Dataset Information

Complete Genome Sequences of Two Isolates of Canis familiaris Oral Papillomavirus from South Africa.

ABSTRACT: Canis familiaris oral papillomavirus, formerly canine oral papillomavirus, is a causative agent of the self-resolving canine oral papillomatosis and was first described in 1994. This is the first report of two full-length genome sequences described in South Africa and indicates the highly conserved nature of Canis familiaris oral papillomavirus.

SUBMITTER: Regnard GL

PROVIDER: S-EPMC5146429 | biostudies-literature | 2016 Dec

REPOSITORIES: biostudies-literature

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Complete Genome Sequences of Two Isolates of Canis familiaris Oral Papillomavirus from South Africa.

Regnard Guy L GL Baloyi Nwaxigombe M NM Bracher Leonard R LR Hitzeroth Inga I II Rybicki Edward P EP

Genome announcements 20161208 6

Canis familiaris oral papillomavirus, formerly canine oral papillomavirus, is a causative agent of the self-resolving canine oral papillomatosis and was first described in 1994. This is the first report of two full-length genome sequences described in South Africa and indicates the highly conserved nature of Canis familiaris oral papillomavirus. ...[more]

PMID: 27932637

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Project description:Comparative oncology is a developing research discipline that is being used to assist our understanding of human neoplastic diseases. Companion canines are a preferred animal oncology model due to spontaneous tumor development and similarity to human disease at the pathophysiological level. We use a paired RNA sequencing (RNA-Seq)/microarray analysis of a set of four normal canine lymph nodes and ten canine lymphoma fine needle aspirates to identify technical biases and variation between the technologies and convergence on biological disease pathways. Surrogate Variable Analysis (SVA) provides a formal multivariate analysis of the combined RNA-Seq/microarray data set. Applying SVA to the data allows us to decompose variation into contributions associated with transcript abundance, differences between the technology, and latent variation within each technology. A substantial and highly statistically significant component of the variation reflects transcript abundance, and RNA-Seq proved more sensitive for detection of transcripts expressed at low levels. Latent random variation among RNA-Seq samples is also distinct in character from that impacting microarray samples. In particular, we observed variation between RNA-Seq samples that reflects transcript GC content. Platform-independent variable decomposition without a priori knowledge of the sources of variation using SVA represents a generalizable method for accomplishing cross-platform data analysis. We identified genes differentially expressed between normal lymph nodes of disease free dogs and a subset of the diseased dogs diagnosed with B-cell lymphoma using each technology. There is statistically significant overlap between the RNA-Seq and microarray sets of differentially expressed genes. Analysis of overlapping genes in the context of biological systems suggests elevated expression and activity of PI3K signaling in B-cell lymphoma biopsies compared with normal biopsies, consistent with literature describing successful use of drugs targeting this pathway in lymphomas.

Dataset Information

Complete Genome Sequences of Two Isolates of Canis familiaris Oral Papillomavirus from South Africa.

Publications

Complete Genome Sequences of Two Isolates of Canis familiaris Oral Papillomavirus from South Africa.

Similar Datasets

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