Small-RNA analysis of pre-basic mother plants and conserved accessions of plant genetic resources for the presence of viruses.

Item request has been placed! ×
Item request cannot be made. ×
  Processing Request
  • Additional Information
    • Subject Terms:
    • Author-Supplied Keywords:
      Artificial gene amplification and extension
      Biochemistry
      Bioinformatics
      Biology and life sciences
      Computational techniques
      Database and informatics methods
      Evolutionary biology
      Gene expression
      Gene pool
      Gene regulation
      Genetics
      Molecular biology
      Molecular biology techniques
      Multiple alignment calculation
      Non-coding RNA
      Nucleic acids
      Nucleotide sequencing
      Organisms
      Plant genetics
      Plant science
      Polymerase chain reaction
      Population biology
      Population genetics
      Research and analysis methods
      Research Article
      RNA
      RNA viruses
      Sequence alignment
      Sequence analysis
      Sequencing techniques
      Small interfering RNAs
      Split-decomposition method
      Viruses
    • Abstract:
      Pathogen-free stocks of vegetatively propagated plants are crucial in certified plant production. They require regular monitoring of the plant germplasm for pathogens, especially of the stocks maintained in the field. Here we tested pre-basic mother plants of Fragaria, Rubus and Ribes spp., and conserved accessions of the plant genetic resources of Rubus spp. maintained at research stations in Finland, for the presence of viruses using small interfering RNA (siRNA) -based diagnostics (VirusDetect). The advance of the method is that unrelated viruses can be detected simultaneously without resumptions of the viruses present. While no virus was detected in pre-basic mother plants of Fragaria and Ribes species, rubus yellow net virus (RYNV) was detected in pre-basic mother plants of Rubus. Raspberry bushy dwarf virus (RBDV), black raspberry necrosis virus (BRNV), raspberry vein chlorosis virus (RVCV) and RYNV were detected in the Rubus genetic resource collection. The L polymerase encoding sequence characterized from seven RVCV isolates showed considerable genetic variation. The data provide the first molecular biological evidence for the presence of RYNV in Finland. RYNV was not revealed in virus indexing by indicator plants, which suggests that it may be endogenously present in some raspberry cultivars. In addition, a putative new RYNV-like badnavirus was detected in Rubus spp. Blackcurrant reversion virus (BRV) and gooseberry vein banding associated virus (GVBaV) were detected in symptomatic Ribes plants grown in the field. Results were consistent with those obtained using PCR or reverse transcription PCR and suggest that the current virus indexing methods of pre-basic mother plants work as expected. Furthermore, many new viruses were identified in the collections of plant genetic resources not previously tested for viruses. In the future, siRNA-based diagnostics could be a useful supplement for the currently used virus detection methods in certified plant production and thus rationalize and simplify the current testing system. [ABSTRACT FROM AUTHOR]
    • Abstract:
      Copyright of PLoS ONE is the property of Public Library of Science and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
    • Author Affiliations:
      1University of Helsinki, Department of Agricultural Sciences, Helsinki, Finland
      2Natural Resources Institute Finland (Luke), Jokioinen, Finland
      3Natural Resources Institute Finland (Luke), Jyväskylä, Finland
    • Full Text Word Count:
      9924
    • ISSN:
      1932-6203
    • Accession Number:
      10.1371/journal.pone.0220621
    • Accession Number:
      137936547
  • Citations
    • ABNT:
      RAJAMÄKI, M.-L. et al. Small-RNA analysis of pre-basic mother plants and conserved accessions of plant genetic resources for the presence of viruses. PLoS ONE, [s. l.], v. 14, n. 8, p. 1–21, 2019. Disponível em: . Acesso em: 17 nov. 2019.
    • AMA:
      Rajamäki M-L, Lemmetty A, Laamanen J, et al. Small-RNA analysis of pre-basic mother plants and conserved accessions of plant genetic resources for the presence of viruses. PLoS ONE. 2019;14(8):1-21. doi:10.1371/journal.pone.0220621.
    • APA:
      Rajamäki, M.-L., Lemmetty, A., Laamanen, J., Roininen, E., Vishwakarma, A., Streng, J., … Valkonen, J. P. T. (2019). Small-RNA analysis of pre-basic mother plants and conserved accessions of plant genetic resources for the presence of viruses. PLoS ONE, 14(8), 1–21. https://doi.org/10.1371/journal.pone.0220621
    • Chicago/Turabian: Author-Date:
      Rajamäki, Minna-Liisa, Anne Lemmetty, Jaana Laamanen, Elina Roininen, Archana Vishwakarma, Janne Streng, Satu Latvala, and Jari P. T. Valkonen. 2019. “Small-RNA Analysis of Pre-Basic Mother Plants and Conserved Accessions of Plant Genetic Resources for the Presence of Viruses.” PLoS ONE 14 (8): 1–21. doi:10.1371/journal.pone.0220621.
    • Harvard:
      Rajamäki, M.-L. et al. (2019) ‘Small-RNA analysis of pre-basic mother plants and conserved accessions of plant genetic resources for the presence of viruses’, PLoS ONE, 14(8), pp. 1–21. doi: 10.1371/journal.pone.0220621.
    • Harvard: Australian:
      Rajamäki, M-L, Lemmetty, A, Laamanen, J, Roininen, E, Vishwakarma, A, Streng, J, Latvala, S & Valkonen, JPT 2019, ‘Small-RNA analysis of pre-basic mother plants and conserved accessions of plant genetic resources for the presence of viruses’, PLoS ONE, vol. 14, no. 8, pp. 1–21, viewed 17 November 2019, .
    • MLA:
      Rajamäki, Minna-Liisa, et al. “Small-RNA Analysis of Pre-Basic Mother Plants and Conserved Accessions of Plant Genetic Resources for the Presence of Viruses.” PLoS ONE, vol. 14, no. 8, Aug. 2019, pp. 1–21. EBSCOhost, doi:10.1371/journal.pone.0220621.
    • Chicago/Turabian: Humanities:
      Rajamäki, Minna-Liisa, Anne Lemmetty, Jaana Laamanen, Elina Roininen, Archana Vishwakarma, Janne Streng, Satu Latvala, and Jari P. T. Valkonen. “Small-RNA Analysis of Pre-Basic Mother Plants and Conserved Accessions of Plant Genetic Resources for the Presence of Viruses.” PLoS ONE 14, no. 8 (August 7, 2019): 1–21. doi:10.1371/journal.pone.0220621.
    • Vancouver/ICMJE:
      Rajamäki M-L, Lemmetty A, Laamanen J, Roininen E, Vishwakarma A, Streng J, et al. Small-RNA analysis of pre-basic mother plants and conserved accessions of plant genetic resources for the presence of viruses. PLoS ONE [Internet]. 2019 Aug 7 [cited 2019 Nov 17];14(8):1–21. Available from: http://search.ebscohost.com/login.aspx?direct=true&site=eds-live&db=asn&AN=137936547&custid=s8280428