 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Nov 02, 2022 |
| Title |
Epigenome analysis of human gastroesophageal junction (GEJ) organoids TP53/CDKN2A KO |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by genome tiling array
|
| Summary |
Inactivation of the tumor suppressor genes TP53 and CDKN2A occurs early during GEJ tumorigenesis. However, due to a paucity of GEJ-specific disease models, cancer-promoting consequences of TP53 and CDKN2A inactivation at the GEJ have been incompletely characterized. Here we report the development of the first wild-type primary human GEJ organoid model, as well as a CRISPR-edited transformed GEJ organoid model. CRISPR/Cas9 engineering to inactivate TP53 and CDKN2A (TP53/CDKN2A KO) in GEJ organoids induced morphologic dysplasia as well as pro-neoplastic features in vitro and tumor formation in vivo. Notably, lipidomic profiling identified several Platelet-Activating Factors (PTAFs) among the most upregulated lipids in CRISPR-edited organoids; and importantly, PT AF/PT AFR abrogation by siRNA knockdown or a pharmacologic inhibitor (WEB2086) significantly blocked proliferation and other pro-neoplastic features of TP53/CDKN2A KO GEJ organoids in vitro and tumor formation in vivo. In addition, murine xenografts derived from Eso26, an established esophageal adenocarcinoma (EAC) cell line, were suppressed by WEB2086. Mechanistically, TP53/CDKN2A dual inactivation disrupted both the transcriptome and the DNA methylome, likely mediated by key transcription factors, particularly Forkhead Box M1 (FOXM1). Importantly, FOXM1 activated PTAFR transcription by binding to the PTAFR promoter, further amplifying the PTAF-PTAFR pathway. In summary, we established a robust model system for investigating early GEJ neoplastic events, identified crucial metabolic and epigenomic changes occurring during GEJ model tumorigenesis, and discovered a potential cancer-therapeutic strategy, while providing insights into pro-neoplastic mechanisms associated with TP53/CDKN2A inactivation in early GEJ neoplasia.
|
| |
|
| Overall design |
Examination of DNA methylation in human gastroesophageal junction organoids with or without knockout of TP53/CDKN2A
|
| |
|
| Contributor(s) |
Zhao H, Zheng Y, Meltzer SJ, Lin D |
| Citation(s) |
36449602 |
| |
| Submission date |
Oct 28, 2022 |
| Last update date |
Feb 02, 2023 |
| Contact name |
Yueyuan Zheng |
| E-mail(s) |
zhengyueyuan2@gmail.com
|
| Organization name |
The Seventh Affiliated Hospital of Sun Yat-sen University
|
| Street address |
Zhenyuan Road, 628
|
| City |
Shenzhen |
| State/province |
China |
| ZIP/Postal code |
518107 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL23976 |
Illumina Infinium HumanMethylation850 BeadChip |
|
| Samples (18)
|
|
| Relations |
| BioProject |
PRJNA895445 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE216814_RAW.tar |
255.4 Mb |
(http)(custom) |
TAR (of IDAT) |
| GSE216814_unmethylated_methylated.txt.gz |
195.5 Mb |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
|
|
|
|
 |
Less...
More...