Joint GC–MS and LC–MS platforms for comprehensive plant metabolomics: Repeatability and sample pre-treatment

t’Kindt, Ruben; Morreel, Kris; Deforce, Dieter; Boerjan, Wout; Bocxlaer, Jan Van

doi:10.1016/j.jchromb.2009.08.041

Cited by 125 publications

(108 citation statements)

References 23 publications

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“…Generally, nearly all methods investigated showed a median CV of 15-30 % across all platforms. This coincides with values reported for various GC-MS and LC-MS extraction protocols 17,18,40,42,47 . The CVs for the NMR data are relatively high compared to other published studies [48][49][50] , but appear to be a realistic picture of the combined biological and technical variation in this study.…”

Section: Resultssupporting

confidence: 90%

“…However, inspection of the corresponding extracted ion chromatograms (EICs) showed that that in most of these cases a feature was present in all replicates, but just below the standard detection parameters of the xcms "centWave" peak picker (intensity>100, SN>10). Low intensity metabolite features often diminish overall reproducibility for LC-MS data [40][41][42] .…”

Section: Resultsmentioning

confidence: 99%

“…al. 42 . The spheroid/MC extracts are particularly intriguing in this respect: for the NMR data, the CV is similar to the other methods, for the GC-MS data this method performs poorly, but it has the lowest CV throughout if judging by the UPLC-MS data.…”

Section: Resultsmentioning

confidence: 99%

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Cross-Platform Comparison of Caenorhabditis elegans Tissue Extraction Strategies for Comprehensive Metabolome Coverage

et al. 2011

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The nematode Caenorhabditis elegans is widely used as a model organism in many areas of the life sciences. Metabolite profiling (metabolomics/metabonomics) is a powerful means of assigning phenotypes to experimentally perturbed C. elegans samples (e.g. mutants, RNAi, or chemical treatments). Tissue extraction is a key step, and high-quality and reproducible extractions are essential to the success of metabolomics studies. We have performed an extensive comparison of different tissue extraction techniques with C. elegans, comparing two different solvent systems (chloroform/methanol and aqueous methanol) and six different tissue disruption techniques (including manual grinding in a cooled mortar, homogenization, and various grinding media in both reciprocating and orbital tissue mills). All twelve combinations were then compared by GC-MS, 1 H NMR spectroscopy, and UPLC-MS, and the results evaluated by both overall multivariate clustering approaches as well as distributions over individual metabolites/metabolite features of coefficient of variation and yield. The choice of solvent had more influence than the disruption method used, although the homogenizer results were clearly outliers. Overall, we concluded that bead-beating with 80% methanol solution was a good tradeoff -although it is important to note that the definition of the apparent 'best' method depended on which analytical platform was used to evaluate the results.3

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Section: Resultssupporting

confidence: 90%

Section: Resultsmentioning

confidence: 99%

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Cross-Platform Comparison of Caenorhabditis elegans Tissue Extraction Strategies for Comprehensive Metabolome Coverage

et al. 2011

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“…Targeted metabolite analysis, (or metabolite profiling), as the name implies, targets mainly a subset of metabolites in test sample, instead of a complete, global metabolome analysis, often by using a particular set of analytic technique(s) such as gas chromatography-mass spectrometry (GC-MS) and liquid chromatography-mass spectrometry (LC-MS), and yields an estimate of quantity [94]. Metabolomics approaches using GC-MS, LC-MS, or 2D NMR are effective tools for quality control of medicinal plants or herbal medicine products [95,96]. As shown in Figure 3 [24], key aspects of the technology were assembled in many research institutions as "core labs/facilities" in the metabolomics approach for herbal medicine or other integrated research interest.…”

Section: Use Of Gc-ms Lc-ms Ft-ir and Nmr Technologiesmentioning

confidence: 99%

“…Among the variety of MS techniques, GC-MS has long been popularly used in metabolite profiling of plant extracts [100,101]. Rapid, high-resolution 2D GC x GC-TOF MS has been employed in the phenotyping of natural rice variants [102] as well as for efficient quality control or analysis of herbal medicines [95]. Recently, capillary electrophoresis-MS has also been developed as a metabolomics tool, capable of simultaneously analyzing over 1,000 charged chemical species, a technique that is expected to create a number of obvious applications in processing and characterization of various biological samples [95].…”

Section: Use Of Gc-ms Lc-ms Ft-ir and Nmr Technologiesmentioning

confidence: 99%

Immuno-Modulatory Effects of Phytomedicines Evaluated Using Omics Approaches

Yin¹,

Yang²

2011

Systems and Computational Biology - Molecular and Cellular Experimental Systems

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Extraction Methodologies in Plants: General Introduction

Camel

2014

Encyclopedia of Analytical Chemistry

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The extraction stage is considered to be a key step of most analytical strategies, as it greatly influences the type and quality of analytical data. In case of plants, which are interesting materials for a broad range of domestic or industrial‐scale applications, extraction is a particularly crucial step as solid samples are considered most of the time. Indeed, extractions from solids are well known to be more critical than from liquids, owing to limitations by diffusion and/or strong solute–solid interactions; solutes may also be trapped into cells within the plant materials. Consequently, careful knowledge about the plant material itself (its structure and composition) and whenever possible about the compounds to be extracted (their expected levels, polarity, and stability) is of great help for conceiving and optimizing an extraction process; the fate of the extract is also important to consider, as the selectivity expected for the extraction differs between target and fingerprint approaches. Practically, even though several extraction techniques are available, none is the best and should be recommended for any application. However, the use of recent techniques should be favored, as they reduce both the solvent volume and the time required for the extraction; the hyphenation or combination of techniques should be investigated to take benefit from the advantages of several techniques.

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Joint GC–MS and LC–MS platforms for comprehensive plant metabolomics: Repeatability and sample pre-treatment

Cited by 125 publications

References 23 publications

Cross-Platform Comparison of Caenorhabditis elegans Tissue Extraction Strategies for Comprehensive Metabolome Coverage

Cross-Platform Comparison of Caenorhabditis elegans Tissue Extraction Strategies for Comprehensive Metabolome Coverage

Immuno-Modulatory Effects of Phytomedicines Evaluated Using Omics Approaches

Extraction Methodologies in Plants: General Introduction

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