Occurrence of a novel mastrevirus in sugarcane germplasm collections in Florida, Guadeloupe and Réunion

Boukari, Wardatou; Alcalá-Briseño, Ricardo I.; Kraberger, Simona; Fernandez, Emmanuel; Filloux, Denis; Daugrois, Jean-Heinrich; Comstock, Jack C.; Lett, Jean‐Michel; Martin, Darren P.; Varsani, Arvind; Polston, Jane E.; Rott, Philippe

doi:10.1186/s12985-017-0810-9

Cited by 22 publications

(7 citation statements)

References 20 publications

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“…A BLASTn search against the GenBank nr database using a 3137 base contig from maize sample #76 (Supplementary Table 1 ) identified a 168-nucleotide region with ~ 81% identity to the Rep coding sequence (CDS) of sugarcane striate virus (SCStV), a Mastrevirus [ 51 ]. Subsequent evaluation of this contig by a BLASTx search revealed potential homology (~ 31% query coverage with 39–44% amino acid identity) to the RepA proteins of SCStV and maize streak virus (MSV), which is the type member of the Mastrevirus genus.…”

Section: Resultsmentioning

confidence: 99%

Metagenomic identification of novel viruses of maize and teosinte in North America

et al. 2022

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Background Maize-infecting viruses are known to inflict significant agronomic yield loss throughout the world annually. Identification of known or novel causal agents of disease prior to outbreak is imperative to preserve food security via future crop protection efforts. Toward this goal, a large-scale metagenomic approach utilizing high throughput sequencing (HTS) was employed to identify novel viruses with the potential to contribute to yield loss of graminaceous species, particularly maize, in North America. Results Here we present four novel viruses discovered by HTS and individually validated by Sanger sequencing. Three of these viruses are RNA viruses belonging to either the Betaflexiviridae or Tombusviridae families. Additionally, a novel DNA virus belonging to the Geminiviridae family was discovered, the first Mastrevirus identified in North American maize. Conclusions Metagenomic studies of crop and crop-related species such as this may be useful for the identification and surveillance of known and novel viral pathogens of crops. Monitoring related species may prove useful in identifying viruses capable of infecting crops due to overlapping insect vectors and viral host-range to protect food security.

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Section: Resultsmentioning

confidence: 99%

Metagenomic identification of novel viruses of maize and teosinte in North America

et al. 2022

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“…As a proof of concept, this new metagenomic methodology was applied to a set of non-cultivated plants sampled from a single farm on Reunion Island. In addition to finding viruses that belong to two of the six mastreviruses species that have previously been detected on Reunion Island, MSV and maize streak Reunion virus (MSRV) 6,17 , this article further highlights the gaps that likely remain in our appreciation of mastrevirus diversity on this island by discovering mastreviruses that could represent three new mastrevirus species.…”

Section: Introductionmentioning

confidence: 90%

Exploring the diversity of Poaceae-infecting mastreviruses on Reunion Island using a viral metagenomics-based approach

Claverie

Ouattara

Hoareau

et al. 2019

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Mostly found in Africa and its surrounding islands, African streak viruses (AfSV) represent the largest group of known mastreviruses. Of the thirteen AfSV species that are known to infect either cultivated or wild Poaceae plant species, six have been identified on Reunion Island. To better characterize AfSV diversity on this island, we undertook a survey of a small agroecosystem using a new metagenomics-based approach involving rolling circle amplification with random PCR amplification tagging (RCA-RA-PCR), high-throughput sequencing (Illumina HiSeq) and the mastrevirus reads classification using phylogenetic placement. Mastreviruses that likely belong to three new species were discovered and full genome sequences of these were determined by Sanger sequencing. The geminivirus-focused metagenomics approach we applied in this study was useful in both the detection of known and novel mastreviruses. The results confirm that Reunion Island is indeed a hotspot of AfSV diversity and that many of the mastrevirus species have likely been introduced multiple times. Applying a similar approach in other natural and agricultural environments should yield sufficient detail on the composition and diversity of geminivirus communities to precipitate major advances in our understanding of the ecology and the evolutionary history of this important group of viruses.

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“…At the present time, the best methodology for virome identification in a specific environment is viral metagenomics, and different approaches are available [ 21 , 22 ]. Virion-associated nucleic acid (VANA) metagenomics has already been used to identify known and new viruses in sugarcane [ 5 , 7 , 23 ] and in wild Poaceae [ 24 , 25 , 26 ]. The objective of this study was to use this methodology for the characterization and comparison of the virome of sugarcane varieties located at the quarantine glasshouse of Visacane and the virome of wild Poaceae present in the surrounding environment of this sugarcane quarantine station.…”

Section: Introductionmentioning

confidence: 99%

Comparison of the Virome of Quarantined Sugarcane Varieties and the Virome of Grasses Growing near the Quarantine Station

Daugrois

Julian

Claude

et al. 2021

Viruses

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Visacane is a sugarcane quarantine station located in the South of France, far away from sugarcane growing areas. Visacane imports up to 100 sugarcane varieties per year, using safe control and confinement measures of plants and their wastes to prevent any risk of pathogen spread outside of the facilities. Viruses hosted by the imported material are either known or unknown to cause disease in cultivated sugarcane. Poaceae viruses occurring in plants surrounding the quarantine glasshouse are currently unknown. These viruses could be considered as a source of new sugarcane infections and potentially cause new sugarcane diseases in cases of confinement barrier failure. The aim of this study was to compare the plant virome inside and outside of the quarantine station to identify potential confinement failures and risks of cross infections. Leaves from quarantined sugarcane varieties and from wild Poaceae growing near the quarantine were collected and processed by a metagenomics approach based on virion-associated nucleic acids extraction and library preparation for Illumina sequencing. While viruses belonging to the same virus genus or family were identified in the sugarcane quarantine and its surroundings, no virus species was detected in both environments. Based on the data obtained in this study, no virus movement between quarantined sugarcane and nearby grassland has occurred so far, and the confinement procedures of Visacane appear to be properly implemented.

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Occurrence of a novel mastrevirus in sugarcane germplasm collections in Florida, Guadeloupe and Réunion

Cited by 22 publications

References 20 publications

Metagenomic identification of novel viruses of maize and teosinte in North America

Metagenomic identification of novel viruses of maize and teosinte in North America

Exploring the diversity of Poaceae-infecting mastreviruses on Reunion Island using a viral metagenomics-based approach

Comparison of the Virome of Quarantined Sugarcane Varieties and the Virome of Grasses Growing near the Quarantine Station

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