Complete genome sequence of the first Andean strain of potato virus S from Brazil and evidence of recombination between PVS strains

Duarte, Priscilla de Sousa Geraldino; Galvino-Costa, Suellen Bárbara Ferreira; Ribeiro, Silvia Regina Rodrigues de Paula; Figueira, Antônia dos Reis

doi:10.1007/s00705-012-1289-8

Cited by 13 publications

(6 citation statements)

References 27 publications

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“…The PVS-A/PVS-O recombinant isolate Vltava has been reported once from the Czech Republic (Matou sek et al., 2000;Salari et al, 2011;De Sousa Geraldino Duarte et al, 2012;Santillan et al, 2018). Given that there are no further reports of PVS-A/PVS-O recombinant isolates, they are considered to have at most a limited distribution in the EU.…”

Section: Pest Distribution In the Eumentioning

confidence: 99%

Pest categorisation of potato virus S (non‐EU isolates)

Bragard¹,

Dehnen‐Schmutz²,

Gonthier³

et al. 2020

EFS2

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Following a request from the EU Commission, the Panel on Plant Health has addressed the pest categorisation of non-EU isolates of potato virus S (PVS). The information currently available on geographical distribution, biology, epidemiology, potential entry pathways, potential additional impact compared to the current situation in the EU, and availability of control measures of non-EU isolates of PVS has been evaluated with regard to the criteria to qualify as potential Union quarantine pest. Because non-EU isolates of PVS are absent from the EU, they do not meet one of the requirements to be regulated as an RNQP (presence in the EU); as a consequence, the Panel decided not to evaluate the other RNQP criteria for these isolates. Populations of PVS can be subdivided into two strains: the ordinary strain (PVS-O) with a worldwide distribution (including the EU), and the Andean strain (PVS-A) which is absent from the EU or considered to have at most a limited distribution in the EU. Two additional divergent isolates (PVS-A/PVS-O recombinants and PVS-arracacha) have also been categorised. Non-EU isolates of PVS-A are expected to have an additional impact as compared to the PVS isolates currently present in the EU, and therefore meet all the criteria to qualify as potential Union quarantine pests; the magnitude of the additional impact is, however, unknown. Non-EU isolates of PVS-A/PVS-O recombinants and of PVS-arracacha also meet these criteria, with the exception of the criterion regarding the potential additional consequences in the EU territory for which the Panel was unable to conclude. Non-EU PVS-O isolates are not expected to have an additional impact in the EU as compared to EU isolates and therefore do not meet the corresponding criterion.

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Section: Pest Distribution In the Eumentioning

confidence: 99%

Pest categorisation of potato virus S (non‐EU isolates)

Bragard¹,

Dehnen‐Schmutz²,

Gonthier³

et al. 2020

EFS2

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“…A recombinant Lily symptomless virus from Korea showed recombination with isolates from other countries (India, China, and Netherlands), and this event was associated with exchange of Lilium longiflorum germplasm (Singh et al, 2008). Duarte et al (2012) detected a recombinant Potato virus S (PVS) from Czech Republic that showed parental evidence with different strains of PVS: an ordinary strain from Germany and an Indian strain from Brazil. A Cowpea mild mottle virus isolate from Brazil that infected soybean showed recombinant evidence with another isolate from the same location (Zanardo et al, 2014).…”

Section: Departmentmentioning

confidence: 99%

“…GarCLV was mentioned as one of the most frequent viruses affecting garlic crop (Van Dijk, 1993;Tsuneyoshi et al, 1998), being reported in several countries of Asia (Barg et al, 1994;Tsuneyoshi et al, 1998;Pramesh & Baranwal, 2013), Europe (Bellardi et al, 1995;Tsuneyoshi et al, 1998;Dovas et al, 2001;Dovas & Vovlas, 2003;Klukácková et al, 2007;Shahraeen et al, 2008), Oceania, North America (Pappu et al, 2005;Pérez-Moreno et al, 2007), and South America (Conci, 1997;Fajardo et al, 2001;Nieto et al, 2005). A study of GarCLV incidence conducted in Greece showed that infection rates were variable, with up to 97.6% of infected plants in the province of Arcadia (Dovas et al, 2001).…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Incidence of Garlic common latent virus in Argentina, and phylogenetic and recombination analyses of isolates

Torrico

Celli

Conci

et al. 2015

Pesq. agropec. bras.

