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. 2017 Jun 15;6:e25555. doi: 10.7554/eLife.25555

Figure 8. Similarities and differences between RTN3L and FAM134B.

(A) Volcano-plot for FAM134B SILAC-based interactome. Peptides with and Log2 Ratio H/L >1 and –Log10 p value >1.3 are labeled in red. Data represent three biological replicates. (B) Scatter plot for 1D annotation enrichment analysis of FAM134B interacting partners significantly enriched in three different IP analyzed by mass spectrometry. (C) Venn diagrams of RTN3L and FAM134B interactors. Numbers represent the identified peptides significantly enriched in three IP and mass spectrometry replicates for the two baits. (D) Schematic representation of the common and unique interacting partners of RTN3L and FAM134B interactors (E) Volcano-plot for RTN3L SILAC-based interactome. RTN3L interactors with and Log2 Ratio H/L >1 and –Log10 p value >1.3 are labeled in dark blue. The common peptides between RTN3L and FAM134B with and Log2 Ratio H/L >1 and –Log10 p value > 1.3 are labeled in red. Data represent three biological replicates.

DOI: http://dx.doi.org/10.7554/eLife.25555.031

Figure 8—source data 1. Comparison of the IP-interactome of RTN3L and FAM134B.
Comparison of the IP-interactomes analyses were performed using the SILAC-labeling strategy in U2OS after 24 hr treatment with 1 µg/ml of doxycycline. Bafilomycin A1, 200 ng/ml, was added for 2 hr. Peptides with Log2 (Heavy/Light [H/L]) ratios ≥1 and a p value ≤ 0.05 were considered significantly enriched.
DOI: http://dx.doi.org/10.7554/eLife.25555.032
elife-25555-fig8-data1.xlsx (473KB, xlsx)
DOI: 10.7554/eLife.25555.032

Figure 8.

Figure 8—figure supplement 1. RTN3L and FAM134B are two independent ER-phagy receptors.

Figure 8—figure supplement 1.

(A) Annotation enrichment analysis of FAM134B interactors. Bars represent the significantly enriched gene ontology biological process (GOBP) and the gene ontology cellular components (GOCC). The numeric value on the right side of the bar shows the Benjamini-Hochberg FDR value. (B) Cytoscape scheme for some FAM134B interactors. (C) Co-IP of RTN3L with the three members of the FAM134 protein family. Proteins were co-overexpressed in HEK293T cells for 24 hr. RTN1L was used as positive control. (D) Co-IP of FAM134B with three members of the FAM134 protein family and RTN3L. Proteins were co-overexpressed in HEK293T cells for 24 hr. (E) Co-IP of FAM134B with the long isoforms of RTN1-4. Proteins were co-overexpressed in HEK293T cells for 24 hr. (F) Co-IP of FAM134B with the short isoforms of RTN1-4. Proteins were co-overexpressed in HEK293T cells for 24 hr.
DOI: http://dx.doi.org/10.7554/eLife.25555.033