Journal article
Bacterial, Archaea, and Viral Transcripts (BAVT) Expression in Gynecological Cancers and Correlation with Regulatory Regions of the Genome
Cancers, Vol.13(5), pp.1-18
03/01/2021
DOI: 10.3390/cancers13051109
PMCID: PMC7961894
PMID: 33807612
Abstract
Simple Summary
Microorganisms are found in all human tissues. Some of them are responsible for cancer formation. In our study we found gene expression from bacteria, archaea, and viruses in the upper female genital tract and this expression was associated with ovarian and endometrial cancer. We also found that the expression from these organisms may be involved in regulatory mechanisms of infection and cancer formation. Some of the processes associated with these organisms may affect cancer heterogeneity and be potential targets for cancer therapy.
Bacteria, archaea, and viruses are associated with numerous human cancers. To date, microbiome variations in transcription have not been evaluated relative to upper female genital tract cancer risk. Our aim was to assess differences in bacterial, archaea, and viral transcript (BAVT) expression between different gynecological cancers and normal fallopian tubes. In this case-control study we performed RNA sequencing on 12 normal tubes, 112 serous ovarian cancers (HGSC) and 62 endometrioid endometrial cancers (EEC). We used the centrifuge algorithm to classify resultant transcripts into four indexes: bacterial, archaea, viral, and human genomes. We then compared BAVT expression from normal samples, HGSC and EEC. T-test was used for univariate comparisons (correcting for multiple comparison) and lasso for multivariate modelling. For validation we performed DNA sequencing of normal tubes in comparison to HGSC and EEC BAVTs in the TCGA database. Pathway analyses were carried out to evaluate the function of significant BAVTs. Our results show that BAVT expression levels vary between different gynecological cancers. Finally, we mapped some of these BAVTs to the human genome. Numerous map locations were close to regulatory genes and long non-coding RNAs based on the pathway enrichment analysis. BAVTs may affect gynecological cancer risk and may be part of potential targets for cancer therapy.
Details
- Title: Subtitle
- Bacterial, Archaea, and Viral Transcripts (BAVT) Expression in Gynecological Cancers and Correlation with Regulatory Regions of the Genome
- Creators
- Jesus Gonzalez-Bosquet - University of Iowa Hospitals and ClinicsSilvana Pedra-Nobre - University of Iowa Hospitals and ClinicsEric J. Devor - University of Iowa Hospitals and ClinicsKristina W. Thiel - University of Iowa Hospitals and ClinicsMichael J. Goodheart - University of Iowa Hospitals and ClinicsDavid P. Bender - University of Iowa Hospitals and ClinicsKimberly K. Leslie - University of Iowa Hospitals and Clinics
- Resource Type
- Journal article
- Publication Details
- Cancers, Vol.13(5), pp.1-18
- DOI
- 10.3390/cancers13051109
- PMID
- 33807612
- PMCID
- PMC7961894
- NLM abbreviation
- Cancers (Basel)
- ISSN
- 2072-6694
- eISSN
- 2072-6694
- Publisher
- Mdpi
- Number of pages
- 18
- Grant note
- American Association of Obstetricians and Gynecologists Foundation (AAOGF) Bridge Funding Award R01 CA99908; R01 CA184101 / NIH; United States Department of Health & Human Services; National Institutes of Health (NIH) - USA Department of Obstetrics & Gynecology at the University of Iowa
- Language
- English
- Date published
- 03/01/2021
- Academic Unit
- Obstetrics and Gynecology
- Record Identifier
- 9984318226002771
Metrics
19 Record Views