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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
biochemistry, genetics and molecular biology
Complex recombination patterns arising during geminivirus coinfections preserve and demarcate biologically important intra-genome interaction networks
PLoS Pathogens, Volume 7, No. 9, Article e1002203, Year 2011
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Description
Genetic recombination is an important process during the evolution of many virus species and occurs particularly frequently amongst begomoviruses in the single stranded DNA virus family, Geminiviridae. As in many other recombining viruses it is apparent that non-random recombination breakpoint distributions observable within begomovirus genomes sampled from nature are the product of variations both in basal recombination rates across genomes and in the over-all viability of different recombinant genomes. Whereas factors influencing basal recombination rates might include local degrees of sequence similarity between recombining genomes, nucleic acid secondary structures and genomic sensitivity to nuclease attack or breakage, the viability of recombinant genomes could be influenced by the degree to which their co-evolved protein-protein and protein-nucleotide and nucleotide-nucleotide interactions are disreputable by recombination. Here we investigate patterns of recombination that occur over 120 day long experimental infections of tomato plants with the begomoviruses Tomato yellow leaf curl virus and Tomato leaf curl Comoros virus. We show that patterns of sequence exchange between these viruses can be extraordinarily complex and present clear evidence that factors such as local degrees of sequence similarity but not genomic secondary structure strongly influence where recombination breakpoints occur. It is also apparent from our experiment that over-all patterns of recombination are strongly influenced by selection against individual recombinants displaying disrupted intra-genomic interactions such as those required for proper protein and nucleic acid folding. Crucially, we find that selection favoring the preservation of co-evolved longer-range protein-protein and protein DNA interactions is so strong that its imprint can even be used to identify the exact sequence tracts involved in these interactions. © 2011 Martin et al.
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC3174254/bin/ppat.1002203.s001.tif
https://efashare.b-cdn.net/share/pmc/articles/PMC3174254/bin/ppat.1002203.s002.tif
https://efashare.b-cdn.net/share/pmc/articles/PMC3174254/bin/ppat.1002203.s003.doc
https://efashare.b-cdn.net/share/pmc/articles/PMC3174254/bin/ppat.1002203.s004.doc
https://efashare.b-cdn.net/share/pmc/articles/PMC3174254/bin/ppat.1002203.s005.doc
Authors & Co-Authors
Martin, Darren Patrick
South Africa, Cape Town
University of Cape Town
Lefeuvre, Pierre F.
South Africa, Cape Town
University of Cape Town
France, Saint-denis
Université de la Réunion
Varsani, Arvind
New Zealand, Christchurch
University of Canterbury
South Africa, Cape Town
University of Cape Town
Hoareau, Murielle
France, Saint-denis
Université de la Réunion
Semegni, J. Y.
South Africa, Cape Town
University of Cape Town
Dijoux, Betty
France, Saint-denis
Université de la Réunion
Vincent, Claire
France, Saint-denis
Université de la Réunion
Reynaud, Bernard
France, Saint-denis
Université de la Réunion
Lett, Jean Michel
France, Saint-denis
Université de la Réunion
Statistics
Citations: 75
Authors: 9
Affiliations: 3
Identifiers
Doi:
10.1371/journal.ppat.1002203
ISSN:
15537366
e-ISSN:
15537374
Research Areas
Genetics And Genomics
Study Approach
Quantitative
Study Locations
Comoros