Differential expression (DE) analysis
From the transcriptome assembly, 17,908 transcripts were functionally
annotated and subjected to DE analysis. As the principle component
analysis showed that the majority of variation (57.9%, PC1) comprised a
stress response (Fig. 1), DE analysis was designed for pairwise
comparisons of S43/S35 and S46/S35, aiming to identify transcriptomic
responses induced specific to the hyperosmotic treatment. In the DE
analysis, 3,553 DEGs were identified at 12 h (S43/S35), with 1,936
showing upregulation and 1,617 showing downregulation. While at 24 h
(S46/S35), a total of 6,618 DEGs were identified, with 2,927 and 3,691
showing upregulation and downregulation, respectively.