Journal: Nature Communications
Article Title: Qualitative differences in disease-associated MEK mutants reveal molecular signatures and aberrant signaling-crosstalk in cancer
doi: 10.1038/s41467-022-31690-w
Figure Lengend Snippet: a Transcriptome analyses of HEK293 cells stably expressing HA-MEK1 WT, F53S, or K57N. Genes differentially expressed between WT and F53S (left), WT and K57N (middle), and F53S and K57 (right) are displayed as volcano plots ( x -axis: fold-change [log2], y -axis: p -value [-log10]). Red area, log 2 FC > 1 and p < 0.05 ( n = 3); blue area, log 2 FC < −1 and p < 0.05 ( n = 3). b Venn diagrams illustrating the number of genes significantly upregulated (>2-fold; left) and downregulated (<0.5-fold; right) in F53S and K57N cells vs. WT cells. c Principal component analysis of the gene expression profiles of WT, F53S, and K57N cells. d KEGG pathway enrichment analyses of genes upregulated in F53S and K57N cells vs. WT cells. e Gene sets enriched analysis. The indicated gene signatures were significantly enriched in K57N cells compared with F53S cells. f Five distinct patterns of gene expression relative to the degree of aberrant ERK activity in F53S and K57N cells. (Upper) Schematic representations of the gene expression patterns. (Lower) qRT-PCR analysis of the expression level of a representative gene in each group. Data are mean ± SEM from three independent experiments. P -values were determined using one-way ANOVA followed by Tukey’s multiple comparisons test. ns, not significant. g Immunoblot analysis of representative secreted proteins of the sigmoidal-B group (TFPI2 and GDF15) and the bell-shaped group (COL14A1) in cell culture supernatants from the indicated cells. Source data are provided as a Source Data file.
Article Snippet: The following primary antibodies were used: Monoclonal anti-HA F-7 (Santa Cruz Biotechnology, sc-7392), anti-GST B-14 (sc-138), anti–Myc 9E10 (sc-40), anti-TFPI2 B-7 (sc-48380), anti-MEK1 H-8 (sc-6250), anti-HA 16B12 (Covance, MMS-101R), anti-HA 3F10 (Roche, 11867423001), anti-Flag M2 (Sigma–Aldrich, F1804), anti-phospho-Raf-1 56A6 (Cell Signaling Technology, 9427), anti-phospho-MEK1/2 41G9 (9154), anti-phospho-AKT1(T308) 244F9 (4056), anti-phospho-AKT1(S473) D9E (4060), anti-phospho-S6 D57.2.2E (4858), anti-S6 5G10 (2217), anti-MEK2 13E3 (9147), anti-GDF15 D2A3 (8479), anti-PHLDA1 EPR6674 (Abcam, ab133654), anti-PHLDA2 (ab58379), Anti-β-Actin 6D1 (FUJIFILM Wako, 010-27841); polyclonal anti-ERK (Santa Cruz Biotechnology, sc-94), anti-C-Raf-1 (sc-227), anti-B-Raf (sc-166), anti-phospho-ERK1/2 (Cell Signaling Technology, 9101), anti-AKT (9272), anti-cleaved caspase3 (9661), anti-PARP (9542), anti-COL14A1 (Abcam, ab101464), anti-TM4SF1 (ab113504), anti-PHLDA2 (Proteintech, 14661-1-AP), anti-TM4SF19 (Sigma-Aldrich, SAB1102826), anti-EMP1 (SAB1302714).
Techniques: Stable Transfection, Expressing, Activity Assay, Quantitative RT-PCR, Western Blot, Cell Culture