Fig. 2: Homology directed repair (HDR) pathway contributes to viral resistance of atxr5 atxr6.

a Heat map shows the accumulation change of 365 transcripts, selected from a total of 4800 DEGs based on the clustering analysis, in mock-treated and virus-inoculated Col-0, atxr5 atxr6, sac3b atxr5 atxr6 and mbd9 atxr5 atxr6. The quantification is conducted by DESeq2. b Bubble plots from Gene Ontology (GO) analysis show the enrichment of 365 genes from 2a in different biological processes. c IGV files show changes of transcript levels of indicated genes in mock-treated and virus-inoculated (Ino) Col-0 and atxr5 atxr6 (Normalized by RPKM). Scales for the distinct loci were shown in left as solid lines. Ino, Inoculated. d Protein-protein interaction (PPI) network of DNA repair-related proteins encoded by DEGs upon the virus infection. e Representative phenotypes of CaLCuV-inoculated Col-0, atxr5 atxr6, atm, atm atxr5 atxr6. Photographs were taken at 14 dpi. Scale bars, 1 cm. f Percentages of symptomatic plants induced by CaLCuV-inoculation in indicated backgrounds at 12, 13, and 14 dpi. g q-PCR shows the relative amount of viral DNA A in CaLCuV-inoculated plants in indicated backgrounds at 14 dpi. The relative amount of viral DNA A was first normalized to UBQ10 control, and then to that of Col-0 where the mean was arbitrarily assigned a value of 1. In (f) and (g), each dot in the bar plot represents one replicate, experiments were performed with 36 plants/replicate. Data are presented as mean ± SD (n = 3 biological replicates). Statistics In Fig. 2f, g were performed with unpaired two-tailed student t-test, *, **, *** and ****, P < 0.05, 0.01, 0.001, and 0.0001, respectively. Source data are provided in the Source Data File.