Analytical Chemistry Considerations in Plant Metabolomics

Ryan, Danielle; Robards, Kevin

doi:10.1080/15422110601003523

Cited by 21 publications

(17 citation statements)

References 141 publications

(220 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Another advantage of lyophilization is that it lends long-term www.interscience.wiley.com/journal/mrc S149 A comparison of metabolite extractions for 1 H-NMR-based metabolic profiling stability to tissue that must remain in storage for an extended duration prior to analysis. [4] Fig. 2(c,d).…”

Section: Effect Of Initial Tissue Statementioning

confidence: 93%

“…[4,23,24] Carbohydrates including sucrose, glucose, fructose, arabinose, fucose, galactose, mannose, rhamnose and xylose as well as members of the hexose-phosphate pool are metabolites that may be found in the water-soluble fraction of plant extracts, as well as the standard amino acids and related amines such as choline, ornithine and citrulline. Plant lipids, triglycerides and waxes are highly soluble in organic solvents such as chloroform.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

A comparison of metabolite extraction strategies for ¹H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana

Kaiser

Barding

Larive

2009

Magnetic Reson in Chemistry

View full text Add to dashboard Cite

Metabolite analysis is recognized as an important facet of systems biology, however complete metabolome characterization has not been realized due to challenges in sample preparation, inherent instrumental limitations and the labor intensive task of data interpretation. This work aims to compare several commonly used metabolite extraction strategies for their effect on the (1)H nuclear magnetic resonance (NMR) metabolic profile of extracts of the model plant Arabidopsis thaliana. Extractions were carried out on aliquots from a pool of homogenized plant tissue using CD(3)CN/D(2)O, buffered D(2)O, perchloric acid in D(2)O, CD(3)OD/D(2)O and CD(3)OD/D(2)O/CDCl(3) as the extraction solvents. The effects of lyophilization as a sample pretreatment, solvent evaporation and extract fractionation for removal of interfering species were studied. Representative spectra are presented for qualitative interpretation. Analytical reproducibility was evaluated by principal components analysis. Perchloric acid facilitated acid-catalyzed cleavage of sucrose, further complicating biological interpretation of the resulting metabolite profile. The solvent system CD(3)OD/D(2)O/CDCl(3) gave the least reproducible results in our hands. D(2)O extracts suffered from poor stability probably due to contamination by soluble enzymes, which were not denatured in this solvent. CD(3)CN/D(2)O extracts showed greater stability than D(2)O alone, but problems were encountered due to degradation of (1)H NMR spectral resolution during lengthy acquisitions due to partial phase separation. In addition, this solvent system produced spectra with significant contamination by lipids that obscured spectral regions containing the resonances of the aliphatic amino acids. These problems were solved by speedvacuuming the CD(3)CN/D(2)O extract and reconstituting in D(2)O solution.

show abstract

Section: Effect Of Initial Tissue Statementioning

confidence: 93%

Section: Introductionmentioning

confidence: 99%

A comparison of metabolite extraction strategies for ¹H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana

Kaiser

Barding

Larive

2009

Magnetic Reson in Chemistry

View full text Add to dashboard Cite

show abstract

“…Ratio between peaks of the fingerprints, peak areas, and peak heights were evaluated. [26,27] About 77, 40, 56, and 49 characteristic peaks in HPLC fingerprints were selected to calculate the correlation coefficient and vector cosine of constituents in leaves and stems, respectively.…”

Section: Statistical Data Processingmentioning

confidence: 99%

RP-HPLC SEPARATION AND STATISTICAL DATA PROCESSING OF DIFFERENT BATCHES OF AERIAL PARTS OFJOLOGBO

Kiazolu

Zhang

Intisar

et al. 2013

Journal of Liquid Chromatography & Related Technologies

View full text Add to dashboard Cite

& This study was designed to develop a sensitive and reliable RP-HPLC method for the separation of aerial parts of Jologbo. Different extraction methods were used and compared to obtain the maximum number of constituents. Different chromatographic conditions were optimized to achieve optimum separation. A total of 98 peaks were obtained in the optimized separation method. Seasonal variation and difference in chemical composition among aerial parts of the plant were evaluated. Significant difference in the chemical composition was observed and statistical data processing supported the results. The correlation coefficient and vector cosine were calculated by chemometric analysis to evaluate peak retention times, peak areas, and peak heights between various batches (using selected peaks) which showed good repeatability. Gallic and protocatechuic acids were identified from the plant and their intra-day and inter-day repeatability values were calculated and convincing results were obtained.

