• 한국식품영양학회지
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• 제22권4호
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• pp.492-496
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• 2009

The composition of the bacterial populations in Gorosoe(Acer mono Max.) sap was characterized during storage with different heat treatments($63^{\circ}C$ for 30 min and $73^{\circ}C$ for 15 sec). The saps were aseptically collected at 0, 15 and 30 days of storage and analyzed by dilution plating and 16S rDNA PCR-DGGE analysis. There were significant differences in the total number of colony forming units(CFUs) of bacteria between heated and nonheated saps. Bacteria of nonheated sap were present at a level of $3.4{\times}10^7CFU/m{\ell}^{-1}$, whereas living bacteria were not detected in the heated sap. According to the 16S rDNA sequence and DGGE analysis, Pseudomonas sp. was the most abundant bacterial strain in the samlpes, and the bacterial community structures become more simplified with time and were composed of the Chryseobacterium sp. with time. These results allowed us to characterize the dominant bacteria involved in Gorosoe sap and to better understand their dynamics throughout storage.

• Animal Bioscience
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• 제36권12호
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• pp.1842-1852
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• 2023

Objective: Hairy vetch is considered to improve the nutritional value of corn because of its high protein and mineral levels. To better understand the mechanism underlying hairy vetch regulated whole-plant corn silage fermentation, this experiment investigated the fermentation quality and bacterial community of whole-plant corn and hairy vetch mixture. Methods: Whole-plant corn and hairy vetch were mixed at ratios of 10:0 (Mix 10:0), 8:2 (Mix 8:2), 6:4 (Mix 6:4), 4:6 (Mix 4:6), 2:8 (Mix 2:8), and 0:10 (Mix 0:10) on a fresh weight basis. After ensiling 60 days, samples were collected to examine the fermentation dynamics, ensiling characteristics, and bacterial communities. Results: Mix 0:10, Mix 2:8, and Mix 4:6 showed poor fermentation characteristics. Mix 8:2 and Mix 6:4 silages showed high quality, based on the low pH, acetic acid, and ammonia nitrogen levels and the high lactic acid, crude protein, and crude fat contents. The bacterial diversity was affected by the mixing ratio of the two forage species. The genus Lactobacillus dominated the bacterial community in Mix 10:0 silage, whereas with the addition of hairy vetch, the relative abundance of unclassified-Enterobacter increased from 7.67% to 41.84%, and the abundance of Lactobacillus decreased from 50.66% to 13.76%. Conclusion: The silage quality of whole-plant corn can be improved with inclusion levels of hairy vetch from 20% to 40%.

• Journal of Microbiology and Biotechnology
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• 제27권12호
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• pp.2089-2093
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• 2017

The past decades have been a golden era during which great tasks were accomplished in the field of microbiology, including food microbiology. In the past, culture-dependent methods have been the primary choice to investigate bacterial diversity. However, using culturein-dependent high-throughput sequencing of 16S rRNA genes has greatly facilitated studies exploring the microbial compositions and dynamics associated with health and diseases. These culture-independent DNA-based studies generate large-scale data sets that describe the microbial composition of a certain niche. Consequently, understanding microbial diversity becomes of greater importance when investigating the composition, function, and dynamics of the microbiota associated with health and diseases. Even though there is no general agreement on which diversity index is the best to use, diversity indices have been used to compare the diversity among samples and between treatments with controls. Tools such as the Shannon-Weaver index and Simpson index can be used to describe population diversity in samples. The purpose of this review is to explain the principles of diversity indices, such as Shannon-Weaver and Simpson, to aid general microbiologists in better understanding bacterial communities. In this review, important questions concerning microbial diversity are addressed. Information from this review should facilitate evidence-based strategies to explore microbial communities.

• Journal of Periodontal and Implant Science
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• 제44권6호
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• pp.266-273
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• 2014

