• Title/Summary/Keyword: microbial community composition

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The Presence of Significant Methylotrophic Population in Biological Activated Carbon of a Full-Scale Drinking Water Plant

  • Kim, Tae Gwan;Moon, Kyung-Eun;Cho, Kyung-Suk
    • Journal of Microbiology and Biotechnology
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    • v.23 no.12
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    • pp.1774-1778
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    • 2013
  • Methylotrophs within biological activated carbon (BAC) systems have not received attention although they are a valuable biological resource for degradation of organic pollutants. In this study, methylotrophic populations were monitored for four consecutive seasons in BAC of an actual drinking water plant, using ribosomal tag pyrosequencing. Methylotrophs constituted up to 5.6% of the bacterial community, and the methanotrophs Methylosoma and Methylobacter were most abundant. Community comparison showed that the temperature was an important factor affecting community composition, since it had an impact on the growth of particular methylotrophic genera. These results demonstrated that BAC possesses a substantial methylotrophic activity and harbors the relevant microbes.

Microbial Community Composition in the Marine Sediments of Jeju Island: Next-Generation Sequencing Surveys

  • Choi, Heebok;Koh, Hyeon-Woo;Kim, Hongik;Chae, Jong-Chan;Park, Soo-Je
    • Journal of Microbiology and Biotechnology
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    • v.26 no.5
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    • pp.883-890
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    • 2016
  • Marine sediments are a microbial biosphere with an unknown physiology, and the sediments harbor numerous distinct phylogenetic lineages of Bacteria and Archaea that are at present uncultured. In this study, the structure of the archaeal and bacterial communities was investigated in the surface and subsurface sediments of Jeju Island using a next-generation sequencing method. The microbial communities in the surface sediments were distinct from those in the subsurface sediments; the relative abundance of sequences for Thaumarchaeota, Actinobacteria, Bacteroides, Alphaproteobacteria, and Gammaproteobacteria were higher in the surface than subsurface sediments, whereas the sequences for Euryarchaeota, Acidobacteria, Firmicutes, and Deltaproteobacteria were relatively more abundant in the subsurface than surface sediments. This study presents detailed characterization of the spatial distribution of benthic microbial communities of Jeju Island and provides fundamental information on the potential interactions mediated by microorganisms with the different biogeochemical cycles in coastal sediments.

Comparative Study on Microphytobenthic Pigments and Total Microbial Biomass by ATP in Intertidal Sediments (조간대 퇴적 환경에 따른 저서미세조류 색소와 총 아데노신 3인산(ATP: Adenosine-5' triphosphate) 비교 연구)

  • Ha, Sun-Yong;Choi, Bo-Hyung;Min, Jun-Oh;Jeon, Su-A;Shin, Kyung-Hoon
    • Ocean and Polar Research
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    • v.35 no.1
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    • pp.39-50
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    • 2013
  • Biomass and community composition of microphytobentos in tidal flats were studied by HPLC analysis and also investigated to examine the relationship between microphytobenthic pigments and Adenosine-5' triphosphate (ATP) as an index of total microbial biomass in intertidal environments (muddy and sandy sediment) of Gyeonggi Bay, west coast of Korea. Microphytobenthic pigments and ATP concentration in muddy sediment were the highest at the surface while the biomass of microphytobenthos in sandy sediment was the highest at the sub-surface (0.75 cm sediment depth). The detected pigments of microphytobenthos were chlorophyll a, b (euglenophytes), $c_3$, peridinin (dinoflagellates), fucoxanthin (diatom or chrysophytes), diadinoxanthin, alloxanthin (cryptophytes), diatoxanthin, zeaxanthin (cyanobacteria), ${\beta}$-carotein, and pheophytin a (the degraded product of chlorophyll a). Among the pigments which were detected, the concentration of fucoxanthin was the highest, indicating that diatoms dominated in the microphytobenthic community of the tidal flats. There was little significant correlation between OC (Organic Carbon) and ATP in both sediments. However, a positive correlation between chlorophyll a concentration and ATP concentration was found in sandy sediment, suggesting that microbial biomass could be affected by labile OC derived from microphytobenthos. These results provide information that may help us understand the relationship between microphytobenthos and microbial biomass in different intertidal sediment environments.

