Advances and perspectives in chemical isotope labeling-based mass spectrometry methods for metabolome and exposome analysis

Gao, Shuo; Zhou, Xiaolu; Yue, Mengjie; Zhu, Shuyun; Liu, Qian

doi:10.1016/j.trac.2023.117022

Cited by 26 publications

(6 citation statements)

References 230 publications

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“…Chemical Isotope Labeling (CIL) LC-MS is a powerful method for comprehensive metabolome analysis, with high metabolic coverage and high relative-quantification accuracy [1][2][3][4][5][6][7][8]. Cellular metabolomics involves the comprehensive detection and quantification of a wide range of metabolites within both cells and their growth medium.…”

Section: Introductionmentioning

confidence: 99%

Effects of Solvent Evaporation Methods and Short-Term Room Temperature Storage on High-Coverage Cellular Metabolome Analysis

Luo,

2023

Metabolites

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Cellular metabolomics provides insights into the metabolic processes occurring within cells and can help researchers understand how these processes are regulated and how they relate to cellular function, health, and disease. In this technical note, we investigated the effects of solvent evaporation equipment and storage condition on high-coverage cellular metabolomics. We previously introduced a robust CIL LC-MS-based cellular metabolomics workflow that encompasses various steps, including cell harvest, metabolic quenching, cell lysis, metabolite extraction, differential chemical isotope labeling, and LC-MS analysis. This workflow has consistently served as the cornerstone of our collaborative research and service projects. As a core facility catering to users with diverse research needs and financial resources, we have encountered scenarios requiring short-term sample storage. For example, the need often arises to transport samples at room temperature from user sites to our core facility. Herein, we present a study in which we compared different solvent evaporation methods (specifically, the nitrogen blowdown evaporator, SpeedVac concentrator, and lyophilizer) and diverse storage conditions (including dried samples stored in a freezer, samples stored in a freezer with methanol, dried samples stored at room temperature, and samples stored at room temperature with methanol). Our findings indicate that the choice of solvent evaporation equipment did not significantly impact the cellular metabolome. However, we observed a noteworthy change in the metabolome after 7 days of storage when cells were stored with methanol, regardless of whether they were kept at −80 °C or room temperature, in contrast to cells that were dried and frozen. Importantly, we detected no significant alterations in cells that were dried and stored at room temperature. In conclusion, to ensure the production of high-quality CIL LC-MS metabolomics results, we strongly recommend that, in situations where low-temperature storage is not feasible, cell samples should be thoroughly dried before storage or shipment at room temperature.

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Section: Introductionmentioning

confidence: 99%

Effects of Solvent Evaporation Methods and Short-Term Room Temperature Storage on High-Coverage Cellular Metabolome Analysis

Luo,

2023

Metabolites

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“…In terms of lacking homologous ISs, we chose an appropriately labeled compound with structural and elution properties similar to the respective analyte providing the most accurate validation results (e.g., Hyp [ID 22 ] with IS Pro [ID 76 ]). This general approach was in line with previous reports. ,, As isotopically labeled AC standards were not commercially available for all species, quantitation of ACs was carried out using an extended homologous series of deuterated AC, as commonly performed in AC profiling. , We chose to follow this procedure for practical reasons, considering the unavailability of certain isotopically labeled compounds and, further, to avoid unnecessarily complicating chromatographic analysis. Despite these limitations, the developed method showed reliable performance, as indicated by the validation results.…”

Section: Discussionmentioning

confidence: 84%

“…This general approach was in line with previous reports. 45,53,54 As isotopically labeled AC standards were not commercially available for all species, 55 quantitation of ACs was carried out using an extended homologous series of deuterated AC, as commonly performed in AC profiling. 15,56 We chose to follow this procedure for practical reasons, considering the unavailability of certain isotopically labeled compounds and, further, to avoid unnecessarily complicating chromatographic analysis.…”