Purpose: We previously reported that human serum significantly reduces the invasion of various oral bacterial species into gingival epithelial cells in vitro. The aims of the present study were to characterize the serum component(s) responsible for the inhibition of bacterial invasion of epithelial cells and to examine their effect on periodontitis induced in mice. Methods: Immortalized human gingival epithelial (HOK-16B) cells were infected with various 5- (and 6-) carboxy-fluorescein diacetate succinimidyl ester-labeled oral bacteria, including Fusobacterium nucleatum, Provetella intermedia, Porphyromonas gingivalis, and Treponiema denticola, in the absence or presence of three major serum components (human serum albumin [HSA], pooled human IgG [phIgG] and ${\alpha}1$-antitrypsin). Bacterial adhesion and invasion were determined by flow cytometry. The levels of intracellular reactive oxygen species (ROS) and activation of small GTPases were examined. Experimental periodontitis was induced by oral inoculation of P. gingivalis and T. denticola in Balb/c mice. Results: HSA and phIgG, but not ${\alpha}1$-antitrypsin, efficiently inhibited the invasion of various oral bacterial species into HOK-16B cells. HSA but not phIgG decreased the adhesion of F. nucleatum onto host cells and the levels of intracellular ROS in HOK-16B cells. N-acetyl-cysteine (NAC), a ROS scavenger, decreased both the levels of intracellular ROS and invasion of F. nucleatum into HOK-16B cells, confirming the role of ROS in bacterial invasion. Infection with F. nucleatum activated Rac1, a regulator of actin cytoskeleton dynamics. Not only HSA and NAC but also phIgG decreased the F. nucleatum-induced activation of Rac1. Furthermore, both HSA plus phIgG and NAC significantly reduced the alveolar bone loss in the experimental periodontitis induced by P. gingivalis and T. denticola in mice. Conclusions: NAC and the serum components HSA and phIgG, which inhibit bacterial invasion of oral epithelial cells in vitro, can successfully prevent experimental periodontitis.

• 미생물학회지
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• 제40권3호
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• pp.244-247
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• 2004

이산화탄소 농도의 증가가 습지토양의 탈질세균 군집구조에 미치는 영향을 살펴보기 위하여 자연농도 (370 ppm)와 고농도 (740 ppm)의 이산화탄소조건의 습지생태계를 조성하여 110일 이상 배양한 후 토양 내 미생물 군집구조의 변화양상을 관찰하였다. 미생물 군집군조 분석은 탈질과정에 관여하는 효소중하나인 nitrite reductase의 유전자인 nirS 유전자를 대상으로 polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) 분석기법을 이용하여 수행하였다. PCR 결과 모든 토양시료에서 nirS 유전자가 검출되었고, RFLP분석을 통해 자연농도의 이산화탄소조건에서 83개, 고농도 조건에서 95개의 phylotype을 획득하여 조성된 습지토양에서 탈질과정이 광범위하게 일어날 수 있음을 확인할 수 있었다. 두 경우 모두 두 종류 (type 1과 type 2)의 phylotype의 우점하고 있었고, 고농도 조건의 탈질세균 군집의 풍부도가 저농도 조건에 비해 더 높고, phylotype의 종류가 현저하게 변화되는 경향을 확인하였다. 본 연구결과는 습지토양의 탈질세균 군집이 매우 다양한 종류로 이루어져 있고, 이산화탄소의 증가에도 큰 영향을 받지 않는 상당히 안정적인 우점 개체군이 존재하고 있는 반면, 전체 phylotype의 약 60％는 이산화탄소 증가에 따라 민감하게 변화함을 보여주었다.

• 한국미생물·생명공학회지
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• 제48권1호
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• pp.72-78
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• 2020

The dynamics of nitrogen compounds and RNA-based functional genes were characterized in the nitrification-denitrification coupling process. For the removal of residual ammonium, intermittent aeration was introduced in the denitrification reactor. N₂O production was not observed in both reactors. In both reactors, the nitrifying genes (achaeal-amoA, bacterial-amoA and hor) and denitrifying genes (narG, nirK, norB and nosZ) had a copy number of 3.92 × 10²-7.25 × 10⁵ and 2.85 × 10²-3.06 × 10⁴ per ng of DNA, respectively. These results suggest that denitrification and nitrification reactions occur in both the nitrification and denitrification reactors, respectively. Therefore, the coupling process is a promising one for the conversion of ammonium to nitrogen without generating N₂O.

• Journal of Microbiology and Biotechnology
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• 제17권10호
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• pp.1704-1707
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• 2007

Monitoring of the phage-host system of Microlunatus phosphovorus indigenous in activated sludge was attempted. A laboratory-scale activated sludge process was operated for 5 weeks with synthetic wastewater. The phage-host system population in the process was monitored by plaque assay and FISH methods at every 3 days. During the process operation, the phage-host system populations were more or less steady, except for 1 week in the middle of the operation. In that period, initially M. phosphovorus decreased significantly and its lytic bacteriophages increased, and then M. phosphovorus increased back to its original level while its lytic bacteriophages decreased. This observation suggests that lytic bacteriophages should be considered as one of the biological factors affecting the bacterial population dynamics in activated sludge processes.

