Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes

<p>Abstract</p> <p>Background</p> <p>The effects of viral infection involve concomitant plant gene variations and cellular changes. A simple system is required to assess the complexity of host responses to viral infection. The genome of the Rice yellow mottle virus (RYMV) is a single-stranded RNA with a simple organisation. It is the most well-known monocotyledon virus model. Several studies on its biology, structure and phylogeography have provided a suitable background for further genetic studies. 12 rice chromosome sequences are now available and provide strong support for genomic studies, particularly physical mapping and gene identification.</p> <p>Results</p> <p>The present data, obtained through the cDNA-AFLP technique, demonstrate differential responses to RYMV of two different rice cultivars, i.e. susceptible IR64 (<it>Oryza sativa indica</it>), and partially resistant Azucena (<it>O. s. japonica</it>). This RNA profiling provides a new original dataset that will enable us to gain greater insight into the RYMV/rice interaction and the specificity of the host response. Using the SIM4 subroutine, we took the intron/exon structure of the gene into account and mapped 281 RYMV stress responsive (RSR) transcripts on 12 rice chromosomes corresponding to 234 RSR genes. We also mapped previously identified deregulated proteins and genes involved in partial resistance and thus constructed the first global physical map of the RYMV/rice interaction. RSR transcripts on rice chromosomes 4 and 10 were found to be not randomly distributed. Seven genes were identified in the susceptible and partially resistant cultivars, and transcripts were colocalized for these seven genes in both cultivars. During virus infection, many concomitant plant gene expression changes may be associated with host changes caused by the infection process, general stress or defence responses. We noted that some genes (e.g. ABC transporters) were regulated throughout the kinetics of infection and differentiated susceptible and partially resistant hosts.</p> <p>Conclusion</p> <p>We enhanced the first RYMV/rice interaction map by combining information from the present study and previous studies on proteins and ESTs regulated during RYMV infection, thus providing a more comprehensive view on genes related to plant responses. This combined map provides a new tool for exploring molecular mechanisms underlying the RYMV/rice interaction.</p

A systems biology approach to the evolution of plant-virus interactions

[EN] Omic approaches to the analysis of plant-virus interactions are becoming increasingly popular. These types of data, in combination with models of interaction networks, will aid in revealing not only host components that are important for the virus life cycle, but also general patterns about the way in which different viruses manipulate host regulation of gene expression for their own benefit and possible mechanisms by which viruses evade host defenses. Here, we review studies identifying host genes regulated by viruses and discuss how these genes integrate in host regulatory and interaction networks, with a particular focus on the physical properties of these networks. © 2011 Elsevier Ltd.This work was supported by grants from the Spanish MICINN (BFU2009-06993) and Generalitat Valenciana (PROMETEO2010/019). GR is supported by a fellowship from Generalitat Valenciana (BFPI2007-160) and JC by a contract from MICINN (Grant TIN2006-12860). We thank Jose-Antonio Dares and Gustavo G. Gomez for comments.Elena Fito, SF.; Carrera, J.; Rodrigo, J. (2011). A systems biology approach to the evolution of plant-virus interactions. Current Opinion in Plant Biology. 14(4):372-377. https://doi.org/10.1016/j.pbi.2011.03.013S37237714

Génomique de l'interaction entre le riz (Oryza sativa L.) et le virus de la panachure jaune (Rice yellow mottle virus) (étude comparative de la réponse chez un cultivar sensible et un cultivar partiellement résistant)

Le RYMV (Rice yellow mottle virus) est responsable de la panachure jaune du riz, maladie affectant les rizières africaines. Oryza sativa regroupe deux groupes analogues à des sous-espèces : O. s. indica, sensible au RYMV, et O. s. japonica, plus résistant au RYMV. Notre étude concerne l'analyse des transcriptomes et protéomes de deux cultivars IR64 (O. s. indica) sensible et Azucena (O. s. japonica) partiellement résistant au RYMV. Les réponses des deux cultivars aux premiers stades de l'infection virale ont été caractérisées, mettant en évidence de nombreuses dérégulations de l'expression transcriptionnelle de gènes. Les catégories fonctionnelles telles que la photosynthèse, le métabolisme énergétique et les gènes de défense sont largement dérégulés au cours de l'infection, et des différences majeures entre les deux cultivars ont pu être identifiées.Rice Yellow Mottle Virus (RYMV) is one of the most damaging pathogens of rice (Oryza sativa) in Africa. O. sativa comprises two groups of subspecies: O. s. indica , very susceptible to RYMV infection and O. s. japonica, partially resistant. Our project concerns the study of the transcriptome and the proteome of two varieties, a RYMV susceptible one (IR64, O. s. indica) and a partially resistant one (Azucena, O. s. japonica). Our main objectives are to identify and characterize the specific responses to RYMV of the two cultivars at the early stages of infection. Transcriptionnal expression is largely disturbed. Photosynthetic genes, metabolic genes and defense related genes are deregulated during RYMV infection specifically in each cultivar.PERPIGNAN-BU Sciences (661362101) / SudocSudocFranceF

Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes - art. no. 26

Background: The effects of viral infection involve concomitant plant gene variations and cellular changes. A simple system is required to assess the complexity of host responses to viral infection. The genome of the Rice yellow mottle virus (RYMV) is a single-stranded RNA with a simple organisation. It is the most well-known monocotyledon virus model. Several studies on its biology, structure and phylogeography have provided a suitable background for further genetic studies. 12 rice chromosome sequences are now available and provide strong support for genomic studies, particularly physical mapping and gene identification. Results: The present data, obtained through the cDNA-AFLP technique, demonstrate differential responses to RYMV of two different rice cultivars, i.e. susceptible IR64 (Oryza sativa indica), and partially resistant Azucena (O.s. japonica). This RNA profiling provides a new original dataset that will enable us to gain greater insight into the RYMV/rice interaction and the specificity of the host response. Using the SIM4 subroutine, we took the intron/exon structure of the gene into account and mapped 281 RYMV stress responsive (RSR) transcripts on 12 rice chromosomes corresponding to 234 RSR genes. We also mapped previously identified deregulated proteins and genes involved in partial resistance and thus constructed the first global physical map of the RYMV/rice interaction. RSR transcripts on rice chromosomes 4 and 10 were found to be not randomly distributed. Seven genes were identified in the susceptible and partially resistant cultivars, and transcripts were colocalized for these seven genes in both cultivars. During virus infection, many concomitant plant gene expression changes may be associated with host changes caused by the infection process, general stress or defence responses. We noted that some genes (e. g. ABC transporters) were regulated throughout the kinetics of infection and differentiated susceptible and partially resistant hosts. Conclusion: We enhanced the first RYMV/rice interaction map by combining information from the present study and previous studies on proteins and ESTs regulated during RYMV infection, thus providing a more comprehensive view on genes related to plant responses. This combined map provides a new tool for exploring molecular mechanisms underlying the RYMV/ rice interaction

Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes-2

<p><b>Copyright information:</b></p><p>Taken from "Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes"</p><p>http://www.biomedcentral.com/1471-2229/8/26</p><p>BMC Plant Biology 2008;8():26-26.</p><p>Published online 3 Mar 2008</p><p>PMCID:PMC2275266.</p><p></p

This five lanes set represented amplification by one particular primer combination

Arrows represented differential bands.<p><b>Copyright information:</b></p><p>Taken from "Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes"</p><p>http://www.biomedcentral.com/1471-2229/8/26</p><p>BMC Plant Biology 2008;8():26-26.</p><p>Published online 3 Mar 2008</p><p>PMCID:PMC2275266.</p><p></p

Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes-0

were loaded with: reaction products from RNAs of IR64 infected leaves harvested at 2, 5, and 7 dpi, RNAs of Azucena infected leaves harvested at 3, 5, and 7 dpi, 1 kb ladder (Promega).<p><b>Copyright information:</b></p><p>Taken from "Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes"</p><p>http://www.biomedcentral.com/1471-2229/8/26</p><p>BMC Plant Biology 2008;8():26-26.</p><p>Published online 3 Mar 2008</p><p>PMCID:PMC2275266.</p><p></p

Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes-6

<p><b>Copyright information:</b></p><p>Taken from "Rice Yellow Mottle Virus stress responsive genes from susceptible and tolerant rice genotypes"</p><p>http://www.biomedcentral.com/1471-2229/8/26</p><p>BMC Plant Biology 2008;8():26-26.</p><p>Published online 3 Mar 2008</p><p>PMCID:PMC2275266.</p><p></p