Multiple cellular compartments engagement in Nicotiana benthamiana-peanut stunt virus-satRNA interactions revealed by systems biology approach.
PSV infection changed the abundance of host plant's transcripts and proteins associated with various cellular compartments, including ribosomes, chloroplasts, mitochondria, the nucleus and cytosol, affecting photosynthesis, translation, transcription, and splicing. Virus infection is a process resulting in numerous molecular, cellular, and physiological changes, a wide range of which can be analyzed due to development of many high-throughput techniques. Plant RNA viruses are known to replicate in the cytoplasm; however, the roles of chloroplasts and other cellular structures in the viral replication cycle and in plant antiviral defense have been recently emphasized. Therefore, the aim of this study was to analyze the small RNAs, transcripts, proteins, and phosphoproteins affected during peanut stunt virus strain P (PSV-P)-Nicotiana benthamiana interactions with or without satellite RNA (satRNA) in the context of their cellular localization or functional connections with particular cellular compartments to elucidate the compartments most affected during pathogenesis at the early stages of infection. Moreover, the processes associated with particular cell compartments were determined. The 'omic' results were subjected to comparative data analyses. Transcriptomic and small RNA (sRNA)-seq data were obtained to provide new insights into PSV-P-satRNA-plant interactions, whereas previously obtained proteomic and phosphoproteomic data were used to broaden the analysis to terms associated with cellular compartments affected by virus infection. Based on the collected results, infection with PSV-P contributed to changes in the abundance of transcripts and proteins associated with various cellular compartments, including ribosomes, chloroplasts, mitochondria, the nucleus and the cytosol, and the most affected processes were photosynthesis, translation, transcription, and mRNA splicing. Furthermore, sRNA-seq and phosphoproteomic analyses indicated that kinase regulation resulted in decreases in phosphorylation levels. The kinases were associated with the membrane, cytoplasm, and nucleus components.
['Wrzesińska|Barbara|B|http://orcid.org/0000-0002-2142-9362', 'Zmienko|Agnieszka|A|http://orcid.org/0000-0002-9128-7996', 'Vu|Lam Dai|LD|http://orcid.org/0000-0001-5078-7532', 'De Smet|Ive|I|http://orcid.org/0000-0003-4607-8893', 'Obrępalska-Stęplowska|Aleksandra|A|http://orcid.org/0000-0002-0314-8110']
D002467:Cell Nucleus D002736:Chloroplasts D017799:Cucumovirus D003599:Cytoskeleton D003600:Cytosol D020869:Gene Expression Profiling D018506:Gene Expression Regulation, Plant D054884:Host-Pathogen Interactions D035683:MicroRNAs D009584:Nitrogen D010750:Phosphoproteins D059828:Plant Cells D010935:Plant Diseases D010940:Plant Proteins D060066:Protein Interaction Maps D019244:RNA, Satellite D049490:Systems Biology D014026:Tobacco
Virus infection Small RNAs Peanut stunt virus Phosphorylation Defense response Plant–virus interactions