Fig. 2: DualRP reveals that heterotypic cell interactions restore ribosome stalling and tRNA aminoacylation rates during glucose starvation. | Nature Communications

Fig. 2: DualRP reveals that heterotypic cell interactions restore ribosome stalling and tRNA aminoacylation rates during glucose starvation.

From: Dual Ribosome Profiling reveals metabolic limitations of cancer and stromal cells in the tumor microenvironment

Fig. 2

a Diricore analysis of GFP pull-downs from mono-cultures of SUM-159PT GFP-RPL10a cells (upper panel) and co-cultures with MRC5 mCherry-RPL10a (lower panel) grown in full (100%, 25 mM) or glucose-deprived (10%, 2,5 mM) medium. Cells were treated for 48 hrs. *Out-of-frame analysis. p-values were determined using a two-tailed z-test. p < 0.01 for the GCA, GCC, GCG, GCT Ala codons and for the GGA, GGC, GGG, GGT Gly codons. Source data including exact p-values are provided as Source Data file. b Schematic diagram of the synthesis of the amino acids alanine and glycine from glucose. c tRNA-Ribosome association assay in mono- and co-cultures (CoC) of SUM-159PT-GFP-RPL10a and MRC5-mCherry-RPL10a growing in full ((+), 25 mM) or glucose-deprived ((-), 2,5 mM) medium. Data represent mean ± SD (n = 3). PD pull-down. d Gene ontology analysis of genes upregulated upon heterotypic interaction of SUM-159PT GFP-RPL10a and MRC5 mCherry-RPL10a growing in full (100%, 25 mM) or glucose-deprived (10%, 2,5 mM) medium. Significantly enriched gene sets (p-value < 0.05) are shown, along with the number of identified proteins in the respective gene set (GeneRatio). Raw p-values come from a hypergeometric/Fisher test. Adjusted p-values are then computed by the Benjamini–Hochberg procedure. PD pull-down. e Heatmaps displaying differential expression of representative lysosomal genes based on Ribo-seq counts in mono- and co-cultures of SUM-159PT GFP-RPL10a and MRC5 mCherry-RPL10a grown in full ((+), 25 mM) or glucose-deprived ((-), 2,5 mM) medium. LogFC is shown; PD pull-down.

Back to article page