title: Comparison of small RNA profiles in Nicotiana benthamiana and Solanum lycopersicum infected by polygonum ringspot tospovirus reveals host-specific responses to viral infection.
abstract: Viral small RNAs (vsRNAs) are one of the key elements involved in RNA silencing-based defense against viruses in plants. We analyzed the vsRNA profiles in Nicotiana benthamiana and Solanum lycopersicum infected by polygonum ringspot virus (PolRSV) (Tospovirus, Bunyaviridae). VsRNAs were abundant in both hosts, but a different size profile was observed, with an abundance peak at 21 in N. benthamiana and at 22 nt in tomato. VsRNAs mapping to the PolRSV L genomic segment were under-represented in both hosts, while S and M segments were differentially and highly targeted in N. benthamiana and tomato, respectively. Differences in preferential targeting of single ORFs were observed, with over-representation of NSs ORF-derived reads in N. benthamiana. Intergenic regions (IGRs)-mapping vsRNAs were under-represented, while enrichment of vsRNAs reads mapping to the NSs positive sense strand was observed in both hosts. Comparison with a previous study on tomato spotted wilt virus (TSWV) under the same experimental conditions, showed that the relative accumulation of PolRSV-specific and endogenous sRNAs was similar to the one observed for silencing suppressor-deficient TSWV strains, suggesting possible different properties of PolRSV NSs silencing suppressor compared to that of TSWV.
authors.affiliation: Istituto per la Protezione Sostenibile delle Piante, CNR, Strada delle Cacce 73, 10135 Torino, Italy; Department of Plant Pathology and Environmental Microbiology, Pennsylvania State University, University Park, PA 16802, USA.
authors.forename: Paolo
authors.initials: P
authors.lastname: Margaria
authors.affiliation: Istituto per la Protezione Sostenibile delle Piante, CNR, Strada delle Cacce 73, 10135 Torino, Italy.
authors.forename: Laura
authors.initials: L
authors.lastname: Miozzi
authors.affiliation: Istituto per la Protezione Sostenibile delle Piante, CNR, Strada delle Cacce 73, 10135 Torino, Italy.
authors.forename: Marina
authors.initials: M
authors.lastname: Ciuffo
authors.affiliation: Department of Plant Pathology and Environmental Microbiology, Pennsylvania State University, University Park, PA 16802, USA.
authors.forename: Cristina
authors.initials: C
authors.lastname: Rosa
authors.affiliation: Department of Biology, and The Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA 16802, USA.
authors.forename: Michael J
authors.initials: MJ
authors.lastname: Axtell
authors.affiliation: Department of Plant Pathology, Washington State University, PO Box 646430, Pullman, WA 99164, USA.
authors.forename: Hanu R
authors.initials: HR
authors.lastname: Pappu
authors.affiliation: Istituto per la Protezione Sostenibile delle Piante, CNR, Strada delle Cacce 73, 10135 Torino, Italy. Electronic address: massimo.turina@ipsp.cnr.it.
authors.forename: Massimo
authors.initials: M
authors.lastname: Turina
mesh_terms: D018551:Solanum lycopersicum / Q000821:virology*; D010935:Plant Diseases / Q000821:virology*; D058727:RNA, Small Untranslated / Q000235:genetics* / Q000378:metabolism; D012367:RNA, Viral / Q000097:blood* / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D013045:Species Specificity; D014026:Nicotiana / Q000821:virology*; D017865:Tospovirus / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*
chemical_list: D058727:RNA, Small Untranslated; D012367:RNA, Viral
keywords: Deep sequencing; NSs protein; RNA silencing; Tospovirus; Viral small RNAs