Proteomics

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Characterisation of colorectal cancer cell lines through proteomic profiling of their extracellular vesicles


ABSTRACT: Colorectal cancer (CRC) is one of the most prevalent cancers, driven by several factors including deregulations in intracellular signalling pathways. Small extracellular vesicles (sEVs) are nanosized protein-packaged particles released from cells, which are present in liquid biopsies. Here, we characterised the proteome landscape of sEVs and their cells of origin in three CRC cell lines HCT116, HT29 and SW620 in order to explore molecular traits that could be exploited as cancer biomarker candidates and how intracellular signalling can be assessed by sEV analysis instead of directly obtaining the cell of origin itself. Our findings revealed that sEV cargo clearly reflects its cell of origin with proteins of the PI3K-AKT pathway highly represented in sEVs. Proteins known to be involved in CRC were detected in both cells and sEVs including KRAS, ARAF, mTOR, PDPK1 and MAPK1, while TGFB1 and TGFBR2, known to be key players in epithelial cancer carcinogenesis, were found to be enriched in sEVs. Furthermore, phosphopeptide-enriched profiling of cell lysates demonstrated a distinct pattern between cell lines and highlighted potential phosphoproteomic targets to be investigated in sEVs. The total proteomic and phosphoproteomics profiles described in the current work can serve as source to identify candidates for cancer biomarkers that can potentially be assessed from liquid biopsies.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Animesh Sharma  

LAB HEAD: Åsmund Flobak

PROVIDER: PXD037651 | Pride | 2023-03-11

REPOSITORIES: Pride

Dataset's files

Source:
Action DRS
181006_HCT_totx_R1.raw Raw
181006_HCT_totx_R2.raw Raw
181006_HCT_totx_R3.raw Raw
181006_HT_totx_R1.raw Raw
181006_HT_totx_R2.raw Raw
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Publications

Characterisation of Colorectal Cancer Cell Lines through Proteomic Profiling of Their Extracellular Vesicles.

Heck Kathleen A KA   Lindholm Håvard T HT   Niederdorfer Barbara B   Tsirvouli Eirini E   Kuiper Martin M   Flobak Åsmund Å   Lægreid Astrid A   Thommesen Liv L  

Proteomes 20230111 1


Colorectal cancer (CRC) is one of the most prevalent cancers, driven by several factors including deregulations in intracellular signalling pathways. Small extracellular vesicles (sEVs) are nanosized protein-packaged particles released from cells, which are present in liquid biopsies. Here, we characterised the proteome landscape of sEVs and their cells of origin in three CRC cell lines HCT116, HT29 and SW620 to explore molecular traits that could be exploited as cancer biomarker candidates and  ...[more]

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