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Recent Advances in Targeted and Untargeted Metabolomics by NMR and MS/NMR Methods

Journal Article · · High-Throughput
DOI:https://doi.org/10.3390/ht7020009· OSTI ID:1434843
 [1]
  1. Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Environmental Molecular Sciences Lab. (EMSL); DOE/OSTI

Metabolomics has made significant progress in multiple fronts in the last 18 months. This minireview aimed to give an overview of these advancements in the light of their contribution to targeted and untargeted metabolomics. New computational approaches have emerged to overcome manual absolute quantitation step of metabolites in 1D 1H NMR spectra. This provides more consistency between inter-laboratory comparisons. Integration of 2D NMR metabolomics databases under a unified web server allowed very accurate identification of the metabolites that have been catalogued in these databases. For the remaining uncatalogued and unknown metabolites, new cheminformatics approaches have been developed by combining NMR and mass spectrometry. These hybrid NMR/MS approaches accelerated the identification of unknowns in untargeted studies, and now they are allowing to profile ever larger number of metabolites in application studies.

Research Organization:
Pacific Northwest National Laboratory (PNNL), Richland, WA (United States). Environmental Molecular Sciences Laboratory (EMSL)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER); USDOE Laboratory Directed Research and Development (LDRD) Program
Grant/Contract Number:
AC05-76RL01830
OSTI ID:
1434843
Alternate ID(s):
OSTI ID: 1763362
Report Number(s):
PNNL-SA--133346; 49679; KP1704020
Journal Information:
High-Throughput, Journal Name: High-Throughput Journal Issue: 2 Vol. 7; ISSN 2571-5135
Publisher:
MDPICopyright Statement
Country of Publication:
United States
Language:
English

References (79)

