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| Status |
Public on Aug 06, 2019 |
| Title |
Human Papillomavirus (HPV) genomic integration, expression and E6/E7 splicing patterns in cervical cancer associated with HPV16 or HPV18 infection |
| Organisms |
Homo sapiens; Human papillomavirus 16; human papillomavirus 18 |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Human papillomavirus (HPV) genome integration into the host genome, blocking E2 expression and leading to overexpression of E6 and E7 viral oncogenes, is considered a major step in cervical cancer development. In high-risk HPVs, E6 and E7 oncogenes are expressed as a bicistronic pre-mRNA, with alternative splicing producing the ultimate mRNAs required for E6 and E7 translation. Given the number of alternative donor and acceptor splicing sites, ten E6/E7 different alternative transcripts might be formed for HPV16 and three for HPV18, although only six isoforms have been previously reported for HPV16. In the present work, we employ high-throughput sequencing of invasive cervical cancer transcriptome (RNA-Seq) to characterize the expression of the HPV genome in 24 invasive cervical cancers associated with HPV16 and HPV18 single infections. Based on high-resolution transcriptional maps, we herein report three viral gene expression patterns which might be associated with the presence of the viral genome in episomal and/or integrated stages. Alternative mRNAs splicing isoforms coding for E6 and E7 oncoproteins were characterized and quantified, and two novel isoforms were identified. Three major isoforms (E6*I, E6*II, and E6+E7) were detected for HPV16 and two for HPV18 (E6*I and E6+E7). Minor transcript isoforms, including the novel ones, were very rare in some tumor samples or were not detected. Our data suggested that minor transcript isoforms of E6/E7 do not play a relevant role in cervical cancer.
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| Overall design |
RNA-Seq analysis of 24 uterine cervix tumors and CaSki cell line.
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| Contributor(s) |
Brant AC, Moreira MM |
| Citation(s) |
30552977, 34298727 |
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| Submission date |
Dec 08, 2016 |
| Last update date |
Jul 28, 2021 |
| Contact name |
Ayslan Castro Brant |
| E-mail(s) |
ayslanbrant@gmail.com
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| Phone |
+55 21 3207-6561
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| Organization name |
National Institute of Cancer
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| Department |
Genetics
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| Lab |
Genetics
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| Street address |
Andre Cavalvanti 37
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| City |
Rio de Janeiro |
| State/province |
Rio de Janeiro |
| ZIP/Postal code |
20231-050 |
| Country |
Brazil |
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| Platforms (2) |
| GPL22767 |
Illumina HiSeq 2500 (Homo sapiens; Human papillomavirus type 16) |
| GPL22768 |
Illumina HiSeq 2500 (Homo sapiens; Human papillomavirus type 18) |
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| Samples (25)
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| Relations |
| BioProject |
PRJNA356774 |
| SRA |
SRP094795 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE91065_RAW.tar |
780.0 Kb |
(http)(custom) |
TAR (of FASTA, TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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