New monitoring approach for metabolic dynamics in microbial ecosystems using stable-isotope-labeling technologies

被引：31

作者：

Date, Yasuhiro ^{[1
,2
,3
]}

Nakanishi, Yumiko ^{[1
,3
,4
]}

Fukuda, Shinji ^{[3
,4
]}

Kato, Tamotsu ^{[3
,4
]}

Tsuneda, Satoshi ^{[2
]}

Ohno, Hiroshi ^{[3
,4
]}

Kikuchi, Jun ^{[1
,3
,5
]}

机构：

[1] RIKEN, Plant Sci Ctr, Tsurumi Ku, Kanagawa 2300045, Japan

[2] Waseda Univ, Dept Life Sci & Med Biosci, Shinjuku Ku, Tokyo 1628480, Japan

[3] RIKEN, Res Ctr Allergy & Immunol, Tsurumi Ku, Kanagawa 2300045, Japan

[4] Yokohama City Univ, Grad Sch Nanobiosci, Tsurumi Ku, Kanagawa 2300045, Japan

[5] Nagoya Univ, Grad Sch Bioagr Sci, Chikusa Ku, Aichi 4640810, Japan

来源：

JOURNAL OF BIOSCIENCE AND BIOENGINEERING | 2010年 / 110卷 / 01期

关键词：

Nuclear magnetic resonance (NMR); Stable-isotope probing (SIP); Metabolic dynamics; Carbon flux; Denaturing gradient gel electrophoresis (DGGE); NMR-BASED METABOLOMICS; ARABIDOPSIS-THALIANA; MASS-SPECTROMETRY; NUCLEIC-ACIDS; MICROORGANISMS; DNA;

D O I：

10.1016/j.jbiosc.2010.01.004

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

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. (C) 2010, The Society for Biotechnology, Japan. All rights reserved.

引用

页码：87 / 93

页数：7

共 30 条

[1] Stable isotope probing with 15Nachieved by disentangling the effects of genome G+C content and isotope enrichment on DNA density [J].