Table 1.

Number of samples for which RNAseq and proteomics data are provided.

Condition	Combination of strains*	RNA samples	Protein samples	Both	Imaging
Cn	AXX	6	3	3
Cn	LXX	3	0	0
Cn	SXX	3	0	0
M	AXX	2	0	0	yes
M	LXX	2	4	2	yes
M	S–AL**	2	4	1	yes
M	S–LX**	2	2	0	yes
P	ALX	3	0	0
P	ASL	3	0	0
P	ASX	11	20	11	yes
P	AXX	4	2	2
P	LSX	3	4	3	yes
P	LXX	2	5	2	yes
P	S–AL**	3	5	3	yes
P	S–AX**	4	11	3	yes
P	SLX	4	0	0	yes
P	SXX	4	4	3	yes

Condition or cellular fraction indicates if the samples were derived from continuous culture (Cn) or bioleaching cultures and here either from the biofilm fraction (M) or the planktonic fraction (P). The number of samples for which RNA and proteins derived data could be generated are given in column 4 (Both).

*The combination of strains were composed of A. caldus (A), L. ferriphilum (L) and S. thermosulfidooxidans (S) and used as pure or mixed cultures, resulting in the following categories: A, L, S, AS, LS, and ASL (X stands for no species). A description corresponding to the strain composition and sample naming is found in the FAIRDOMHub repository (“SysMetEx – Dataset collection”⁵⁵, “omics samples”).

**The dash sign (“–”) in the combination of strain names indicates sequential inoculation for pre-colonization by the species corresponding to the letter before the dash sign.