• The Plant Pathology Journal
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• v.29 no.3
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• pp.249-259
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• 2013

Burkholderia glumae causes rice grain rot and sheath rot by producing toxoflavin, the expression of which is regulated by quorum sensing (QS). The QS systems of B. glumae rely on N-octanoyl homoserine lactone, synthesized by TofI and its cognate receptor TofR, to activate the genes for toxoflavin biosynthesis and an IclR-type transcriptional regulator gene, qsmR. To understand genome-wide transcriptional profiling of QS signaling, we employed RNAseq of the wild-type B. glumae BGR1 with QS-defective mutant, BGS2 (BGR1 tofI::${\Omega}$) and QS-dependent transcriptional regulator mutant, BGS9 (BGR1 qsmR::${\Omega}$). A comparison of gene expression profiling among the wild-type BGR1 and the two mutants before and after QS onset as well as gene ontology (GO) enrichment analysis from differential expressed genes (DEGs) revealed that genes involved in motility were highly enriched in TofI-dependent DEGs, whereas genes for transport and DNA polymerase were highly enriched in QsmR-dependent DEGs. Further, a combination of pathways with these DEGs and phenotype analysis of mutants pointed to a couple of metabolic processes, which are dependent on QS in B. glumae, that were directly or indirectly related with bacterial motility. The consistency of observed bacterial phenotypes with GOs or metabolic pathways in QS-regulated genes implied that integration RNAseq with GO enrichment or pathways would be useful to study bacterial physiology and phenotypes.

• Korean Journal of Veterinary Research
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• v.42 no.3
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• pp.327-333
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• 2002

The study was carried out to examine the distribution and survival rate of Listeria monocytogenes (L monocytogenes) from various source of waters using improved isolation method. In comparision of enrichment media for isolation of L monocytogenes from water, the isolation rate and 50% detection limit of the pathogen were higher in UVM modified Listeria enrichment broth (UVM) than Listeria enrichment broth (LEB). On the other hand, when compared the selective media for isolation of the pathogen from water, the isolation rate was highest in culture at Oxford agar followed by Fraser agar, and LEB agar. In order to improve enrichment method, 100 ml of water samples with 0.1 CFU/ml of L monocytogenes was inoculated into 10 ml of UVM concentrated at 10-fold, and incubated for 24 h at $36^{\circ}C$. Isolated frequency of the pathogens in improved enrichment method completely corresponded with common (filter) method. Of a total mumber of 147 water samples from river, lake and sea, the pathogen was isolated from 1 of 39 (2.6%) river water samples and 1 of 75 (1.3%) sea water samples, but no pathogen was isolated from 33 lake water samples. Serotypes of 2 isolates were identified as type 1. L monocytogenes decreased in number from 7.2-7.4 to 4.2-4.7 log CFU/ml for 1 week poststorage (5 and $20^{\circ}C$), but the pathogens were able to be detected in river and sea water until 8 weeks after storage. However, in tap water, L monocytogenes were decreased to undetectable level after 2 weeks of storage.

• The Bulletin of The Korean Astronomical Society
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• v.39 no.1
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• pp.39.1-39.1
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• 2014

We present the results of our analysis of the RR Lyrae (RRL) variable stars detected in two transition-type dwarf galaxies (dTrans), ESO294-G010 and ESO410-G005 in the Sculptor group, which is known to be one of the closest neighboring galaxy groups to our Local Group. Using deep archival images from the Advanced Camera for Surveys (ACS) onboard the Hubble Space Telescope (HST), we have identified a sample of RR Lyrae candidates in both dTrans galaxies [219 RRab (RR0) and 13 RRc (RR1) variables in ESO294-G010; 225 RRab and 44 RRc stars in ESO410-G005]. The metallicities of the individual RRab stars are calculated via the period-amplitude-[Fe/H] relation derived by Alcock et al. This yields mean metallicities of <[Fe/H]>_{ESO294} = -1.77 +/- 0.03 and <[Fe/H]>_{ESO410} = -1.64+/- 0.03. The RRL metallicity distribution functions (MDFs) are investigated further via simple chemical evolution models; these reveal the relics of the early chemical enrichment processes for these two dTrans galaxies. In the case of both galaxies, the shapes of the RRL MDFs are well-described by pre-enrichment models. This suggests two possible channels for the early chemical evolution for these Sculptor group dTrans galaxies: 1) The ancient stellar populations of our target dwarf galaxies might have formed from the star forming gas which was already enriched through "prompt initial enrichment" or an "initial nucleosynthetic spike" from the very first massive stars, or 2) this pre-enrichment state might have been achieved by the end products from more evolved systems of their nearest neighbor, NGC 55.

