Transcriptomic analysis of Nicotiana benthamiana plants infected with a plum pox virus (PPV) deletion mutant (P1Pro) that lacks the self-cleavage inhibitory domain of the P1 leader protease

Transcriptomes of wild-type Nicotiana benthamiana plants inoculated with plum pox virus (PPV) or the P1Pro clone, a PPV deletion mutant that lacks the self-cleavage inhibitory domain of the P1 leader protease; in addition, N. benthamiana nahG-expressing plants inoculated with P1Pro were analyzed to identify genes whose expression is altered by P1Pro infections but does not depend on salicylic acid signaling. Overall design: Wild-type Nicotiana benthamiana plants and the N. benthamiana nahG-expressing line were inoculated with plum pox virus (PPV) or the P1Pro clone, a PPV deletion mutant that lacks the self-cleavage inhibitory domain of the P1 leader protease. Viral clones were delivered by Agrobacterium-mediated infection, and upper uninoculated leaves were collected at 14 days post-agroinoculation. For each experimental condition, three biological replicates (each sample was a pool of = 2 infected plants) were used for transcriptomic analysis (RNA-seq).