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ARS Home » Northeast Area » Beltsville, Maryland (BARC) » Beltsville Agricultural Research Center » National Germplasm Resources Laboratory » Research » Publications at this Location » Publication #338949

Research Project: CHARACTERIZING, DETECTING, AND ELIMINATING PATHOGENS TO ENABLE THE SAFE INTRODUCTION OF PLANT GENETIC RESOURCES

Location: National Germplasm Resources Laboratory

Title: A new virus from the family Tombusviridae infecting sugarcane

Author
item Tahir, Nouman - National Institute Of Biotechnology And Genetic Engineering (NIBGE)
item Grinstead, Sam
item Mollov, Dimitre

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.

Interpretive Summary:

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.