• Journal of the Korea Academia-Industrial cooperation Society
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• v.18 no.11
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• pp.282-289
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• 2017

Animal Welfare is spreading throughout the world, but remains weak in Korean swine farms. Therefore, the aim of this study was to identify the effect of floor type and hanging type environmental enrichment on the behavior of growing pigs under the traditional feeding environment. A total of 45 crossbred pigs (Yorkshire${\times}$Landrace${\times}$Duroc; average weight, $33.35{\pm}5.5kg$) were assigned into three treatments consisting of control, hanging type(T1) and floor type(T2) with three replicates in semi-slurry pen. The hanging enrichment was suspended at shoulder height of the pigs, and the floor enrichment was fixed in the center of the pens. Growth and cortisol were estimated at the end of the experimental period. Behaviour patterns were analyzed on the first and eighth days after starting the experiment. Growth was not differed among control and treatments. However, cortisol was decreased in T2 compared to control(25.28 vs. 46.75 ng/mL; p<0.05). On the first day, movement and aggression were lower in both treatments than in control(p<0.01). On the eighth day, time and frequency of playing action were increased in T2 compared to T1(p<0.01) and both treatment groups showed more active behaviour than control(p<0.01). These results suggested that the enrichment may meet the natural action requirement of pigs. Therefore, our data can be utilized as basic information for welfare with environmental enrichments in farm animals.

• Nuclear Engineering and Technology
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• v.47 no.5
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• pp.596-607
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• 2015

In this paper, we describe a computer program, iBEST (inverse Burnup ESTimator), that we developed to accurately estimate the burnup histories of spent nuclear fuels based on sample measurement data. The burnup history parameters include initial uranium enrichment, burnup, cooling time after discharge from reactor, and reactor type. The program uses algebraic equations derived using the simplified burnup chains of major actinides for initial estimations of burnup and uranium enrichment, and it uses the ORIGEN-S code to correct its initial estimations for improved accuracy. In addition, we newly developed a stable bisection method coupled with ORIGEN-S to correct burnup and enrichment values and implemented it in iBEST in order to fully take advantage of the new capabilities of ORIGEN-S for improving accuracy. The iBEST program was tested using several problems for verification and well-known realistic problems with measurement data from spent fuel samples from the Mihama-3 reactor for validation. The test results show that iBEST accurately estimates the burnup history parameters for the test problems and gives an acceptable level of accuracy for the realistic Mihama-3 problems.

• Biomolecules & Therapeutics
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• v.30 no.1
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• pp.98-116
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• 2022

The small GTPase RhoA has been studied extensively for its role in actin dynamics. In this study, multiple bioinformatics tools were applied cooperatively to the microarray dataset GSE64714 to explore previously unidentified functions of RhoA. Comparative gene expression analysis revealed 545 differentially expressed genes in RhoA-null cells versus controls. Gene set enrichment analysis (GSEA) was conducted with three gene set collections: (1) the hallmark, (2) the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway, and (3) the Gene Ontology Biological Process. GSEA results showed that RhoA is related strongly to diverse pathways: cell cycle/growth, DNA repair, metabolism, keratinization, response to fungus, and vesicular transport. These functions were verified by heatmap analysis, KEGG pathway diagramming, and direct acyclic graphing. The use of multiple gene set collections restricted the leakage of information extracted. However, gene sets from individual collections are heterogenous in gene element composition, number, and the contextual meaning embraced in names. Indeed, there was a limit to deriving functions with high accuracy and reliability simply from gene set names. The comparison of multiple gene set collections showed that although the gene sets had similar names, the gene elements were extremely heterogeneous. Thus, the type of collection chosen and the analytical context influence the interpretation of GSEA results. Nonetheless, the analyses of multiple collections made it possible to derive robust and consistent function identifications. This study confirmed several well-described roles of RhoA and revealed less explored functions, suggesting future research directions.

• Microbiology and Biotechnology Letters
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• v.35 no.1
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• pp.52-57
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• 2007

A gas-circulating bioreactor was used for enrichment of autotrophic methanogens. Mixture of hydrogen and carbon dioxide (5:1) was used as a sole energy and carbon source. Anaerobic digestive sludge isolated from wastewater treatment system was inoculated into the gas-circulating bioreactor. The enrichment of two chemolithotrophic methanogens, Methanobacterium curvum and Methanobacterium oryzae was accomplished in the gas-circulating bioreactor. The enriched bacteria were cultivated in a bioreactor equipped with hollow-fiber hydrogen-supplying system (hollow-fiber bioreactor), and a hybrid-type bioreactor equipped with hollow-fiber hydrogen-supplying system and electrochemical redox control system. The methane productivity was maximally 30% (V/V) in the hollow-fiber bioreactors and 50% (V/V) in the hybrid-type bioreactor.

