Transcriptomic perspective on extracellular ATP signaling: a few curious trifles

Figures & data

Figure 1. Heatmap of genes differentially expressed between dorn1-3 and WT without addition of exogenous ATP (mock), and the response of these genes to extracellular ATP in OxP2K1 and WT. An asterisk indicates that the gene expression was significantly different in the given comparison (FDR < 0.05). Heatmap was drawn with Morpheus (https://software.broadinstitute.org/morpheus).

Figure 2. Plot of RNA-Seq reads mapped to the P2K1 locus in WT and the dorn1-3 mutant. The T-DNA insertion site is indicated, as well as the domain structure of the encoded protein. Both genotypes are displayed with the same scale (0–183 reads). The scale bar indicates nucleotide position on chromosome 5. Sashimi plot displayed with Integrative Genomics Viewer.^10.

Figure 3. Overlap between genes responsive to ATP in ein2, but not WT, coi1, and npr1 (ein2-specific), and those responsive to ATP in OxP2K1.

Table 1. Pathway dependencies of genes over-responsive to extracellular ATP in OxP2K1 and those responsive in WT.

Pathway Dependency	% of 329 genes over-responsive in OxP2K1	% of 543 genes responsive in WT
COI1, EIN2, and NPR1	3.6	9.6
COI1 and NPR1	8.5	8.7
COI1	26.4	28.4
COI1 and EIN2	2.4	4.6
EIN2 and NPR1	0.3	0.9
NPR1	4.6	3.9
Putative ATP-specific	53.5	42.9
EIN2	0.6	1.1

Table 2. GO term enrichment for 237 genes uniquely responsive to extracellular ATP in the ein2 mutant.

GO term	Fold enrichment	FDR
Protein autoubiquitination	30.7	7.20e-3
Defense response to bacteria	24.5	3.91e-5
Response to chitin	9.84	3.69e-8
Defense response, incompatible interaction	5.84	2.53e-2
Response to wounding	5.11	2.61e-2
Regulation of defense response	4.92	1.59e-2
Response to acid chemical	2.50	1.43e-2
Response to abiotic stimulus	2.10	8.42e-3
Plasma membrane	1.89	1.82e-3
Protein-containing complex	0.16	8.15e-5

Robinson JT, Thorvaldsdóttir H, Winckler W, Guttman M, Lander ES, Getz G, Mesirov JP. Integrative genomics viewer. Nat Biotechnol. 2011;29:24. doi:10.1038/nbt.1867.

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