Yam asymptomatic virus 1, a novel virus infecting yams ( Dioscorea spp.) with significant prevalence in a germplasm coll
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Yam asymptomatic virus 1, a novel virus infecting yams (Dioscorea spp.) with significant prevalence in a germplasm collection Armelle Marais1 · Marie Umber2 · Denis Filloux3,4 · Rose‑Marie Gomez2 · Chantal Faure1 · Claudie Pavis2 · Charlotte Julian3,4 · Philippe Roumagnac3,4 · Isabelle Acina‑Mambole5,6 · Lydiane Bonheur2 · Sébastien Theil1,7 · Sandy Contreras1 · Thierry Candresse1 · Pierre‑Yves Teycheney5,6 Received: 7 May 2020 / Accepted: 26 July 2020 © Springer-Verlag GmbH Austria, part of Springer Nature 2020
Abstract A novel virus infecting yams (Dioscorea spp.), tentatively named “yam asymptomatic virus 1” (YaV1), was characterized and sequenced from an asymptomatic D. alata plant from Vanuatu. Sequence comparisons and phylogenetic analysis showed that YaV1 is a novel ampelovirus and has the smallest genome among “subgroup 1” members. RT-PCR-based screening of a yam germplasm collection conserved in Guadeloupe showed that YaV1 is prevalent in D. alata, D. bulbifera, D. cayennensis subsp. rotundata, D. esculenta and D. trifida accessions but causes no apparent symptoms. Additional phylogenetic analysis revealed a low variability of YaV1 in Guadeloupe in a limited part of the genome, and suggested the occurrence of plant-to-plant transmission. Yams (Dioscorea spp.) are a major food commodity in tropical and subtropical regions worldwide. The steep demographic increase in these regions is driving a similar increase Handling Editor: Elvira Fiallo-Olivé. The nucleotide sequences reported in this work have been deposited in the GenBank database under accession numbers MT409627 and MT409662-MT409682. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s00705-020-04787-0) contains supplementary material, which is available to authorized users. * Pierre‑Yves Teycheney [email protected] 1
INRAE, Univ. Bordeaux, UMR BFP, 33140 Villenave d’Ornon, France
2
INRAE, UR ASTRO, 97170 Petit‑Bourg, Guadeloupe, France
3
CIRAD, UMR BGPI, Montpellier, France
4
BGPI, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
5
CIRAD, UMR AGAP, Station de Neufchâteau, Sainte‑Marie, 97130 Capesterre Belle‑Eau, Guadeloupe, France
6
AGAP, Univ Montpellier, CIRAD, INRAE, Institut Agro, Capesterre Belle‑Eau, Guadeloupe, France
7
Present Address: INRAE, UMRF, Aurillac, France
in food demand, especially for staple foods such as yams. Meeting this demand requires efficient strategies for the control of pests and pathogens such as viruses that hamper production and yield. Most plant viruses are not seed transmitted, and sexual reproduction prevents their transmission to offspring. However, vegetatively propagated crops, such as cultivated yams, do not benefit from this natural sanitation process and accumulate viruses over time. Sanitation of infected plants coupled with clonal propagation has proved an effective strategy for the control of viral diseases in several vegetatively propagated crops such as potato and banana and appears to be most appropr
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