Table 1. Second level of GOs and number of the DEGs identified by comparing biofilm associated cells cultured in BHI and RPMI for D153, D174, and D35.

GO category	GO ID	GO name	Number of DEGs
			D153	D174	D35
Biological process	GO:0009987	cellular process	140	132	109
	GO:0008152	metabolic process	120	109	100
	GO:0051179	localization	36	42	31
	GO:0065007	biological regulation	30	27	22
	GO:0050789	regulation of biological process	29	25	20
	GO:0050896	response to stimulus	20	19	19
	GO:0048518	positive regulation of biological process	11	5	7
	GO:0048519	negative regulation of biological process	10	7	9
	GO:0032501	multicellular organismal process	6	5	4
	GO:0032502	developmental process	5	5	5
	GO:0000003	reproduction	4	5	4
	GO:0016032	viral process	3	3	2
	GO:0022414	reproductive process	3	4	3
	GO:0042592	homeostatic process	3	3	1
	GO:0044419	biological process involved in interspecies interaction between organisms	2	3	2
	GO:0040011	locomotion	2	1	0
	GO:0002376	immune system process	2	3	1
	GO:0040007	growth	1	0	1
	GO:0098754	detoxification	1	0	2
	GO:0051703	biological process involved in intraspecies interaction between organisms	1	3	0
Molecular function	GO:0005488	binding	113	87	84
	GO:0003824	catalytic activity	111	99	98
	GO:0005215	transporter activity	24	30	21
	GO:0005198	structural molecule activity	15	19	16
	GO:0140657	ATP-dependent activity	9	8	7
	GO:0140110	transcription regulator activity	8	10	5
	GO:0045182	translation regulator activity	5	2	1
	GO:0044183	protein folding chaperone	3	3	1
	GO:0016209	antioxidant activity	3	5	4
	GO:0098772	molecular function regulator activity	2	1	4
	GO:0060089	molecular transducer activity	1	3	0
	GO:0060090	molecular adaptor activity	1	0	0
	GO:0140299	small molecule sensor activity	0	1	0
	GO:0003774	cytoskeletal motor activity	1	0	0
Cellular component	GO:0110165	cellular anatomical entity	149	142	133
	GO:0032991	protein-containing complex	31	40	34
	GO:0044423	virion component	1	2	0