show abstract

“…The analytes were clustered in groups in the 2D space thus facilitating their classification, and they were identified on the basis of the APCI-mass spectra. However, the method still suffers of some limitations such as mobile phase immiscibility, precipitation of buffer salts and incompatibility of stationary phase [123]. Analogously to two-dimensional liquid chromatography, also gas chromatography has seen the development of GC × GC for the analysis of targeted and/or unknown volatile compounds present in a mixture.…”

Section: Trends !mentioning

confidence: 99%

Quality Control of Herbal Material and Phytopharmaceuticals with MS and NMR Based Metabolic Fingerprinting

Kooy¹,

Maltese²,

Choi³

et al. 2009

Planta Med

165

105

View full text Add to dashboard Cite

Introduction !Plants have been used throughout history as the primary source of food, timber, fuel, and medicine, among other purposes. Due to their amazing ability to produce a vast structural array of chemical components, of which only relatively few have been identified, plants are one of the most important sources for the development of new drugs. Today plants, plant extracts and plant-derived components are being used in a multitude of herbal remedies and phytopharmaceuticals. Well-known plants which are used to treat specific diseases include Artemisia annua (to treat uncomplicated malaria) [1] and the female flowering tops of Cannabis sativa (to relieve pain and as an appetite enhancer) [2]. A multitude of examples exists for the use of plant extracts to treat a large array of diseases and the WHO estimates that about 80% of the world population uses medicinal plants as their primary source of medication. Many well-known drugs have also been isolated from plants including artemisinin from A. annua, paclitaxel from Taxus brevifolia, vinblastine and vincristine from Catharanthus roseus and galanthamine from the Amaryllidaceae family. In the literature three terms are used to describe the analysis of metabolites produced by plants.These terms, notably metabolic profiling, metabolic fingerprinting and metabolomics are sometimes used interchangeably. It is not our intention to give a formal definition of metabolomics. For a formal definition and discussion [3,4] should be consulted. A very simplistic view is that metabolomics can be seen in two different ways. Firstly there is the microscopic view (targeted approach) which looks at a specific set of compounds (e.g., phenolics or terpenoids, etc). This approach is also called metabolic fingerprinting or metabolic profiling. The second view is the macroscopic view (untargeted approach) which aims at identifying and quantifying all the metabolites present in a specific organism [3]. Metabolomics is therefore a "systematic study of the unique chemical fingerprints that specific cellular processes leave behind" -and, more specifically, the study of their small-molecule metabolite profiles [5]. The metabolome represents the collection of all metabolites in a biological organism, which are the end products of its gene expression. Thus, while mRNA gene expression data and proteomic analyses do not tell the whole story of what might be happening in a cell, metabolic fingerprinting can give an instantaneous snapshot of the physiology of that cell. One of the challenges of systems biology is to integrate proteomic, transcriptomic, and Abstract !Metabolic fingerprinting techniques have received a lot of attention in recent years and the annual amount of publications in this field has increased significantly over the past decade. This increase in publications is due to improvements in the analytical performance, most notably in the field of NMR and MS analysis, and the increased awareness of the different applications of this growing field. Metabolomic fingerprinting or pr...

show abstract

Analytical Chemistry Considerations in Plant Metabolomics

Cited by 21 publications

References 141 publications

A comparison of metabolite extraction strategies for ¹H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana

A comparison of metabolite extraction strategies for ¹H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana

RP-HPLC SEPARATION AND STATISTICAL DATA PROCESSING OF DIFFERENT BATCHES OF AERIAL PARTS OFJOLOGBO

Quality Control of Herbal Material and Phytopharmaceuticals with MS and NMR Based Metabolic Fingerprinting

Contact Info

Product

Resources

About

Analytical Chemistry Considerations in Plant Metabolomics

Cited by 21 publications

References 141 publications

A comparison of metabolite extraction strategies for 1H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana

A comparison of metabolite extraction strategies for 1H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana

RP-HPLC SEPARATION AND STATISTICAL DATA PROCESSING OF DIFFERENT BATCHES OF AERIAL PARTS OFJOLOGBO

Quality Control of Herbal Material and Phytopharmaceuticals with MS and NMR Based Metabolic Fingerprinting

Contact Info

Product

Resources

About

A comparison of metabolite extraction strategies for ¹H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana

A comparison of metabolite extraction strategies for ¹H‐NMR‐based metabolic profiling using mature leaf tissue from the model plant Arabidopsis thaliana