Trophic Role of Heterotrophic Nano- and Microplankton in the Pelagic Microbial Food Web of Drake Passage in the Southern Ocean during Austral Summer (남극 하계 드레이크 해협의 미세생물 먹이망에서 종속영양 미소형 및 소형플랑크톤의 역할)

  • Yang, Eun-Jin;Choi, Joong-Ki;Hyun, Jung-Ho
    • Ocean and Polar Research
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    • v.33 no.4
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    • pp.457-472
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    • 2011
  • To elucidate the trophic role of heterotrophic nano- and microplankton (HNMP), we investigated their biomass, community structure, and herbivory in three different water masses, namely, south of Polar Front (SPF), Polar Front Zone (PFZ), the Sub-Antarcitc Front (SAF) in the Drake Passage in the Southern Ocean, during the austral summer in 2002. We observed a spatial difference in the relative importance of the dominant HNMP community in these water masses. Ciliates accounted for 34.7% of the total biomass on an average in the SPF where the concentration of chlorophyll-a was low with the dominance of pico- and nanophytoplankton. Moreover, the importance of ciliates declined from the SPF to the SAF. In contrast, heterotrophic dinoflagellates (HDFs) were the most dominant grazers in the PFZ where the concentration of chlorophyll-a was high with the dominance of net phytoplankton. HNMP biomass ranged from 321.9 to 751.4 $mgCm^{-2}$ and was highest in the PFZ and lowest in the SPF. This result implies that the spatial dynamic of HNMP biomass and community was significantly influenced by the composition and concentration of phytoplankton as a food source. On an average, 75.6%, 94.5%, and 78.9% of the phytoplankton production were consumed by HNMP in the SPF, PFZ, and SAF, respectively. The proportion of phytoplankton grazed by HNMP was largely determined by the composition and biomass of HNMP, as well as the composition of phytoplankton. However, the herbivory of HNMP was one of the most important loss processes affecting the biomass and composition of phytoplankton particularly in the PFZ. Our results suggest that the bulk of the photosynthetically fixed carbon was likely reprocessed by HNMP rather than contributing to the vertical flux in Drake Passage during the austral summer in 2002.

Bacterial Diversity in Soil Surround Subterranean Termites-Damaged Wooden Buildings in Seonamsa Temple and Effect of the Termites on Bacterial Diversity in Humus Soil

  • Kim, Young Hee;Lim, Boa;Lee, Jeung Min;Hong, Jin Young;Kim, Soo Ji;Park, Ji Hee
    • Journal of Conservation Science
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    • v.37 no.4
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    • pp.357-361
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    • 2021
  • In order to determine the changes in microbial community due to termites, soil microorganisms surrounding the termites were investigated. First, bacterial communities from soil with termites collected at Seonamsa temple, Suncheon city, Korea were compared by next-generation sequencing (NGS, Illumina Miseq). The bacterial composition of soil from Daeungjeon without termites and the soil from Josadang, Palsangjeon, and Samjeon with termites were compared. Next, the bacterial composition of these soils was also compared with that of humus soil cultured with termites. A total high-quality sequences of 71,942 and 72,429 reads were identified in Seonamsa temple's soil and humus soil, respectively. The dominant phyla in the collected Seonamsa temple's soil were Proteobacteria (27%), Firmicutes (24%) and Actinobacteria (21%), whereas those in the humus soil were Bacteriodetes (56%) and Proteobacteria (37%). Using a two-dimensional plot to explain the principal coordinate analysis of operational taxonomic unit compositions of the soil samples, it was confirmed that the samples were divided into soil with and without termites, and it was especially confirmed that the Proteobacteria phylum was increased in humus soil with termites than in humus soil without termites.

