• Korean Journal of Ecology and Environment
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• v.41 no.2
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• pp.174-187
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• 2008

In an effort to identify structure and function of microbial loop in Paldang reservoir, we monitored environmental and biological factors at Kyungan stream (station K), Paldang dam (station P) and the confluence of North and South Han River (station M) from March to December, 2005. DOC concentration was higher in March to May and November than the others. Nutrient concentration in station K detected relatively higher than that of two stations. Both of phosphate and silicate gradually increased at all stations until September, after then decreased. The highest Chl-$\alpha$ concentration was observed at all stations in April, and November. The carbon biomass of bacteria and HNF were relatively higher in March, May and August than the others, whereas that of the ciliate showed no significant difference in monthly fluctuation. Nevertheless, the significant relationships revealed between ciliate (P<0.001) and HNF (P<0.05) and bacterial density. Tintinnopsis cratera, Didinium sp., Vorticella sp., Paramecium sp. and Strombidium sp. were dominant species in ciliate community. The dominant species of phytoplankton were Stephanodiscus hantzschii and Cyclotella meneghiniana at almost stations in Spring, Summer and Autumn. However, Aulacoseira granulata accounted for >95% of phytoplankton biomass at station P and M in Autumn. The carbon biomass of zooplankton was highest at station P and M in June, and relatively higher biomass observed at all stations in August, October and November. Diaphanosoma brachyurum and Bosmina longirostris were dominant in stations P and M of June and in all stations of October and November, respectively. The maximum growth (A. granulata: $0.17\;d^{-1}$, S. hantzschii: $0.14\;d^{-1}$) and grazing rate (A. granulata: 1.93 preys $d^{-1}$, S. hantzschii: 1.63 preys $d^{-1}$) of Bosmina longirostris revealed in algal preys as Aulacoseira granulata and Stephanodiscus hantzschii. In conclusion, these results suggest that bacteria and phytoplankton can play the most crucial source as prey within microbial food chain in Spring and Summer and grazing food chain in Autumn, respectively.

• Korean Journal of Microbiology
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• v.55 no.3
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• pp.268-273
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• 2019

The intestinal microbiomes vary according to the factors such environment, age and diet. The purpose of this study was to compare the gut microbial diversity between Korean infants receiving breast-fed milk and formula-fed milk. We analyzed microbial communities in stool samples collected from 80 Korean infants using next generation sequencing. Phylum level analysis revealed that microbial communities in both breast-fed infants group (BIG) was dominated by Actinobacteria ($74.22{\pm}3.48%$). Interestingly, the phylum Actinobacteria was dominant in formula-fed infants group A (FIG-A) at $73.46{\pm}4.12%$, but the proportions of phylum Actinobacteria were lower in formulafed infants group B and C (FIG-B and FIG-C) at $66.52{\pm}5.80%$ and $68.88{\pm}4.33%$. The most abundant genus in the BIG, FIG-A, FIG-B, and FIG-C was Bifidobacterium, comprising $73.09{\pm}2.31%$, $72.25{\pm}4.93%$, $63.81{\pm}6.05%$, and $67.42{\pm}5.36%$ of the total bacteria. Furthermore, the dominant bifidobacterial species detected in BIG and FIG-A was Bifidobacterium longum at $68.77{\pm}6.07%$ and $66.85{\pm}4.99%$ of the total bacteria. In contrast, the proportions of B. longum of FIG-B and FIG-C were $58.94{\pm}6.20%$ and $61.86{\pm}5.31%$ of the total bacteria. FIG-A showed a community similar to BIG, which may be due to the inclusion of galactooligosaccharide, galactosyllactose, synergy-oligosaccharide, bifidooligo and improvement material of gut microbiota contained in formula-milk. We conclude that 5-Bifidus factor contained in milk powder promotes the growth of Bifidobacterium genus in the intestines.

