Complex recombination patterns arising during geminivirus coinfections preserve and demarcate biologically important intra-genome interaction networks

Martin Darren Patrick, Lefeuvre Pierre, Varsani Arvind, Hoareau Murielle, Semegni Jean-Yves, Dijoux Betty, Vincent Claire, Reynaud Bernard, Lett Jean-Michel. 2011. Complex recombination patterns arising during geminivirus coinfections preserve and demarcate biologically important intra-genome interaction networks. PLoS Pathogens, 7 (9):e1002203, 14 p.

Quartile : Outlier, Sujet : PARASITOLOGY / Quartile : Outlier, Sujet : VIROLOGY / Quartile : Outlier, Sujet : MICROBIOLOGY

Résumé : 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 proteinprotein and protein DNA interactions is so strong that its imprint can even be used to identify the exact sequence tracts involved in these interactions.

Mots-clés Agrovoc : Geminiviridae, Solanum lycopersicum, géminivirus enroulement jaune tomat, begomovirus

Mots-clés complémentaires : Tomato yellow leaf curl virus

Classification Agris : H20 - Maladies des plantes

Champ stratégique Cirad : Axe 1 (2005-2013) - Intensification écologique

Auteurs et affiliations

• Martin Darren Patrick, Institute of Infectious Diseases and Molecular Medicine (ZAF)
• Lefeuvre Pierre, CIRAD-BIOS-UMR PVBMT (REU)
• Varsani Arvind, University of Canterbury (NZL)
• Hoareau Murielle, CIRAD-BIOS-UMR PVBMT (REU)
• Semegni Jean-Yves, Institute of Infectious Diseases and Molecular Medicine (ZAF)
• Dijoux Betty
• Vincent Claire
• Reynaud Bernard, CIRAD-BIOS-UMR PVBMT (REU)
• Lett Jean-Michel, CIRAD-BIOS-UMR PVBMT (REU)

Source : Cirad - Agritrop (https://agritrop.cirad.fr/562138/)

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