Proteome and Ubiquitome Changes during Rose Petal Senescence

Abstract

Petal senescence involves numerous programmed changes in biological and biochemical processes. Ubiquitination plays a critical role in protein degradation, a hallmark of organ senescence. Therefore, we investigated changes in the proteome and ubiquitome of senescing rose (Rosa hybrida) petals to better understand their involvement in petal senescence. Of 3859 proteins quantified in senescing petals, 1198 were upregulated, and 726 were downregulated during senescence. We identified 2208 ubiquitinated sites, including 384 with increased ubiquitination in 298 proteins and 1035 with decreased ubiquitination in 674 proteins. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses revealed that proteins related to peptidases in proteolysis and autophagy pathways were enriched in the proteome, suggesting that protein degradation and autophagy play important roles in petal senescence. In addition, many transporter proteins accumulated in senescing petals, and several transport processes were enriched in the ubiquitome, indicating that transport of substances is associated with petal senescence and regulated by ubiquitination. Moreover, several components of the brassinosteroid (BR) biosynthesis and signaling pathways were significantly altered at the protein and ubiquitination levels, implying that BR plays an important role in petal senescence. Our data provide a comprehensive view of rose petal senescence at the posttranslational level.

Polyamines accentuate vase life by augmenting antioxidant system in cut spikes of Consolida ajacis (L.) Schur.

“…Proteolysis is recognized as key step during onset of flower senescence as reported in Rosa (Lu et al, 2019). Treatment with polyamines maintained higher concentration of soluble proteins in the tepal tissues as compared to untreated ones.…”

Comprehensive Profiling of Proteome and Ubiquitome Changes in Human Lens Epithelial Cell Line after Ultraviolet-B Irradiation

“…However, no relative research about ubiquitome has been conducted in LECs. With the rapid development of omics technologies, a growing number of studies are prone to use this high-throughput method to analyze the molecular mechanisms of different diseases. ,, In this study, we simultaneously conducted proteome and ubiquitome sequencing for the first time to explore the changes in the quality and quantity of proteins in UVB-induced oxidative damage model and offer novel insights into the molecular mechanisms of ARC.…”

Integrative analysis of transcriptome, proteome, and ubiquitome changes during rose petal abscission

“…Among the 7,026 K ub sites, 5,025 unique sites were assigned to 13 conserved motifs (Supplementary Figure 3A), which accounted for approximately 71.5% of the sites identified. Nine of these 13 motifs have been reported previously (Xie et al, 2015;Guo et al, 2017;Lu et al, 2019;Fan et al, 2021), while the other 4 motifs are novel: K ub Q, DNK ub , DNNK ub , and ENNNNNNK ub (where N indicates any amino acid). In addition, we observed that 4 distinct residues were enriched around K ub , including alanine (A), glutamate (E), aspartate (D), and glutamine (Q).…”

“…Automatic gain control was set at 5E4. MS/MS data processing and bioinformatic analysis were performed as previously described (Lu et al, 2019).…”

“…A decrease in protein levels is a hallmark of senescence and can occur through transcriptional downregulation or through post-translational protein degradation, such as proteosome-mediated degradation triggered by the ubiquitination post-translational modification ( Shahri and Tahir, 2014 ). In petunia and rose, proteome and ubiquitome analyses have demonstrated that ubiquitination participates in protein degradation during petal senescence ( Guo et al., 2017 ; Lu et al., 2019 ). Further investigation of changes in the ubiquitination profile of proteins during petal abscission could thus deepen our understanding of the molecular regulation of abscission.…”