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Metagenomic analysis of the sugarcane virome in Florida reveals prevalent and potential novel viruses

Fernandez E., Filloux D., Comstock J.C., Roumagnac P., Rott P.. 2015. Phytopathology, 105 (11S) : p. S4.43. 2015 APS Annual Meeting, 2015-08-01/2015-08-05, Pasadena (Etats-Unis).

Viral metagenomics has revolutionized the way pathologists decipher viral diseases, and has already produced key advances in viral ecology. It has also the potential to become a central approach for viral surveillance at the ecosystem scale. A viral metagenomics study of the sugarcane virome in Florida was carried out in 2013/2014 to analyze occurence of known and potentially new viruses. One hundred and eighty 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. All four previously reported sugarcane viruses occuring in Florida were detected: Sugarcane yellow leaf virus (149 infected samples out of 180), Sugarcane mosaic virus (2/180), Sugarcane mild mosaic virus (10/180) and Sugarcane bacilliform virus(51/180). Interestingly, this viral metagenomics approach also resulted in the detection of potential new viruses of sugarcane, including Chrysovirus, Mastrevirus, and Umbravirus. This study provided a snapshot of the prevalence and genetic diversity of Sugarcane yellow leaf virus in 2013/2014 in Florida where at least two genotypes of this virus (BRA and CUB) are present. Impact of this diversity on sugarcane production needs to be investigated.

Mots-clés : canne à sucre; virus; floride

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