Structure and Metabolic-Flow Analysis of Molecular Complexity in a 13 C-Labeled Tree by 2D and 3D NMR journal April 2016
Positional Enrichment by Proton Analysis (PEPA): A One-Dimensional 1 H-NMR Approach for 13 C Stable Isotope Tracer Studies in Metabolomics journal February 2017
Using MetaboAnalyst 3.0 for Comprehensive Metabolomics Data Analysis journal September 2016
ASICS: an automatic method for identification and quantification of metabolites in complex 1D 1H NMR spectra journal August 2017
rDolphin: a GUI R package for proficient automatic profiling of 1D 1H-NMR spectra of study datasets journal January 2018
Metabolomics-driven understanding of genotype-phenotype relations in model organisms journal December 2017
Knowns and unknowns in metabolomics identified by multidimensional NMR and hybrid MS/NMR methods journal February 2017
The future of NMR-based metabolomics journal February 2017
Multidimensional NMR approaches towards highly resolved, sensitive and high-throughput quantitative metabolomics journal February 2017
Using NMR-based metabolomics to monitor the biochemical composition of agricultural soils: A pilot study journal November 2017
The Emerging Role of Metabolomics in the Diagnosis and Prognosis of Cardiovascular Disease journal December 2016
Mapping the Arabidopsis Metabolic Landscape by Untargeted Metabolomics at Different Environmental Conditions journal January 2018
Beyond the paradigm: Combining mass spectrometry and nuclear magnetic resonance for metabolomics journal May 2017
Environmental metabolomics with data science for investigating ecosystem homeostasis journal February 2018
The state of rhizospheric science in the era of multi-omics: A practical guide to omics technologies journal June 2017
Targeted Profiling:  Quantitative Analysis of 1 H NMR Metabolomics Data journal July 2006
Deconvolution of Chemical Mixtures with High Complexity by NMR Consensus Trace Clustering journal October 2011
TOCCATA: A Customized Carbon Total Correlation Spectroscopy NMR Metabolomics Database journal September 2012
Metabolomics Beyond Spectroscopic Databases: A Combined MS/NMR Strategy for the Rapid Identification of New Metabolites in Complex Mixtures journal March 2015
13 C NMR Metabolomics: INADEQUATE Network Analysis journal May 2015
Highly Repeatable Dissolution Dynamic Nuclear Polarization for Heteronuclear NMR Metabolomics journal June 2016
Comprehensive Metabolite Identification Strategy Using Multiple Two-Dimensional NMR Spectra of a Complex Mixture Implemented in the COLMARm Web Server journal December 2016
Recent Advances in NMR-Based Metabolomics journal December 2016
Stable Isotope-Resolved Analysis with Quantitative Dissolution Dynamic Nuclear Polarization journal December 2017
Application of a Deep Neural Network to Metabolomics Studies and Its Performance in Determining Important Variables journal January 2018
AQuA: An Automated Quantification Algorithm for High-Throughput NMR-Based Metabolomics and Its Application in Human Plasma journal January 2018
Accurate Identification of Unknown and Known Metabolic Mixture Components by Combining 3D NMR with Fourier Transform Ion Cyclotron Resonance Tandem Mass Spectrometry journal September 2017
Unified and Isomer-Specific NMR Metabolomics Database for the Accurate Analysis of 13 C– 1 H HSQC Spectra journal November 2014
Carbon Backbone Topology of the Metabolome of a Cell journal May 2012
DNA sequencing at 40: past, present and future journal October 2017
1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life journal June 2017
Identifying metabolites by integrating metabolome databases with mass spectrometry cheminformatics journal November 2017
A multi-omic future for microbiome studies journal April 2016
Deconvoluting interrelationships between concentrations and chemical shifts in urine provides a powerful analysis tool journal November 2017
Two elephants in the room: new hybrid nuclear magnetic resonance and mass spectrometry approaches for metabolomics journal January 2015
Metabolite Measurement: Pitfalls to Avoid and Practices to Follow journal June 2017
Metabomatching: Using genetic association to identify metabolites in proton NMR spectroscopy journal December 2017
Objective Metabolomics Research journal January 2018
13C Metabolomics: NMR and IROA for Unknown Identification journal June 2016
Emerging new strategies for successful metabolite identification in metabolomics journal March 2016
Facing and Overcoming Sensitivity Challenges in Biomolecular NMR Spectroscopy journal July 2015
Structure and Metabolic‐Flow Analysis of Molecular Complexity in a 13 C‐Labeled Tree by 2D and 3D NMR journal April 2016
Positional Enrichment by Proton Analysis (PEPA): A One-Dimensional 1 H-NMR Approach for 13 C Stable Isotope Tracer Studies in Metabolomics journal February 2017
Metabolomic signature of brain cancer journal July 2017
Unambiguous metabolite identification in high-throughput metabolomics by hybrid 1D 1 H NMR/ESI MS 1 approach : Hybrid 1D journal September 2016
NMR Analysis of Fecal Samples book January 2018
NMR-based stable isotope resolved metabolomics in systems biochemistry journal February 2011
Fortune telling: metabolic markers of plant performance journal September 2016
Application of BATMAN and BAYESIL for quantitative 1H-NMR based metabolomics of urine: discriminant analysis of lean, obese, and obese-diabetic rats journal October 2017
Objective assessment of dietary patterns by use of metabolic phenotyping: a randomised, controlled, crossover trial journal March 2017
NMR-based Stable Isotope Resolved Metabolomics in systems biochemistry journal August 2017
Deep metabolome annotation in natural products research: towards a virtuous cycle in metabolite identification journal February 2017
Microscale methodology for structure elucidation of natural products journal December 2010
Metabolic profiles from two different breakfast meals characterized by 1 H NMR-based metabolomics journal September 2017
Pure shift NMR journal April 2015
NMR-based pharmacometabonomics: A new paradigm for personalised or precision medicine journal November 2017
Quantitative Analysis of Metabolic Mixtures by Two-Dimensional 13 C Constant-Time TOCSY NMR Spectroscopy journal June 2013
Multidimensional Approaches to NMR-Based Metabolomics journal November 2013
Customized Metabolomics Database for the Analysis of NMR 1 H– 1 H TOCSY and 13 C– 1 H HSQC-TOCSY Spectra of Complex Mixtures journal May 2014
Statistical Correlations between NMR Spectroscopy and Direct Infusion FT-ICR Mass Spectrometry Aid Annotation of Unknowns in Metabolomics journal February 2016
Whole Blood Metabolomics by 1 H NMR Spectroscopy Provides a New Opportunity To Evaluate Coenzymes and Antioxidants journal March 2017
NMR-Guided Mass Spectrometry for Absolute Quantitation of Human Blood Metabolites journal January 2018
LipSpin: A New Bioinformatics Tool for Quantitative 1 H NMR Lipid Profiling journal January 2018
METLIN: A Technology Platform for Identifying Knowns and Unknowns journal January 2018
NMR/MS Translator for the Enhanced Simultaneous Analysis of Metabolomics Mixtures by NMR Spectroscopy and Mass Spectrometry: Application to Human Urine journal April 2015
Microbial metabolisms in a 2.5-km-deep ecosystem created by hydraulic fracturing in shales journal September 2016
Bayesian deconvolution and quantification of metabolites in complex 1D NMR spectra using BATMAN journal May 2014
Ultraclean pure shift NMR journal January 2017
Two elephants in the room: new hybrid nuclear magnetic resonance and mass spectrometry approaches for metabolomics journal January 2015
Jasmonate-mediated stomatal closure under elevated CO 2 revealed by time-resolved metabolomics journal October 2016
MetFrag relaunched: incorporating strategies beyond in silico fragmentation journal January 2016
Critical Assessment of Small Molecule Identification 2016: automated methods journal March 2017
Accurate, Fully-Automated NMR Spectral Profiling for Metabolomics journal May 2015
13C Metabolomics: NMR and IROA for Unknown Identification journal June 2016
Structure Elucidation of Unknown Metabolites in Metabolomics by Combined NMR and MS/MS Prediction journal January 2018
MetFrag relaunched: incorporating strategies beyond in silico fragmentation text January 2016
Accurate, fully-automated NMR spectral profiling for metabolomics text January 2014
MetFrag relaunched: incorporating strategies beyond in silico fragmentation collection January 2016
Critical Assessment of Small Molecule Identification 2016: automated methods collection January 2017

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