Targeted liquid chromatography-tandem mass spectrometry analysis of proteins: Basic principles, applications, and perspectives

doi:10.1002/pmic.202100153

Review

. 2021 Dec;21(23-24):e2100153.

doi: 10.1002/pmic.202100153. Epub 2021 Oct 17.

Targeted liquid chromatography-tandem mass spectrometry analysis of proteins: Basic principles, applications, and perspectives

Arman Kulyyassov¹, Margaux Fresnais², Rémi Longuespée²

Affiliations

¹ National Center for Biotechnology, Nur-Sultan, Kazakhstan.
² Department of Clinical Pharmacology and Pharmacoepidemiology, Heidelberg University Hospital, Heidelberg, Germany.

PMID: 34591362
DOI: 10.1002/pmic.202100153

Review

Targeted liquid chromatography-tandem mass spectrometry analysis of proteins: Basic principles, applications, and perspectives

Arman Kulyyassov et al. Proteomics. 2021 Dec.

. 2021 Dec;21(23-24):e2100153.

doi: 10.1002/pmic.202100153. Epub 2021 Oct 17.

Authors

Arman Kulyyassov¹, Margaux Fresnais², Rémi Longuespée²

Affiliations

¹ National Center for Biotechnology, Nur-Sultan, Kazakhstan.
² Department of Clinical Pharmacology and Pharmacoepidemiology, Heidelberg University Hospital, Heidelberg, Germany.

PMID: 34591362
DOI: 10.1002/pmic.202100153

Abstract

Liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS) is now the main analytical method for the identification and quantification of peptides and proteins in biological samples. In modern research, identification of biomarkers and their quantitative comparison between samples are becoming increasingly important for discovery, validation, and monitoring. Such data can be obtained following specific signals after fragmentation of peptides using multiple reaction monitoring (MRM) and parallel reaction monitoring (PRM) methods, with high specificity, accuracy, and reproducibility. In addition, these methods allow measurement of the amount of post-translationally modified forms and isoforms of proteins. This review article describes the basic principles of MRM assays, guidelines for sample preparation, recent advanced MRM-based strategies, applications and illustrative perspectives of MRM/PRM methods in clinical research and molecular biology.

Keywords: liquid chromatography tandem mass spectrometry; mass spectrometry; multiple reaction monitoring; parallel reaction monitoring; post-translational modifications; quadrupole time-of-flight; targeted proteomics.

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References

REFERENCES

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[1] Gillet, L. C., Leitner, A., & Aebersold, R. (2016). Mass spectrometry applied to bottom-up proteomics: Entering the high-throughput era for hypothesis testing. Annual Review of Analytical Chemistry, 9(1), 449-472. https://doi.org/10.1146/annurev-anchem-071015-041535

[2] Gillet, L. C., Leitner, A., & Aebersold, R. (2016). Mass spectrometry applied to bottom-up proteomics: Entering the high-throughput era for hypothesis testing. Annual Review of Analytical Chemistry, 9(1), 449-472. https://doi.org/10.1146/annurev-anchem-071015-041535

[3] Aebersold, R., & Mann, M. (2016). Mass-spectrometric exploration of proteome structure and function. Nature, 537(7620), 347-355. https://doi.org/10.1038/nature19949

[4] Aebersold, R., & Mann, M. (2016). Mass-spectrometric exploration of proteome structure and function. Nature, 537(7620), 347-355. https://doi.org/10.1038/nature19949

[5] Kumar, V., Ray, S., Ghantasala, S., & Srivastava, S. (2020). An integrated quantitative proteomics workflow for cancer biomarker discovery and validation in plasma. Frontiers in Oncology, 10, 543997. https://doi.org/10.3389/fonc.2020.543997

[6] Kumar, V., Ray, S., Ghantasala, S., & Srivastava, S. (2020). An integrated quantitative proteomics workflow for cancer biomarker discovery and validation in plasma. Frontiers in Oncology, 10, 543997. https://doi.org/10.3389/fonc.2020.543997

[7] Shevchenko, A., Tomas, H., Havlis, J., Olsen, J. V., & Mann, M. (2006). In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nature Protocols, 1(6), 2856-2860. https://doi.org/10.1038/nprot.2006.468

[8] Shevchenko, A., Tomas, H., Havlis, J., Olsen, J. V., & Mann, M. (2006). In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nature Protocols, 1(6), 2856-2860. https://doi.org/10.1038/nprot.2006.468

[9] Fournier, M. L., Gilmore, J. M., Martin-Brown, S. A., & Washburn, M. P. (2007). Multidimensional separations-based shotgun proteomics. Chemical Reviews, 107(8), 3654-3686. https://doi.org/10.1021/cr068279a

[10] Fournier, M. L., Gilmore, J. M., Martin-Brown, S. A., & Washburn, M. P. (2007). Multidimensional separations-based shotgun proteomics. Chemical Reviews, 107(8), 3654-3686. https://doi.org/10.1021/cr068279a

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Targeted liquid chromatography-tandem mass spectrometry analysis of proteins: Basic principles, applications, and perspectives

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Targeted liquid chromatography-tandem mass spectrometry analysis of proteins: Basic principles, applications, and perspectives

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