• Bulletin of the Korean Chemical Society
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• 제32권1호
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• pp.162-168
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• 2011

Many ligands have been experimentally designed and tested for their activities as inhibitors against bacterial enoyl-ACP reductase (FabI), ENR. Here the binding energies of the reported ligands with the E. coli ENR-$NAD^+$ were calculated, analyzed and compared, and their molecular dynamics (MD) simulation study was performed. IDN, ZAM and AYM ligands were calculated to have larger binding energies than TCL and IDN has the largest binding energy among the considered ligands (TCL, S54, E26, ZAM, AYM and IDN). The contribution of residues to the ligand binding energy is larger in E. coli ENR-NAD+-IDN than in E. coli ENR-$NAD^+$-TCL, while the contribution of $NAD^+$ is smaller for IDN than for TCL. The large-size ligands having considerable interactions with residues and $NAD^+$ have many effective functional groups such as aromatic $\pi$ rings, acidic hydroxyl groups, and polarizable amide carbonyl groups in common. The cation-$\pi$ interactions have large binding energies, positively charged residues strongly interact with polarisable amide carbonyl group, and the acidic phenoxyl group has strong H-bond interactions. The residues which have strong interactions with the ligands in common are Y146, Y156, M159 and K163. This study of the reported inhibitor candidates is expected to assist the design of feasible ENR inhibitors.

• 한국산림과학회지
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• 제87권1호
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• pp.106-112
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• 1998

본 연구는 토양의 화학적 특성과 탈질소, 황 환원에 관여하는 세균류 및 탈수소효소 활성의 관계를 살펴보고, 궁극적으로는 산림 토양생태계의 동태를 평가하는 도구로 탈수소효소를 활용할 수 있는지에 대하여 고찰한 것이다. 오염지역으로 여겨지는 온산공단 주변과 해안의 청정지역인 강화도 마니산에서 각각 침엽수림과 활엽수림을 산정, 총 4개 임분을 대상으로 본 연구를 수행하였는데, 마니산 토양은 온산공단 주변에 비하여 상대적으로 유기물, 질소, 유효인산 등의 함량이 높아 미생물의 활동에 유리한 것으로 여겨졌다. 한편, 탈질균이나 황산환원균은 지역간 차이가 없었던 반면, 탈수소효소의 활성은 지역이나 시기에 따른 변화를 뚜렷이 나타내어 두 종류의 미생물 정량기법에 비하여 훨씬 민감하게 나타났다. 또한, 탈수소효소는 미생물의 활성과 깊은 관계가 있는 것으로 여겨지는 유기물함량(r=0.53. p=0.004), 전질소(r=0.41. p=0.008)나 C/Ava. P 비율(r=-0.52. p=0.001) 등과 비교적 높은 상관관계를 나타내었다. 따라서, 비슷한 토성을 지녀야 비교가 가능하다는 다른 연구자들의 지적을 감안하여 수행한다면, 토양생태계의 동태를 파악하는 지표로서 탈수소효소를 활용할 수 있을 것으로 여겨진다.

• 대한기계학회논문집B
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• 제36권11호
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• pp.1119-1126
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• 2012

세균의 집단 행동은 생물막의 형성에 중요한 역할을 하고 있다. 본 연구에서는 대장균(E. coli) 및 고초균(B. subtilis) 군집에서 형성된 유동성 생물막의 유체역학적 특성을 비교하고자 초기에 아가 플레이트 내에서 층을 이루다가 성장하는 군집 표면 위로 자발적으로 분포되는 200 nm의 형광입자를 가시화 하였다. 대장균 군집에서는 유동하지 않는 200 nm 크기의 형광입자를 이용하여 성장하는 세균 군집의 3차원 형상 프로파일을 측정하였다. 고초균 군집의 경계에서 나타나는 와류 패턴은 고초균이 분비하는 계면활성제 내에서 유동하는 형광입자를 추적하여 가시화하였다. 본 연구는 세균의 생리 기능을 조절하는 새로운 물리적인 요소를 밝혀내고 세균의 증식 및 군집 이동에 영향을 미치는 유동성 생물막의 효과를 파악하는 첫걸음이 될 것이다.