Obesity Alters the Microbial Community Profile in Korean Adolescents

AbstractThe low biomass of respiratory samples makes it difficult to accurately characterise the microbial community composition. PCR conditions and contaminating microbial DNA can alter the biological profile. The objective of this study was to benchmark the currently available laboratory protocols to accurately analyse the microbial community of low biomass samples. To study the effect of PCR conditions on the microbial community profile, we amplified the 16S rRNA gene of respiratory samples using various bacterial loads and different number of PCR cycles. Libraries were purified by gel electrophoresis or AMPure XP and sequenced by V2 or V3 MiSeq reagent kits by Illumina sequencing. The positive control was diluted in different solvents. PCR conditions had no significant influence on the microbial community profile of low biomass samples. Purification methods and MiSeq reagent kits provided nearly similar microbiota profiles (paired Bray–Curtis dissimilarity median: 0.03 and 0.05, respectively). While profiles of positive controls were significantly influenced by the type of dilution solvent, the theoretical profile of the Zymo mock was most accurately analysed when the Zymo mock was diluted in elution buffer (difference compared to the theoretical Zymo mock: 21.6% for elution buffer, 29.2% for Milli-Q, and 79.6% for DNA/RNA shield). Microbiota profiles of DNA blanks formed a distinct cluster compared to low biomass samples, demonstrating that low biomass samples can accurately be distinguished from DNA blanks. In summary, to accurately characterise the microbial community composition we recommend 1. amplification of the obtained microbial DNA with 30 PCR cycles, 2. purifying amplicon pools by two consecutive AMPure XP steps and 3. sequence the pooled amplicons by V3 MiSeq reagent kit. The benchmarked standardized laboratory workflow presented here ensures comparability of results within and between low biomass microbiome studies.

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Foliar application of fertilizers and biostimulant has a strong impact on the olive (Olea europaea) rhizosphere microbial community profile and the abundance of arbuscular mycorrhizal fungi

Rhizosphere ◽

10.1016/j.rhisph.2021.100402 ◽

2021 ◽

pp. 100402

Author(s):

Meriem Tekaya ◽

Safia Dahmen ◽

Mohamed Ben Mansour ◽

Hicham Ferhout ◽

Hechmi Chehab ◽

...

Keyword(s):

Microbial Community ◽

Arbuscular Mycorrhizal Fungi ◽

Mycorrhizal Fungi ◽

Olea Europaea ◽

Foliar Application ◽

Arbuscular Mycorrhizal ◽

Strong Impact ◽

Community Profile ◽

Microbial Community Profile ◽

Rhizosphere Microbial Community

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Continuous hydrogen production and microbial community profile in the dark fermentation of tequila vinasse: Response to increasing loading rates and immobilization of biomass

Biochemical Engineering Journal ◽

10.1016/j.bej.2021.108049 ◽

2021 ◽

pp. 108049

Author(s):

Luis Arellano-García ◽

Jesús B. Velázquez-Fernández ◽

Marcos Macías-Muro ◽

Erika N. Marino-Marmolejo

Keyword(s):

Microbial Community ◽

Hydrogen Production ◽

Dark Fermentation ◽

Loading Rates ◽

Community Profile ◽

Microbial Community Profile

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Comparative study on treatment performance, membrane fouling, and microbial community profile between conventional and hybrid sequencing batch membrane bioreactors for municipal wastewater treatment

Environmental Science and Pollution Research ◽

10.1007/s11356-018-3248-8 ◽

2018 ◽

Vol 25 (32) ◽

pp. 32767-32782 ◽

Cited By ~ 4

Author(s):

Rayra Emanuelly da Costa ◽

Maria Angeles Lobo-Recio ◽

André Aguiar Battistelli ◽

João Paulo Bassin ◽

Tiago José Belli ◽

...

Keyword(s):

Wastewater Treatment ◽

Microbial Community ◽

Comparative Study ◽

Membrane Fouling ◽

Municipal Wastewater ◽

Membrane Bioreactors ◽

Municipal Wastewater Treatment ◽

Treatment Performance ◽

Community Profile ◽

Microbial Community Profile

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Effects of influent composition on biological activity, acclimation time and microbial community profile of activated sludge

International Journal of Development Research ◽

10.37118/ijdr.20958.01.2021 ◽

2021 ◽

pp. 44028-44034

Keyword(s):

Biological Activity ◽

Microbial Community ◽

Activated Sludge ◽

Oxygen Demand ◽

P Value ◽

Chemical Compositions ◽

Significant Difference ◽

Community Profile ◽

Microbial Community Profile ◽

Influent Wastewater

Background: The performance and stability of activated sludge (AS) processes are strongly related to influent wastewater characteristics. Objective: To investigate the influence of different chemical compositions of influent wastewater, in terms of source of carbon, on activated sludge. Methods: Response was measured in oxygen uptake rate (OUR), volatile suspended solids in the mixed liquor (MVLSS), chemical oxygen demand (COD), and microbial community profile, obtained using Matrix-Assisted Laser Desorption Ionization-Time-of-Flight Mass Spectrometry (MALDI-TOF MS). Results: Results showed that the microbial community profile obtained in both reactors is consistent with those reported for full-scale AS bioreactors treating sewage. However, when the source of carbon is less bioavailable (bioreactor 1), there was a statistically significant difference (p-value<0.05, 95% confidence) in the biological activity of the biomass, both in terms of MLVSS growth and OUR in comparison with the reactor with source of carbon more bioavailable (bioreactor 2). This difference also impacted the time required for complete acclimation: it could be considered completed in 15 days in bioreactor 2, whereas in bioreactor 1, acclimation required more than 120 days to be completed, as during this period there was no net biomass growth even though there was high COD removal.

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