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-The objective of this work was to estimate the incidence and prevalence of Garlic common latent virus (GarCLV) in the main production regions of garlic (Allium sativum) in Argentina, and to perform phylogenetic and recombination analyses in isolates from these regions. Leaf samples (3,050) were taken from four garlic commercial types, in 13 departments of the four main garlic-producing provinces of Argentina, in a 1,175-ha sampling area. Virus infection was evaluated with DAS-Elisa test using specific antiserum, and the phylogenetic and recombination analyses were done with capsid protein (CP) nucleotide sequence of seven GarCLV isolates from the provinces. The incidence of GarCLV in the evaluated provinces varied between 6.7 and 22% of the samples, whereas the prevalence varied between 52.6 and 70%. In the analysis of garlic commercial types, Morado showed the highest incidence of the virus, in the province of San Juan, whereas Rosado Paraguayo had the lowest incidence, in the province of Cordoba. Nucleotide identity in the CP sequences ranged between 80.3 and 97.6%. The phylogenetic analysis shows the presence of two main groups of GarCLV and of a possible third group that would include only a German isolate. The recombination analysis between isolates from different parts of the world evidences the presence of recombinant isolates from Poland and Australia.

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“…For instance, the CP gene sequence of Vltava isolate from Czech Republic groups within the PVS A clade [7], although Vltava does not systemically infect C. quinoa [8]. Recombination analysis shows that the Vltava is a recombinant between PVS O and PVS A isolates [9]. Lin et al [10] have reported that an isolate from the United States and two isolates from Chile fail to induce symptoms on the leaves of C. quinoa ; phylogenetic analysis of CP gene sequences shows that the US isolate clusters with many PVS O isolates, whereas both Chilean isolates cluster within the PVS A clade [10].…”

Section: Introductionmentioning

confidence: 99%

Construction and characterization of an infectious cDNA clone of potato virus S developed from selected populations that survived genetic bottlenecks

Hataya

2019

Virol J

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BackgroundInfectious cDNA clones are a powerful tool for studies on RNA viruses using reverse genetics. Potato virus S (PVS) is a carlavirus with a worldwide distribution. Although the complete genome sequences of many PVS isolates have been reported, the construction of an infectious cDNA clone of PVS is yet to be reported. The aim of this study is the development and molecular characterization of an infectious cDNA clone of PVS.MethodsA full-length cDNA clone pPVS-H-FL-AB was constructed by connecting eight cDNA clones of PVS isolate H95. Capped RNA transcripts from pPVS-H-FL-AB and a modified clone pPVS-H-FL-H, containing the consensus genome sequence of PVS-H95, proved to be non-infectious. Therefore, a full-length cDNA clone pPVS-H-FL-β was reconstructed from PVS-H00, isolated from PVS-H95 populations by repeating a single local lesion isolation in Chenopodium quinoa three times; PVS-H00 appeared to be a selected variant that survived genetic bottlenecks. The sequence of cDNA clone pPVS-H-FL-β was determined as the genome sequence of PVS-H00 and compared with the consensus sequence of PVS-H95 genome.ResultsAll Nicotiana occidentalis plants inoculated with ≥0.2 μg capped RNA transcripts from pPVS-H-FL-β developed symptoms on upper leaves, as observed with PVS-H00 inoculation. Similar levels of viral genomic and subgenomic RNAs and coat protein were detected in systemically infected leaves. Sequence comparison of PVS-H95 and PVS-H00 revealed 370 nucleotide polymorphisms (4.4% of the entire genome sequence), causing 91 amino acid substitutions in six open reading frames (ORFs). The infectivity of chimeric RNAs derived from recombinants between the two cDNA clones revealed that the lack of infectivity of pPVS-H-FL-H transcripts was due to ORF1, which encodes replicase and harbors 80 amino acid substitutions compared with pPVS-H-FL-β. Approximately 71.3% amino acid substitutions in replicase were located within the variable region of unknown function between the putative methyltransferase and ovarian tumor-like protease domains.ConclusionsThis is the first report of the development of an infectious cDNA clone of PVS. Our analyses suggest that PVS population within a plant exists as quasispecies and the replicase sequence diversity of PVS obstruct the construction of a full-length infectious cDNA clone.Electronic supplementary materialThe online version of this article (10.1186/s12985-019-1124-x) contains supplementary material, which is available to authorized users.

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Complete genome sequence of the first Andean strain of potato virus S from Brazil and evidence of recombination between PVS strains

Cited by 13 publications

References 27 publications

Pest categorisation of potato virus S (non‐EU isolates)

Pest categorisation of potato virus S (non‐EU isolates)

Incidence of Garlic common latent virus in Argentina, and phylogenetic and recombination analyses of isolates

Construction and characterization of an infectious cDNA clone of potato virus S developed from selected populations that survived genetic bottlenecks

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