• ANNALS OF ANIMAL RESOURCE SCIENCES
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• v.30 no.3
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• pp.111-120
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• 2019

The objective of this study was to investigate the effect of different feed inoculation method on rumen fermentation in an in vitro. Three experimental treatments were used: control (CON, direct dispersion of feed (2 g) in rumen fluid), combinations of direct dispersion (1 g) and nylon bag (DNB, pore size: 50 ㎛, 1 g), and nylon bag (NB, 2 g). An in vitro fermentation experiment was carried out using strained rumen fluid for 48 h incubation time and timothy was used as a substrate. At the end of the incubation, in vitro dry matter digestibility (IVDMD), in vitro neutral detergent fiber digestibility (IVNDFD), pH, volatile fatty acids (VFA), ammonia nitrogen (NH₃-N), and microbial community were evaluated and gas production was estimated at 3, 6, 12, 24, 48 h incubation periods. Gas production was higher in CON than DNB and NB at 6 and 12 h incubation time (p<0.01). There were no differences in final gas production, pH, NH₃-N concentration, total VFA production, and VFA profiles among treatments. The IVDMD was lowest in CON (p<0.01) but the IVNDFD was not differed by feed distribution methods. There were no significant differences in general bacteria and fungi. Protozoa count was highest in NB treatment among treatments (p<0.01). The abundance of cellulolytic bacteria, Ruminococcus flavefaciens and Fibrobacter succinogenes, was highest in the CON among treatments (p<0.01).

• Microbiology and Biotechnology Letters
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• v.46 no.3
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• pp.253-260
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• 2018

Beneficial microorganisms are widely used in the forestry, livestock, and, in particular, agricultural sectors to control soilborne diseases and promote plant growth. However, the industrial utilization of these microorganisms is very limited, mainly due to uncertainty concerning their ability to colonize and persist in soil. In this study, the survival of beneficial microorganisms in field soil microcosms was investigated for 13 days using quantitative PCR with B. subtilis group-specific primers. Bacterial community dynamics of the treated soils were analyzed using 16S ribosomal RNA (rRNA) gene amplicon sequencing on the Illumina MiSeq platform. The average 16S rRNA gene copy number per g dry soil of Bacillus spp. was $4.37{\times}10^6$ after treatment, which was 1,000 times higher than that of the control. The gene copy number was generally maintained for a week and was reduced thereafter, but remained 100 times higher than that of the control. Bacterial community analysis indicated that Acidobacteria ($26.3{\pm}0.9%$), Proteobacteria ($24.2{\pm}0.5%$), Chloroflexi ($11.1{\pm}0.4%$), and Actinobacteria ($9.7{\pm}2.5%$) were abundant phyla in both treated and non-treated soils. In the treated soils, the relative abundance of Actinobacteria was lower, whereas those of Bacteroidetes and Firmicutes were higher compared to the control. Differences in total relative abundances of operational taxonomic units belonging to several genera were observed between the treated and non-treated soils, suggesting that inoculation of soil with the Bacillus strains influenced the relative abundances of certain groups of bacteria and, therefore, the dynamics of resident bacterial communities. These changes in resident soil bacterial communities in response to inoculation of soil with beneficial Bacillus spp. provide important information for the use of beneficial microorganisms in soil for sustainable agriculture.

• Journal of Korean Society of Environmental Engineers
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• v.32 no.1
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• pp.23-32
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• 2010

