A complete ancient RNA genome: identification, reconstruction and evolutionary history of archaeological Barley Stripe Mosaic Virus

Article English OPEN
Smith, Oliver ; Clapham, Alan ; Rose, Pam ; Liu, Yuan ; Wang, Jun ; Allaby, Robin G. (2014)
  • Publisher: Nature Publishing Group
  • Journal: Scientific Reports, volume 4 (issn: 2045-2322, eissn: 2045-2322)
  • Related identifiers: pmc: PMC3915304, doi: 10.1038/srep04003
  • Subject: QH301 | QH426 | Article
    mesheuropmc: food and beverages

The origins of many plant diseases appear to be recent and associated with the rise of domestication, the spread of agriculture or recent global movements of crops. Distinguishing between these possibilities is problematic because of the difficulty of determining rates of molecular evolution over short time frames. Heterochronous approaches using recent and historical samples show that plant viruses exhibit highly variable and often rapid rates of molecular evolution. The accuracy of estimated evolution rates and age of origin can be greatly improved with the inclusion of older molecular data from archaeological material. Here we present the first reconstruction of an archaeological RNA genome, which is of Barley Stripe Mosaic Virus (BSMV) isolated from barley grain ~750 years of age. Phylogenetic analysis of BSMV that includes this genome indicates the divergence of BSMV and its closest relative prior to this time, most likely around 2000 years ago. However, exclusion of the archaeological data results in an apparently much more recent origin of the virus that postdates even the archaeological sample. We conclude that this viral lineage originated in the Near East or North Africa, and spread to North America and East Asia with their hosts along historical trade routes.
  • References (58)
    58 references, page 1 of 6

    1. Wolfe, N. D., Dunavan, C. P. & Diamond, J. Origins of major human infectious diseases. Nature 447, 279-283 (2007).

    2. Jones, R. A. C. Plant virus emergence and evolution: Origins, new encounter scenarios, factors driving emergence, effects of changing world conditions, and prospects for control. Virus Res. 141,113-130 (2009).

    3. Stukenbrock, E. H. & McDonald, B. A. The origins of plant pathogens in agroecosystems. Ann. Rev. Phytopath. 46, 75-100 (2008).

    4. Gibbs, A. J., Fargette, D., Garcia-Arenal, F. & Gibbs, M. J. Time - the emerging dimension of plant virus studies. J. Gen. Virol. 91, 13-22 (2010).

    5. Fargette, D. et al. Diversification of rice yellow mottle virus and related viruses spans the history of agriculture from the Neolithic to the present. PLoS Pathog. 4, e1000125 (2008).

    6. Gibbs, A. J., Ohshima, K., Phillips, M. J. & Gibbs, M. J. The Prehistory of Potyviruses: their initial radiation was during the dawn of agriculture. Plos One 3, e2523 (2008).

    7. Stukenbrock, E. H., Banke, S. R., Javan-Nikkhah, M. & McDonald, B. A. Origin and domestication of the fungal wheat pathogen Mycosphaerella graminicola via sympatric speciation. Mol. Biol. Evol. 24, 398-411 (2007).

    8. Couch, B. C. et al. Origins of host-specific populations of the blast pathogen Magnaporthe oryzae in crop domestication with subsequent expansion of pandemic clones on rice and weeds of rice. Genetics 170, 613-630 (2005).

    9. Munkacsi, A. B., Stoxen, S. & May, G. Domestication of maize, sorghum, and sugarcane did not drive the divergence of their smut pathogens. Evolution 61, 388-403 (2007).

    10. Nguyen, H. D. et al. Turnip mosaic potyvirus probably first spread to Eurasian Brassica crops from wild orchids about 1000 years ago. Plos One 8, e55336; DOI: 10.1371/journal.pone.0055336 (2013).

  • Related Research Results (4)
  • Metrics
    No metrics available
Share - Bookmark