• Korean Journal of Soil Science and Fertilizer
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• v.45 no.5
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• pp.792-797
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• 2012

Glomalin-related soil protein has been suggested as an enhancer for soil stability by promoting the aggregation. In this study, we examined the concentrations of glomalin and characteristics of microbial community in 20 paddy soils sampled from Gyeongnam Province. Total soil glomalin as glomalin-related soil protein (GRSP) had a significant positive correlation with soil organic matter (p<0.01) and soil dehydrogenase activity (p<0.01). The concentration of GRSP significantly correlated to soil microbial biomass carbon (p<0.001) and the total bacterial community (p<0.01) in paddy soils. In addition, the GRSP had a significant positive correlation with gram-negative bacteria community (p<0.05) and ratio of cy19:0 to 18:$1{\omega}7c$ (p<0.05) in paddy soils. In conclusion, the concentration of GRSP could be an indicator of soil health that simplify the inspection steps for sustainable agriculture in paddy soils.

• Korean Journal of Soil Science and Fertilizer
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• v.42 no.3
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• pp.222-229
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• 2009

This study was performed to evaluate effect of different fertilization management practices on soil microbial activities and community structure using soil enzyme activities and PLFA contents in volcanic ash citrus orchard soil. Six experiment plots have differently managed based on the recommended application rate(NPK) of chemical fertilizer and compost for 13 years. Experiment plots were composed of no-fertilization(control), compost only, half amount of NPK with compost (1/2NPK+COM), NPK, NPK with compost(NPK+COM), and 3 times amount of NPK(3NPK). Soil samples collected in early March, May, July, and September 2007. Urease activity was high at NPK+COM in March, May, and September. It was higher in NPK+COM than in NPK. Urease activity decreased according to the order NPK>compost>control in March and May; compost>NPK>control in July and September. Dehydrogenase activity was significantly higher in 1/2NPK+COM($4.3ug\;TPF\;g^{-1}\;24h^{-1}$) than in control($2.4ug\;TPF\;g^{-1}\;24h^{-1}$), May. $\beta$-glucosidase activity was significantly higher in NPK and 1/2NPK+COM than in control, May. In March, Total PLFA contents were higher in NPK+COM($349.2n\;mol\;g^{-1}$) than in 3NPK($228.5n\;mol\;g^{-1}$). And that were higher in 1/2NPK+COM($237.8n\;mol\;g^{-1}$) than in 3NPK($133.1n\;mol\;g^{-1}$), May. Distribution ratio of soil microbial groups by PLFA biomaker were not significantly difference in between seasonal and treatments. Principal component analysis by PLFA profiles showed that microbial community in compost and 3NPK plot were different compared with other treatments in March. But Differences in compost and 3NPK plot were not found in May. Our result showed that the change of microbial community structure affected by fertilization effect and seasonable variation.

• Journal of dental hygiene science
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• v.19 no.2
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• pp.86-95
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• 2019

The modern era of microbial genome analysis began in earnest in the 2000s with the generalization of metagenomics and gene sequencing techniques. Studying complex microbial community such as oral cavity and colon by a pure culture is considerably ineffective in terms of cost and time. Therefore, various techniques for genomic analysis have been developed to overcome the limitation of the culture method and to explore microbial communities existing in the natural environment at the gene level. Among these, DNA fingerprinting analysis and microarray chip have been used extensively; however, the most recent method of analysis is metagenomics. The study summarily examined the overview of metagenomics analysis techniques, as well as domestic and foreign studies on disease genomics and cluster analysis related to oral metagenome. The composition of oral bacteria also varies across different individuals, and it would become possible to analyze what change occurs in the human body depending on the activity of bacteria living in the oral cavity and what causality it has with diseases. Identification, isolation, metabolism, and presence of functional genes of microorganisms are being identified for correlation analysis based on oral microbial genome sequencing. For precise diagnosis and treatment of diseases based on microbiome, greater effort is needed for finding not only the causative microorganisms, but also indicators at gene level. Up to now, oral microbial studies have mostly involved metagenomics, but if metatranscriptomic, metaproteomic, and metabolomic approaches can be taken together for assessment of microbial genes and proteins that are expressed under specific conditions, then doing so can be more helpful for gaining comprehensive understanding.

