Complete genome sequence of a novel potato virus S strain infecting Solanum phureja in Colombia

Gutiérrez, Pablo; Alzate, Juan F.; Marín-Montoya, Mauricio

doi:10.1007/s00705-013-1730-7

Cited by 23 publications

(12 citation statements)

References 13 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…These are crops from such diverse species that it is likely many wild hosts may also be infected constituting a continual environmental reservoir for these viruses present in the absence of cultivated plant hosts. In addition, the viruses commonly found in other parts of the world often show much higher level of variability in the Andean region (Gil et al 2016a, b;Kalyandurg et al 2017;Santillan et al 2018;Gutierrez et al 2013;Gibbs et al 2017;Henao-Díaz et al 2013).…”

Section: Viruses In the Andean Regionmentioning

confidence: 99%

Viral Diseases in Potato

et al. 2020

View full text Add to dashboard Cite

Viruses are among the most significant biotic constraints in potato production. In the century since the discovery of the first potato viruses we have learned more and more about these pathogens, and this has accelerated over the last decade with the advent of high-throughput sequencing in the study of plant virology. Most reviews of potato viruses have focused on temperate potato production systems of Europe and North America. However, potato production is rapidly expanding in tropical and subtropical agro-ecologies of the world in Asia and Africa, which present a unique set of problems for the crop and affect the way viruses can be managed. In this chapter we review the latest discoveries in potato virology as well as the changes in virus populations that have occurred over the last 50 years, with a particular focus on countries in the (sub-)tropics. We also review the different management approaches including use of resistance, seed systems, and cultural approaches that have been employed in different countries and reflect on what can be learnt from past research on potato viruses, and what can be expected in the future facing climate change.

show abstract

Section: Viruses In the Andean Regionmentioning

confidence: 99%

Viral Diseases in Potato

et al. 2020

View full text Add to dashboard Cite

show abstract

“…It was later shown to be an isolate of PVS-A (Kobayashi et al, 1985). Similarly, Gutierrez et al (2013) reported a novel PVS isolate (PVS-RVC) in S. phureja, a tuber-forming Solanum species grown in the Andes region. Vallejo et al (2016) reported a related PVS isolate in the same host.…”

Section: Intraspecific Diversitymentioning

confidence: 94%

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

Bragard¹,

Dehnen‐Schmutz²,

Gonthier³

et al. 2020

EFS2

View full text Add to dashboard Cite

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.

show abstract

“…La situación encontrada para la detección del virus PVS fue contraria a lo antes expuesto, pues el virus se encontró mediante ELISA en el 80,5 % de las muestras y tan sólo en el 25 % de éstas, cuando se utilizó RT-qPCR. Dicha diferencia, indica la necesidad de diseñar nuevos cebadores que cubran toda la variabilidad genética que presenta PVS en los Andes colombianos y que ha sido claramente demostrada en estudios filogenéticos recientes (Gutiérrez et al, 2012;Gutiérrez et al, 2013;Santillan et al, 2018), en donde se han encontrado al menos tres linajes diferentes para este virus: PVS A , PVS O y PVS P ; este último hasta ahora solo encontrado en Antioquia (Colombia) y denominado PVS P haciendo referencia a su detección inicial en papa criolla (S. phureja) (Vallejo et al, 2016). Ya que las secuencias de este linaje sirvieron de base para el diseño de los cebadores PVS_gen_F y qPVS_gen_R utilizados en el presente trabajo, es posible inferir que dichos cebadores presentan desajustes (mismatches) con respecto a sus regiones de unión en algunos genotipos de este virus que se encuentran infectando las muestras evaluadas; mientras que los anticuerpos empleados en las pruebas de ELISA cubren un rango mayor de variación, dada su unión con regiones muy conservadas de la proteína de la cápside de este virus.…”

Section: Figuraunclassified

Coinfección natural de virus de ARN en cultivos de papa (<i>Solanum tuberosum</i> subsp. Andigena) en Antioquia (Colombia)

García¹,

Mejia

Donaire

et al. 2019

Acta biol. Colomb.

