Fig. 7: Auxin pathway genes identified in association with the HEG effect.
a Auxin pathway DMGs and DEGs identified in the Arabidopsis Col-0/msh1 vs. Col-0/dcl2,3,4,msh1 graft progeny (first generation) comparison and tomato R/R vs. R/msh1 graft progeny (first generation) comparison. Genes within the blue box are auxin biosynthesis/degradation related, in the red box are transport-related, and in the green box are signaling-related. Genes identified as both DEGs and DMGs are shown in bold. Single cytosine methylation level changes in Arabidopsis mutants msh1 and dcl2,3,4,msh1, and graft progenies from Col-0/msh1 and Col-0/dcl2,3,4,msh1 (first generation) at genes b ARF7 (AT5G20730) and d BIG (AT3G02260) loci. Single cytosine methylation level changes in the tomato Rutgers/Rutgers (R/R) and Rutgers/MSH1-RNAi (R/msh1) graft progeny (first generation) at the c SlARF7(Solyc07g042260) and e SlBIG (Solyc02g089263) loci. Methylation level differences at each cytosine were computed by subtracting average methylation level of reference plants from the methylation level of each individual sample. For msh1 and dcl2,3,4,msh1 mutants, dcl2,3,4,msh1 plants were used as reference. For Col-0/msh1 and Col-0/dcl2,3,4,msh1 graft progeny, Col-0/dcl2,3,4,msh1 graft progeny plants were used as reference. Only one plant from each genotype was selected as representative; the pattern differs slightly for different individuals due to fluctuation in methylation. Integrated Genome Browser (version 9.0.2) was used to generate figure. Panel a was made by authors based on data from this study and information adapted from Zubo and Schaller77.
