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New strains of chickpea chlorotic dwarf virus discovered on diseased papaya and tomato plants in Burkina Faso

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This is the first description of full genome sequences of chickpea chlorotic dwarf virus (CpCDV; genus Mastrevirus; family Geminiviridae) identified in papaya and tomato plants sampled in Burkina Faso. The CpCDV full genome sequences from papaya and tomato share the highest pairwise sequence identity (84% and 93.5%) with Sudanese isolates of the CpCDV-K and CpCDV-M strains, respectively. Based on the strain demarcation threshold (>94% identity) for mastreviruses, we propose two new strains, CpCDV-Q and CpCDV-R, identified in papaya and tomato, respectively. Phylogenetic analysis confirmed that the sequences belong to a distinct clade of the highly diverse population of CpCDVs. Evidence of inter-strain recombination provided more support for the important role of recombination in CpCDV evolution. The discovery of CpCDV on papaya, a previously unsuspected host, raises many questions about the natural and potential host range of this dicot-infecting mastrevirus species that is reported to be emerging worldwide.

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Correspondence to Fidèle Tiendrébéogo or Jean-Michel Lett.

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This study was funded by the European Union (FEDER), the Région Réunion and CIRAD (Action incitative renforcement des compétences des chercheurs du Sud). AO is a recipient of a PhD fellowship from CIRAD (2015-2017).

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The authors declare that they have no conflict of interest.

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No studies involving human participants or animals performed by any of the authors are described in this article.

Electronic supplementary material

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Supplementary Figure 1. Annotated genome sequences of CpCDV isolates from Burkina Faso. (DOCX 23 kb)


Supplementary Table 1. Name, acronyms and GenBank/EMBL/DDBJ accession numbers of the mastreviruses used in this study. (XLS 41 kb)


Supplementary Table 2. Matrix of pairwise nucleotide similarities inferred from alignments of complete genome sequences of two new strains of chickpea chlorotic dwarf virus from tomato and papaya from Burkina Faso (CpCDV-Q and CpCDV-R, respectively) and one or two isolates of each of the 16 strains of CpCDV (CpCDV-A to CpCDV-P), as well as the six other species of dicot-infecting mastreviruses. For mastrevirus acronyms, see Supplementary Table 1. (XLSX 15 kb)

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Ouattara, A., Tiendrébéogo, F., Lefeuvre, P. et al. New strains of chickpea chlorotic dwarf virus discovered on diseased papaya and tomato plants in Burkina Faso. Arch Virol 162, 1791–1794 (2017).

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