one of the crucial issues for flash-based RAID-5 technologies. In this paper, we design efficient parity log architecture for RAID-5 to eliminate runtime partial parity overhead. During runtime, partial parity is retained in buffer memory until full stripe write completed, and the parity is written with full strip write. In addition, parity log is maintained in memory until whole the stripe group is used for data write. With this parity log, partial parity can be recovered from the power loss. In the experiments, the parity log method can eliminate partial parity writes overhead with a little parity log writes. Hence it can reduce write amplification at the same reliability.

• Journal of the Korean earth science society
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• v.41 no.6
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• pp.658-669
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• 2020

The horizontal-to-vertical spectral ratio (HVSR) analysis is conducted to estimate the site amplification effect and the thickness of the sedimentary layer beneath the measurement site. We investigated the effects of meteorological variations (wind and precipitation rate) and sensor burial depths on HVSR analysis. The HVSR results were unstable when seismographs were exposed on the ground. The HVSR results of ambient noise data measured under strong winds were also unstable. It is recommended to measure the ambient noise at wind speeds of <3 m s-1. Stable HVSR results were obtained when seismographs were buried, regardless of the precipitation rates. The results of this study provide the best observations and optimal weather conditions required to acquire accurate and reliable HVSR results.

• Journal of Microbiology and Biotechnology
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• v.31 no.12
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• pp.1716-1721
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• 2021

Chikungunya fever is an arboviral disease caused by the Chikungunya virus (CHIKV). The disease has similar clinical manifestations with other acute febrile illnesses which complicates differential diagnosis in low-resource settings. We aimed to develop a rapid test for CHIKV detection based on the nucleic acid lateral flow immunoassay technology. The system consists of a primer set that recognizes the E1 region of the CHIKV genome and test strips in an enclosed cassette which are used to detect amplicons labeled with FITC/biotin. Amplification of the viral genome was done using open-source PCR, a low-cost open-source thermal cycler. Assay performance was evaluated using a panel of RNA isolated from patients' blood with confirmed CHIKV (n = 8) and dengue virus (n = 20) infection. The open-source PCR-NALFIA platform had a limit of detection of 10 RNA copies/ml. The assay had a sensitivity and specificity of 100% (95% CI: 67.56% - 100%) and 100% (95% CI: 83.89% - 100%), respectively, compared to reference standards of any positive virus culture on C6/36 cell lines and/or qRT-PCR. Further evaluation of its performance using a larger sample size may provide important data to extend its usefulness, especially its utilization in the peripheral healthcare facilities with scarce resources and outbreak situations.

• Biomolecules & Therapeutics
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• v.30 no.4
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• pp.368-379
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• 2022

Hyaluronic acid (HA), a ligand of CD44, accumulates in some types of tumors and is responsible for tumor progression. The nuclear factor erythroid 2-like 2 (NRF2) regulates cytoprotective genes and drug transporters, which promotes therapy resistance in tumors. Previously, we showed that high levels of CD44 are associated with NRF2 activation in cancer stem like-cells. Herein, we demonstrate that HA production was increased in doxorubicin-resistant breast cancer MCF7 cells (MCF7-DR) via the upregulation of HA synthase-2 (HAS2). HA incubation increased NRF2, aldo-keto reductase 1C1 (AKR1C1), and multidrug resistance gene 1 (MDR1) levels. Silencing of HAS2 or CD44 suppressed NRF2 signaling in MCF7-DR, which was accompanied by increased doxorubicin sensitivity. The treatment with a HAS2 inhibitor, 4-methylumbelliferone (4-MU), decreased NRF2, AKR1C1, and MDR1 levels in MCF7-DR. Subsequently, 4-MU treatment inhibited sphere formation and doxorubicin resistance in MCF7-DR. The Cancer Genome Atlas (TCGA) data analysis across 32 types of tumors indicates the amplification of HAS2 gene is a common genetic alteration and is negatively correlated with the overall survival rate. In addition, high HAS2 mRNA levels are associated with increased NRF2 signaling and poor clinical outcome in breast cancer patients. Collectively, these indicate that HAS2 elevation contributes to chemoresistance and sphere formation capacity of drug-resistant MCF7 cells by activating CD44/NRF2 signaling, suggesting a potential benefit of HAS2 inhibition.

• Nuclear Engineering and Technology
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• v.53 no.7
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• pp.2387-2395
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• 2021

Seismic qualifications of electrical equipment, such as cabinet systems, have been emerging as the key area of nuclear power plants in Korea since the 2016 Gyeongju earthquake, including the high-frequency domain. In addition, electrical equipment was sensitive to the high-frequency ground motions during the past earthquake. Therefore, this paper presents the rocking behavior of the electrical cabinet system subjected to Reg. 1.60 and UHS. The high fidelity finite element (FE) model of the cabinet related to the shaking table test data was developed. In particular, the first two global modes of the cabinet from the experimental test were 16 Hz and 24 Hz, respectively. In addition, 30.05 Hz and 37.5 Hz were determined to be the first two local modes in the cabinet. The high fidelity FE model of the cabinet using the ABAQUS platform was extremely reconciled with shaking table tests. As a result, the dynamic properties of the cabinet were sensitive to electrical instruments, such as relays and switchboards, during the shaking table test. In addition, the amplification with respect to the vibration transfer function of the cabinet was observed on the third floor in the cabinet due to localized impact corresponding to the rocking phenomenon of the cabinet under Reg.1.60 and UHS. Overall, the rocking of the cabinet system can be caused by the low-frequency oscillations and higher peak horizontal acceleration.

• Journal of the Earthquake Engineering Society of Korea
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• v.27 no.5
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• pp.221-230
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• 2023

This study proposes a methodology for assessing seismic liquefaction hazard by implementing high-resolution three-dimensional (3D) ground models with high-density/high-precision site investigation data acquired in an area of interest, which would be linked to geotechnical numerical analysis tools. It is possible to estimate the vulnerability of earthquake-induced geotechnical phenomena (ground motion amplification, liquefaction, landslide, etc.) and their triggering complex disasters across an area for urban development with several stages of high-density datasets. In this study, the spatial-ground models for city development were built with a 3D high-precision grid of 5 m × 5 m × 1 m by applying geostatistic methods. Finally, after comparing each prediction error, the geotechnical model from the Gaussian sequential simulation is selected to assess earthquake-induced geotechnical hazards. In particular, with seven independent input earthquake motions, liquefaction analysis with finite element analyses and hazard mappings with LPI and LSN are performed reliably based on the spatial geotechnical models in the study area. Furthermore, various phenomena and parameters, including settlement in the city planning area, are assessed in terms of geotechnical vulnerability also based on the high-resolution spatial-ground modeling. This case study on the high-precision 3D ground model-based zonations in the area of interest verifies the usefulness in assessing spatially earthquake-induced hazards and geotechnical vulnerability and their decision-making support.