View full text Add to dashboard Cite

Citation/Citar este artículo como: Gallo Y, Sierra A, Donaire L, Aranda M, Gutiérrez PA, Marín M. Coinfección natural de virus de ARN en cultivos de papa (Solanum tuberosum subsp. Andigena) en Antioquia (Colombia). Acta biol. Colomb. 2019;24(3):546-560. DOI: http://dx.doi.org/10.15446/abc. v24n3.79277 RESUMENLas enfermedades virales son uno de los principales problemas fitopatológicos de la papa. Con el fin de determinar los virus más prevalentes en cultivos de papa var. Diacol Capiro en el oriente Antioqueño (Colombia), se evaluó mediante RT-qPCR la presencia de diez virus de ARN (PVY, PVA, PVV, TaLMV, PVS, PLRV, PYVV, PVX, ToRSV y PMTV) en 36 muestras de tejido foliar. Los resultados indicaron la ocurrencia de cinco de los diez virus evaluados, con niveles de prevalencia de 88,9 %, 75 %, 75 %, 41,7 % y 25 % para PVY, PVX, PYVV, PLRV y PVS, respectivamente. Con fines comparativos, cuatro virus también se evaluaron mediante ELISA, siendo detectados PVS (80,5 %), PVY (55 %) y PLRV (5,5 %); mientras que PVX no fue encontrado con esta prueba. La comparación de estas técnicas mediante la razón de prevalencia (RP), indicó que la RT-qPCR ofrece niveles superiores de detección con valores de RP = 1,6 y RP = 7,5 para los virus PVY y PLRV; mientras que para PVS la ELISA detectó más muestras positivas que RT-qPCR (RP = 3,22), evidenciándose la necesidad de diseñar nuevos cebadores ajustados a la diversidad de este virus en Antioquia. La coinfección mixta más frecuente fue PVY-PYVV-PVX (22,2 %), mientras que los cinco virus se encontraron en el 11,1 % de las muestras. Finalmente, utilizando secuenciación Sanger de la cápside y NGS para los genomas completos, se confirmó la circulación de todos los virus detectados en los cultivos de papa del oriente Antioqueño. Estos resultados señalan la necesidad de fortalecer los programas de manejo integrado de enfermedades virales en Antioquia.Palabras clave: ELISA, RT-qPCR, Secuenciación de nueva generación (NGS), Solanaceae, Virus de ARN.ABSTRACT Viral diseases are one of the main phytopathological problems affecting potato crops worldwide. To determine the most prevalent viruses in potato var. Diacol Capiro crops in Eastern Antioquia, 36 leaf samples were tested for the presence of PVY, PVA, PVV, TaLMV, PVS, PLRV, PYVV, PVX, ToRSV and PMTV using RT-qPCR. Detected viruses included PVY, PVX, PYVV, PLRV and PVS with prevalence levels of 88.9 %, 75.0 %, 75.0 %, 41.7 % and 25.0 %, respectively. PVS, PVY, PLRV and PVX were also tested by ELISA. PVS, PVY and PLRV tested positive in 80.5 %, 55.0 % and 5.5 % of samples; PVX was not detected. Prevalence Ratios (PR) suggests that detection is higher for PVY (PR = 1.6) and PLRV (PR = 7.5) using RT-qPCR. ELISA worked better for PVS with a PR of 3.2; this result suggests that the RT-qPCR primers used for PVS must be adjusted to reflect the genome diversity of virus in Antioquia. The most frequent coinfection was PVY-PYVV-PVX, which occurred in 22.2 % of samples; coinfection with PVY, PVX, PYVV, PLRV and PVS was present in 11.1 % of samples. The c...

show abstract

Complete genome sequence of a novel potato virus S strain infecting Solanum phureja in Colombia

Cited by 23 publications

References 13 publications

Viral Diseases in Potato

Viral Diseases in Potato

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

Coinfección natural de virus de ARN en cultivos de papa (<i>Solanum tuberosum</i> subsp. Andigena) en Antioquia (Colombia)

Contact Info

Product

Resources

About