Challenges of MS‐based small extracellular vesicles proteomics
Abstract Proteomic profiling of small extracellular vesicles (sEV) is a powerful tool for discovering biomarkers of various diseases. This process most often assisted by mass spectrometry (MS) usually lacks standardization and recognition of challenges which may lead to unreliable results. General r...
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| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2024-12-01
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| Series: | Journal of Extracellular Vesicles |
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| Online Access: | https://doi.org/10.1002/jev2.70020 |
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| _version_ | 1841525440586448896 |
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| author | Daniel Fochtman Lukasz Marczak Monika Pietrowska Anna Wojakowska |
| author_facet | Daniel Fochtman Lukasz Marczak Monika Pietrowska Anna Wojakowska |
| author_sort | Daniel Fochtman |
| collection | DOAJ |
| description | Abstract Proteomic profiling of small extracellular vesicles (sEV) is a powerful tool for discovering biomarkers of various diseases. This process most often assisted by mass spectrometry (MS) usually lacks standardization and recognition of challenges which may lead to unreliable results. General recommendations for sEV MS analyses have been briefly given in the MISEV2023 guidelines. The present work goes into detail for every step of sEV protein profiling with an overview of factors influencing such analyses. This includes reporting and defining the sEV source and vesicle isolation, protein solubilization and digestion, ‘offline’ and ‘online’ sample complexity reduction, the analysis type itself, and subsequent data analysis. Every stage in this process affects the others, which could result in different outcomes. Although characterization and comparisons of different sEV isolation methods are known and accessible and MS‐based profiling details are provided for cell or tissue samples, no consensus work has been ever published to describe the whole process of sEV proteomic analysis. Reliable results can be obtained from sEV profiling provided that the analysis is well planned, prepared for, and backed by pilot studies or appropriate research. |
| format | Article |
| id | doaj-art-33dac464fce140b99d673a824337b192 |
| institution | Kabale University |
| issn | 2001-3078 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Wiley |
| record_format | Article |
| series | Journal of Extracellular Vesicles |
| spelling | doaj-art-33dac464fce140b99d673a824337b1922025-01-17T11:11:12ZengWileyJournal of Extracellular Vesicles2001-30782024-12-011312n/an/a10.1002/jev2.70020Challenges of MS‐based small extracellular vesicles proteomicsDaniel Fochtman0Lukasz Marczak1Monika Pietrowska2Anna Wojakowska3Institute of Bioorganic Chemistry Polish Academy of Sciences Poznan PolandInstitute of Bioorganic Chemistry Polish Academy of Sciences Poznan PolandMaria Sklodowska‐Curie National Research Institute of Oncology Gliwice PolandInstitute of Bioorganic Chemistry Polish Academy of Sciences Poznan PolandAbstract Proteomic profiling of small extracellular vesicles (sEV) is a powerful tool for discovering biomarkers of various diseases. This process most often assisted by mass spectrometry (MS) usually lacks standardization and recognition of challenges which may lead to unreliable results. General recommendations for sEV MS analyses have been briefly given in the MISEV2023 guidelines. The present work goes into detail for every step of sEV protein profiling with an overview of factors influencing such analyses. This includes reporting and defining the sEV source and vesicle isolation, protein solubilization and digestion, ‘offline’ and ‘online’ sample complexity reduction, the analysis type itself, and subsequent data analysis. Every stage in this process affects the others, which could result in different outcomes. Although characterization and comparisons of different sEV isolation methods are known and accessible and MS‐based profiling details are provided for cell or tissue samples, no consensus work has been ever published to describe the whole process of sEV proteomic analysis. Reliable results can be obtained from sEV profiling provided that the analysis is well planned, prepared for, and backed by pilot studies or appropriate research.https://doi.org/10.1002/jev2.70020extracellular vesiclesmass spectrometryproteomicsreliabilitysEV isolation |
| spellingShingle | Daniel Fochtman Lukasz Marczak Monika Pietrowska Anna Wojakowska Challenges of MS‐based small extracellular vesicles proteomics Journal of Extracellular Vesicles extracellular vesicles mass spectrometry proteomics reliability sEV isolation |
| title | Challenges of MS‐based small extracellular vesicles proteomics |
| title_full | Challenges of MS‐based small extracellular vesicles proteomics |
| title_fullStr | Challenges of MS‐based small extracellular vesicles proteomics |
| title_full_unstemmed | Challenges of MS‐based small extracellular vesicles proteomics |
| title_short | Challenges of MS‐based small extracellular vesicles proteomics |
| title_sort | challenges of ms based small extracellular vesicles proteomics |
| topic | extracellular vesicles mass spectrometry proteomics reliability sEV isolation |
| url | https://doi.org/10.1002/jev2.70020 |
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