Fig. 6: DNA repair pathways are upregulated in WT and attenuated in efk-1, zip-2, and cep-1 mutants during starvation. | Nature Communications

Fig. 6: DNA repair pathways are upregulated in WT and attenuated in efk-1, zip-2, and cep-1 mutants during starvation.

From: Eukaryotic Elongation Factor 2 Kinase EFK-1/eEF2K promotes starvation resistance by preventing oxidative damage in C. elegans

Fig. 6: DNA repair pathways are upregulated in WT and attenuated in efk-1, zip-2, and cep-1 mutants during starvation.The alternative text for this image may have been generated using AI.

A Scheme of the RNA sequencing experiment (N = 3). Created in BioRender. Yan, J. (2025) https://BioRender.com/d17w564. B The Venn diagram shows the overlap between efk-1, zip-2, and cep-1 dependent genes (p < 0.005, FDR < 0.05 in starved WT, but not in the respective mutant). The central intersection contains 606 efk-1, zip-2, and cep-1 dependent genes (p < 0.005, FDR < 0.05 in starved WT, but not in any of efk-1, zip-2, or cep-1 mutants). See Supplementary Data 1. C, D The figure shows the correlation of KEGG pathways altered in efk-1, zip-2, and cep-1 null mutants (pval < 0.25) by GSEA, especially downregulation of DNA repair (highlighted in red). x = ES (x), y = ES (y). n = 41, r2 = 0.83, p < 2.2e-16 for zip-2 vs. efk-1; n = 37, r2 = 0.87, p < 2.2e-16 for cep-1 vs. efk-1. See Supplementary Data 2. E The heatmap shows the most significantly altered pathways in efk-1, zip-2, and cep-1 mutants relative to WT (pval < 0.05, padj < 0.05, |ES| > 0.5 in all datasets) by GSEA. Colors represent ES. See Supplementary Data 2. F The bar plot shows functionally enriched categories in the 606 efk-1, zip-2, and cep-1 dependent genes (pval < 0.005, padj < 0.0001) by ORA. Colors represent -log10(pval). DNA repair-related pathways are bolded. See Supplementary Data 3. ES, enrichment score; GSEA, gene set enrichment analysis; FDR, false discovery rate; KEGG, Kyoto Encyclopedia of Genes and Genomes; ORA, overrepresentation analysis; pval, p-value; padj, adjusted p-value.

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