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ARS Home » Pacific West Area » Corvallis, Oregon » Horticultural Crops Disease and Pest Management Research Unit » Research » Publications at this Location » Publication #395316

Research Project: Development of Knowledge-based Approaches for Disease Management in Small Fruit and Nursery Crops

Location: Horticultural Crops Disease and Pest Management Research Unit

Title: Sugarcane mild mosaic virus: the rediscovery of an identified but unrecognized virus

item Mollov, Dimitre
item FILLOUX, DENIS - Cirad, France
item Grinstead, Sam
item Bolus, Stephen
item CLAUDE, LISA - Cirad, France
item FERNANDEZ, EMMANUEL - Cirad, France
item JULIAN, CHARLOTTE - Cirad, France
item CANDRESSE, THIERRY - Bordeaux University
item LOCKHART, BEN - University Of Minnesota
item ROUMAGNAC, PHILIPPE - Cirad, France
item ROTT, PHILIPPE - Cirad, France
item DAUGROIS, JEAN HEINRICH - Cirad, France

Submitted to: Plant Pathology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 9/23/2022
Publication Date: 10/11/2022
Citation: Mollov, D.S., Filloux, D., Grinstead, S.C., Bolus, S.J., Claude, L., Fernandez, E., Julian, C., Candresse, T., Lockhart, B., Roumagnac, P., Rott, P., Daugrois, J. 2022. Sugarcane mild mosaic virus: the rediscovery of an identified but unrecognized virus. Plant Pathology. Volume 72, Issue 2 Pages 312-321.

Interpretive Summary: Sugarcane is an important crop cultivated wordwide. Sugarcane viruses hinder crop quality and reduce yield. In this research we identified the genomic sequence of a virus that was previously described but lacked that information. Additionally we identified 16 complete isolates and 65 positive samples from Africa, Asia, South and North America. We demonstrated that this virus, named sugarcane mild mosaic virus, is wide spread, which could be because detection techniques were not readily available. We designed three sets of nucleic acid detection and a serological detection techniques. These findings will help the regulatory entities and industry to facilitate better control strategies for this viral disease.

Technical Abstract: The complete genome sequence of a previously uncharacterized sugarcane-infecting virus of the genus Ampelovirus was obtained by high throughput sequencing (HTS) and rapid amplification of cDNA ends. This genome consists of 13,114 nucleotides (nt) and harbors seven open reading frames. Phylogenetic and pairwise identity analyses with the complete or near complete genome sequences of 16 isolates revealed that they all belong to a new Ampelovirus species, family Closteroviridae. An immuno-capture-reverse transcriptase-polymerase chain reaction (IC-RT-PCR) assay was developed with antibodies previously produced against a “clostero-like” virus not yet been recognized by the International Committee on Taxonomy of Viruses but for which the name sugarcane mild mosaic virus (SCMMV) had been proposed. The new Ampelovirus was detected by IC-RT-PCR, and Sanger sequenced amplicons confirmed the identity of the virus based on HTS data. SCMMV was detected in 65 of 350 samples of quarantined sugarcane germplasm using RT-PCR targeting the hsp70 gene. These samples originated from Africa, the Caribbean, North America, South America, and Southeast Asia, thus revealing that SCMMV is present in many sugarcane-growing regions of the world. The complete or near complete sequences reported here represent the first genomic sequences for SCMMV while the RT-PCR diagnostic assay developed here will facilitate the understanding of SCMMV epidemiology and will help improve management practices.