• The Korean Journal of Community Living Science
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• v.26 no.3
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• pp.489-498
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• 2015

This study investigates the effects of a China root (Smilax china L.) extract on the chemical and microbiological characteristics and antioxidant activity of the sausage stew sauce and the soft-tofu stew sauce over a 5-week storage period. Commercial sauces were obtained from the market, and samples were prepared using four different concentrations of the China root extract (0% (control), 0.5%, 1.0%, and 1.5%) and stored at $5^{\circ}C$ and $20^{\circ}C$. Over the 5-week storage period, pH and salinity showed slight changes in both the sausage and soft-tofu stew sauces, but there was no significant difference (p<0.05) regardless of the extract amount and temperature. At 5 weeks, there were significant decreases in the total microbial count in groups with the China root extract (p<0.05) for both the sausage and soft-tofu stew sauces at $5^{\circ}C$. Over the whole storage period, no coliform, yeast, and mold were detected in any sample. S. aureus counts were not detected in 1.0% and 1.5% China root groups at $5^{\circ}C$, but 1.00-1.60 log CFU/g was found in the control and 0.5% groups. DPPH radical scavenging activity at 5 weeks showed an increase with an increase in the amount of the China root extract in both sauces. These results indicate that the China root extract inhibited microbial growth during storage as well as scavenging activity and thus that it can be considered to prolong the shelf life of commercial sauces.

• Environmental Engineering Research
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• v.12 no.5
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• pp.231-237
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• 2007

The microbial eco-physiology has been the vital key of microbial ecological research. Unfortunately, available methods for direct identity of microorganisms and for the investigation of their activity in complicated community dynamics are limited. In this study, metagenomics was considered as a promising functional genomics tool for improving our understanding of microbial eco-physiology. Its potential applications and challenges were also reviewed. Because of tremendous diversity in microbial populations in environment, sequence analysis for whole metagenomic libraries from environmental samples seems to be unrealistic to most of environmental engineering researchers. When a target function is of interest, however, sequence analysis for whole metagenomic libraries would not be necessary. For this case, nucleic acids of active populations of interest can be selectively gained using another cutting-edge functional genomic tool, SIP (stable isotope probing) technique. If functional genomes isolated by SIP can be transferred into metagenomic library, sequence analysis for such selected functional genomes would be feasible because the reduced size of clone library may become adequate for sequencing analysis. Herein, integration of metagenomics with SIP was suggested as a novel functional genomics approach to study microbial eco-physiology in environment.

• Environmental Engineering Research
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• v.12 no.2
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• pp.37-45
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• 2007

Phytoremediation has been used effectively for the biodegradation of oil-based contaminants, including diesel, by the stimulation of soil microbes near plant roots (rhizosphere). However, the technique has rarely been assessed for itsinfluence on soil microbial properties such as population, community structure, and diversity. In this study, the removal efficiency and characteristics of rhizobacteria for phytoremediation of diesel-contaminated soils were assessed using barnyard grass (Echinochloa crusgalli). The concentration of spiked diesel for treatments was around $6000\;mg\;kg^{-1}$. Diesel removal efficiencies reached 100% in rhizosphere soils, 76% in planted bulk soils, and 62% in unplanted bulk soils after 3weeks stabilization and 2 months growth(control, no microbial activity: 32%). The highest populations of culturable soil bacteria ($5.89{\times}10^8$ per g soil) and culturable hydrocarbon-degraders($5.65{\times}10^6$ per g soil) were found in diesel-contaminated rhizosphere soil, also yielding the highest microbial dehydrogenase. This suggests that the populations of soil bacteria, including hydrocarbon-degraders, were significantly increased by a synergistic rhizosphere + diesel effect. The diesel treatment alone resulted in negative population growth. In addition, we investigated the bacterial community structures of each soil sample based on DGGE (Denaturing Gel Gradient Electrophoresis) band patterns. Bacterial community structure was most influenced by the presence of diesel contamination (76.92% dissimilarity to the control) and by a diesel + rhizosphere treatment (65.62% dissimilarity), and least influenced by the rhizosphere treatment alone (48.15% dissimilarity). Based on the number of distinct DGGE bands, the bacterial diversity decreased with diesel treatment, but kept constant in the rhizosphere treatment. The rhizosphere thus positively influenced bacterial population density in diesel-contaminated soil, resulting in high removal efficiency of diesel.

