Abstract
BackgroundTomato spotted wilt virus (TSWV; Tospovirus: Bunyaviridae) has been an economically important virus in the USA for over 30 years. However the complete sequence of only one TSWV isolate PA01 characterized from pepper in Pennsylvania is available.ResultsThe large (L) RNA of a TSWV WA-USA isolate was cloned and sequenced. It consisted of 8914 nucleotides (nt) encoding a single open reading frame of 8640 nts in the viral-complementary sense. The ORF potentially codes for RNA-dependent RNA polymerase (RdRp) of 330.9 kDa. Two untranslated regions of 241 and 33 nucleotides were present at the 5′ and 3′ termini, respectively that shared conserved tospoviral sequences. Phylogenetic analysis using nucleotide sequences of the complete L RNA showed that TSWV WA-USA isolate clustered with the American and Asian TSWV isolates which formed a distinct clade from Euro-Asiatic Tospoviruses. Phylogeny of the amino acid sequence of all tospoviral RdRps used in this study showed that all the known TSWV isolates including the USA isolate described in this study formed a distinct and a close cluster with that of Impateins necrotic spot virus. Multiple sequence alignment revealed conserved motifs in the RdRp of TSWV. Recombination analysis identified two recombinants including the TSWV WA-USA isolate. Among them, three recombination events were detected in the conserved motifs of the RdRp.ConclusionsSequence analysis and phylogenetic analysis of the L RNA showed distinct clustering with selected TSWV isolates reported from elsewhere. Conserved motifs in the core polymerase region of the RdRp and recombination events were identified.Electronic supplementary materialThe online version of this article (doi:10.1186/s13104-016-1999-1) contains supplementary material, which is available to authorized users.
Highlights
Tomato spotted wilt virus (TSWV; Tospovirus: Bunyaviridae) has been an economically important virus in the USA for over 30 years
The comparative sequence analysis of the open reading frame (ORF) and amino acid sequence showed that this protein is an Large RNA (RNA) dependent RNA polymerase (RdRp)
Besides providing insights into the molecular phylogeny of the TSWV L RNA genomic segment, we analyzed the role of genetic recombination in the evolution of the L RNA
Summary
Tomato spotted wilt virus (TSWV; Tospovirus: Bunyaviridae) has been an economically important virus in the USA for over 30 years. The complete sequence of only one TSWV isolate PA01 characterized from pepper in Pennsylvania is available. Tospoviruses (family Bunyaviridae, genus Tospovirus) are important pathogens that cause considerable economic losses to field and horticultural crops worldwide [1, 2]. Tomato spotted wilt virus (TSWV) is one of more than 29 known Tospoviruses, and is considered as one of the top ten important plant viruses worldwide [4]. The TSWV genome comprises of three single-stranded RNAs that are individually encapsidated by a nucleoprotein and collectively packaged inside a glycoprotein envelope. The tripartite genome of TSWV is characterized by Large (L), Medium (M) and Small
Sign-in/Register to view highlights & summary Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
