Molecular characterization of Prunus necrotic ringspot virus isolated from rose in Brazil

Fajardo, T. V. M.; Nascimento, Monique Bezerra; Eiras, Marcelo; Nickel, Osmar; Pio-Ribeiro, Gilvan

doi:10.1590/0103-8478cr20141810

Cited by 4 publications

(3 citation statements)

References 8 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…It provides evidence for two distinct PNRSV phylo-groupings for each of RNA1 and RNA2, which were observed for similar gene regions of RNA1 and RNA2 of the Bromoviridae family members Alfalfa mosaic virus (AMV) and Cucumber mosaic virus (CMV; genus Cucumovirus ) [ 52 , 53 ]. Phylogenetic analysis of CP sequence variants from the 53 plant samples diverged into the three already defined PNRSV RNA3 phylo-groups [ 26 , 27 , 30 , 32 ], even though a smaller portion of the genome was used. The phylogenetic groups identified for RNA1, RNA2 and RNA3 of PNRSV in the 53 plant samples were further confirmed by pairwise sequence identity comparison of sequence variants within each PNRSV amplicon which had a ≥ 97% sequence identity.…”

Section: Discussionmentioning

confidence: 99%

“…PNRSV has been traditionally grouped into three serotypes [ 28 ] that have more recently been confirmed based on phylogenetic analysis of PNRSV RNA3 CP sequences [ 29 , 30 ]. These three PNRSV phylo-groups (PV32, PV96 and PE5) are based on RNA3 CP and are currently widely used for PNRSV isolate speciation [ 10 , 31 , 32 ]. However, these phylo-groups are only based on consensus sequences derived from cloning and/or direct Sanger sequencing of PNRSV isolates.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Analysis of intra-host genetic diversity of Prunus necrotic ringspot virus (PNRSV) using amplicon next generation sequencing

et al. 2017

View full text Add to dashboard Cite

PCR amplicon next generation sequencing (NGS) analysis offers a broadly applicable and targeted approach to detect populations of both high- or low-frequency virus variants in one or more plant samples. In this study, amplicon NGS was used to explore the diversity of the tripartite genome virus, Prunus necrotic ringspot virus (PNRSV) from 53 PNRSV-infected trees using amplicons from conserved gene regions of each of PNRSV RNA1, RNA2 and RNA3. Sequencing of the amplicons from 53 PNRSV-infected trees revealed differing levels of polymorphism across the three different components of the PNRSV genome with a total number of 5040, 2083 and 5486 sequence variants observed for RNA1, RNA2 and RNA3 respectively. The RNA2 had the lowest diversity of sequences compared to RNA1 and RNA3, reflecting the lack of flexibility tolerated by the replicase gene that is encoded by this RNA component. Distinct PNRSV phylo-groups, consisting of closely related clusters of sequence variants, were observed in each of PNRSV RNA1, RNA2 and RNA3. Most plant samples had a single phylo-group for each RNA component. Haplotype network analysis showed that smaller clusters of PNRSV sequence variants were genetically connected to the largest sequence variant cluster within a phylo-group of each RNA component. Some plant samples had sequence variants occurring in multiple PNRSV phylo-groups in at least one of each RNA and these phylo-groups formed distinct clades that represent PNRSV genetic strains. Variants within the same phylo-group of each Prunus plant sample had ≥97% similarity and phylo-groups within a Prunus plant sample and between samples had less ≤97% similarity. Based on the analysis of diversity, a definition of a PNRSV genetic strain was proposed. The proposed definition was applied to determine the number of PNRSV genetic strains in each of the plant samples and the complexity in defining genetic strains in multipartite genome viruses was explored.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Analysis of intra-host genetic diversity of Prunus necrotic ringspot virus (PNRSV) using amplicon next generation sequencing

et al. 2017

View full text Add to dashboard Cite

show abstract

“…The main exported flower from Colombia is the rose which totals 365 million USD, and 70% of its cut roses are exported to the USA (PMA, 2015). Global studies have reported the following viruses to infect rose: Prunus necrotic ringspot virus (PNRSV) (Fajardo et al, 2015), Apple mosaic virus (ApMV) (Sertkaya, 2010;Abtahi, 2015), Arabis mosaic virus (ArMV) (Abtahi, 2015), Tobacco ringspot virus (TRSV) (McDaniel et al, 1971), Tomato ringspot virus (ToRSV) (Halliwell and Milbrath, 1962), Raspberry ringspot virus (RRSV) (Von Bargen et al, 2015), Rose yellow leaf virus (RYLV) (Mollov et al, 2014), and Rose rosette virus (RRV) (Laney et al, 2011).…”

Section: Introductionmentioning

confidence: 99%

Preliminary evaluation of associated viruses in production systems of cape gooseberry, purple passion fruit, and rose

Cutler

Langer

Bargen

et al. 2018

Rev. Colomb. Cienc. Hortic.

View full text Add to dashboard Cite

Plant viruses may pose a threat to crops in Colombia. To evaluate the potential risk of yield losses due to plant virus infection, a literature analysis followed by a first field study was carried out focusing on purple passion fruit (Passiflora edulis Sims), cape gooseberry (Physalis peruviana L.), and ornamental rose (Rosa sp.), which are important Colombian exports. Over the past three years, plant material was collected from 21 farms in Cundinamarca and Boyacá, Colombia, two regions that are in close proximity to El Dorado International Airport, the country’s largest air freight terminal. Plants were visually inspected and subsequently tested by bioassay and serological methods. Overall, in the samples investigated by the two diagnostic methods, plant viruses were detected. Detected viruses belong to the genus Poty-, Tobamo-, Nepo-, Ilar-, and Tospovirus. The extent of the distribution and occurrence of these viruses in each crop has to be determined in a representative field study. Such a monitoring program could be supported by a standardized farmer interview. The development of suitable plant virus diagnostic and managements tools is the focus of a cooperation project between German and Colombian universities, the Colombian Agricultural Institute (ICA), the Colombian Corporation of Agricultural Investigation (AGROSAVIA) and the International Center for Tropical Agriculture (CIAT).

show abstract

Prunus necrotic ringspot virus in Turkey: an immigrant population

et al. 2022

View full text Add to dashboard Cite

Molecular characterization of Prunus necrotic ringspot virus isolated from rose in Brazil

Cited by 4 publications

References 8 publications

Analysis of intra-host genetic diversity of Prunus necrotic ringspot virus (PNRSV) using amplicon next generation sequencing

Analysis of intra-host genetic diversity of Prunus necrotic ringspot virus (PNRSV) using amplicon next generation sequencing

Preliminary evaluation of associated viruses in production systems of cape gooseberry, purple passion fruit, and rose

Prunus necrotic ringspot virus in Turkey: an immigrant population

Contact Info

Product

Resources

About