Fig. 9

Secreted proteins among the proteins induced in coculture. The small black symbols coalescing into a curve represent the Co/Mo ratios of the genes induced in coculture; the circles represent the corresponding protein sizes, gray for non-secreted, black for secreted proteins. The average sizes (# of amino acids) of a) all genome proteins, b) all induced proteins, c) all induced and secreted proteins are a) 477, b) 381, c) 341 for the fungus and a) 447, b) 420, c) 436 for the alga. Proteins were considered secreted only if they scored as such in all three programs SignalP [109], TargetP [110], and TMHMM [111]. In TMHMM, a transmembrane domain prediction program, a protein was considered compatible with secretion only if it had either no predicted TM domains or only one at the N terminus. The data used in this figure are in Additional file 6