Abstract
Background Sweet potato chlorotic stunt virus (family Closteroviridae, genus Crinivirus) features a large bipartite, single-stranded, positive-sense RNA genome. To date, only three complete genomic sequences of SPCSV can be accessed through GenBank. SPCSV was first detected from China in 2011, only partial genomic sequences have been determined in the country. No report on the complete genomic sequence and genome structure of Chinese SPCSV isolates or the genetic relation between isolates from China and other countries is available.Methodology/Principal FindingsThe complete genomic sequences of five isolates from different areas in China were characterized. This study is the first to report the complete genome sequences of SPCSV from whitefly vectors. Genome structure analysis showed that isolates of WA and EA strains from China have the same coding protein as isolates Can181-9 and m2-47, respectively. Twenty cp genes and four RNA1 partial segments were sequenced and analyzed, and the nucleotide identities of complete genomic, cp, and RNA1 partial sequences were determined. Results indicated high conservation among strains and significant differences between WA and EA strains. Genetic analysis demonstrated that, except for isolates from Guangdong Province, SPCSVs from other areas belong to the WA strain. Genome organization analysis showed that the isolates in this study lack the p22 gene.Conclusions/SignificanceWe presented the complete genome sequences of SPCSV in China. Comparison of nucleotide identities and genome structures between these isolates and previously reported isolates showed slight differences. The nucleotide identities of different SPCSV isolates showed high conservation among strains and significant differences between strains. All nine isolates in this study lacked p22 gene. WA strains were more extensively distributed than EA strains in China. These data provide important insights into the molecular variation and genomic structure of SPCSV in China as well as genetic relationships among isolates from China and other countries.
Highlights
Sweet potato (Ipomoea batatas) is the third most important root crop after potato and cassava [1,2]
The complete genomic sequences of five isolates of Sweet potato chlorotic stunt virus (SPCSV) belonging to West African (WA) and East African (EA) strains from different areas in China were characterized by RT-PCR using viruliferous whitefly as materials
The complete genomic sequences of five different SPCSV isolates were acquired from main sweet potato production areas in China by RT-PCR and 59 and 39-rapid amplification of cDNA ends (RACE) using virus-transmitting vector whitefly as a material
Summary
Sweet potato (Ipomoea batatas) is the third most important root crop after potato and cassava [1,2]. SPCSV, which was previously known as sweet potato sunken vein virus, belongs to genus Crinivirus of family Closteroviridae [6,7,8]. SPCSV is often found in co-infection with Sweet potato feathery mottle virus (SPFMV), a member of the genus Potyvirus that causes a synergistic disease called sweet potato virus disease (SPVD); SPVD is the main viral constraint affecting sweet potatoes worldwide [12,13,14]. Besides SPFMV, several other viruses belonging to the genera Potyvirus, Carlavirus, Cucumovirus, Ipovovirus, and Cavemovirus can result in synergistic diseases and severely affect sweet potato yield upon co-infection with SPCSV [18,20]. Sweet potato chlorotic stunt virus (family Closteroviridae, genus Crinivirus) features a large bipartite, singlestranded, positive-sense RNA genome. No report on the complete genomic sequence and genome structure of Chinese SPCSV isolates or the genetic relation between isolates from China and other countries is available
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