Project description:Lariat RNAs, generated as by-products of RNA splicing from excised introns, must be removed. RNA debranching enzyme (DBR1) is the core factor responsible for lariat RNA removal. However, the mechanism by which DBR1 debranches lariat RNAs remains unclear. Here, we demonstrate that six ALBA (Acetylation Lowers Binding Affinity) proteins interact with DBR1 to enhance its debranching activity and facilitate DBR1's accessibility to lariat RNAs, thereby promoting lariat RNA turnover. Similar to dbr1, alba mutants exhibit pleiotropic developmental defects and accumulate lariat RNAs. ALBAs bind to lariat RNAs via their C-terminal RGG/RG-rich repeats and assist DBR1 in binding to these RNAs. The N-terminal ALBA domain mediates the interaction with DBR1 and enhances its enzymatic activity. Cold stress induces lariat RNA accumulation by attenuating the ALBA–DBR1 interaction, which in turn reduces the induction of cold-responsive genes by impairing their transcription. Together, these findings uncover that lariat RNA turnover requires ALBA proteins.
Project description:Here we applied a novel approach to isolate nuclei from complex plant tissues (https://doi.org/10.1371/journal.pone.0251149), to dissect the transcriptome profiling of the hybrid poplar (Populus tremula × alba) vegetative shoot apex at single-cell resolution.
Project description:In this study, M. alba cell suspension culture established after young stems were treated with elicitors methyl-beta-cyclodextrin combined with methyl jasmonate at 50mM and 0.1mM concentration, respectively. Elicited and control cell cultures were sampled at 0, 6, 12, 24, 48 and 72 hours and used for stilbene analysis in both the extracellular and intracellular medium, and for RNA and protein extraction. RNAseq and label-free proteomic analysis was then performed. All time point series were used for transcriptomic and 24, 48 and 72 hours time points the proteomic analysis. Transcriptomic data were used to reannotate the genome draft published by (Jiao et al. (2020), Molecular Plant, 13(7), 1001-1012) and to update the M. alba transcript and peptide database. MS-based protein identification greatly benefit from the reannotated database. A multiomics analysis was performed to search for candidates of stilbene biosynthesis in M. alba.
