Investigations into the virome of sugarcane in Cuba

Puchades Izaguirre Y., Rodriguez L., Filloux Denis, Julian Charlotte, Fernandez Emmanuel, Galzi Serge, Blondin Laurence, De Las Mercedes Pérez Pérez J., Rodrĺguez Regal M.L., Daugrois Jean-Heinrich, Roumagnac Philippe, Rott Philippe. 2024. Investigations into the virome of sugarcane in Cuba. In : Abstract ISSCT XIII Pathology and XI Entomology joint Workshop. ISSCT. s.l. : s.l., Résumé, p. 18. ISSCT Pathology Workshop. 13, Salta, Argentine, 25 Novembre 2024/29 Novembre 2024.

Note générale : A l'occasion de congrès, s'est également déroulé le XI Entomology Workshop, 25-29 November 2024, Salta, Argentina

Résumé : Knowledge of the sugarcane virome (i.e. all the viruses infecting sugarcane) is critical for the industry and for the movement of sugarcane germplasm using quarantine procedures. Diseases caused by viruses are not always easy to diagnose based on symptoms and sugarcane is often infected by one or several virus species without showing symptoms. In this study, 90 sugarcane samples were collected from sugarcane fields and germplasm collections in Cuba and processed by Virion-Associated Nucleic Acid (VANA) metagenomics and Illumina sequencing. Sequences of four viruses known to cause disease in sugarcane were found in these samples: Sugarcane bacilliform virus (SCBV) in 16 samples, sugarcane mild mosaic virus (SCMMV) in 21 samples, sugarcane yellow leaf virus (SCYLV) in 28 samples, and sugarcane striate virus (SCStV) in two samples. Additionally, RNA extracted from sugarcane cultivar B34104 showing mosaic symptoms was amplified by cDNA-PCR and used for Nanopore sequencing. A total of 4,439 virus reads attributed to three known viruses infecting sugarcane were found among the 430,233 clean reads, namely SCBV, sugarcane mosaic virus (SCMV), and SCYLV. Assembling of the virus reads resulted in a complete consensus genome sequence of SCMV and almost complete genome sequences (>90%) of SCBV and SCYLV. Mapping of the SCMV reads onto the consensus sequence revealed the presence of at least two different genotypes of SCMV in the collected sample. The consensus sequence of SCMV was closest to GenBank accession MT701608.1 (SCMV isolate SC 2086 from Florida) with a 95% nucleotide identity. The genome sequences of SCBV and SCYLV were closest to GenBank accessions NC_038382.1 (SCBV from Guadeloupe) and MF622079.1 (SCYLV strain CUB from Cuba) with 92% and 94% nucleotide identity, respectively. This is the first report of SCMMV and SCStV in Cuba and the first report of a complete genome sequence of SCMV from Cuba.

Auteurs et affiliations

• Puchades Izaguirre Y., INICA (CUB)
• Rodriguez L., CIGB (CUB)
• Filloux Denis, CIRAD-BIOS-UMR PHIM (FRA)
• Julian Charlotte, CIRAD-BIOS-UMR PHIM (FRA)
• Fernandez Emmanuel, CIRAD-BIOS-UMR PHIM (FRA)
• Galzi Serge, CIRAD-BIOS-UMR PHIM (FRA)
• Blondin Laurence, CIRAD-BIOS-UMR PHIM (FRA)
• De Las Mercedes Pérez Pérez J., INICA (CUB)
• Rodrĺguez Regal M.L., INICA (CUB)
• Daugrois Jean-Heinrich, CIRAD-BIOS-UMR PHIM (FRA)
• Roumagnac Philippe, CIRAD-BIOS-UMR PHIM (FRA) ORCID: 0000-0001-5002-6039
• Rott Philippe, CIRAD-BIOS-UMR PHIM (FRA) ORCID: 0000-0001-6085-6159

Source : Cirad-Agritrop (https://agritrop.cirad.fr/611489/)

Métriques

[ Page générée et mise en cache le 2025-01-09 ]