Complete Genome Sequence of Peanut stripe virus Isolated in China

Abstract

The complete genome sequence of a Laixi isolate of Peanut stripe virus (PStV‐Laixi) from China was determined to be 10, 056 nucleotides in length, excluding the 3′‐terminal poly (A) tail. The viral genome contains a single long open reading frame of 9669 nucleotides encoding a polyprotein of 3222 amino acids. The polyprotein was predicted to be cleaved into ten functional proteins by three viral proteases. An additional protein, termed ‘PIPO’, is also found in the P3 cistron. The complete genome sequence comparison and phylogenetic analysis indicated that PStV‐Laixi was most closely related to three other isolates of PStV (two from USA and one from Taiwan). To our knowledge, this is the first report of the complete sequence of a PStV isolate from China.

First Report of Peanut Stripe Virus Infecting Groundnut (<i>Arachis hypogaea</i> L.) in Western Kenya

“…Sequencing of the PCR product derived from preferential amplification of the 3'-end of the PStV CP gene confirmed its identity as PStV. Phylogenetic analysis clearly supports PStV distinction as a species of the genus Potyvirus that is most closely related to Bean common mosaic virus (BCMV) and Blackeye cowpea mosaic virus (BICMV) [32]. However, the Sanger sequences analysed from this study produced poor quality sequences of the CP gene after performing sequence quality check using BioEdit workbench that revealed the low quality peaks of the electropherograms generated.…”

“…The complete genome of PStV is 10, 056 nucleotides (nt) in length, excluding the poly (A) tail at the 3′ end. The 5′ and 3′ untranslated regions (UTR) consists of 134 nt and 254 nt respectively [32]. PStV genome has a single open reading frame (ORF, nt 134-9802) encoding a polyprotein of 3222 amino acids with an estimated molecular mass of 365.89 kDa.…”

“…Phylogenetic analysis of PStV and nine closely related potyviruses based on the whole genomic nucleotide sequences with the optimal Tamura-Nei (TN93) model for nucleotide substitution indicated that PStV and BCMV lineage may share a common ancestor, with separation of PStV and BCMV occurring before speciation of the viruses in the BCMV lineage. According to Flasinski et al, the complete genomic sequence of PStV will assist in the development of molecular diagnostic tests and effective disease management strategies [32]. Comparison of the nucleotide and amino acid sequences of genes between PStV-Ts and PStV-B showed that both shared over 90% identities, excluding the P1 gene.…”

“…This might have resulted from mispriming, lower quality gel due to some degree of serological/molecular cross reactivity with some other potyviruses, lower sample size of the symptomatic leaves and therefore further diagnostic assays and use of Next Generation Sequencing (NGS) or HiFi Reads for highly accurate long-read sequencing by Circular Consensus Sequencing (CCS) technologies are recommended for use to infer this conclusion. The complete genome of PStV is 10, 056 nucleotides (nt) in length from the Laixi isolate of Peanut stripe virus (PStV-Laixi) from China while excluding the poly (A) tail at the 3' end [32]. The 5' and 3' untranslated regions (UTR) consist of 134 nt and 254 nt, respectively [32].…”

Natural Occurrence of Wild tomato mosaic virus in Wild Eggplant in China

“…These viruses are transmitted by aphids in a non-persistent manner (Ng and Falk 2006). The virions of Potyvirus are flexuous filaments, 680-900 nm long and 11-13 nm wide, which encapsidate a monopartite ssRNA gen-ome~10 kb in length (Xu et al 2014). The genome has a single major open reading frame (ORF) and encodes a single large polyprotein which is subsequently cut into nine functional proteins: the P1 protein (P1), helper component protease (HC-Pro), the P3 protein (P3), the 6K1 protein (6K1), cylindrical inclusion protein (CI), the 6K2 protein (6K2), the Viral Protein genome-linked protein (VPg), the NIa-Pro protein (NIa-Pro) and coat protein (CP) (King et al 2011).…”