Open Access Research article

Recombination hotspots and host susceptibility modulate the adaptive value of recombination during maize streak virus evolution

Adérito L Monjane1, Eric van der Walt2, Arvind Varsani345, Edward P Rybicki16 and Darren P Martin67*

Author Affiliations

1 Department of Molecular and Cell Biology, University of Cape Town, Rondebosch, 7701, Cape Town, South Africa

2 Kapa Biosystems, P.O. Box 12961, Mowbray, 7705, South Africa

3 Biomolecular Interaction Centre, University of Canterbury, Private Bag 4800, Christchurch, 8140, New Zealand

4 School of Biological Sciences, University of Canterbury, Private Bag 4800, Christchurch, 8140, New Zealand

5 Electron Microscope Unit, University of Cape Town, Rondebosch, 7701, Cape Town, South Africa

6 Computational Biology Group, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, Observatory, 7925, Cape Town, South Africa

7 Centre for High-Performance Computing, Rosebank, Cape Town, South Africa

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BMC Evolutionary Biology 2011, 11:350  doi:10.1186/1471-2148-11-350

Published: 2 December 2011

Additional files

Additional file 1:

Genome organization of wild-type and chimaeric MSV genomes used in this study. The curved arrows indicate open reading frames (ORFs) diverging from the long intergenic region (LIR) and eventually converging on the short intergenic region (SIR). The intergenic regions, the ORFs in the complementary-sense - which encode the replication-associated protein (Rep) and the replication-associated protein (RepA) - and the ORFs in the virion-sense - which encode the movement protein (MP) and the coat protein (CP) - are colored red (in the case of MSV-VW) or blue (in the case of MSV-MatA). This color-code is also used to delineate the genomic portions of MSV-MatA and MSV-VW used to construct the pair of reciprocal chimaeric MSV genomes used to conduct recombination experiments.

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Additional file 2:

Alignment of wild-type and recombinant MSV genomes. Full genome sequence alignment of MSV viruses aligned from the start codon of the movement protein gene. The wild-type viruses MSV-MatA and MSV-VW, as well as the chimaeric parental viruses and recombinants used in two different recombination experiments are included. The file is in FASTA format and should be viewed using a sequence analysis program such as Mega5.

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Additional file 3:

Pair-wise distance of recombinant viruses from MSV-MatA. Distribution of recombinant viruses using percentage pair-wise distance and statistical analysis (Mann-Whitney U test, two-tailed p value) of the approximation of each group of viruses to MSV-MatA. Recombinant viruses were obtained using different pairs of parental chimaeric MSV genomes, inoculated into differentially-resistant maize genotypes.

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