However, recent studies showed that lncRNAs can regulate not only basal transcription but also the posttranscriptional [ 20] processes, including pre-mRNA processing, splicing, transport, translation, and siRNA-directed gene regulation.
This family of proteins is involved in the regulation of post-transcriptional gene expression processes including pre-mRNA splicing, mRNA transport, mRNA stability and translation [ 47- 49].
Consistent with this observation, several studies have also suggested roles for arginine methylation in the regulation of various post-transcriptional processes, including pre-mRNA splicing (8, 9), mRNA export (10) and translation (11, 12).
The 14 differentially expressed spots represent 14 annotated proteins, which could be categorized into seven functional classes including pre-mRNA splicing, amino acid metabolism, photosynthesis, glycolysis, ROS metabolism, defense-related, and other processes (Table 1).
In addition to transcriptional regulation, TDP-43 plays multiple roles in post-transcriptional gene regulation, including pre-mRNA splicing, mRNA transport and translation (Ayala et al., 2011; Baralle et al., 2013; Lagier-Tourenne et al., 2010; Ratti and Buratti, 2016).
The presence of GO biological processes including translation and mRNA processing highlighted here agree with reports that the availability of cellular translation machinery to process mRNA and produce the proteins required to generate new biomass is at least partly responsible for variation in cellular growth rate [ 49, 50].
Sch9 then phosphorylates a number of downstream factors involved in diverse biological processes, including regulators of ribosomal transcription, mRNA export, and protein translation [ 12].
RNA helicases represent a large family of proteins implicated in many biological processes including ribosome biogenesis, splicing, translation and mRNA degradation.
An analysis of functional categories using the software DAVID [ 13, 14] revealed that these differentially spliced genes were involved in several biological processes, including responses to abiotic stimulus and RNA processing, suggesting that salt stress may impact biological processes through changing pre-mRNA splicing (Additional file 13).
Functional annotation suggested that these pre-stored mRNAs covered wide range of biological processes, including "response to external or abiotic stimulus", "transcription", "regulation of biological process", "cell communication", "development", and "metabolism", "protein synthesis", and "signalling transduction" etc.
