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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jun 11, 2018 |
| Title |
Transcriptome Changes During the Progression of Colitis-accelerated Colon Cancer in Mouse and the Blockage by Curcumin |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Inflammation is highly associated with colon carcinogenesis. Epigenetic mechanisms play an important role in the initiation and progression of colon cancer. Curcumin is a dietary cancer preventive phytochemical with promising effect in suppressing colitis-associated colon cancer (CAC) in azoxymethane (AOM) and dextran sulfate sodium (DSS) mouse model. In the present study, we confirmed the effect of curcumin in suppressing colon cancer. Using Agilent SureSelect Methyl-seq and RNA-seq, we obtained single-base methylation profile and transcriptome analyses of epithelial cells from control group, AOM and DSS induced group (AOM+DSS), and AOM and DSS induced plus curcumin treated group (AOM+DSS+Curcumin) in a 18 weeks long-term colon cancer mouse model. We observed differentially expressed genes in pair-wise comparison and identified several pathways of small set of genes involved in the potential preventive effect of curcumin. These pathways include LPS/IL-1 mediated inhibition of RXR function, NRF2-mediated oxidative stress response, aldosterone signaling in epithelial cells, production of NO and ROS in macrophages, and IL-6 signaling. The average DNA methylation levels of the three groups are significantly different also. Based on differential methylation patterns of three groups, several pathways of genes were identified including IL-8 signaling, LPS-stimulated MAPK signaling and colorectal cancer metastasis signaling. Among these methylated pathways and genes, Tnf, an inflammatory gene stood out with decreased DNA CpG methylation in the AOM-DSS as compared to the control group and interestingly curcumin reversed the CpG methylation (validated by pyrosequencing). These observations correlated with decreased, and increased with curcumin, Tnf expression in RNA-seq (validated by qPCR), respectively. The functional role of DNA methylation of Tnf was confirmed by in vitro luciferase transcriptional activity assay. In addition, we found that a group of genes associated with the inflammatory responses and their methylation level was decreased in AOM+DSS group but restored in the curcumin treated group. Taken together, in this study, aberrant DNA CpG methylation of the inflammatory response was found in colitis-associated colon cancer and curcumin restored their CpG methlyation, which could potentially explain the inflammatory and cancer protective effects of curcumin. (Note this GEO/dataset is the RNA-seq part of the study.)
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| Overall design |
mRNA profiles of colon epithelial cells from 18 weeks old C57BL6 mice of 3 groups (1, Contro; 2, AOM and DSS induced; 3, AOM and DSS induced,and curcumin treated.
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| Contributor(s) |
Guo Y, Wu R, Gaspar JM, Sargsyan D, Su Z, Zhang C, Gao L, Li W, Wang C, Yin R, Fang M, Hart RP, Verzi MP, Kong A |
| Citation(s) |
29547900 |
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| Submission date |
Aug 07, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Renyi Wu |
| E-mail(s) |
renyiwu@gmail.com
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| Organization name |
Rutgers University
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| Department |
Pharmacy School
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| Lab |
013
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| Street address |
160 Frelinghuysen road
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| City |
Piscataway |
| State/province |
NJ |
| ZIP/Postal code |
08854 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE102648 |
Transcriptome and Methylome Changes During the Progression of Colitis-accelerated Colon Cancer in Mouse and the Blockage by Curcumin |
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| Relations |
| BioProject |
PRJNA397451 |
| SRA |
SRP114987 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE102342_RAW.tar |
2.9 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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