• The KIPS Transactions:PartB
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• v.15B no.4
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• pp.365-374
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• 2008

In this paper, we propose a model to enrich an ontology by incrementally extending the relations through variations of patterns. In order to generalize initial patterns, combinations of features are considered as candidate patterns. The candidate patterns are used to extract relations from Wikipedia, which are sorted out according to reliability based on corpus frequency. Selected patterns then are used to extract relations, while extracted relations are again used to extend the patterns of the relation. Through making variations of patterns in incremental enrichment process, the range of pattern selection is broaden and refined, which can increase coverage and accuracy of relations extracted. In the experiments with single-feature based pattern models, we observe that the features of lexical, headword, and hypernym provide reliable information, while POS and syntactic features provide general information that is useful for enrichment of relations. Based on observations on the feature types that are appropriate for each syntactic unit type, we propose a pattern model based on the composition of features as our ongoing work.

• Animal Bioscience
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• v.37 no.3
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• pp.536-546
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• 2024

Objective: This experiment was conducted to investigate the effect of grain-based pecking blocks on productivity and welfare status at two commercial broiler welfare-certified farms. Methods: Production and welfare indicators were assessed at two farms (designated Farm A and B). Both farms had two windowless houses with forced tunnel-type ventilation and housed broilers at stocking densities of approximately 16.7 birds/m² (Farm A) and 16.8 birds/m² (Farm B). Each house was divided into two or three equal sections and was provided with or without pecking blocks. Grain-based pecking blocks, measuring 25 × 25 × 25 cm, were given to broilers in both farms at 1 block per 1,000 birds. Various parameters including productivity (body weight and flock uniformity), corticosterone levels (in fecal droppings and feathers), footpad dermatitis, hock burn, feather dirtiness, gait score, litter quality, body surface temperature, and volatile fatty acids in fecal samples were assessed at 26 days of age, whereas litter quality was analyzed at 13 and 26 days of age. Results: There were no significant effects of providing pecking blocks on productivity (body weight and uniformity), fecal and feather corticosterone, welfare indicators (i.e., footpad dermatitis, hock burn, feather cleanliness, and gait score), and litter quality (i.e., moisture, nitrogen, and pH). No differences in body surface temperature between the control and enrichment treatments were noted in Farm B, but body surface temperatures of the head (p = 0.029) and legs (p = 0.011) in the enrichment vs. control group were elevated in Farm A. Butyrate concentration in the enrichment vs control group was higher in Farm B (p = 0.023), but this effect was not detected in Farm A. Conclusion: It is concluded that grain-based pecking blocks did not affect performance and welfare indicators. Further studies are warranted to elucidate the potential impact of grain-based pecking blocks on gut health indicators.

• Journal of the Korean Society of Marine Environment & Safety
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• v.22 no.5
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• pp.500-507
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• 2016

This study was undertaken to improve the survival and early life growth rates of cold-water fish by culturing rotifer (Brachionus plicatilis) with low-temperature tolerance. The enrichment experiment was carried out at different temperatures and over different time intervals. Cultivation of the rotifer at low temperatures was repeated, with the selected and cultured as the water temperature was gradually lowered from $20^{\circ}C$ to $10^{\circ}C$. Enrichment of the rotifer was completed using A, S, SCV and SCP. Enrichment was carried out after 6, 12 and 24 hours at three different temperatures (10, 15 and $20^{\circ}C$). In the growth experiments, the rotifer increased to approximately triple their original size, from $350{\pm}7.9ind./ml$ to $1,064{\pm}5.7ind./ml$ at $10^{\circ}C$ over 50 days. The fatty acid composition of the four enrichment materials was species-specific, with the highest ratios belonging to eicosapentaenoic acid (EPA, C20:5n-3) and docosahezaenoic acid (DHA, C22:6n-3) in SCP. The fatty acid composition of the rotifers was affected by the enrichment materials. The EPA (% of total fatty acid) was more than 2 % in SCP, which showed a higher ratio than the other enrichment materials. DHA was higher in S reaching 12.40 % at $15^{\circ}C$ for 24 hours. The highest levels of EPA (3.09 %) and DHA (11.65 %) were obtained after the rotifers were enriched with S at $20^{\circ}C$ for 12hours.