Genome-wide methylation profiling reveals extracellular vesicle DNA as an ex vivo surrogate of cancer cell-derived DNA.
Cancer
DNA methylation
EV-DNA
Epigenetic modifications
Exosome
Extracellular vesicles
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
15 10 2024
15 10 2024
Historique:
received:
11
12
2023
accepted:
03
10
2024
medline:
16
10
2024
pubmed:
16
10
2024
entrez:
15
10
2024
Statut:
epublish
Résumé
Extracellular vesicle-derived DNA (evDNA) encapsulates the complete genome and mutational status of cells; however, whether cancer cell-derived evDNA mirrors the epigenetic features of parental genomic DNA remains uncertain. This study aimed to assess and compare the DNA methylation patterns of evDNA from cancer cell lines and primary cancer tissues with those of the nuclear genomic DNA. We isolated evDNA secreted by two cancer cell lines (HCT116 and MDA-MB-231) from various subcellular compartments, including the nucleus and cytoplasm. Additionally, we obtained evDNA and nuclear DNA (nDNA) from the primary cancer tissues of colon cancer patients. We conducted a comprehensive genome-wide DNA methylation analysis using the Infinium Methylation EPIC BeadChip, examining > 850,000 CpG sites. Remarkable similarities were observed between evDNA and nDNA methylation patterns in cancer cell lines and patients. This concordance extended to clinical cancer tissue samples, showcasing the potential utility of evDNA methylation patterns in deducing cellular origin within heterogeneous populations through methylation-based deconvolution. The observed concordance underscores the potential of evDNA as a noninvasive surrogate marker for discerning tissue origin, particularly in cancer tissues, offering a promising future for cancer diagnostics. This finding enhances our understanding of cellular origins and would help develop innovative diagnostic and therapeutic strategies for cancer.
Identifiants
pubmed: 39406948
doi: 10.1038/s41598-024-75287-3
pii: 10.1038/s41598-024-75287-3
doi:
Substances chimiques
DNA, Neoplasm
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
24110Subventions
Organisme : the Basic Science Research Program through the National Research Foundation of Korea (NRF), funded by the Ministry of Education
ID : NRF-2022R1I1A1A01072740
Organisme : the National Research Foundation (NRF)
ID : NRF-2019M3E5D3073104
Organisme : the Bio & Medical Technology Development Program of the National Research Foundation (NRF) funded by the Korean government (MSIT)
ID : NRF-2022M3A9F3016364
Organisme : the Korea Health Technology R&D Project through the Korea Health Industry Development Institute (KHIDI), funded by the Ministry of Health & Welfare, Republic of Korea
ID : HI22C0353
Informations de copyright
© 2024. The Author(s).
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