Cited by 48Telomeres, Telomerase, and SenescenceAdvanced Proteomics Techniques and ApplicationsGenetics, Aging, and Longevity in Model Organisms

Quantitative Proteomic Analysis of the Senescence-Associated Secretory Phenotype by Data-Independent Acquisition.

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Neri, Francesco, Basisty, Nathan, Desprez, Pierre‐Yves, Campisi, Judith, Schilling, Birgit·2021·Current Protocols

Abstract

Cellular senescence is a complex stress response that induces an essentially permanent cell cycle arrest and a complex secretory phenotype termed the senescence‐associated secretory phenotype (SASP), which drives numerous aging pathologies. Characterization of the SASP can provide insights into aging and disease mechanisms, aging biomarker candidates, and targets for counteracting the deleterious effects of senescent cells. Here we describe a mass spectrometry (MS)‐compatible protocol to (1) generate senescent cells using different stimuli, (2) collect conditioned medium containing proteins secreted by senescent cells (i.e., SASP), and (3) prepare the SASP for quantitative proteomic analysis using data‐independent acquisition (DIA) MS. © 2021 The Authors. This article was corrected on 19 July 2022. See the end of the full text for details. Basic Protocol 1: Generating ionizing radiation‐induced senescent and control cells Alternate Protocol 1: Generating doxorubicin‐induced senescent and control cells Alternate Protocol 2: Generating oncogenic RAS‐induced senescent and control cells Alternate Protocol 3: Generating mitochondrial dysfunction‐induced senescent and control cells Alternate Protocol 4: Generating atazanavir/ritonavir‐induced senescent and control cells Support Protocol: A multiple‐assay approach to confirm the phenotype of senescent cells Basic Protocol 2: Generating conditioned medium from senescent cells cultured in low serum and quiescent control cells Alternate Protocol 5: Generating conditioned medium from senescent cells cultured in complete medium and quiescent control cells Basic Protocol 3: Quantitative proteomic analysis of the SASP

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  • The model of senescence induction using ionizing radiation has been well established and proven to yield highly robust senescence induction.

    “In general, this model of senescence induction using ionizing radiation (IR), has been well established and has proven to yield highly robust senescence induction as demonstrated in the Campisi lab [10, 20, 21] and many other labs.”

    From Senescent cell heterogeneity and responses to senolytic treatment are related to cell cycle status during senescence induction (2025) · cites this paper as [20]

    Basic Protocol 1, under “Generation of senescent cells” (page unavailable), says that 15 Gy of ionizing radiation should produce a full senescent phenotype in approximately 10 days, with almost all fibroblasts showing senescent morphology. This supports robust induction under the described conditions, but Strategic Planning says the protocol is optimized for IMR-90 fibroblasts and requires adjustment for other cell types; the source does not establish equally robust induction generally. (LLM, conf=0.82)

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Authors
Neri, F., Basisty, N., Desprez, P., Campisi, J., & Schilling, B.
Affiliations
Buck Institute for Research on Aging (US)
Corresponding author
Schilling, Birgit
Venue
Current Protocols
Publisher
Wiley
Published
2021-02
Volume
1
Issue
2
Pages
e32-e32
ISSN
2691-1299 (ISSN-L)
OpenAlex
W3127124851
Cited by
48
References
24
Citations by year
2026: 4 · 2025: 10 · 2024: 11 · 2023: 12 · 2022: 10 · 2021: 1
FWCI
5.33
Type
journal article
Language
en
Open access
Locations
  • Current Protocols (publishedVersion, cc-by-nc-nd)
  • PubMed Central (publishedVersion, cc-by-nc-nd)
  • PubMed (publishedVersion)
  • eScholarship (California Digital Library) (submittedVersion, cc-by-nc-nd)
  • OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information) (submittedVersion)
  • eScholarship (California Digital Library) (submittedVersion)
Funders
National Science Foundation (U01 AG060906‐02, U01 AG060906‐02S1, P01 AG017242, R01 AG051729, K99 AG065484, 1S10 OD016281)
Topics
  • Health Sciences › Medicine › Physiology › Telomeres, Telomerase, and Senescence
  • Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Aging › Genetics, Aging, and Longevity in Model Organisms
Keywords
cellular senescence, senescence-associated secretory phenotype, conditioned medium, secreted proteins, data-independent acquisition, quantitative proteomics, doxorubicin-induced senescence, mitochondrial dysfunction, atazanavir/ritonavir, aging biomarkers, senolytics
MeSH terms
Cells, Cultured, Phenotype, Cellular Senescence, Culture Media, Conditioned, Proteomics

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