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Fig. 8 | Genome Biology

Fig. 8

From: Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

Fig. 8

Identification of endogenous SlVPE3-interacting proteins. a Proteins isolated from tomato fruit at 41 days post-anthesis (dpa) were immunoprecipitated with anti-SlVPE3 antibodies or pre-immune serum IgG (negative control). The enriched proteins were eluted and submitted to Sequential Window Acquisition of all Theoretical Mass Spectra (SWATH-MS) analysis. Each circle represents a single protein. Most identified proteins showed no difference in abundance, indicating nonspecifically bound proteins. Three proteins (red circle) were identified as the SlVPE3-interacting proteins with significant increases in abundance (P < 0.01; t-test) by using anti-SlVPE3 antibodies compared with pre-immune serum IgG. Additional information related to protein identification is listed in Additional file 9: Table S8. b The changes in protein abundance in the SlVPE3 RNAi fruit revealed by isobaric tags for relative and absolute quantification (iTRAQ) analysis. The abundance ratios of selected proteins in the SlVPE3 RNAi fruit versus wild-type (WT) at 41 and 44 dpa are shown. Values represent means of two biological replicates, and error bars represent standard deviation. Asterisks indicate significant differences at a twofold cut-off between WT and SlVPE3 RNAi fruit

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