• Journal of The Korean Astronomical Society
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• v.26 no.2
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• pp.89-98
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• 1993

Magnetostatic models of starspots of late type main sequence stars$(G5V\~K5V)$ have been constructed to investigate their physical characteristics by using the similarity law suggested by Schluter and Temesvary(1958) and later employed by Deinzer(1965) and Yun(1968). The starspots are assumed to be single, circular and in horizontal magnetostatic equilibrium. In the present study we considered only those model spots whose area covers less than $12\%$ of the entire stellar surface as suggested by observations. The computed surface field strength of our model spots ranges from $10^3$\;to\;several\;10^3$ gauss and their magnetic flux is found to be $10\~100$ times that of sunspots. The field strength is sensitive to spectral type, which increases with later spectral type. In contrast to the field strength, the area of starspots depends strongly on the total magnetic flux. Finally, it is noted that the computed field strength of model spots belonging to $G0V\~G5V$ falls below the equipartition field strength at their parent stellar surface unless the coverage is less than $2\%$. This suggests that the observed spot on $G0V\~G5V$ stars is likely to be a group of small starspots.

• Journal of Microbiology and Biotechnology
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• v.16 no.10
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• pp.1650-1655
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• 2006

Bacteria belonging to the genus Paenibacillus are facultatively anaerobic endospore formers and are attracting growing ecological and agricultural interest, yet their genome information is very limited. The present study surveyed the genomic features of P. polymyxa ATCC $842^T$ using pulse-field gel electrophoresis of restriction fragments and sample genome sequencing of 1,747 reads (approximately 17.5% coverage of the genome). Putative functions were assigned to more than 60% of the sequences. Functional classification of the sequences showed a similar pattern to that of B. subtilis. Sequence analysis suggests nitrogen fixation and antibiotic production by P. polymyxa ATCC $842^T$, which may explain its plant growth-promoting effects.

• Journal of information and communication convergence engineering
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• v.16 no.2
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• pp.84-92
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• 2018

For large wireless sensor networks running on battery power, the time synchronization of all sensor nodes is becoming a crucial task for waking up sensor nodes with exact timing and controlling transmission and reception timing. However, as network size increases, this synchronization process tends to require long processing time consume significant power. Furthermore, a naïve synchronization scheduler may leave some nodes unsynchronized. This paper proposes a power-efficient scheduling algorithm for time synchronization utilizing the notion of density, which is defined by the number of neighboring nodes within wireless range. The proposed scheduling algorithm elects a sequence of minimal reference nodes that can complete the synchronization with the smallest possible number of hops and lowest possible power consumption. Additionally, it ensures coverage of all sensor nodes utilizing a two-pass synchronization scheduling process. We implemented the proposed synchronization algorithm in a network simulator. Extensive simulation results demonstrate that the proposed algorithm can reduce the power consumption required for the periodic synchronization process by up to 40% for large sensor networks compared to a simplistic multi-hop synchronization method.

• Journal of KIISE:Databases
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• v.41 no.4
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• pp.249-255
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• 2014

Copy number variations(CNVs) are a recently recognized class of human structural variations and are associated with a variety of human diseases, including cancer. To find important cancer genes, researchers identify novel CNVs in patients with a particular cancer and analyze large amounts of genomic and clinical data. We present a tool called CNVDAT which is able to detect CNVs from NGS data and systematically analyze the genomic and clinical data associated with variations. CNVDAT consists of two modules, CNV Detection Engine and Sequence Analyser. CNV Detection Engine extracts CNVs by using the multi-resolution system of scale-space filtering, enabling the detection of the types and the exact locations of CNVs of all sizes even when the coverage level of read data is low. Sequence Analyser is a user-friendly program to view and compare variation regions between tumor and matched normal samples. It also provides a complete analysis function of refGene and OMIM data and makes it possible to discover CNV-gene-phenotype relationships. CNVDAT source code is freely available from http://dblab.hallym.ac.kr/CNVDAT/.

• Asian-Australasian Journal of Animal Sciences
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• v.32 no.12
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• pp.1809-1815
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• 2019

