Characterisation of retroviruses in the horse genome and their transcriptional activity via transcriptome sequencing

Brown, Katherine; Moreton, Joanna; Malla, Sunir; Aboobaker, A. Aziz; Emes, Richard D.; Tarlinton, Rachael E.

Abstract

The recently released draft horse genome is incompletely characterised in terms of its repetitive
element profile. This paper presents characterisation of the endogenous retrovirus (ERVs) of the horse
genome based on a data-mining strategy using murine leukaemia virus proteins as queries. 978 ERV
gene sequences were identified. Sequences were identified from the gamma, epsilon and betaretrovirus
genera. At least one full length gammaretroviral locus was identified, though the gammaretroviral
sequences are very degenerate. Using these data the RNA expression of these ERVs were derived from
RNA transcriptome data from a variety of equine tissues. Unlike the well studied human and murine
ERVs there do not appear to be particular phylogenetic groups of equine ERVs that are more
transcriptionally active. Using this novel approach provided a more technically feasible method to
characterise ERV expression than previous studies.

Citation

Brown, K., Moreton, J., Malla, S., Aboobaker, A. A., Emes, R. D., & Tarlinton, R. E. (2012). Characterisation of retroviruses in the horse genome and their transcriptional activity via transcriptome sequencing. Virology, 433(1), https://doi.org/10.1016/j.virol.2012.07.010

• Journal Article Type: Article
• Publication Date: Jan 1, 2012
• Deposit Date: Jul 21, 2015
• Publicly Available Date: Jul 21, 2015
• Journal: Virology
• Print ISSN: 0042-6822
• Electronic ISSN: 0042-6822
• Publisher: Elsevier
• Peer Reviewed: Peer Reviewed
• Volume: 433
• Issue: 1
• DOI: https://doi.org/10.1016/j.virol.2012.07.010
• Public URL: https://nottingham-repository.worktribe.com/output/1008347
• Publisher URL: http://www.sciencedirect.com/science/article/pii/S0042682212003595