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

PloS One
Minna-Liisa RajamäkiJari P T Valkonen

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, whic...Continue Reading

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Datasets Mentioned

BETA
ERP108051
GEN19-GEN20
and
PRJEB30660
FR687353.1
KF241951.1
MH423492
FN812699

Methods Mentioned

BETA
enzyme-linked immunosorbent assays
electrophoresis
PCR

Software Mentioned

MEGA7
Velvet
BLAST
Bowtie
Fasteris
VirusDetect
MultAlign

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