Fig. 1: LIMYB represses the expression of photosynthetic apparatus-related genes and inhibits photosynthesis. | Nature Communications

Fig. 1: LIMYB represses the expression of photosynthetic apparatus-related genes and inhibits photosynthesis.

From: The immune NIK1/RPL10/LIMYB signaling module regulates photosynthesis and translation under biotic and abiotic stresses.

Fig. 1

a Top enriched motifs in the promoter region of LIMYB-regulated genes. The p-value was calculated using a statistical model based on log-likelihood ratios (LLRs) and adjusted for multiple testing using the Benjamini-Hochberg (BH) method. b LIMYB DNA-binding motifs are enriched in the promoter region of LIMYB downregulated genes. In the schematic representation, upstream promoter sequences are green, and coding regions are red. ChIP-seq peaks map to the promoter region, whereas the RNA-seq hits lay in the coding region. Abundance of RNA-sequencing hits in blue (LIMYB) and red (Col-0) shows the relative gene expression in Col-0 and LIMYB-overexpressing lines. c LIMYB represses the PsbP promoter. N. benthamiana leaves were agroinfiltrated with promoter fusions as shown and the 35S: LIMYB construct. After 48 h, luciferase activity was measured from total protein extracts from transformed leaves. An unrelated Ubiquitin promoter (UBQ) was used as a negative control. Results are mean values ± SE (n = 6). Asterisks indicate significant differences from the control line (two-tailed unpaired Student’s t-test, p < 0.05). d LIMYB binds to the CAAAAC DNA binding motif on the RPL18 promoter by EMSA. A 26-bp-biotinylated CAAAAC-containing fragment was incubated with purified His-LIMYB, and the DNA-protein complex was resolved by SDS-PAGE. A 100-fold molar excess of unlabeled RPL18 26-bp dsDNA was used as a specific competitor, and a mutated 26-bp dsDNA containing ATCGTG as a nonspecific competitor. e, f The PsbP (subunit of the PHSII-OEC) and FD1 (Ferredoxin) genes are repressed by LIMYB. The transcript levels were quantified by RT-qPCR in LIMYB-overexpressing (limyb-32-L1 and limyb-32-L3) lines and Col-0. Data are presented as mean ± SE from three independent replicates. Statistical significance was assessed using one-way analysis of variance (ANOVA), followed by Dunnett’s post hoc test for multiple comparisons with the control group. Asterisks indicate significant differences from the control line (p < 0.05). g Electron transport rate (ETR) in LIMYB-overexpressing lines (limyb-32-L1, L3, L4), and limyb knockout line. PAR denotes Photosynthetically Active Radiation. h CO2 assimilation rate (A) is reduced in LIMYB-overexpressing lines. For g, h data are mean ± SE (n = 6). Asterisks indicate significant differences from the control line (two-tailed unpaired Student’s t-test, p < 0.05). Exact p-values in the Source Data file.

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