The capacity of natural purification was limited by the interruption of natural flow and the problems such as eutrophication were occurred by nutritive salts accumulation in stagnant stream. Moreover, the inflow of non-point sources causes non-degradable materials to increase in stagnant stream. In this study, an upflow biological activated carbon (BAC) biofilm process comprised of anoxic, aerobic 1, and aerobic 2 reactors were introduced for treatment of stagnant stream and SS, $BOD_5$, $COD_{Mn}$, $COD_{Cr}$, TN, and TP were monitored in the upflow BAC biofilm reactors with continuous cycling. In order to simulate stagnant stream, the lake water of amusement park and golf course were stored as influent in a tank of $2m^3$ and hydraulic retention time (HRT) was changed into 6, 4, and 2 hours. At HRT 4hr and the lake water of amusement park as influent, the removal efficiencies of SS, $BOD_5$, $COD_{Mn}$, $COD_{Cr}$, TN, and TP showed the best water quality improvement and were 69.8, 83.0, 91.3, 74.1, 74.7, and 88.9%, respectively. At HRT 4hr and the lake water of golf course as influent, the removal efficiencies of SS, $BOD_5$, $COD_{Mn}$, $COD_{Cr}$, TN and TP were 78.5, 78.0, 80.2, 74.9, 55.6 and 97.5%, respectively. As the results of polymerase chain reaction - denaturing gel gradient electrophoresis (PCR-DGGE), microbial community was different depending on influent type. Fluorescence in situ hybridization (FISH) showed that nitrifying bacteria was dominant at HRT 4 hr. The biomass amount and microbial activities by INT-DHA test were not decrease even at lower HRT condition. In this study, the upflow BAC biofilm process would be considered to the water quality improvement of stagnant stream.

• Journal of Korean Society of Environmental Engineers
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• v.35 no.7
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• pp.503-508
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• 2013

The aim of this study was to investigate the microbial communities in animal carcass disposal soils to examine the possible threat of pathogens from leachate. DNA extraction was performed for the soils in three carcass disposal sites located in Gyeonggi-do, Korea, and then 16S rRNA pyrosequencing was conducted to identify the microbial communities. Results indicate that, according to phylum classification, Proteobacteria (100%) was identified in soil A, Actinobacteria (66.4%) > Proteobacteria (31.1%) > Bacteriodetes (2.1%) > Acidobacteria (0.3%) in soil B, and Actinobacteria (63.1%) > Proteobacteria (36.9%) in soil C. According to genus classification, Pseudomonas was dominant in soil A (98%), Arthrobacter in soil B (68%) and C (61%). There were no detections of pathogens such as Salmonella, Campylobacter and Clostridium perfringens. However, high concentration of Ralstonia pickettii causing bacteremia was observed. Although carcass disposal soils examined in this study were not highly contaminated with pathogens, further monitoring is still needed to examine the potential threat of pathogens in leachate derived from carcass disposal sites.

• Korean Journal of Soil Science and Fertilizer
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• v.43 no.2
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• pp.188-193
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• 2010

The aim of this study is to evaluate the effects of organic materials on soil organisms. Changes in the community structure, and population density of soil organisms (microbes, nematodes, and microarthropods) were studied in a Korean ginseng field. Phospholipid fatty acids analysis showed that the relative abundances of bacteria, fungi, and actinomycetes did not differ significantly. The aerobes/anaerobes ratio was the lowest in soils amended with leaf mold, indicating that the decomposition speed was slow. Further, the addition of leaf mold to the soil enhanced the saturated/monounsaturated fatty acid ratio and cyclopropyl fatty acid/precursor ratio, which indicated an increase in environmental stresses. Application of pig manure compost (PMC) had positive effects on the population density of nematodes, and negative effects on that of oribatid mites. The population densities of nematodes, and microarthropods remained relatively low in the plots that had been treated with leaf mold or pig manure compost. It is suggested that pre-planting soil management directed at enhancing the biological decomposition efficiency should be continued over a long period to increase the soil bioactivity in virgin soils.

