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Molecular characterization and prevalence of two capulaviruses: Alfalfa leaf curl virus from France and Euphorbia caput-medusae latent virus from South Africa

Pauline Bernardo 1, 2 Brejnev Muhire 3 Sarah François 4, 1, 5, 6, 7, 8, 9 Maelle Deshoux 1 Penelope Hartnady 3 Kata Farkas 10 Simona Kraberger 10 Denis Filloux 1, 2 Emmanuel Fernandez 1, 2 Serge Galzi 1, 2 Romain Ferdinand 1, 2 Martine Granier 1, 2 Armelle Marais 11 Pablo Monge Blasco 12 Thierry Candresse 11 Fernando Escriu 13 Arvind Varsani 10, 14, 15 Gordon W. Harkins 16 Darren P. Martin 3 Philippe Roumagnac 1, 2
1 UMR BGPI - Biologie et Génétique des Interactions Plante-Parasite
2 Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement
3 Computational Biology Group, Institute of Infectious Disease and Molecular Medicine, Faculty of Health Sciences
4 DGIMI - Diversité, Génomes & Interactions Microorganismes - Insectes [Montpellier]
5 INRA - Institut National de la Recherche Agronomique
6 Montpellier SupAgro - Institut national d’études supérieures agronomiques de Montpellier
7 MIVEGEC - Maladies infectieuses et vecteurs : écologie, génétique, évolution et contrôle
8 CNRS - Centre National de la Recherche Scientifique
9 IRD - Institut de Recherche pour le Développement
10 School of Biological Sciences and Biomolecular Interaction Centre
11 BFP - Biologie du fruit et pathologie
12 Unidad de Sanidad Vegetal
13 Unidad de Sanidad Vegetal
14 Department of Plant Pathology and Emerging Pathogens Institute
15 Structural Biology Research Unit, Department of Clinical Laboratory Sciences
16 South African National Bioinformatics Institute, MRC Unit for Bioinformatics Capacity Development
Abstract : Little is known about the prevalence, diversity, evolutionary processes, genomic structures and population dynamics of viruses in the divergent geminivirus lineage known as the capulaviruses. We determined and analyzed full genome sequences of 13 Euphorbia caput-medusae latent virus (EcmLV) and 26 Alfalfa leaf curl virus (ALCV) isolates, and partial genome sequences of 23 EcmLV and 37 ALCV isolates. While EcmLV was asymptomatic in uncultivated southern African Euphorbia caput-medusae, severe alfalfa disease symptoms were associated with ALCV in southern France. The prevalence of both viruses exceeded 10% in their respective hosts. Besides using patterns of detectable negative selection to identify ORFs that are probably functionally expressed, we show that ALCV and EcmLV both display evidence of inter-species recombination and biologically functional genomic secondary structures. Finally, we show that whereas the EcmLV populations likely experience restricted geographical dispersion, ALCV is probably freely moving across the French Mediterranean region.
Keywords : alfalfa leaf curl virus euphorbia caput-medusae latent virus prevalence geminiviridae recombination secondary structure genome organization France Spain South Africa
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https://hal.archives-ouvertes.fr/hal-01837296
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Submitted on : Thursday, July 12, 2018 - 8:04:31 PM
Last modification on : Monday, May 10, 2021 - 2:58:03 PM

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CNRS | INRA | AGROPOLIS | CIRAD | BA | UNIV-MONTPELLIER | DGIMI | B3ESTE | MONTPELLIER-SUPAGRO | INRAE

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Pauline Bernardo, Brejnev Muhire, Sarah François, Maelle Deshoux, Penelope Hartnady, et al.. Molecular characterization and prevalence of two capulaviruses: Alfalfa leaf curl virus from France and Euphorbia caput-medusae latent virus from South Africa. Virology, Elsevier, 2016, 493, pp.142-153. ⟨10.1016/j.virol.2016.03.016⟩. ⟨hal-01837296⟩

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