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Plant virome reconstruction and antiviral RNAi characterization by deep sequencing of small RNAs from dried leaves

hal.structure.identifierBiologie et Génétique des Interactions Plante-Parasite [UMR BGPI]
dc.contributor.authorGOLYAEV, Victor
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorCANDRESSE, Thierry
hal.structure.identifierJulius Kühn-Institut [JKI]
dc.contributor.authorRABENSTEIN, Frank
hal.structure.identifierBiologie et Génétique des Interactions Plante-Parasite [UMR BGPI]
dc.contributor.authorPOOGGIN, Mikhail
dc.date.issued2019
dc.identifier.issn2045-2322
dc.description.abstractEnIn plants, RNA interference (RNAi) generates small interfering (si)RNAs from entire genomes of viruses, satellites and viroids. Therefore, deep small (s)RNA sequencing is a universal approach for virome reconstruction and RNAi characterization. We tested this approach on dried barley leaves from field surveys. Illumina sequencing of sRNAs from 2 plant samples identified in both plants Hordeum vulgare endornavirus (HvEV) and barley yellow mosaic bymovirus (BaYMV) and, additionally in one plant, a novel strain of Japanese soil-borne wheat mosaic furovirus (JSBWMV). De novo and reference-based sRNA assembly yielded complete or near-complete genomic RNAs of these viruses. While plant sRNAs showed broad size distribution, viral sRNAs were predominantly 21 and 22 nucleotides long with 5'-terminal uridine or adenine, and were derived from both genomic strands. These bona fide siRNAs are presumably processed from double-stranded RNA precursors by Dicer-like (DCL) 4 and DCL2, respectively, and associated with Argonaute 1 and 2 proteins. For BaYMV (but not HvEV, or JSBWMV), 24-nucleotide sRNAs represented the third most abundant class, suggesting DCL3 contribution to antibymovirus defence. Thus, viral siRNAs are well preserved in dried leaf tissues and not contaminated by non-RNAi degradation products, enabling both complete virome reconstruction and inference of RNAi components mediating antiviral defense.
dc.language.isoen
dc.publisherNature Publishing Group
dc.rights.urihttp://creativecommons.org/licenses/by/
dc.title.enPlant virome reconstruction and antiviral RNAi characterization by deep sequencing of small RNAs from dried leaves
dc.typeArticle de revue
dc.identifier.doi10.1038/s41598-019-55547-3
dc.subject.halSciences du Vivant [q-bio]/Microbiologie et Parasitologie/Virologie
dc.description.sponsorshipEuropeDiversification for Tobacco Growing Farms by the alternative crop Stevia rebaudiana Bertoni
bordeaux.journalScientific Reports
bordeaux.volume9
bordeaux.peerReviewedoui
hal.identifierhal-02628261
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-02628261v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Scientific%20Reports&rft.date=2019&rft.volume=9&rft.eissn=2045-2322&rft.issn=2045-2322&rft.au=GOLYAEV,%20Victor&CANDRESSE,%20Thierry&RABENSTEIN,%20Frank&POOGGIN,%20Mikhail&rft.genre=article


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