Dataset Information

The pepper virome: natural co-infection of diverse viruses and their quasispecies.

ABSTRACT:

Background

The co-infection of diverse viruses in a host plant is common; however, little is known about viral populations and their quasispecies in the host.

Results

Here, we report the first pepper viromes that were co-infected by different types of viral genomes. The pepper viromes are dominated by geminivirus DNA-A followed by a novel carlavirus referred to as Pepper virus A. The two pepper cultivars share similar viral populations and replications. However, the quasispecies for double-stranded RNA virus and two satellite DNAs were heterogeneous and homogenous in susceptible and resistant cultivars, respectively, indicating the quasispecies of an individual virus depends on the host.

Conclusions

Taken together, we provide the first evidence that the host plant resistant to viruses has an unrevealed antiviral system, affecting viral quasispecies, not replication.

SUBMITTER: Jo Y

PROVIDER: S-EPMC5465472 | biostudies-literature | 2017 Jun

REPOSITORIES: biostudies-literature

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Publications

The pepper virome: natural co-infection of diverse viruses and their quasispecies.

Jo Yeonhwa Y Choi Hoseong H Kim Sang-Min SM Kim Sun-Lim SL Lee Bong Choon BC Cho Won Kyong WK

BMC genomics 20170608 1

<h4>Background</h4>The co-infection of diverse viruses in a host plant is common; however, little is known about viral populations and their quasispecies in the host.<h4>Results</h4>Here, we report the first pepper viromes that were co-infected by different types of viral genomes. The pepper viromes are dominated by geminivirus DNA-A followed by a novel carlavirus referred to as Pepper virus A. The two pepper cultivars share similar viral populations and replications. However, the quasispecies f ...[more]

PMID: 28595635

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Project description:Empirical observations and theoretical studies suggest that viruses may use different replication strategies to amplify their genomes, which impact the dynamics of mutation accumulation in viral populations and therefore, their fitness and virulence. Similarly, during natural infections, viruses replicate and infect cells that are rarely in suspension but spatially organized. Surprisingly, most quasispecies models of virus replication have ignored these two phenomena. In order to study these two viral characteristics, we have developed stochastic cellular automata models that simulate two different modes of replication (geometric vs stamping machine) for quasispecies replicating and spreading on a two-dimensional space. Furthermore, we explored these two replication models considering epistatic fitness landscapes (antagonistic vs synergistic) and different scenarios for cell-to-cell spread, one with free superinfection and another with superinfection inhibition. We found that the master sequences for populations replicating geometrically and with antagonistic fitness effects vanished at low critical mutation rates. By contrast, the highest critical mutation rate was observed for populations replicating geometrically but with a synergistic fitness landscape. Our simulations also showed that for stamping machine replication and antagonistic epistasis, a combination that appears to be common among plant viruses, populations further increased their robustness by inhibiting superinfection. We have also shown that the mode of replication strongly influenced the linkage between viral loci, which rapidly reached linkage equilibrium at increasing mutations for geometric replication. We also found that the strategy that minimized the time required to spread over the whole space was the stamping machine with antagonistic epistasis among mutations. Finally, our simulations revealed that the multiplicity of infection fluctuated but generically increased along time.

Dataset Information

The pepper virome: natural co-infection of diverse viruses and their quasispecies.

Background

Results

Conclusions

Publications

The pepper virome: natural co-infection of diverse viruses and their quasispecies.

Similar Datasets

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