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The effects of potato virus Y-derived virus small interfering RNAs of three biologically distinct strains on potato (Solanum tuberosum) transcriptome

September 19 2017 by INKOA
Resource image of the African potato platform

Potato virus Y (PVY) is one of the most economically important pathogen of potato that is present as biologically distinct strains. The virus-derived small interfering RNAs (vsiRNAs) from potato cv. Russet Burbank individually infected with PVY-N, PVY-NTN and PVY-O strains were recently characterized. Plant defense RNA-silencing mechanisms deployed against viruses produce vsiRNAs to degrade homologous viral transcripts. Based on sequence complementarity, the vsiRNAs can potentially degrade host RNA transcripts raising the prospect of vsiRNAs as pathogenicity determinants in virus-host interactions. This study investigated the global effects of PVY vsiRNAs on the host potato transcriptome. 

The strain-specific vsiRNAs of PVY, expressed in high copy number, were analyzed in silico for their proclivity to target potato coding and non-coding RNAs using psRobot and psRNATarget algorithms. Functional annotation of target coding transcripts was carried out to predict physiological effects of the vsiRNAs on the potato cv. Russet Burbank. The downregulation of selected target coding transcripts was further validated using qRT-PCR. Results The vsiRNAs derived from biologically distinct strains of PVY displayed diversity in terms of absolute number, copy number and hotspots for siRNAs on their respective genomes. The vsiRNAs populations were derived with a high frequency from 6 K1, P1 and Hc-Pro for PVY-N, P1, Hc-Pro and P3 for PVY-NTN, and P1, 3′ UTR and NIa for PVY-O genomic regions. The number of vsiRNAs that displayed interaction with potato coding transcripts and number of putative coding target transcripts were comparable between PVY-N and PVY-O, and were relatively higher for PVY-NTN. The most abundant target non-coding RNA transcripts for the strain specific PVY-derived vsiRNAs were found to be MIR821, 28S rRNA,18S rRNA, snoR71, tRNA-Met and U5. Functional annotation and qRT-PCR validation suggested that the vsiRNAs target genes involved in plant hormone signaling, genetic information processing, plant-pathogen interactions, plant defense and stress response processes in potato. Conclusions The findings suggested that the PVY-derived vsiRNAs could act as a pathogenicity determinant and as a counter-defense strategy to host RNA silencing in PVY-potato interactions. The broad range of host genes targeted by PVY vsiRNAs in infected potato suggests a diverse role for vsiRNAs that includes suppression of host stress responses and developmental processes. The interactome scenario is the first report on the interaction between one of the most important Potyvirus genome-derived siRNAs and the potato transcripts. Electronic supplementary material The online version of this article (doi:10.1186/s12985-017-0803-8) contains supplementary material, which is available to authorized users.


Potato Growers’ Biosecurity Manual
July 2 2018 by INKOA

In May 2018 was published Potato Growers’ Biosecurity Manual by the Industry Representative Body for vegetable and potato growers AUSVEG.
The manual is specific to the Australian situation, but all potato growers can find in it interesting information or tips.


E-Agriculture in action: Drones for agriculture
April 10 2018 by INKOA

This publication is the second in the series titled E-agriculture in action (2016), launched by FAO and ITU, and builds on the previous FAO publications that highlight the use of ICT for agriculture such as Mobile technologies for agriculture and rural development (2012), Information and communication technologies for agriculture and rural development (2013) and Success stories on information and communication technologies for agriculture and rural development (2015).

Bringing Climate Smart Agriculture to Scale:Experiences from the Water Productivity Project in East and Central Africa
March 21 2018 by INKOA

Since 2010, six research organizations in the region have implemented a regional project that sought to combat food insecurity, poverty and climate change by up-scaling Climate-Smart Agriculture (CSA) technologies across farms and landscapes using the Climate Smart Landscape (CSL) approach. Several CSA technologies were evaluated and promoted across landscapes using this approach with remarkable success.

Novel Combined Freeze-Drying and Instant Controlled Pressure Drop Drying for Restructured Carrot-Potato Chips: Optimized by Response Surface Method
March 13 2018 by INKOA

Combined freeze-drying and instant controlled pressure drop process (FD-DIC) for restructured carrot-potato chips was developed and its processing conditions were optimized using response surface methodology (RSM) with the purpose of improving the quality of products and reducing energy consumption. Three critical variables including the amount of carrot, the moisture content of the partially dried product before DIC treatment, and equilibrium temperature of DIC for the restructured chips were considered. 

Light interim evaluation of the Africa-EU Research and Innovation partnership on Food and Nutrition Security and Sustainable Agriculture
February 1 2018 by INKOA

This report presents the results of a light interim evaluation of the first 1.5 years of the Africa-EU research and innovation (R&I) partnership on Food and Nutrition Security and Sustainable Agriculture (FNSSA). The evaluation responds to a request from the April 2016 meeting of senior officials of the EU-Africa High Level Policy Dialogue (HLPD) for a report on the progress made in the FNSSA R&I partnership to the November 2017 Africa-EU Summit.

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