Transcription from a gene desert in a melanoma porcine model.
S MartheyJ EstelléA BlinP WahlbergF CréchetJ LecardonnelF TessiotC Rogel-GaillardEmmanuelle BourneufPublished in: Molecular genetics and genomics : MGG (2020)
The genetic mechanisms underlying cutaneous melanoma onset and progression need to be further understood to improve patients' care. Several studies have focused on the genetic determinism of melanoma development in the MeLiM pig, a biomedical model of cutaneous melanoma. The objective of this study was to better describe the influence of a particular genomic region on melanoma progression in the MeliM model. Indeed, a large region of the Sus scrofa chromosome 1 has been identified by linkage and association analyses, but the causal mechanisms have remained elusive. To deepen the analysis of this candidate region, a dedicated SNP panel was used to fine map the locus, downsizing the interval to less than 2 Mb, in a genomic region located within a large gene desert. Transcription from this locus was addressed using a tiling array strategy and further validated by RT-PCR in a large panel of tissues. Overall, the gene desert showed an extensive transcriptional landscape, notably dominated by repeated element transcription in tumor and fetal tissues. The transcription of LINE-1 and PERVs has been confirmed in skin and tumor samples from MeLiM pigs. In conclusion, although this study still does not identify a candidate mutation for melanoma occurrence or progression, it highlights a potential role of repeated element transcriptional activity in the MeLiM model.
Keyphrases
- copy number
- genome wide
- transcription factor
- skin cancer
- gene expression
- healthcare
- end stage renal disease
- basal cell carcinoma
- dna methylation
- genome wide identification
- newly diagnosed
- risk assessment
- chronic kidney disease
- ejection fraction
- high throughput
- prognostic factors
- mass spectrometry
- human immunodeficiency virus
- single cell
- oxidative stress
- heat shock protein
- health insurance
- heat stress
- heat shock
- hiv infected
- case control
- antiretroviral therapy