Molecular characterization and detection of recombinant isolates of potato virus Y from China

Hu, Xinxi; He, Changzheng; Xiao, Yao; Xiong, Xingyao; Nie, Xianzhou

doi:10.1007/s00705-009-0448-z

Cited by 40 publications

(42 citation statements)

References 32 publications

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“…Crossovers at the CP ORF and 3 UTR sequences were detected in Potato virus Y (PVY), Bean common mosaic virus (BCMV), Sweet potato feathery mottle virus (SPFMV), Yam mosaic virus (YMV), Bean yellow mosaic virus (BYMV), Zucchini yellow mosaic virus (ZYMV), and Plum pox virus (PPV) (12,18,61,113,142,148). These frequent recombinational footprints indicate the importance of the process in shaping the fitness of Potyviridae populations.…”

Section: Recombination In Natural Infectionsmentioning

confidence: 97%

RNA-RNA Recombination in Plant Virus Replication and Evolution

Sztuba-Solińska

Urbanowicz

Figlerowicz

et al. 2011

Annu. Rev. Phytopathol.

150

110

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RNA-RNA recombination is one of the strongest forces shaping the genomes of plant RNA viruses. The detection of recombination is a challenging task that prompted the development of both in vitro and in vivo experimental systems. In the divided genome of Brome mosaic virus system, both inter- and intrasegmental crossovers are described. Other systems utilize satellite or defective interfering RNAs (DI-RNAs) of Turnip crinkle virus, Tomato bushy stunt virus, Cucumber necrosis virus, and Potato virus X. These assays identified the mechanistic details of the recombination process, revealing the role of RNA structure and proteins in the replicase-mediated copy-choice mechanism. In copy choice, the polymerase and the nascent RNA chain from which it is synthesized switch from one RNA template to another. RNA recombination was found to mediate the rearrangement of viral genes, the repair of deleterious mutations, and the acquisition of nonself sequences influencing the phylogenetics of viral taxa. The evidence for recombination, not only between related viruses but also among distantly related viruses, and even with host RNAs, suggests that plant viruses unabashedly test recombination with any genetic material at hand.

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Section: Recombination In Natural Infectionsmentioning

confidence: 97%

RNA-RNA Recombination in Plant Virus Replication and Evolution

Sztuba-Solińska

Urbanowicz

Figlerowicz

et al. 2011

Annu. Rev. Phytopathol.

150

110

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“…Evolvability in viruses is aided by high genetic diversity in the pathogen. In the case of PVY, genetic diversity of the virus is facilitated by its ability to develop recombinant strains (Hu et al 2009;Sztuba-Solinska et al 2011).…”

Section: Complexity and Changeabilitymentioning

confidence: 98%

Potential and Limitations of Plant Virus Epidemiology: Lessons from the Potato virus Y Pathosystem

Döring

2011

Potato Res.

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Plant virus epidemiology provides powerful tools to investigate key factors that contribute to virus epidemics in agricultural crops. When successful, epidemiological approaches help to guide decisions regarding plant protection strategies. A recent example is epidemiological research on Potato virus Y (PVY) in Finnish seed potato production; this study led to the identification of the main PVY vector species and helped to determine the timing of virus transmission. However, pathosystems rarely allow research to produce such clear-cut results. In fact, the notorious complexity of plant virus pathosystems, with multiple interactions between virus, vector, plant and environment, makes them often impenetrable even for advanced epidemiological models. This dynamic complexity questions the universal validity of employing epidemiological models that attempt to single out key factors in plant virus epidemics. Therefore, a complementary approach is needed that acknowledges the partly indeterministic nature of complex and evolving pathosystems. Such an approach is the use of diversity, employing functionally complementary elements that can jointly buffer against environmental changes. I argue that for a wider range of plant production problems, the strategy of combining mechanistic and diversity-based approaches will provide potent and sustainable solutions. In addition, to translate insights from plant virus epidemiology into practice, improvements need to be made in knowledge transfer, both within the scientific community and between researchers and practitioners. Finally, moving towards more appropriate virus control strategies is only possible if economic interests of stakeholders are in line with changing current practices.

