Fig. 1: Cell compartments of A. deanei illuminated via marker proteins across subcellular proteome.

A t-SNE distribution of host and endosymbiont-encoded proteins, highlighting endosymbiont-targeted proteins (ETPs), along with predicted bacterial sub-compartmental localisation of all endosymbiont-encoded proteins (473). B Predicted features across host-encoded proteins (5,323), displaying predicted mitochondrial targeting peptides (mTPs), signal peptides (SPs), and transmembrane domain proteins (TMDs). C All 21 marker protein groups shown on t-SNE representation. D Fractional distribution of four example marker protein groups across one experimental replicate, showing distinct separation profiles. Central lines represent mean fractional profiles, with shaded band representing ± 1 standard deviation. Relative protein intensities indicated on y axis, with x axis showing centrifuge speeds on top of graph (SUP, supernatant), corresponding to different fractions below, marker protein accessions available in Supplementary Data 1A.