Integrated single-base resolution maps of transcriptome, sRNAome and methylome of Tomato yellow leaf curl virus (TYLCV) in tomato

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  • dc.contributor.author Piedra Aguilera, Álvaro
  • dc.contributor.author Jiao, Chen
  • dc.contributor.author Luna, Ana P.
  • dc.contributor.author Villanueva, Francisco
  • dc.contributor.author Dabad, Marc
  • dc.contributor.author Esteve-Codina, Anna
  • dc.contributor.author Díaz Pendón, Juan Antonio
  • dc.contributor.author Fei, Zhangjun
  • dc.contributor.author Bejarano, Eduardo R.
  • dc.contributor.author Castillo, Araceli G.
  • dc.date.accessioned 2020-04-08T07:08:35Z
  • dc.date.available 2020-04-08T07:08:35Z
  • dc.date.issued 2019
  • dc.description.abstract Geminiviruses are plant ssDNA viruses that replicate through dsDNA intermediates and form minichromosomes which carry the same epigenetic marks as the host chromatin. During the infection, geminiviruses are targets of the post-transcriptional and transcriptional gene silencing machinery. To obtain insights into the connection between virus-derived small RNAs (vsRNAs), viral genome methylation and gene expression, we obtained the transcriptome, sRNAome and methylome from the geminivirus Tomato yellow leaf curl virus-infected tomato plants. The results showed accumulation of transcripts just at the viral ORFs, while vsRNAs spanned the entire genome, showing a prevalent accumulation at regions where the viral ORFs overlapped. The viral genome was not homogenously methylated showing two highly methylated regions located in the C1 ORF and around the intergenic region (IR). The compilation of those results showed a partial correlation between vsRNA accumulation, gene expression and DNA methylation. We could distinguish different epigenetic scenarios along the viral genome, suggesting that in addition to its function as a plant defence mechanism, DNA methylation could have a role in viral gene regulation. To our knowledge, this is the first report that shows integrative single-nucleotide maps of DNA methylation, vsRNA accumulation and gene expression from a plant virus.
  • dc.description.sponsorship This research was supported by grants from the Spanish Ministerio de Economía, Industria y Competitividad/FEDER (AGL2016-75819-C2-1-R, AGL2016-75529-R and PT17/0009/0019). A.P.A. was awarded with a Predoctoral Fellowship from the Spanish Ministerio de Educación y Cultura. M.D. was supported by a contract from the Spanish Ministerio de Economía, Industria y Competitividad (PTA2014‐09515).
  • dc.format.mimetype application/pdf
  • dc.identifier.citation Piedra-Aguilera Á, Jiao C, Luna AP, Villanueva F, Dabad M, Esteve-Codina A, Díaz-Pendón JA, Fei Z, Bejarano ER, Castillo AG. Integrated single-base resolution maps of transcriptome, sRNAome and methylome of Tomato yellow leaf curl virus (TYLCV) in tomato. Sci Rep. 2019; 9(1):2863. DOI: 10.1038/s41598-019-39239-6
  • dc.identifier.doi http://dx.doi.org/10.1038/s41598-019-39239-6
  • dc.identifier.issn 2045-2322
  • dc.identifier.uri http://hdl.handle.net/10230/44184
  • dc.language.iso eng
  • dc.publisher Nature Research
  • dc.relation.ispartof Sci Rep. 2019; 9(1):2863
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/AGL2016-75819-C2-1-R
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/AGL2016-75529-R
  • dc.rights © The Author(s) 2019. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.rights.uri http://creativecommons.org/licenses/by/4.0/
  • dc.subject.keyword Gene regulation
  • dc.subject.keyword Pathogens
  • dc.title Integrated single-base resolution maps of transcriptome, sRNAome and methylome of Tomato yellow leaf curl virus (TYLCV) in tomato
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/publishedVersion

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Articles (Center for Genomic Regulation (CRG))
Articles (Departament de Medicina i Ciències de la Vida)