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“…Potato virus Y (PVY) is one of the most important viruses affecting potato crops worldwide, and the wide-spread occurrence of PVY on potatoes has been reported from different parts of the world (Gray et al 2010;Hu et al 2009;Lorenzen et al 2006;Singh et al 2008). It can cause significant loss in yield and quality of tubers when either present alone or in combination with other potato viruses (Singh 1999).…”

Section: Introductionmentioning

confidence: 99%

Optimization of a Real-Time RT-PCR Assay and its Comparison with ELISA, Conventional RT-PCR and the Grow-out Test for Large Scale Diagnosis of Potato virus Y in Dormant Potato Tubers

Singh

Fageria

et al. 2012

Am. J. Potato Res.

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A TaqMan real-time reverse transcription-PCR (real-time RT-PCR) procedure was developed, optimized, and compared with other routine methods to detect Potato virus Y (PVY) in dormant potato tubers. Three pairs of primers and probes were designed and evaluated for their suitability to facilitate the real-time RT-PCR detection of PVY for all strain groups including PVY O , PVY N , PVY N: O (0 PVY N-Wi ) and PVY NTN . Among the primer and probe combinations tested, the combination PVY-1 produced the lowest threshold cycle (Ct) value of 25.75. The procedure was further optimized by adjusting various parameters including primer/probe concentration, reaction volume, amplification cycles, and master mixes from different sources. The real-time RT-PCR was then employed to detect PVY from dormant tubers of different cultivars and potato fields, and the results were compared with those obtained from conventional RT-PCR, enzyme-linked immunosorbent assay (ELISA) on sprouts and grow-out testing. Out of 1,069 single-virus infected (PVY only) tubers tested, both formats of RT-PCR detected PVY in 52 samples, ELISA on sprouts in 45, ELISA on leaves in 54 and visual observations in 53. However, in 61 multiple-virus infected tubers tested, both formats of RT-PCR, and ELISA on both sprouts and leaves detected a similar number of positives, thus, making all the methods equally sensitive. Considering that ELISA requires sprouting of dormant potato tubers for PVY testing, growout testing takes approximately 6-8 weeks to obtain results, and conventional RT-PCR needs post-PCR processing, realtime RT-PCR offers a speedy alternative for large scale detection of PVY from dormant tubers. The method is therefore recommended for testing of PVY in potato tubers on a commercial scale in a diagnostic laboratory.Resumen Se desarrolló y optimizó un procedimiento de transcripción reversa de tiempo real de TaqMan (RT-PCR de tiempo real), y se comparó con otros métodos rutinarios para detectar al virus Y de la papa (PVY) en tubérculos de papa en dormancia. Se designaron tres pares de iniciadores y sondas y se evaluaron para su conveniencia para facilitar la detección de PVY por RT-PCR de tiempo real para todos los grupos de variantes, incluyendo PVY O , PVY N , PVY N:O (0PVY N-Wi ) y PVY NTN . Entre las combinaciones probadas de iniciadores y sondas, la combinación de PVY-1 produjo el valor del ciclo del umbral más bajo (Ct) con 25.75. El procedimiento se optimizó mas adelante mediante el ajuste de varios parámetros, incluyendo la concentración iniciador/ sonda, volumen de reacción, ciclos de amplificación, y muestras maestras de diferentes fuentes. Se empleó posteriormente el RT-PCR de tiempo real para detectar PVY de tubérculos en dormancia de diferentes variedades y campos de papa, y se compararon los resultados con los obtenidos por la RT-PCR convencional, la serología con enzimas conjugadas (ELISA), en pruebas de brotes y en crecimiento. De 1069 tubérculos probados infectados con un solo virus (PVY solamente), ambos formatos de RT-PCR detectaron P...

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Molecular characterization and detection of recombinant isolates of potato virus Y from China

Cited by 40 publications

References 32 publications

RNA-RNA Recombination in Plant Virus Replication and Evolution

RNA-RNA Recombination in Plant Virus Replication and Evolution

Potential and Limitations of Plant Virus Epidemiology: Lessons from the Potato virus Y Pathosystem

Optimization of a Real-Time RT-PCR Assay and its Comparison with ELISA, Conventional RT-PCR and the Grow-out Test for Large Scale Diagnosis of Potato virus Y in Dormant Potato Tubers

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