• Journal of the Korea Organic Resources Recycling Association
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• v.26 no.4
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• pp.31-43
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• 2018

This study was conducted to investigate the effects of organic farmland soil and nutrient management on soil properties depending on organic (animal manure compost and green manure [hairy vetch]) and chemical fertilization, tillage and no-tillage, and crop rotation (corn-wheat, corn-.hairy vetch). It was found that the application of organic matter such as animal manure compost and hairy vetch, increased the soil organic matter content, the soil microbial density and microbial biomass C content as compared with the chemical fertilizer treatment. It was also confirmed that the functional diversity of soil microbial community was increased. As a result of the comparison with the crop rotation and single cropping, the soil chemistry showed no significant difference between the treatments, but the corn-wheat and corn-hairy vetch rotation treatments tended to have higher microbial biomass C content and shannon's diversity index than the single cropping. Soil chemical properties of tillage and no-tillage treatments showed no significant difference between treatments. There was no statistically significant difference in substrate utilization of soil microbial community between tillage and no-tillage treatment. Correlation analysis between soil chemical properties and soil microbial activity revealed that soil organic matter content and exchangeable potassium content were positively correlated, with statistical significance, with substrate utilization, and substrate richness. To conclude, organic fertilization had positive effects on the short-term improvement of soil chemical properties and diversity of microbial communities.

• Korean Journal of Environmental Agriculture
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• v.27 no.2
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• pp.133-138
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• 2008

Fire can affect microbial community structure of soil through altered environmental conditions, nutrient availability, and biotic source for microbial re-colonization. We examined the influence of fire on chemical properties and soil enzyme activities of soil for 10 months. We also characterized the soil microbial community structure through ester-linked fatty acid analysis(EL-FAME). For this study, we established five burned plots(1*1 m) and 5 unburned plots outside the margin of fire. Soil was sampled three soil cores in a each plots and composited for analysis at 1, 3, 5, 8, and 10 month after fire. The fire caused an increase in soil pH, exchangeable Ca, and Mg, organic matter, available $P_2O_5$ compared to unburned sites. The content of $NH_4-N$ in burned site was significantly higher than that of unburned site and this effect continued for 8 months after fire. There was no difference of $NO_3-N$ content in soil between burned and unburned site. Fire caused no change in acid phosphatase and arylsulfatase activities but $\beta$-glucosidase and alkaline phosphatase activities in burned site were increased compared to unburned site. Microbial biomass as estimated by total concentration of EL-FAMEs in burned sites was significantly higher than that of unburned sites at one month after fire. Burned site decreased the EL-FAMEs indicative of gram-positive bacteria and tended to increase the fatty acid associated with gram-negative bacteria at one and three months after fire. The sum of EL-FAME compound $18:2{\omega}6,9c$ and $18:1{\omega}9c$ as served fungal biomarkers was decreased in burned site compared to unburned site.

• Journal of Microbiology
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• v.37 no.1
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• pp.1-9
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• 1999

The Biolog redox technology was carried out for evaluation of acidification effect on microbial communities at each stage of pH gradient microcosm. While the number of heterotrophic bacterial population and activities of extracellular enzyme decreased as the pH decreased, the number of total bacteria in the microcosm was not affected. The average color development of sample at each pH-gradient showed a sigmoidal curve, and at higher pH, more overall color development appeared in Biolog plates. Average color development value in Biolog plates was stabilized at 50 hours as an optimum incubation time. The color production in the Biolog plates was caused by cell density at above pH 5.0, but by cell activity below pH 4.0. Principal component analysis of color responses revealed distinctive patterns among the pH-gradient microcosm samples.

• Journal of Korean Society of Environmental Engineers
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• v.30 no.10
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• pp.1021-1027
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• 2008

In this study, biofilm process was introduced for treating nonpoint source pollutants. The ceramic media were provided for biofilm growth in the reactors. The packing ratio of ceramic media was 5% and 15(v/v)%, respectively. Thereafter, the reactors were operated intermittently with the different interevent periods such as 0, 5, 10 and 15 days, respectively. The removal efficiencies of COD and NH$_4{^+}$-N were investigated at the different operating conditions such as media packing ratio, temperature, and interevent period. Additionally, Polymerase chain reaction(PCR)-denaturing gel gradient electrophoresis(DGGE) and INT-dehydrogenase activity(DHA) test were conducted to observe the microbial community and activity in the biofilm. Consequently, the interevent period seemed to have no significant influence on the COD removal efficiency. COD was removed within 6$\sim$8 hours at 25$^{\circ}C$ and about 15 hours at 10$^{\circ}C$. DGGE profiles showed that the initial species of microorganisms were changed from seeded activated sludge into the microorganisms detected in sediments. INT-DHA test also showed that the activities of microorgnaisms were not decreased even in the 15 days of interevent period.