Nucleotide sequence analyses of coat protein gene of peanut stunt virus isolates from alfalfa and different hosts show a new tentative subgroup from Iran

Abstract

Alfalfa cultivars grown in 14 provinces in Iran were surveyed for the relative incidence of peanut stunt virus (PSV) during 2013-2016. PSV were detected in 41.89% of symptomatic alfalfa samples and a few alternate hosts by plate-trapped antigen ELISA. Among other hosts tested only , and were found naturally infected with PSV. Twenty five isolates of PSV were chosen for biological and molecular characterizations based on their geographical distributions. There was not any differences in experimental host range of these isolates; however, variation in systemic symptoms observed on. Total RNA from 25 of viral isolates were subjected to reverse transcription polymerase chain reaction analysis using primers directed against coat protein (CP) gene. The CP genes of 25 Iranian PSV isolates were either 651 or 666 nucleotides long. The nucleotide and amino acid identities for CP gene among Iranian PSV isolates were 79.3-99.7 and 72-100%, respectively. They also shared between 67.4 and 82.4% pairwise nucleotide identity with other PSV isolates reported elsewhere in the world. Phylogenetic analyses of CP gene sequences showed formation of a new subgroup comprising only the Iranian isolates. Natural infection of a few alternate hosts with PSV is reported for the first time from Iran.

The Virome of ‘Lamon Bean’: Application of MinION Sequencing to Investigate the Virus Population Associated with Symptomatic Beans in the Lamon Area, Italy

“…Sequences obtained by Sanger were used for assignment to pathotypes/subgroups according to recent comprehensive studies of BCMV [ 27 ], CMV [ 28 ], and PSV [ 29 ]. The results revealed that 79% of BCMV sequences fall into pathotype VII, sharing 97.7–99.2% identity with NL-4 strain (DQ666332) [ 30 ].…”

“…To compare with previous phylogenetic works in the literature, reference sequences of strains detected in this investigation were aligned and analyzed with those included in the most recent phylogenetic studies on BCMV [ 27 ], CMV [ 28 ] and PSV [ 29 ]. Phylogeny of BCMV, PSV and CMV isolates infecting Lamon bean plants was reconstructed by adopting the maximum likelihood (ML) method as implemented in Geneious—R10 (Biomatters Ltd., Auckland, New Zealand).…”