Recombination analysis of Soybean mosaic virus full-length genome sequences reveals evidence of RNA recombination between distinct pathotypes.
Gagarinova, A.G., Babu, M.R., Strömvik, M.V., and Wang, A.M. (2008). "Recombination analysis of Soybean mosaic virus full-length genome sequences reveals evidence of RNA recombination between distinct pathotypes.", Virology Journal, 5:143. doi : 10.1186/1743-422X-5-143
RNA recombination is one of the two major factors that create RNA genome variability. Assessing its incidence in plant RNA viruses helps understand the formation of new isolates and evaluate the effectiveness of crop protection strategies. To search for recombination in Soybean mosaic virus (SMV), the causal agent of a worldwide seed-borne, aphid-transmitted viral soybean disease, we obtained all fulllength genome sequences of SMV as well as partial sequences encoding the Nterminal most (P1 protease) and the C-terminal most (capsid protein; CP) viral protein. The sequences were analyzed for possible recombination events using a variety of automatic and manual recombination detection and verification approaches. Automatic scanning identified 3, 10, and 17 recombination sites in the P1, CP, and full-length sequences, respectively. Manual analyses confirmed 10 recombination sites in three full-length SMV sequences. To our knowledge, this is the first report of recombination between distinct SMV pathotypes. These data imply that different SMV pathotypes can simultaneously infect a host cell and exchange genetic materials through recombination. The high incidence of SMV recombination suggests that recombination plays an important role in SMV evolution. Obtaining additional fulllength sequences will help elucidate this role.