Genomic sequencing and analysis of Chilli ringspot virus, a novel potyvirus

Abstract

Chilli ringspot virus (ChiRSV), a novel potyvirus, was recently found in Hainan, China with high prevalence. The genomic sequence of the ChiRSV-HN/14 isolate was determined by sequencing overlapping cDNA segments generated by reverse transcription polymerase chain reaction with degenerate and/or specific primers. ChiRSV genome (GenBank Acc. no. JN008909) comprised of 9,571 nucleotides (nt) excluding the 3'-terminal poly (A) tail and contained a large open reading frame of 9,240 nt encoding a large polyprotein of 3,079 amino acids with predicted Mr of 349.1 kDa. A small, overlapping PIPO coding region was also found to span from nt 2,913 to 3,095, with a capacity to encode a peptide of 60 amino acids. ChiRSV shares sequence identities of only 48.5-65.4 and 42.9-68.7% with closely related potyviruses at the nucleotide and the amino acid levels, respectively. Phylogenetic analysis of the genomic sequences provided further evidence that ChiRSV is a distinct species of the Potyvirus genus. ChiRSV-HN/14 is most closely related to Tobacco vein banding mosaic virus and two other pepper-infecting potyviruses.

Complete Genomic Sequence of <em>Noni mosaic virus</em> (NoMV), a Novel Potyvirus Associated with a Mosaic Disease in <em>Morinda citrifolia L.</em>

“…2). The putative PIPO ORF (99 aa) was also identified as the conservative motif GAA AAA A which was also found at nt 2896-2902 [15]. In addition, the NoMV CP has 274 aa residuals with a calculated molecular mass of 30.69 kDa.…”

Construction of an infectious full‑length and eGFP-tagged cDNA clone of a chilli ringspot virus isolate from Yunnan province, China

“…Chilli ringspot virus (ChiRSV) was rst reported in Vietnam in 2007 [6] and was classi ed as a distinct species in the genus Potyvirus in 2009 [3]. In 2011, the determination of the genomic sequence of ChiRSV-HN/14 isolate (from Hainan, China) provided further evidence that ChiRSV is a distinctive potyvirus [5]. The ChiRSV genome has 9,571 nucleotides (nt) of ssRNA and the virus has typical lamentous particles 780 nm in length [5,8].…”

“…In 2011, the determination of the genomic sequence of ChiRSV-HN/14 isolate (from Hainan, China) provided further evidence that ChiRSV is a distinctive potyvirus [5]. The ChiRSV genome has 9,571 nucleotides (nt) of ssRNA and the virus has typical lamentous particles 780 nm in length [5,8]. Recently, a further isolate of ChiRSV was reported from Yunnan province [8] which groups phylogenetically with the Hainan isolate.…”