Objective: Copy number variations (CNVs) are a major source of genetic diversity complementary to single nucleotide polymorphism (SNP) in animals. The aim of the study was to perform a comprehensive genomic analysis of CNVs based on high density whole-genome SNP markers in Chinese Dongxiang spotted pigs. Methods: We used customized Affymetrix Axiom Pig1.4M array plates containing 1.4 million SNPs and the PennCNV algorithm to identify porcine CNVs on autosomes in Chinese Dongxiang spotted pigs. Then, the next generation sequence data was used to confirm the detected CNVs. Next, functional analysis was performed for gene contents in copy number variation regions (CNVRs). In addition, we compared the identified CNVRs with those reported ones and quantitative trait loci (QTL) in the pig QTL database. Results: We identified 871 putative CNVs belonging to 2,221 CNVRs on 17 autosomes. We further discarded CNVRs that were detected only in one individual, leaving us 166 CNVRs in total. The 166 CNVRs ranged from 2.89 kb to 617.53 kb with a mean value of 93.65 kb and a genome coverage of 15.55 Mb, corresponding to 0.58% of the pig genome. A total of 119 (71.69%) of the identified CNVRs were confirmed by next generation sequence data. Moreover, functional annotation showed that these CNVRs are involved in a variety of molecular functions. More than half (56.63%) of the CNVRs (n = 94) have been reported in previous studies, while 72 CNVRs are reported for the first time. In addition, 162 (97.59%) CNVRs were found to overlap with 2,765 previously reported QTLs affecting 378 phenotypic traits. Conclusion: The findings improve the catalog of pig CNVs and provide insights and novel molecular markers for further genetic analyses of Chinese indigenous pigs.

• Economic and Environmental Geology
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• v.38 no.6 s.175
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• pp.633-642
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• 2005

We present the sedimentary sequence and distribution pattern of the late Holocene muddy deposits in the northern East China Sea shelf using the high-resolution 'Chirp' profiles. The seismic sedimentary sequence overlying acoustic basement (basal reflector-B) can be divided into two depositional units (Unit 1 and 2) bounded by erosional bounding surface (mid reflector-M). The lower Unit 1 above basal reflector-H is characterized by the acoustically parallel to subparallel reflections and channel-fill facies. The upper Unit 2, up to 7 m in thickness, shows seismically semi-transparent seismic facies and lenticular body form. On the base of sequence stratigraphic concept, these two sediment units have developed during transgression and highstand period, respectively, since the last sea-level lowstand. The transgressive systems tract (Unit 1) lie directly on the sequence boundary (reflector B) that have farmed during the last glacial maximum. The transgressive systems tract in this study consists mostly of complex of delta, fluvial, and tidal deposits within the incised valley estuary system. The maximum flooding surface (reflector M) corresponding to the top surface of transgressive systems tract is obviously characterized by erosional depression. The highstand systems tract (Unit 2) above maximum flooding surface is made up of the mud patch filled with the erosional depression. The high-stand mud deposits showing a circle shape just like a typhoon symbol locates about 140 km off the south of Cheju Island with water depth of $60\~90m$. Coverage area and total sediment volume of the mud deposits are about $3,200km^2$ and $10.7\times10^9\;m^3$, respectively. The origin of the mud patch is interpreted as a result of accumulating suspended sediments derived from the paleo-Yellow and/or Yangtze Rivers. The circular distribution pattern of the mud patch appears to be largely controlled by the presence of cyclonic eddy in the northern East China Sea.

• Journal of Ecology and Environment
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• v.43 no.2
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• pp.117-128
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• 2019

Background: Cliffs are a major plant habitat around the coastal area, but in contrast to sand dunes and salt marshes, they have been little investigated in Korea. There are simple descriptions of cliff vegetation in studies on island vegetation, but there is no published paper, which addressed sea cliff vegetation synthetically. Furthermore, the coastal area where this study was carried out was designated as a conservation reserve. Even though, this area is exposed to intense recreational use such as trekking in these days. This study aims to clarify spatial distribution and structure of vegetation along the environmental gradient on coastal cliff and plateau in the Janggi peninsula (Homigot) located on southeastern Korea. Further, this study has also another objective to prepare a restoration plan to protect this conservation reserve from intense human disturbance. Results: Landscape elements were arranged in the order of sea cliff risen directly on the sea, seashore, coastal cliff, and plateau covered with relatively deep soil in a coastal area of the Janggi peninsula (Homigot), southeastern Korea. Vegetation was sampled at 59 plots arranged from the sea cliff through the seashore and coastal cliff to plateau. The sea cliff, seashore, and coastal cliff, which compose the coastal landscape, were dominated by the seashore spatulate aster (Aster spathulifolius Maxim.) community, dwarf sand sedge (Carex pumila Thunb.) community, and seashore spatulate aster (Aster spathulifolius Maxim.) community. On the plateau corresponding to the ridge of the coastal cliff, black pine (Pinus thunbergii Parl.) community, golden rain tree (Koelreuteria paniculata Laxmann) community, east Asian hackberry (Celtis sinensis Pers.) community, sawleaf zelkova (Zelkova serrata Makino) community, and Korean oak (Quercus dentata Thunb.) community were established in the mentioned order along distance from the sea. Stand ordination showed a vegetation sequence from the seashore through the cliff to the plateau, consistent in its overall pattern among sites. This was dominated by topography. There is evidence for the importance also of salinity, drought and of soil depth. Conclusion: The lack of scientific interest in cliffs to date is in striking contrast to the commonness of cliffs around the whole national territory and to the attraction cliffs have had for humans throughout history. Cliffs provide a unique habitat, rarely investigated from an ecological viewpoint. Cliffs may represent an invaluable type of ecosystem, consisting of some of the least disturbed habitats on earth and contributing more to the biodiversity of a region than their surface coverage would indicate. Although this coastal area where this study was carried out was designated as a conservation reserve, this area is in danger of severe disturbance due to excessive recreational use. We recommended a restoration plan to protect this area from such a disturbance.

