• Animal Bioscience
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• v.36 no.9
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• pp.1453-1464
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• 2023

Objective: This study investigated the changes in bacterial communities within decomposing swine microcosms, comparing soil with or without intact microbial communities, and under aerobic and anaerobic conditions. Methods: The experimental microcosms consisted of four conditions: UA, unsterilized soil-aerobic condition; SA, sterilized soil-aerobic condition; UAn, unsterilized soil-anaerobic condition; and San, sterilized soil-anaerobic condition. The microcosms were prepared by mixing 112.5 g of soil and 37.5 g of ground carcass, which were then placed in sterile containers. The carcass-soil mixture was sampled at day 0, 5, 10, 30, and 60 of decomposition, and the bacterial communities that formed during carcass decomposition were assessed using Illumina MiSeq sequencing of the 16S rRNA gene. Results: A total of 1,687 amplicon sequence variants representing 22 phyla and 805 genera were identified in the microcosms. The Chao1 and Shannon diversity indices varied in between microcosms at each period (p<0.05). Metagenomic analysis showed variation in the taxa composition across the burial microcosms during decomposition, with Firmicutes being the dominant phylum, followed by Proteobacteria. At the genus level, Bacillus and Clostridium were the main genera within Firmicutes. Functional prediction revealed that the most abundant Kyoto encyclopedia of genes and genomes metabolic functions were carbohydrate and amino acid metabolisms. Conclusion: This study demonstrated a higher bacteria diversity in UA and UAn microcosms than in SA and SAn microcosms. In addition, the taxonomic composition of the microbial community also exhibited changes, highlighting the impact of soil sterilization and oxygen on carcass decomposition. Furthermore, this study provided insights into the microbial communities associated with decomposing swine carcasses in microcosm.

• Proceedings of the Korean Society of Soil and Groundwater Environment Conference
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• 2004.04a
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• pp.255-259
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• 2004

본 연구에서는 유류오염 토양현장샘플을 이용한 실험실 규모의 회분식 실험을 통해 다양한 환원조건하에서 BTEX와 MTBE의 자연정화 평가 및 현장 생복원 기술 적용 타당성을 검토하는데 있다. 첫째, 오염토양과 비오염 토양에서 충분한 전자수용체의 존재는 유류오염물질의 생분해능을 증가시킬 수 있었음 알았다. 둘째, 같은 토양이라도 전자수용체의 종류와 유류오염물질의 특성에 따른 생분해능의 다양성을 확인할 수 있었다. 셋째, BTEX에 비해 MTBE의 분해가 매우 느림을 확인하였다. 본 실험은 아직 초기 단계의 실험으로 현장 조건을 충분히 만족 시키지는 못한다. 추가적인 pH 변화에 따른 전자수용체의 이용 특성 및 토양-지하수 microcosm test, 혐기성 생분해 부산물인 $CO_2$, $N_2$ 또는 $N_2$O, TBA의 연구가 실시되어야 하겠다.

• Proceedings of the Korean Society of Soil and Groundwater Environment Conference
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• 2001.09a
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• pp.235-238
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• 2001

Monod kinetics에 관련된 주요 생분해 파라미터를 도출하기 위하여 microcosm 규모의 배치실험에서 BTEX 화합물에 대해 분해능이 우수한 Pseudomonas aeruginosa을 이용해 다양한 농도의 벤젠에 대한 분해기작을 고찰하였다. 벤젠의 생분해율(D)과 Maximumspecific growth rate ($\mu$$_{max}$)는 기질의 농도가 증가할수록 높아지다가 최고점에 도달 후에 점차적으로 감소하였으며 이것은 어느 한계점 이상의 벤젠 농도가 미생물의 생분해에 방해 요소로 작용한다는 것을 나타낸다. 그러나 미생물에 의한 벤젠 분해의 상관관계를 나타내는 yield coefficient(Y)는 벤젠의 초기 농도가 낮을수록 높은 값을 나타내었다. Microbial decay constant( b)와 half-saturation constant(K$_{c}$)는 각각 0.21~0.48day$^{-1}$와 218mg/$\ell$로서 문헌값 보다 높은 수치를 나타내었다. 실험으로부터 결정된 생분해 파라미터들은 초기 벤젠 농도에 따라 큰 차이를 보이므로 생분해 모델링에 사용할 파라미터는 기질농도에 따라 적절하게 선택되어야 한다고 사료된다.

• Journal of Microbiology
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• v.34 no.3
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• pp.248-254
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• 1996

$cdc103^+$ gene in Schizosaccharomyces pombe which is similar to the CDC3 gene in Saccharomyces cerevisiae was cloned and sequenced. Comparison of the predicted amino acid sequences of $cdc103^+$ and CDC3 revealed that they share significant similarity (43% identity and 56% identity or similarity) to each other. The gene product of CDC3 in S. cerevisiae is known to be a highly ordered ring of filaments that lies just inside the cytoplasmic membrane in the region of the mother-bud neck. In order to characterize the gene product of $cdc103^+$ in Schizosaccharomyces pombe, fusion proteins were used to generate the polyclonal antibodies specific for the gene product (cdc103p). In immunofluorescence experiments, these antibodies decorate the region of the septum formation as a double ring structure late in the cell division cycle.

