Comparative analysis of common regions found in babuviruses and alphasatellite molecules
- 264 Downloads
Viruses in the genus Babuvirus have multi-component ssDNA genomes and often associate with alphasatellite molecules containing two common motifs, a common-region stem-loop (CR-SL) involved in initiation of rolling-circle replication and a common-region major (CR-M) motif involved in secondary-strand synthesis. We compared known babuvirus genome components and alphasatellite CR-SL and CR-M sequences, defining five divergent CR-SL sequence classes. We identified iterated sequence elements in babuvirus genome components that have particularly conserved sequences and spatial arrangements between known babuviruses.
KeywordsGenome Component Faba Bean Necrotic Yellow Virus Subterranean Clover Stunt Virus Milk Vetch Dwarf Virus Coconut Foliar Decay
This work was supported by the Marsden Fund Council from Government funding, administered by the Royal Society of New Zealand (Grant UOC0903 to AV).
Compliance with ethical standards
There are no conflicts of interest; the research did not involve human participants or animals. The data used for these analyses are publicly available in GenBank.
- 16.Muhire BM, Golden M, Murrell B, Lefeuvre P, Lett JM, Gray A, Poon AY, Ngandu NK, Semegni Y, Tanov EP, Monjane AL, Harkins GW, Varsani A, Shepherd DN, Martin DP (2014) Evidence of pervasive biologically functional secondary structures within the genomes of eukaryotic single-stranded DNA viruses. J Virol 88:1972–1989CrossRefPubMedPubMedCentralGoogle Scholar
- 21.Stainton D, Martin DP, Muhire BM, Lolohea S, Halafihi M, Lepoint P, Blomme G, Crew KS, Sharman M, Kraberger S, Dayaram A, Walters M, Collings DA, Lemey P, Harkins GW, Batsirai M, Thomas JE, Varsani A (2015) The global distribution of Banana bunchy top virus reveals little evidence for frequent recent, human-mediated long distance dispersal events. Virus Evol 1:vev009Google Scholar
- 23.Vetten HJ, Dale JL, Grigoras I, Gronenborn B, Harding R, Randles JW, Sano Y, Thomas JE, Timchenko T, Yeh HH (2012) Nanoviridae. In: King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ (eds) Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruse. Elsevier, Academic Press, Amsterdam, pp 395–404Google Scholar