The Effect of Changes in Soil Microbial Communities on Geochemical Behavior of Arsenic (토양 미생물 군집의 변화가 비소의 지구화학적 거동에 미치는 영향)

  • Eui-Jeong Hwang;Yejin Choi;Hyeop-Jo Han;Daeung Yoon;Jong-Un Lee
    • Economic and Environmental Geology
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    • v.57 no.3
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    • pp.305-317
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    • 2024
  • To investigate the effect of changes in microbial communities on arsenic release in soil, experiments were conducted on arsenic-contaminated soils (F1, G7, and G10). The experiments involved three groups of the experimental sets; ① BAC: sterilized soil + Bacillus fungorum, ② IND: indigenous bacteria, and ③ MIX: indigenous bacteria + B. fungorum, and incubated them for seven weeks using lactate as a carbon source under anaerobic conditions. The experimental results showed that higher concentrations of arsenic were released from the IND and MIX soils, where indigenous bacterial communities existed, compared to BAC. Significantly higher levels of arsenic were released from the G10 soil, which showed higher pH, compared to the F1 and G7 soils. In the G10 soil, unlike other soils, the proportion of As(III) among the released arsenic was also low. These results may be attributed to differences in microbial community composition that vary depending on the soil. By the seventh week, the diversity of microbial species in the IND and MIX soils had significantly decreased, with dominant orders such as Eubacteriales and Bacillales thriving. Bacteroidales in the seventh week of the MIX in the F1 soil, Rummeliibacillus in the seventh week of the IND and MIX of the G7 soil, and Enterobacterales in the IND and MIX of the G10 soil were dominant. At present, it is not known which mechanisms of microbial community changes affect the geochemical behavior of arsenic; however, these results indicate that microbiome in the soil may function as one of the factors regulating arsenic release.

Current Status and Future Promise of the Human Microbiome

  • Kim, Bong-Soo;Jeon, Yoon-Seong;Chun, Jongsik
    • Pediatric Gastroenterology, Hepatology & Nutrition
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    • v.16 no.2
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    • pp.71-79
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    • 2013
  • The human-associated microbiota is diverse, varies between individuals and body sites, and is important in human health. Microbes in human body play an essential role in immunity, health, and disease. The human microbiome has been studies using the advances of next-generation sequencing and its metagenomic applications. This has allowed investigation of the microbial composition in the human body, and identification of the functional genes expressed by this microbial community. The gut microbes have been found to be the most diverse and constitute the densest cell number in the human microbiota; thus, it has been studied more than other sites. Early results have indicated that the imbalances in gut microbiota are related to numerous disorders, such as inflammatory bowel disease, colorectal cancer, diabetes, and atopy. Clinical therapy involving modulating of the microbiota, such as fecal transplantation, has been applied, and its effects investigated in some diseases. Human microbiome studies form part of human genome projects, and understanding gleaned from studies increase the possibility of various applications including personalized medicine.

Gastric Cancer and Non-Helicobacter pylori Microbiota (위암과 미생물총)

  • Yu Jin Kim
    • Journal of Digestive Cancer Research
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    • v.12 no.1
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    • pp.6-14
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    • 2024
  • Gastric cancer is the 4th leading cause of death worldwide. The primary cause of gastric cancer is known to be Helicobacter pylori (H. pylori). The advancement of molecular biology has enabled the identification of microbiomes that could not be confirmed through cultivation, and it has been revealed that the microbial communities vary among normal mucosa, atrophic gastritis, intestinal metaplasia, and gastric cancer. It has also been confirmed that the composition of the microbial community differs depending on the presence or absence of H. pylori. Whether changes in the microbiome are causative factors in the carcinogenesis process is not yet clear. Experiments using animal models and in vitro studies on the role of microbes other than H. pylori in the carcinogenic process are underway, but the data is still insufficient.

