Viral metagenomic-based screening of sugarcane from florida reveals occurrence of six sugarcane-infecting viruses and high prevalence of Sugarcane yellow leaf virus

Filloux Denis, Fernandez Emmanuel, Comstock Jack C., Mollov Dimitre S., Roumagnac Philippe, Rott Philippe. 2018. Viral metagenomic-based screening of sugarcane from florida reveals occurrence of six sugarcane-infecting viruses and high prevalence of Sugarcane yellow leaf virus. Plant Disease, 102 (11) : 2317-2323.

Quartile : Q1, Sujet : PLANT SCIENCES

Résumé : A viral metagenomics study of the sugarcane virome in Florida was carried out in 2013 to 2014 to analyze occurrence of known and potentially new viruses. In total, 214 sugarcane leaf samples were collected from different commercial sugarcane (Saccharum interspecific hybrids) fields in Florida and from other Saccharum and related species taken from two local germplasm collections. Virion-associated nucleic acids (VANA) metagenomics was used for detection and identification of viruses present within the collected leaf samples. VANA sequence reads were obtained for 204 leaf samples and all four previously reported sugarcane viruses occurring in Florida were detected: Sugarcane yellow leaf virus (SCYLV, 150 infected samples out of 204), Sugarcane mosaic virus (1 of 204), Sugarcane mild mosaic virus (13 of 204), and Sugarcane bacilliform virus (54 of 204). High prevalence of SCYLV in Florida commercial fields and germplasm collections was confirmed by reverse-transcription polymerase chain reaction. Sequence analyses revealed the presence of SCYLV isolates belonging to two different phylogenetic clades (I and II), including a new genotype of this virus. This viral metagenomics approach also resulted in the detection of a new sugarcane-infecting mastrevirus (recently described and named Sugarcane striate virus), and two potential new viruses in the genera Chrysovirus and Umbravirus.

Mots-clés Agrovoc : Saccharum, canne à sucre, virus des végétaux, séquence d'adn, Transcription inverse, identification, génie génétique

Mots-clés géographiques Agrovoc : Floride

Mots-clés complémentaires : Sugarcane yellow leaf virus, Sugarcane streak mosaic virus, Sugarcane mild mosaic virus, Sugarcane bacilliform virus, Métagénomique, Mastrevirus

Classification Agris : H20 - Maladies des plantes
F30 - Génétique et amélioration des plantes
U30 - Méthodes de recherche

Champ stratégique Cirad : Axe 4 (2014-2018) - Santé des animaux et des plantes

Auteurs et affiliations

• Filloux Denis, CIRAD-BIOS-UMR BGPI (FRA)
• Fernandez Emmanuel, CIRAD-BIOS-UMR BGPI (FRA)
• Comstock Jack C., USDA (USA)
• Mollov Dimitre S., USDA (USA)
• Roumagnac Philippe, CIRAD-BIOS-UMR BGPI (FRA) ORCID: 0000-0001-5002-6039
• Rott Philippe, CIRAD-BIOS-UMR BGPI (FRA) ORCID: 0000-0001-6085-6159 - auteur correspondant

Source : Cirad-Agritrop (https://agritrop.cirad.fr/588850/)

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