Location: National Germplasm Resources LaboratoryTitle: A new virus from the family Tombusviridae infecting sugarcane Author
|Tahir, Nouman - National Institute Of Biotechnology And Genetic Engineering (NIBGE)|
Submitted to: Phytopathology
Publication Type: Abstract Only
Publication Acceptance Date: 3/26/2017
Publication Date: 12/1/2017
Citation: Tahir, N., Grinstead, S.C., Mollov, D.S. 2017. A new virus from the family Tombusviridae infecting sugarcane. Phytopathology. S5:98.
Technical Abstract: Sugarcane is an economically important crop cultivated in tropical and sub-tropical regions worldwide. Viral diseases are one of the major constraints for sugarcane production. Total RNA was extracted from leaves exhibiting mosaic symptoms on a sugarcane quarantine accession. A cDNA library was constructed from the genomic RNA for whole-transcriptome analysis by high-throughput sequencing (HTS). HTS reads were assembled using CLC Workbench. BLAST analyses of the assembled contigs revealed the presence of Sugarcane mosaic virus (family Potyviridae), Sugarcane yellow leaf virus (family Luteoviridae), and a contig of 2869 nt. This additional contig showed identity to umbraviruses and umbra-like viruses belonging to the family Tombusviridae. RT-PCR, cloning and Sanger sequencing were used to verify the new virus-like contig. Open reading frame (ORFs) analysis revealed two proteins, which encode a putative replicase and a hypothetical protein with unknown function. BLAST analyses of both ORFs show 44% and 60% identity, respectively, with Citrus yellow vein-associated virus (JX101610). The genome organization, sequence identity, and phylogenetic analysis provide sufficient evidence to conclude that this is a new virus in the family Tombusviridae.