Section: ■ Resultsmentioning

confidence: 99%

High-Throughput Analysis of Underivatized Amino Acids and Acylcarnitines in Infant Serum: A Micromethod Based on Stable Isotope Dilution Targeted HILIC-ESI-MS/MS

Wudy

Mittermeier-Kleßinger

Dunkel

et al. 2023

J. Agric. Food Chem.

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Amino acids and acylcarnitines are important biomarkers of the body’s energy state and can be used as diagnostic markers of certain inborn errors of metabolism. Few multianalyte methods for high-throughput analysis in serum exist for these compounds, but micromethods suitable for use in young children and infants are lacking. Therefore, we developed a quantitative high-throughput multianalyte hydrophilic interaction liquid chromatography–tandem mass spectrometry method preceded by a derivatization-free sample preparation using minimum amounts of serum (25 μL). Isotopically labeled standards were utilized for quantification. Forty amino acids and amino acid derivatives and 22 acylcarnitines were detected by applying a multiple reaction monitoring mode within a 20 min run. The method was comprehensively validated, comprising linearity, accuracy, (intraday/interday) precision, and quantitation limits, of which the latter ranged from 0.25 to 50 nM for acylcarnitines and from 0.005 to 1 μM for amino acids and their derivatives. Application of the method to 145 serum samples of three- to four-month-old healthy infants showed excellent reproducibility for multiday analyses and enabled simultaneous amino acid and acylcarnitine profiling in this age group.

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“…6,24,25 Chemical isotope labeling (CIL) has demonstrated great success in mass spectrometry (MS) with enhanced sensitivity and accuracy. 26,27 In addition, selenium compared with other elements is easily recognized because of its characteristic isotope peak distribution in the MS spectrum. 28 ■ EXPERIMENTAL SECTION Quantification of Aldehydes with Light-Assisted AIMS.…”

Section: ■ Introductionmentioning

confidence: 99%

Simultaneous Detection of Aldehyde Metabolites by Light-Assisted Ambient Ionization Mass Spectrometry

Wang,

Yang,

Chen

et al. 2024

Anal. Chem.

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In the clinic, small-molecule metabolites (SMMs) in blood are highly convincing indicators for disease diagnosis, such as cancer. However, challenges still exist for detection of SMMs due to their low concentration and complicated components in blood. In this work, we report the design of a novel "selenium signature" nanoprobe (Se nanoprobe) for efficient identification of multiple aldehyde metabolites in blood. This Se nanoprobe consists of magnetic nanoparticles that can enrich aldehyde metabolites from a complex environment, functionalized with photosensitive "selenium signature" hydrazide molecules that can react with aldehyde metabolites. Upon irradiation with UV, the aldehyde derivatives can be released from the Se nanoprobe and further sprayed by mass spectrometry through ambient ionization (AIMS). By quantifying the selenium isotope distribution (MS/MS) from the derivatization product, accurate detection of several aldehyde metabolites, including valeraldehyde (Val), heptaldehyde (Hep), 2-furaldehyde (2-Fur), 10-undecenal aldehyde (10-Und), and benzaldehyde (Ben), is realized. This strategy reveals a new solution for quick and accurate cancer diagnosis in the clinic.

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Advances and perspectives in chemical isotope labeling-based mass spectrometry methods for metabolome and exposome analysis

Cited by 26 publications

References 230 publications

Effects of Solvent Evaporation Methods and Short-Term Room Temperature Storage on High-Coverage Cellular Metabolome Analysis

Effects of Solvent Evaporation Methods and Short-Term Room Temperature Storage on High-Coverage Cellular Metabolome Analysis

High-Throughput Analysis of Underivatized Amino Acids and Acylcarnitines in Infant Serum: A Micromethod Based on Stable Isotope Dilution Targeted HILIC-ESI-MS/MS

Simultaneous Detection of Aldehyde Metabolites by Light-Assisted Ambient Ionization Mass Spectrometry

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