An overview of fecal sample preparation for global metabolic profiling

Deda, Olga; Gika, Helen; Wilson, Ian D.; Theodoridis, Georgios

doi:10.1016/j.jpba.2015.02.006

Cited by 110 publications

(77 citation statements)

References 57 publications

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“…However, if fecal VOC analysis can be used in clinical setting remains to be elucidated by comparing samples, containing varying water contents, from healthy and diseased. Lyophilization may offer a solution to this problem, however freeze-drying may reduce the content of volatiles, thereby hampering adequate comparison between samples [27,43]. …”

Section: Discussionmentioning

confidence: 99%

Effects of Sampling Conditions and Environmental Factors on Fecal Volatile Organic Compound Analysis by an Electronic Nose Device

Berkhout

Benninga

Stein

et al. 2016

Sensors

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Prior to implementation of volatile organic compound (VOC) analysis in clinical practice, substantial challenges, including methodological, biological and analytical difficulties are faced. The aim of this study was to evaluate the influence of several sampling conditions and environmental factors on fecal VOC profiles, analyzed by an electronic nose (eNose). Effects of fecal sample mass, water content, duration of storage at room temperature, fecal sample temperature, number of freeze–thaw cycles and effect of sampling method (rectal swabs vs. fecal samples) on VOC profiles were assessed by analysis of totally 725 fecal samples by means of an eNose (Cyranose320®). Furthermore, fecal VOC profiles of totally 1285 fecal samples from 71 infants born at three different hospitals were compared to assess the influence of center of origin on VOC outcome. We observed that all analyzed variables significantly influenced fecal VOC composition. It was feasible to capture a VOC profile using rectal swabs, although this differed significantly from fecal VOC profiles of similar subjects. In addition, 1285 fecal VOC-profiles could significantly be discriminated based on center of birth. In conclusion, standardization of methodology is necessary before fecal VOC analysis can live up to its potential as diagnostic tool in clinical practice.

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Section: Discussionmentioning

confidence: 99%

Effects of Sampling Conditions and Environmental Factors on Fecal Volatile Organic Compound Analysis by an Electronic Nose Device

Berkhout

Benninga

Stein

et al. 2016

Sensors

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“…Fecal material a relatively new matrix for metabolomic profiling . As a noninvasive matrix, feces can be self‐collected by volunteers using collection kits that consist of a sterilized wide‐mouth plastic bag and a plastic container (i.e., Exakt Pak canister), comfortable special stool specimen collection units (i.e., Fecotainer, Suesse, Labortechnik, Gudensberg, Germany; Fisherbrand Commode Specimen Collection System, Diagnolab, CA, USA) or even a freezing toilet operating at –30 °C (see Boxes and ).…”

Section: Sample Characteristics and Preanalytical Processingmentioning

confidence: 99%

“…Several methods for fecal pre‐preparation exist for storage, including: i) fresh feces freezing at −80 °C; ii) centrifuging of fresh feces with or without portions of extracting agent‐fecal water; or iii) freeze‐drying (fecal powder) …”

Section: Sample Characteristics and Preanalytical Processingmentioning

confidence: 99%

“…Prestorage treatment and homogenization of fecal material is frequently done directly in ice‐cold phosphate‐buffered saline (PBS) by mixing representative volumes of feces with 2 volumes of PBS buffer . It has been shown that the addition of 95% ethanol, water/methanol, or twice distilled water tends to improve the overall recovery of fecal metabolites . Such prepared fecal slurry (fecal water) should be vortexed and ultracentrifuged at 35 000 × g for 2 h at 4 °C and the supernatant filtered, aliquoted, and stored at −80 °C.…”

Section: Sample Characteristics and Preanalytical Processingmentioning

confidence: 99%

See 1 more Smart Citation

Nutrimetabolomics: An Integrative Action for Metabolomic Analyses in Human Nutritional Studies

Ulaszewska

Weinert

Trimigno

et al. 2018

Molecular Nutrition Food Res

195

156

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The life sciences are currently being transformed by an unprecedented wave of developments in molecular analysis, which include important advances in instrumental analysis as well as biocomputing. In light of the central role played by metabolism in nutrition, metabolomics is rapidly being established as a key analytical tool in human nutritional studies. Consequently, an increasing number of nutritionists integrate metabolomics into their study designs. Within this dynamic landscape, the potential of nutritional metabolomics (nutrimetabolomics) to be translated into a science, which can impact on health policies, still needs to be realized. A key element to reach this goal is the ability of the research community to join, to collectively make the best use of the potential offered by nutritional metabolomics. This article, therefore, provides a methodological description of nutritional metabolomics that reflects on the state-of-the-art techniques used in the laboratories of the Food Biomarker Alliance (funded by the European Joint Programming Initiative "A Healthy Diet for a Healthy Life" (JPI HDHL)) as well as points of reflections to harmonize this field. It is not intended to be exhaustive but rather to present a pragmatic guidance on metabolomic methodologies, providing readers with useful "tips and tricks" along the analytical workflow.

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“…Regarding to the analytical procedures used for fecal analysis in the published studies, there are only a few papers dealing with sample treatment method development, hence there is a lack of a well-defined and universal protocol applied for sample preparation, as we have recently reported [37]. Stool material presents critical and limiting factors since feces represent a specimen of diversifying and complex mixture [38].…”

mentioning

confidence: 99%