• Proceedings of the Korean Geotechical Society Conference
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• 1992.10a
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• pp.65-68
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• 1992

In characterizing a suspension, heterogenety is included onto the previous characterization using solids concentrations and flocculent characteristics, because of its importance in hydrodynamics. The mechanism of interface formation during the sedimentation of concentrated suspension (thickening) is investigated from a microcosm consisting of four particles in a same plane and a smaller particle below. The critical distances after shich interface forms are calculated as a function of particle size ratio when the small particle is located in the middle of the squre datermined by the large particles. The results shows that the critical separation distance increase as the size ratio approaches to one (homogeneous suspension). This conforms to the trend of existing observations that homogeneous suspensions create the solid-liquid interface at much lower concentration (at al larger separation distance) that the heterogeneous suspensions.

• Journal of Microbiology and Biotechnology
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• v.17 no.4
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• pp.668-672
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• 2007

A microcosmal experiment using a metagenomic technique was designed to assess the effect of BTEX (benzene, toluene, ethylbenzene, and xylenes) on an indigenous bacterial community in a Daejeon forest soil. A compositional shift of bacterial groups in an artificial BTEX-contaminated soil was examined by the 16S rDNA PCR-DGGE method. Phylogenetic analysis of 16S rDNAs in the dominant DGGE bands showed that the number of Actinobacteria and Bacillus populations increased. To confirm these observations, we performed PCR to amplify the 23S rDNA and 16S rDNA against the sample metagenome using Actinobacteria-targeting and Bacilli-specific primer sets, respectively. The result further confirmed that a bacterial community containing Actinobacteria and Bacillus was affected by BTEX.

• Microbiology and Biotechnology Letters
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• v.41 no.1
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• pp.79-87
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• 2013

An unstable yet efficient phenanthrene-degrading bacterium strain Ph-3 was isolated from a petroleum-contaminated site at the Mathura Oil Refinery, India. The strain was identified as Pseudomonas sp. using a polyphasic approach. An analysis of the intermediates and assays of the degradative enzymes from a crude extract of phenanthrene-grown cells showed a novel and previously unreported pattern of 1, 2-dihydroxy naphthalene and salicylic acid production. While strain Ph-3 lost its phenanthrene- degrading potential during successive transfers on a rich medium, it maintained this trait in oligotrophic soil conditions under the stress of the pollutant and degraded phenanthrene efficiently in soil microcosms. Although the maintenance and in vitro study of unstable phenotypes are difficult and such strains are often missed during isolation, purification, and screening, these bacteria constitute a substantial fraction of the microbial community at contaminated sites and play an important role in pollutant degradation during biostimulation or monitored natural attenuation.

• Proceedings of the Korean Society of Soil and Groundwater Environment Conference
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• 2000.11a
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• pp.167-170
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• 2000

The purpose of study is to evaluate the effects of physical parameters on diesel biodegradation in diesel contaminated soil. The parameters applied are concentration, temperature, moisture contents, electron acceptor(O$_2$). The results of this study showed that diesel were degraded faster at high temperature and moisture contents than at low temperature and moisture content. However concentration effect study indicates that diesel were more faster degraded at low concentration than at high concentration. The results of electron acceptor test showed concentration of oxygen did not affect the biodegradation rate of diesel in oxygen condition(10, 20%) of this study.

• Fisheries and Aquatic Sciences
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• v.15 no.3
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• pp.209-213
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• 2012

Members of the ciliate group of protozoans are often observed in mass cultures of rotifers. In particular, Euplotes and Vorticella are common contaminating species. In this study, I examined the effect of the ciliates Euplotes sp. and Vorticella sp. on the growth of the rotifer Brachionus rotundiformis by conducting inter-specific and tripartite-specific mixed-culture experiments. The growth of rotifers was suppressed in co-existence with Euplotes sp. compared with monocultures of rotifers. However, Vorticella sp. promoted rotifer growth. Moreover, Vorticella sp. improved the growth of rotifers suppressed by Euplotes sp. contaminants. In 5-L semi-mass cultures of rotifers, growth of the contaminating protozoan Euplotes sp. was heavily suppressed by Vorticella sp. The stable maintenance of the rotifer culture ecosystem can be achieved by manipulating the types of contaminating protozoan species.

• Journal of Soil and Groundwater Environment
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• v.10 no.2
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• pp.52-58
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• 2005

In Korea, little attention has been paid to microbial perchloroethylene (PCE) and/or trichloroethylene (TCE) dechlorination activity and identification of microorganisms involved in PCE reductive dechlorination at a PCE-contaminated aquifer. We performed microcosm tests using the groundwater samples from 4 different contaminated sites (i.e. Changwon A, Changwon B, Bucheon and Yangsan) to assess PCE reductive dechlorination activity. We also adapted molecular techniques to screen what types of known reductive dechlorinators are present at the PCE-contaminated aquifers. In the Changwon A and Changwon B active microcosms where potential electron donors such as sodium propionate, sodium lactate, sodium butyrate, and sodium fumarate, were added, ethylene, an end-product of complete reductive dechlorination of PCE, was detected after a period of 90 days of incubation. In the Bucheon and Yangsan active microcosms, cis-1,2-dichloroethylene (c-DCE) was accumulated without the production of vinyl chloride (VC) and ethylene. Molecular techniques were used to evaluate the microbial community structures in the Changwon B and Yangsan aquifer. We found two sequence types that were closely related to a known PCE to ethylene dechlorinator, named uncultured bacterium clone DCE47, in the Changwon B site clone library. However, in the Yangsan site clone library, no sequence type was closely related to known PCE dechlorinators reported. It is plausible that microorganisms being capable of completely dechlorinating PCE to ethylene may be present in the Changwon B site aquifer. In this study we find that complete PCE reductive dechlorinators are present at some PCE-contaminated sites in Korea. In an engineering point of view this information makes it feasible to apply a biological reductive dechlorination process for remediating PCE- and/or TCE-contaminated aquifers in Korea.