Fig. 6: PSI-m6A feedback enhances the RNA stability of PSD genes. | Nature Communications

Fig. 6: PSI-m6A feedback enhances the RNA stability of PSD genes.

From: N 6-methyladenosine modifications stabilize phosphate starvation response–related mRNAs in plant adaptation to nutrient-deficient stress

Fig. 6

a Diagram of genome-wide RNA decay analysis. b Profile of PHO2 transcript decay in the WT under +P and −P conditions. The relative PHO2 mRNA abundance following the inhibition of transcription is shown, with bars indicating the means ± SE, n = 3; thick lines indicate modeled values. The half-life (t1/2) of PHO2 mRNA is indicated for each treatment. c Heatmap of RNA decay over 120 min in the WT under +P and −P conditions, revealing that more than half of the transcripts show altered half-lives under Pi starvation. d The half-lives of over half of PSI and PSD genes are altered by Pi starvation. The number of genes in each category is shown. e Heatmap of RNA decay over 120 min in the WT and amiR-mta under −P conditions, revealing that more than half of the transcripts show altered half-lives in amiR-mta compared to the WT under −P conditions. f The half-lives of the m6A-hypermethylated PSD genes (PSI-m6A & PSD genes) significantly increase upon Pi starvation (−P) compared with +P in the WT. PSI-m6A & PSI genes, n = 177; PSI-m6A & PSD genes, n = 638. g The −P-induced half-lives of the PSI-m6A & PSD genes (n = 638) are diminished in amiR-mta compared with the WT. h Venn diagram showing a significant overlap between PSI-m6A & PSD genes and PHR-mediated PSI-m6A genes. **P < 0.01; P = 4.07e-188 for the one-tailed hypergeometric test. i The −P-induced half-lives of the PHR & m6A-controlled PSD genes (n = 340) are diminished in amiR-mta compared with the WT under −P. In (c and e), the heatmap hierarchically clusters 21,587 transcripts into three groups, as indicated. RNA decay quantification is presented as the change in mean relative to the RNA abundance and RNA half-life (t1/2). In (f, g, and i), the P values were calculated using the two-tailed Wilcoxon test. The midlines and box edges indicate the medians and quartiles, respectively. The whiskers extend to the farthest data point within 1.5 times the IQR from the box edges. Source data are provided as a Source Data file.

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