Fig. 2: Differential proteome and transcriptome analysis in Mesotaenium and Zygnema.
From: Systems acclimation to osmotic stress in zygnematophyte cells
a Principal component analysis (PCA) plots of log2-transformed label-free quantification (LFQ) values from the proteomics dataset and transcripts per million (TPM) values from the RNA-seq dataset. b Log2 fold changes in protein abundance for the 0.8 M mannitol treatment relative to the control, plotted against those for the 0.15 M NaCl treatment relative to the control. The proteins in bold are: AKR = NADPH-dependent Aldo-Keto Reductase, EXL = Exordium-like protein, FAS1 = protein with at least one Fasciclin-like 1 domain, SVR3 = putative chloroplast TypA translation elongation GTPase, XTH = Xyloglucan endotransglucosylase/hydrolase. The full names of the proteins can be found in supplementary data 2. Log(P values) are based on multiple sample test ANOVA with a permutation-based FDR set to 0.05 and S0 set to 0.15. c Log2 fold changes in transcript abundance for the 0.8 M mannitol treatment relative to the control, plotted against those for the 0.15 M NaCl treatment relative to the control. Log(P-values) are based on scipy.stats multiple sample test with Benjamini-Hochberg FDR correction, independent samples, and an alpha set to 0.01.
