Genome-Wide Analysis of Differentially Expressed Genes During the Early Stages of Tomato Infection by a Potyvirus

Abstract

Plant responses against pathogens cause up- and downward shifts in gene expression. To identify differentially expressed genes in a plant-virus interaction, susceptible tomato plants were inoculated with the potyvirus Pepper yellow mosaic virus (PepYMV) and a subtractive library was constructed from inoculated leaves at 72 h after inoculation. Several genes were identified as upregulated, including genes involved in plant defense responses (e.g., pathogenesis-related protein 5), regulation of the cell cycle (e.g., cytokinin-repressed proteins), signal transduction (e.g., CAX-interacting protein 4, SNF1 kinase), transcriptional regulators (e.g., WRKY and SCARECROW transcription factors), stress response proteins (e.g., Hsp90, DNA-J, 20S proteasome alpha subunit B, translationally controlled tumor protein), ubiquitins (e.g., polyubiquitin, ubiquitin activating enzyme 2), among others. Downregulated genes were also identified, which likewise display identity with genes involved in several metabolic pathways. Differential expression of selected genes was validated by macroarray analysis and quantitative real-time polymerase chain reaction. The possible roles played by some of these genes in the viral infection cycle are discussed.

Sequences and transcriptional analysis ofCoffea arabicavar. Caturra andCoffea libericaplant responses to coffee berry borerHypothenemus hampei(Coleoptera: Curculionidae: Scolytinae) attack

“…Among the proteins that the literature reports to respond to general metabolism were found: a CR9 protein involved in plant growth and development by regulating cell cycle (Alfenas-Zerbini et al 2009), a succinate dehydrogenase related to mitochondrial respiration (Millar et al 2004) and cytochrome B5 implicated in sugar transportation interviewing with flowering and fruit development (Fan et al 2009).…”

Tomato WRKY transcriptional factor SlDRW1 is required for disease resistance against Botrytis cinerea and tolerance to oxidative stress

“…Overexpression of a tomato WRKY gene in transgenic tobacco plants resulted in increased expression of defense genes and improved abiotic stress tolerance [57]. Furthermore, some tomato WRKY genes were found to show differential expression patterns after infection with viral, bacterial and fungal pathogens [55,[58][59][60] or treatment with pathogen-derived elicitors [61]. However, the biological functions for the majority of the tomato WRKYs are not clear yet.…”

Use of RNA-seq data to identify and validate RT-qPCR reference genes for studying the tomato-Pseudomonas pathosystem

“…For example, there are now reference genes available for tomato fruit development31, tomato seeds under different conditions32 and MicroTom- Rg1 genotype fruit33. Similar studies have been conducted in tomatoes under abiotic stresses34 and biotic interactions, such as host responses to viruses353637 and Xanthomonas campestris pv. vesicatoria (Xcv )38.…”