3 research outputs found
<sup>15</sup>NâNMR-Based Approach for Amino Acids-Based <sup>13</sup>CâMetabolic Flux Analysis of Metabolism
NMR
analysis of the isotope incorporation in amino acids can be
used to derive information about the topology and operation of cellular
metabolism. Although traditionally performed by <sup>1</sup>H and/or <sup>13</sup>C NMR, we present here novel experiments that exploit the <sup>15</sup>N nucleus to derive the same information with increased efficiency.
Combined with a novel Hα-<sup>13</sup>CO experiment, we increase
the coverage of the isotopic space that can be probed by obtaining
the complete distribution of isotopic species for the first two carbons
of amino acids in cellular biomass hydrolysates. Our approach was
evaluated using as reference material a biologically produced sample
containing <sup>15</sup>N-labeled metabolites with fully predictable <sup>13</sup>C-labeling patterns. Results show excellent agreement between
measured and expected isotopomer abundances for the different NMR
experiments, with an accuracy and precision within 1%. We also demonstrate
how these experiments can give detailed information about metabolic
fluxes depending on the expression level of a critical enzyme. Hence,
exploiting the <sup>15</sup>N labeling of a cellular sample accelerates
subsequent analysis of the hydrolyzed biomass and increases the coverage
of isotopomers that can be quantified, making it a promising tool
to increase the throughput and the resolution of <sup>13</sup>C-fluxomics
studies
Methodology for the Validation of Isotopic Analyses by Mass Spectrometry in Stable-Isotope Labeling Experiments
Stable-isotope labeling
experiments (ILEs) are widely used to investigate
the topology and operation of metabolic networks. The quality of isotopic
data collected in ILEs is of utmost importance to ensure reliable
biological interpretations, but current evaluation approaches are
limited due to a lack of suitable reference material and relevant
evaluation criteria. In this work, we present a complete methodology
to evaluate mass spectrometry (MS) methods used for quantitative isotopic
studies of metabolic systems. This methodology, based on a biological
sample containing metabolites with controlled labeling patterns, exploits
different quality metrics specific to isotopic analyses (accuracy
and precision of isotopologue masses, abundances, and mass shifts
and isotopic working range). We applied this methodology to evaluate
a novel LC-MS method for the analysis of amino acids, which was tested
on high resolution (Orbitrap operating in full scan mode) and low
resolution (triple quadrupole operating in multiple reaction monitoring
mode) mass spectrometers. Results show excellent accuracy and precision
over a large working range and revealed matrix-specific as well as
mode-specific characteristics. The proposed methodology can identify
reliable (and unreliable) isotopic data in an easy and straightforward
way and efficiently supports the identification of sources of systematic
biases as well as of the main factors that influence the overall accuracy
and precision of measurements. This approach is generic and can be
used to validate isotopic analyses on different matrices, analytical
platforms, labeled elements, or classes of metabolites. It is expected
to strengthen the reliability of isotopic measurements and thereby
the biological value of ILEs
Improved Isotopic Profiling by Pure Shift Heteronuclear 2D <i>J</i>âResolved NMR Spectroscopy
Quantitative information
on the carbon isotope content of metabolites
is essential for flux analysis. Whereas this information is in principle
present in proton NMR spectra through both direct and long-range heteronuclear
coupling constants, spectral overlap and homonuclear coupling constants
both hinder its extraction. We demonstrate here how pure shift 2D <i>J</i>-resolved NMR spectroscopy can simultaneously remove the
homonuclear couplings and separate the chemical shift information
from the heteronuclear coupling patterns. We demonstrate the power
of this method on cell lysates from different bacterial cultures and
investigate in detail the branched chain amino acid biosynthesis