Syntrophic Propionate Degradation Response to Temperature Decrease and Microbial Community Shift in an UASB Reactor

  • Ban, Qiaoying;Li, Jianzheng;Zhang, Liguo;Jha, Ajay Kumar;Zhang, Yupeng;Ai, Binling
    • Journal of Microbiology and Biotechnology
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    • v.23 no.3
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    • pp.382-389
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    • 2013
  • Propionate is an important intermediate product during the methane fermentation of organic matter, and its degradation is crucial for maintaining the performance of an anaerobic digester. In order to understand the effect of temperature on propionate degradation, an upflow anaerobic sludge blanket (UASB) reactor with synthetic wastewater containing propionate as a sole carbon source was introduced. Under the hydraulic retention time (HRT) of 10 h and influent propionate of 2,000 mg/l condition, propionate removal was above 94% at 30-$35^{\circ}C$, whereas propionate conversion was inhibited when temperature was suddenly decreased stepwise from $30^{\circ}C$ to $25^{\circ}C$, to $20^{\circ}C$, and then to $18^{\circ}C$. After a long-term operation, the propionate removal at $25^{\circ}C$ resumed to the value at 30- $35^{\circ}C$, whereas that at $20^{\circ}C$ and $18^{\circ}C$ was still lower than the value at $35^{\circ}C$ by 8.1% and 20.7%, respectively. Microbial community composition analysis showed that Syntrophobacter and Pelotomaculum were the major propionate-oxidizing bacteria (POB), and most POB had not changed with temperature decrease in the UASB. However, two POB were enriched at $18^{\circ}C$, indicating they were low temperature tolerant. Methanosaeta and Methanospirillum were the dominant methanogens in this UASB and remained constant during temperature decrease. Although the POB and methanogenic composition hardly changed with temperature decrease, the specific $COD_{Pro}$ removal rate of anaerobic sludge (SCRR) was reduced by 21.4%-46.4% compared with the control ($35^{\circ}C$) in this system.

Fecal Microbiota Profiling of Holstein and Jersey, in South Korea : A Comparative Study (국내에서 사육되는 Holstein 젖소과 Jersey 젖소의 대변 미생물 분석 : 비교연구)

  • Gwangsu Ha;Ji-Won Seo;Hee Gun Yang;Se Won Park;Soo-Young Lee;Young Kyoung Park;RanHee Lee;Do-Youn Jeong;Hee-Jong Yang
    • Journal of Life Science
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    • v.33 no.7
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    • pp.565-573
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    • 2023
  • In light of the complex interactions between the host animal and its resident gut microbiomes, studies of these microbial communities as a means to improve cattle production are important. This study was conducted to analyze the intestinal microorganisms of Holstein (HT) and Jersey (JS), raised in Korea and to clarify the differences in microbial structures according to cattle species through next-generation sequencing. The alpha-diversity analysis revealed that most species richness and diversity indices were significantly higher in JS than in HT whereas phylogenetic diversity, which is the sum of taxonomic distances, is not significant. Microbial composition analysis showed that the intestinal microbial community structure of the two groups differed. In the both groups, a significant correlation was observed among the distribution of several microbes at the family level. In particular, a highly significant correlation (p<0.0001) among a variety of microbial distributions was found in JS. Beta-diversity analyis was to performed to statistically verify whether a difference exists in the intestinal microbial community structure of the two groups. Principal coordinate analysis and unweighted pair group method with arithmetic mean (UPGMA) clustering analysis showed separation between the HT and JS clusters. Meanwhile, permutational multivariate analysis of variance (PERMANOVA) revealed that their microbial structures are significantly different (p<0.0001). LEfSe biomarker analysis was performed to discover the differenc microbial features between the two groups. We found that several microbes, such as Firmicutes, Bacilli, Moraxellaceae and Pseudomonadales account for most of the difference in intestinal microbial community structure between the two groups.