• Molecules and Cells
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• v.38 no.5
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• pp.466-473
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• 2015

Over the last 30 years, Hanwoo has been selectively bred to improve economically important traits. Hanwoo is currently the representative Korean native beef cattle breed, and it is believed that it shared an ancestor with a Chinese breed, Yanbian cattle, until the last century. However, these two breeds have experienced different selection pressures during recent decades. Here, we whole-genome sequenced 10 animals each of Hanwoo and Yanbian cattle (20 total) using the Illumina HiSeq 2000 sequencer. A total of approximately 3.12 and 3.07 billion sequence reads were mapped to the bovine reference sequence assembly (UMD 3.1) at an average of approximately 10.71- and 10.53-fold coverage for Hanwoo and Yanbian cattle, respectively. A total of 17,936,399 single nucleotide polymorphisms (SNPs) were yielded, of which 22.3% were found to be novel. By annotating the SNPs, we further retrieved numerous nonsynonymous SNPs that may be associated with traits of interest in cattle. Furthermore, we performed whole-genome screening to detect signatures of selection throughout the genome. We located several promising selective sweeps that are potentially responsible for economically important traits in cattle; the PPP1R12A gene is an example of a gene that potentially affects intramuscular fat content. These discoveries provide valuable genomic information regarding potential genomic markers that could predict traits of interest for breeding programs of these cattle breeds.

• Journal of Microbiology and Biotechnology
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• v.20 no.6
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• pp.1001-1005
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• 2010

The chitinase-producing strain TKU008 was isolated from soil in Taiwan, and it was identified as a new species of Pseudomonas. The culture condition suitable for production of chitinase was found to be shaking at $30^{\circ}C$ for 4 days in 100 ml of medium containing 1% shrimp and crab shell powder, 0.1% $K_2HPO_4$, and 0.05% $MgSO_4{\cdot}7H_2O$ (pH 7). The TKU008 chitinase was suppressed by the simultaneously existing protease, which also showed the maximum activity at the fourth day of incubation. The molecular mass of the chitinase was estimated to be 40 kDa by SDS-PAGE. The optimum pH, optimum temperature, pH stability, and thermal stability of the chitinase were pH 7, $50^{\circ}C$, pH 6-7, and <$50^{\circ}C$, respectively. The chitinase was completely inhibited by $Mn^{2+}$ and $Cu^{2+}$. The results of peptide mass mapping showed that 11 tryptic peptides of the chitinase were identical to the chitinase CW from Bacillus cereus (GenBank Accession No. gi 45827175) with a 32% sequence coverage.

• Asian Pacific Journal of Cancer Prevention
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• v.13 no.4
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• pp.1667-1674
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• 2012

Objective: To explore the differential protein expression profile in EC304 gastric cancer cells induced by alphastatin. Methods: Cultured EC304 cells in the exponential phase of growth were randomly divided into alphastatin and control groups. Total proteins were extracted and the two dimensional electrophoresis (2-DE) technique was applied to analyze differences in expression with ImageMaster 2D Platinum 5.0 software. Proteins were identified using the MASCOT database and selected differently expressed proteins were characterised by western blotting and immunofluorescence. Results: $1350{\pm}90$ protein spots were detected by the ImageMaster software in the 2-DE gel images from the control and alphastatin groups. The match rate was about 72-80% for the spectrum profiles, with 29 significantly different protein spots being identified, 10 upregulated, 16 downregulated, two new and one lost. The MASCOT search scores were 64-666 and the peptide matching numbers were 3-27 with sequence coverage of 8-62%. Twenty-three proteins were checked by mass spectrometry, including decrease in Nm23 and profilin-2 isoform b associated with the regulation of actin multimerisation induced by extracellular signals. Conclusion: The proteome in EC304 cells is dramatically altered by alphastatin, which appears to play an important role in modulating cellular activity and anti-angiogenesis by regulating protein expression and signal transduction pathways through Nm23 and profilin-2 isoform b, providing new research directions for anti-angiogenic therapy of gastric cancer.