High‐throughput sequencing of maize dwarf mosaic virus from common reed in a wetland

Abstract

AbstractCommon reed is a widespread aquatic grass in wetland areas of Turkey. In reed samples, RNAs with the sequence of the Maize dwarf mosaic virus (MDMV) were found using high‐throughput sequencing. The nearly complete genome sequence comprised 9514 nucleotides. It contains a 5′ UTR of at least 145 nucleotides, a 3′ UTR of at least 237 nucleotides, and an ORF encoding a single polyprotein of 3041 amino acid residues. Two partial sequences were 7709 nt and 7858 nt long, respectively. Three reed sequences contained 22 nt, 25 nt, and 80 nt insertions in the 5′UTR, respectively. The coding region of MDMV TR‐34 (49%) was more conserved than UTRs (34.3%) compared to Johnsongrass mosaic virus (JGMV), Sugarcane mosaic virus (SCMV), and Sorghum mosaic virus (SrMV). MDMV‐TR34 reed isolate shares 91%–53.1% nucleotide identity and 98.2%–49% amino acid sequence similarity with other MDMV and three potyvirus sequences, respectively. Recombination analysis indicated six putative recombination events. In 2020–2022, the survey studies showed that 25 of 260 reed samples were infected with MDMV at the infection rate of 9.6% in Tekirdag province. This result is the first report of the complete nucleotidesequence of MDMV in the common reed, a reservoir host for cereals growing areas in Turkey.