Abstract
We have developed a new approach for monitoring the metabolic dynamics in microbial ecosystems using a combination of DNA fingerprinting and metabolome analysis based on stable-isotope-labeling technologies. Stable-isotope probing of DNA (DNA-SIP) has been used previously for the evaluation of cross-feeding in microbial communities. For the development and validation of our monitoring approach, fecal microbiota were analyzed with stable-isotope-labeled glucose used as the sole carbon source. In order to link the metabolic information and the microbial variability, we performed metabolic-microbial correlation analysis based on nuclear magnetic resonance (NMR) profiles and denaturing gradient gel electrophoresis (DGGE) fingerprints, which successfully identified the glucose-utilizing bacteria and their related extracellular metabolites. Moreover, our approach revealed information regarding the carbon flux, in that the "first" wave of extracellular metabolites secreted by the glucose-utilizing bacteria were incorporated into the "secondary" group of substrate-utilizing bacteria, and that this "secondary" group further produced their own secondary metabolized substrates. Thus, this approach is a powerful tool for monitoring the metabolic dynamics in microbial ecosystems and allows for the tracking of the carbon flux within a microbial community.
| Original language | English |
|---|---|
| Pages (from-to) | 87-93 |
| Number of pages | 7 |
| Journal | Journal of Bioscience and Bioengineering |
| Volume | 110 |
| Issue number | 1 |
| DOIs | |
| Publication status | Published - 2010 Jul |
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Keywords
- Carbon flux
- Denaturing gradient gel electrophoresis (DGGE)
- Metabolic dynamics
- Nuclear magnetic resonance (NMR)
- Stable-isotope probing (SIP)
ASJC Scopus subject areas
- Biotechnology
- Applied Microbiology and Biotechnology
- Bioengineering
Cite this
New monitoring approach for metabolic dynamics in microbial ecosystems using stable-isotope-labeling technologies. / Date, Yasuhiro; Nakanishi, Yumiko; Fukuda, Shinji; Kato, Tamotsu; Tsuneda, Satoshi; Ohno, Hiroshi; Kikuchi, Jun.
In: Journal of Bioscience and Bioengineering, Vol. 110, No. 1, 07.2010, p. 87-93.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - New monitoring approach for metabolic dynamics in microbial ecosystems using stable-isotope-labeling technologies
AU - Date, Yasuhiro
AU - Nakanishi, Yumiko
AU - Fukuda, Shinji
AU - Kato, Tamotsu
AU - Tsuneda, Satoshi
AU - Ohno, Hiroshi
AU - Kikuchi, Jun
PY - 2010/7
Y1 - 2010/7
N2 - We have developed a new approach for monitoring the metabolic dynamics in microbial ecosystems using a combination of DNA fingerprinting and metabolome analysis based on stable-isotope-labeling technologies. Stable-isotope probing of DNA (DNA-SIP) has been used previously for the evaluation of cross-feeding in microbial communities. For the development and validation of our monitoring approach, fecal microbiota were analyzed with stable-isotope-labeled glucose used as the sole carbon source. In order to link the metabolic information and the microbial variability, we performed metabolic-microbial correlation analysis based on nuclear magnetic resonance (NMR) profiles and denaturing gradient gel electrophoresis (DGGE) fingerprints, which successfully identified the glucose-utilizing bacteria and their related extracellular metabolites. Moreover, our approach revealed information regarding the carbon flux, in that the "first" wave of extracellular metabolites secreted by the glucose-utilizing bacteria were incorporated into the "secondary" group of substrate-utilizing bacteria, and that this "secondary" group further produced their own secondary metabolized substrates. Thus, this approach is a powerful tool for monitoring the metabolic dynamics in microbial ecosystems and allows for the tracking of the carbon flux within a microbial community.
AB - We have developed a new approach for monitoring the metabolic dynamics in microbial ecosystems using a combination of DNA fingerprinting and metabolome analysis based on stable-isotope-labeling technologies. Stable-isotope probing of DNA (DNA-SIP) has been used previously for the evaluation of cross-feeding in microbial communities. For the development and validation of our monitoring approach, fecal microbiota were analyzed with stable-isotope-labeled glucose used as the sole carbon source. In order to link the metabolic information and the microbial variability, we performed metabolic-microbial correlation analysis based on nuclear magnetic resonance (NMR) profiles and denaturing gradient gel electrophoresis (DGGE) fingerprints, which successfully identified the glucose-utilizing bacteria and their related extracellular metabolites. Moreover, our approach revealed information regarding the carbon flux, in that the "first" wave of extracellular metabolites secreted by the glucose-utilizing bacteria were incorporated into the "secondary" group of substrate-utilizing bacteria, and that this "secondary" group further produced their own secondary metabolized substrates. Thus, this approach is a powerful tool for monitoring the metabolic dynamics in microbial ecosystems and allows for the tracking of the carbon flux within a microbial community.
KW - Carbon flux
KW - Denaturing gradient gel electrophoresis (DGGE)
KW - Metabolic dynamics
KW - Nuclear magnetic resonance (NMR)
KW - Stable-isotope probing (SIP)
UR - http://www.scopus.com/inward/record.url?scp=77953122023&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=77953122023&partnerID=8YFLogxK
U2 - 10.1016/j.jbiosc.2010.01.004
DO - 10.1016/j.jbiosc.2010.01.004
M3 - Article
VL - 110
SP - 87
EP - 93
JO - Journal of Bioscience and Bioengineering
JF - Journal of Bioscience and Bioengineering
SN - 1389-1723
IS - 1
ER -