Metabolomics approach for determining growth-specific metabolites based on Fourier transform ion cyclotron resonance mass spectrometry

Takahashi, Hiroki; Kai, Kosuke; Shinbo, Yoko; Tanaka, Kenichi; Ohta, Daisaku; Oshima, Taku; Altaf-Ul-Amin, Md.; Kurokawa, Ken; Ogasawara, Naotake; Kanaya, Shigehiko
August 2008
Analytical & Bioanalytical Chemistry;Aug2008, Vol. 391 Issue 8, p2769
Academic Journal
Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR/MS) is the best MS technology for obtaining exact mass measurements owing to its great resolution and accuracy, and several outstanding FT-ICR/MS-based metabolomics approaches have been reported. A reliable annotation scheme is needed to deal with direct-infusion FT-ICR/MS metabolic profiling. Correlation analyses can help us not only uncover relations between the ions but also annotate the ions originated from identical metabolites (metabolite derivative ions). In the present study, we propose a procedure for metabolite annotation on direct-infusion FT-ICR/MS by taking into consideration the classification of metabolite-derived ions using correlation analyses. Integrated analysis based on information of isotope relations, fragmentation patterns by MS/MS analysis, co-occurring metabolites, and database searches (KNApSAcK and KEGG) can make it possible to annotate ions as metabolites and estimate cellular conditions based on metabolite composition. A total of 220 detected ions were classified into 174 metabolite derivative groups and 72 ions were assigned to candidate metabolites in the present work. Finally, metabolic profiling has been able to distinguish between the growth stages with the aid of PCA. The constructed model using PLS regression for OD600 values as a function of metabolic profiles is very useful for identifying to what degree the ions contribute to the growth stages. Ten phospholipids which largely influence the constructed model are highly abundant in the cells. Our analyses reveal that global modification of those phospholipids occurs as E. coli enters the stationary phase. Thus, the integrated approach involving correlation analyses, metabolic profiling, and database searching is efficient for high-throughput metabolomics.


Related Articles

  • A new detection scheme for Fourier transform-ion cyclotron resonance spectrometry in Penning traps. Schweikhard, L.; Blundschling, M.; Jertz, R.; Kluge, H.-J. // Review of Scientific Instruments;Aug1989, Vol. 60 Issue 8, p2631 

    A new detection scheme for Fourier transform-ion cyclotron resonance (FT-ICR) studies is proposed and initial experimental results are presented. While in conventional FT-ICR, the difference of the transient signals from two opposite electrodes is recorded and Fourier transformed, it is also...

  • High Resolution Tandem Mass Spectrometry for Structural Biochemistry. Hakanson, Kristina; Cooper, Helen J.; Hudgins, Robert R.; Nilsson, Carol L. // Current Organic Chemistry;Oct2003, Vol. 7 Issue 15, p1503 

    Tandem mass spectrometry (MS / MS) is a well-established technique for determining biomolecular primary sequences. The main advantages of MS / MS analysis compared to more traditional sequencing techniques are speed of analysis, sensitivity, high resolution and high mass accuracy. Currently, the...

  • Ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometer. Alber, George M.; Marshall, Alan G.; Hill, Nicholas C.; Schweikhard, Lutz; Ricca, Tom L. // Review of Scientific Instruments;Jul1993, Vol. 64 Issue 7, p1845 

    A new Fourier transform ion cyclotron resonance mass spectrometer is described in three sections: magnet, vacuum system, and electronics/data system. Each component is described in detail (e.g., manufacturer's part numbers, drawings, circuit schematics, etc.). Of special interest is the...

  • Parametric-mode-excitation/dipole-mode-detection Fourier-transform–ion-cyclotron-resonance spectrometry. Schweikhard, L.; Lindinger, M.; Kluge, H.-J. // Review of Scientific Instruments;Mar90, Vol. 61 Issue 3, p1055 

    A new excitation/detection scheme for Fourier-transform-ion-cyclotron-resonance (FT-ICR) studies is described. The ions are created in the center of a hyperbolic Penning trap and excited to a large magnetron radius. Parametric-mode excitation is used to drive the cyclotron motion. The ions are...

  • FT-ICR probes of silicon cluster chemistry: The special behavior of Si+39. Elkind, J. L.; Alford, J. M.; Weiss, F. D.; Laaksonen, R. T.; Smalley, R. E. // Journal of Chemical Physics;8/15/1987, Vol. 87 Issue 4, p2397 

    FT-ICR techniques were used to probe the surface chemistry of isolated silicon cluster ions in the 7–65 atom size range. Dissociative chemisorption reactions with NH3 were observed to proceed with rates which varied widely with cluster size. One particular cluster, Si+39, was found to be...

  • “Lossless” compression of high resolution mass spectra of small molecules. Blanckenburg, Bo; Burgt, Yuri E. M.; Deelder, André M.; Palmblad, Magnus // Metabolomics;Sep2010, Vol. 6 Issue 3, p335 

    Fourier transform ion cyclotron resonance (FTICR) provides the highest resolving power of any commercially available mass spectrometer. This advantage is most significant for species of low mass-to-charge ratio ( m/ z), such as metabolites. Unfortunately, FTICR spectra contain a very large...

  • An Automated LC-MALDI FT-ICR MS Platform. Peters, Eric C.; Brock, Ansgar; Horn, David M.; Phung, Qui T.; Ericson, Christer; Salomon, Arthur R.; Ficarro, Scott B.; Brill, Laurence M. // LC-GC Europe;Jul2002, Vol. 15 Issue 7, p423 

    Describes an automated liquid chromatography-matrix-assisted laser desorption ionization Fourier-transform ion cyclotron resonance mass spectrometry platform for high-throughput proteomics. Flow chart for the protein profiling of biological samples; Automated deposition of a reversed-phase...

  • News Spectrum: New Research Confirms the Practical Applicability of Absorption Mode in FT-ICR Mass Spectrometry.  // Spectroscopy;Jun2012, Vol. 27 Issue 6, p12 

    The article reports on the findings of a study conducted by scientists at the University of Warwick in England in which the practical applicability of absorption mode in fourier transform infrared ion cyclotron resonance mass spectrometry (FT-ICR-MS) was confirmed.

  • High information throughput analysis of nucleotides and their isotopically enriched isotopologues by direct-infusion FTICR-MS. Lorkiewicz, Pawel; Higashi, Richard; Lane, Andrew; Fan, Teresa // Metabolomics;Oct2012, Vol. 8 Issue 5, p930 

    Fourier transform-ion cyclotron resonance-mass spectrometry (FTICR-MS) is capable of acquiring unmatched quality of isotopologue data for stable isotope resolved metabolomics (SIRM). This capability drives the need for a continuous ion introduction for obtaining optimal isotope ratios. Here we...


Read the Article


Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics