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| Status |
Public on May 30, 2007 |
| Title |
The influence of highly recurrent EBV reactivation on genetic copy number alterations |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by genome tiling array
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| Summary |
We proposed that the frequency of EBV reactivation may be crucial for its pathogenic role and highly recurrent EBV reactivations exert a profound influence on genome instability. Recurrent reactivations were induced in the EBV-latently infected NPC cells (NA cells) by treating with 12-o-tetradecanoylphorbol-13-acetate (TPA) and sodium n-butyrate (SB) once per passage periodically. Genome-wild oligoarray-based comparative genomic hybridization (CGH) technology was applied to investigate the copy-number aberrations in response for different frequencies of EBV reactivation. The results showed that the NR15 cells, NA cells with the highest frequency (15 times) of reactivation, exhibit extensive genomic copy-number alterations (CNAs) mostly involving chromosome 3p, 3q, 8p, 8q, 9p and 9q, whereas limited number of CNAs were observed both in NR1 cells where only the initial reactivation take place and NP15 cells which were culture in parallel with NR15 cells without EBV-reactivation. We concluded that it is the highly recurrent reactivations of EBV, but neither just a primary reactivation nor EBV-latent infection, may intimately involve in carcinogenesis of nasopharyngeal epithelial cells with the progressive genome instabilities and the accumulation of genetic mutations.
Keywords: array-based comparative genomic hybridization, reactivation of EBV, incidence, frequency, recurrent, genome instability, copy-number alterations, carcinogenesis, and nasopharyngeal carcinoma (NPC).
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| Overall design |
Samples of four sources were analyzed. The NP1 cells denoted the EBV-latently infected nasopharyngeal carcinoma cell lines, NA cells, with low-passage-number and mock-treated. The NR1 denoted the NA cells harboring one time of EBV reactivation. The NR15 cells denoted the NA cells harboring fifteen times of EBV reactivation. The NP15 cells denoted the NA cells cultured in parallel with NR15 (experienced 15 times of passages) without EBV-reactivation. Genomic DNAs extracted from NP15, NR1 and NR15 cells were used as experimental samples and subjected to Cy5-labeling reactions. Genomic DNAs extracted from NP1 cells were used as the common reference samples subjected to Cy3-labeling reactions. All three experiments were verified by dye-swap design where the targets labeling conditions were exchanged, NP1 labeled with Cy5, and NP15, NR1 or NR15 labeled with Cy3.
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| Contributor(s) |
Lee CH, Fang CY, Chen JY |
| Citation missing |
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| Submission date |
Dec 07, 2006 |
| Last update date |
Dec 06, 2012 |
| Contact name |
Chia Huei Lee |
| E-mail(s) |
chlee124@nhri.edu.tw
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| Organization name |
Taiwan National Health Research Institute
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| Department |
National Institute of Cancer Research
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| Street address |
35, Keyan Rd.
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| City |
Zhunan Miaoli County |
| ZIP/Postal code |
114 |
| Country |
Taiwan |
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| Platforms (1) |
| GPL2879 |
Agilent-013282 Human Genome CGH Microarray 44B (Feature number version) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA98707 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE6472_MIAME_checklist_for_array_based_CGHexperiments.pdf |
180.9 Kb |
(ftp)(http) |
PDF |
| GSE6472_RAW.tar |
165.9 Mb |
(http)(custom) |
TAR (of TIFF, TXT) |
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