• Microbiology and Biotechnology Letters
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• v.44 no.3
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• pp.293-302
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• 2016

To determine the dominant bacterial species during the Saeu-jeotgal ripening process, the cultivable bacterial population was examined over a 135-day period using six different growth media. The greatest numbers of bacteria were identified when marine agar was used for culture, with maximum cell density identified at day 65 (2.51 × 10⁷ colony forming units/g). Over the course of 135 days, the bacterial diversity was analyzed eight times. A total of 467 isolates, comprising 87 species from 42 genera, as well as 16 isolates belonging to previously unknown species, were identified. The number of species detected decreased from 39 at day 1 to 13 at day 135. The order of dominance at the genus level was as follows: Staphylococcus, Salimicrobium, Kocuria, and Psychrobacter. Staphylococcus and Salimicrobium accounted for 2% of the diversity at day 1, and then increased to 39% and 36%, respectively, at day 135. The dominant species Staphylococcus equorum, Salimicrobium salexigens, and Kocuria palustris accounted for 23.6%, 16.1%, and 10.9% of all isolates, respectively. Importantly, both St. equorum and Sm. salexigens remained viable at a NaCl concentration of 21% (w/v), which indicates their strong involvement in the ripening of Saeu-jeotgal.

• Journal of Microbiology and Biotechnology
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• v.26 no.10
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• pp.1723-1735
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• 2016

Pyrosequencing analysis of intestinal microflora from healthy Thai vegetarians and non-vegetarians exhibited 893 OTUs covering 189 species. The strong species indicators of vegetarians and non-vegetarians were Prevotella copri and Bacteroides vulgatus as well as bacteria close to Escherichia hermanii with % relative abundance of 16.9 and 4.5-4.7, respectively. Core gut microbiota of the vegetarian and non-vegetarian groups consisted of 11 and 20 different bacterial species, respectively, belonging to Actinobacteria, Firmicutes, and Proteobacteria commonly found in both groups. Two species, Faecalibacterium prausnitzii and Gemmiger formicilis, had a prevalence of 100% in both groups. Three species, Clostridium nexile, Eubacterium eligens, and P. copri, showed up in most vegetarians, whereas more diversity of Collinsella aerofaciens, Ruminococcus torques, various species of Bacteroides, Parabacteroides, Escherichia, and different species of Clostridium and Eubacterium were found in most non-vegetarians. Considering the correlation of personal characters, consumption behavior, and microbial groups, the age of non-vegetarians showed a strong positive correlation coefficient of 0.54 (p = 0.001) to Bacteroides uniformis but exhibited a moderate one to Alistipes finegoldii and B. vulgatus. Only a positive moderate correlation of body mass index and Parabacteroides distasonis appeared. Based on the significant abundance of potential pathogens, the microbiota of the non-vegetarian group showed an abundance of potential pathogen varieties of Bilophila wadsworthia, Escherichia coli, and E. hermannii, whereas that of the vegetarian group served for only Klebsiella pneumoniae. These results implied that the microbiota of vegetarians with high abundance of P. copri and low potential pathogen variety would be a way to maintain good health in Thais.

• Microbiology and Biotechnology Letters
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• v.44 no.4
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• pp.550-556
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• 2016

Groundwater heat pump (GWHP) systems must consider phenomena such as clogging to improve system efficiency and maintenance. In this study, we evaluated the prokaryotic diversity in a boring slime sample obtained at a depth of 10 m, which represented an undisturbed sample not affected by aquifer drawdown. Bacteria belonging to the phyla Proteobacteria (20.8%), Acidobacteria (18.8%), Chloroflexi (16.9%), and Firmicutes (10.2%) were found. Additionally, 144 species were identified as belonging to the genus Koribacter. Archaeal phyla were detected including Thaumarchaeota (42.8%), Crenarchaeota (36.9%), and Euryarchaeota (17.4%) and the class level comprised the miscellaneous Crenarchaeota group (MCG), Finnish forest soil type B (FFSB), and Thermoplasmata, which collectively accounted for approximately 69.4% of the detected Archaea. Operational taxonomic units (OTUs) were analyzed to reveal 3,565 bacterial and 836 archaeal OTUs, with abundances of 7.81 and 6.68, and richnesses of 5.96E-4 and 2.86E-3, respectively. The distribution of the groundwater microbial community in the study area showed a higher proportion of non-classified or unidentified groups compared to typical communities in surface water and air. In addition, 135 (approx. 1.9%) reads were assigned to a bacterial candidate associated with clogging.