Table 1.

Level of protein abundance (biofilms versus early- and mid-log planktonic forms) obtained at different time points.

				Log2 fold change
Locus tag	Protein name	Protein description (COGs)	COG categories	Early biofilm	Maturing biofilm	Late biofilm	Early biofilm	Maturing biofilm	Late biofilm	References
				Versus early log phase			Versus mid log phase
Increased Abundance
BTH_I3014		glutamate synthase (NADH) large subunit (EC 1.4.1.14)	E	2.38	2.38	1.95	2.30	2.29	1.86
BTH_I1634	serC	phosphoserine aminotransferase apoenzyme (EC 2.6.1.52)	E	2.16	2.44	1.98	1.93	2.21	1.75	(Rodrigues et al. 2006)
BTH_I1550	glk	glucokinase (EC 2.7.1.2)/transcriptional regulator, RpiR family	G	2.05	2.55	2.63	1.52	2.02	2.10	(Kumar et al. 2014)
BTH_I2904	paaF	phenylacetate-CoA ligase (EC 6.2.1.30)	H	4.71	4.65	2.94	3.26	3.20	1.49
BTH_I0768	coaBC	Phosphopantothenate-cysteine ligase (EC 6.3.2.5)	H	1.34	1.19	1.53	1.28	1.12	1.47
BTH_I1994	aceB	malate synthase (EC 2.3.3.9)	C	3.29	3.30	3.21	2.67	2.68	2.58
BTH_II2188		2-methylcitrate synthase (EC 2.3.3.5)	C	3.93	3.55	4.45	3.33	2.95	3.84
BTH_I2916		PDZ domain protein	R	2.04	2.13	2.42	2.24	2.33	2.61
BTH_I1017		oxidoreductase, short chain dehydrogenase	R	1.33	1.74	2.80	1.50	1.91	2.97
BTH_I1373	tolB	tolB protein	U	1.91	2.43	2.88	1.25	1.77	2.22	(Imperi et al.2009; Lo Sciuto et al.2014)
BTH_I2962		unnamed protein product; Similar to Hcp protein	U	2.32	2.31	2.61	1.07	1.06	1.36	(Lim et al. 2015)
BTH_II2017	acsA	acetyl-coenzyme A synthetase (EC 6.2.1.1)	I	1.41	1.87	1.78	1.13	1.59	1.50	(Li et al.2016)
BTH_I2608		3-oxoadipate CoA-succinyl transferase alpha subunit	I	4.84	5.52	5.45	3.74	4.41	4.34
BTH_I3015		Protein of unknown function (DUF1568) domain protein	X	2.70	5.06	5.40	1.04	3.41	3.75
BTH_I0164	hslU	heat shock protein HslVU, ATPase subunit HslU	O	3.55	4.18	2.95	2.61	3.23	2.00	(Rohrwild et al. 1996)
BTH_I0763	clpA	ATP-dependent Clp protease ATP-binding subunit ClpA	O	2.87	3.01	2.70	1.38	1.52	1.21
BTH_I0498	uvrA	excinuclease ABC, A subunit	L	1.41	1.79	1.31	1.21	1.58	1.10
BTH_I2418	dltA	peptide synthetase-like protein	Q	2.95	6.90	5.61	3.52	7.47	6.18
BTH_I2638		DNA-binding response regulator	T	1.64	2.20	2.05	1.21	1.77	1.62
BTH_I2469		putative serine protein kinase, PrkA	T	4.61	5.06	4.55	1.75	2.21	1.69
BTH_I2217	rho	transcription termination factor Rho	K	1.13	1.42	1.05	1.43	1.72	1.36	(Carrano et al. 1998; Italiani and Marques2005; Skordalakes et al.2005)
BTH_I1234	rpsI	SSU ribosomal protein S9P	J	1.26	1.04	1.38	1.37	1.15	1.48
BTH_I0780	rpmB	LSU ribosomal protein L28P	J	1.11	1.21	1.40	1.19	1.29	1.48
BTH_II0701		hypothetical protein	S	2.07	2.45	2.77	1.43	1.81	2.12
Decreased Abundance
BTH_I2994	hisG	ATP phosphoribosyltransferase (homohexameric) (EC 2.4.2.17)	E	−2.37	−2.14	−2.17	−1.68	−1.45	−1.48
BTH_I1047	ilvC	ketol-acid reductoisomerase (EC 1.1.1.86)	E	−2.13	−1.82	−2.34	−2.26	−1.96	−2.48
BTH_I2199	thrC	threonine synthase	E	−1.74	−2.10	−1.87	−1.05	−1.41	−1.18
BTH_I0817	cysD	sulfate adenylyltransferase subunit 2 (EC 2.7.7.4)	E	−3.53	−4.49	−3.95	−2.38	−3.33	−2.79
BTH_I1775	argD	succinylornithine aminotransferase apoenzyme (EC 2.6.1.81)	E	−1.24	−1.84	−1.86	−2.00	−2.60	−2.61
BTH_I0951		aminotransferase family protein	E	−1.93	−2.62	−2.99	−2.43	−3.13	−3.50
BTH_I0889		amino acid ABC transporter membrane protein 1	E	−2.33	−2.84	−3.57	−1.19	−1.69	−2.43
BTH_I0887		amino acid ABC transporter ATP-binding protein	E	−2.55	−3.38	−2.55	−1.79	−2.62	−1.79
BTH_I0861		Orn/Lys/Arg decarboxylase	E	−1.51	−1.90	−1.22	−1.34	−1.73	−1.05
BTH_I0791	argD	acetylornithine aminotransferase apoenzyme (EC 2.6.1.11)	E	−2.43	−2.22	−2.00	−1.91	−1.70	−1.47
BTH_II2037		aromatic amino acid aminotransferase apoenzyme (EC 2.6.1.57)	E	−2.09	−1.93	−2.01	−1.79	−1.63	−1.71
BTH_I1894	eno	enolase (EC 4.2.1.11)	G	−1.87	−2.22	−1.78	−2.00	−2.35	−1.90	(Al-Maleki et al.2015)
BTH_I1489		phosphomannomutase (EC 5.4.2.8)	G	−2.56	−1.44	−2.02	−2.56	−1.43	−2.01
BTH_II1908	aepX	phosphoenolpyruvate mutase (EC 5.4.2.9)	G	−2.20	−2.21	−2.16	−2.47	−2.48	−2.42
BTH_I0354		sporulation-related repeat protein	D	−2.27	−2.30	−2.24	−1.91	−1.94	−1.88
BTH_I0011	gspG	type II secretion system protein G (GspG)	N	−1.28	−1.35	−1.41	−1.61	−1.68	−1.74
BTH_I3235	yidC	protein translocase subunit yidC	M	−3.90	−3.07	−3.66	−2.93	−2.09	−2.68	(Sachelaru et al.2017)
BTH_I1119	murC	UDP-N-acetylmuramate–L-alanine ligase (EC 6.3.2.8)	M	−1.41	−1.78	−1.51	−1.15	−1.52	−1.24
BTH_I2225		lipoprotein NlpD, putative	M	−2.43	−2.75	−4.21	−1.24	−1.57	−3.03	(Roland and Regine2018)
BTH_I2082		penicillin-binding protein, 1A family	M	−3.58	−3.73	−3.26	−2.84	−2.99	−2.53	(Spratt1975)
BTH_I2035	bamA	Beta-barrel assembly machine subunit BamA	M	−2.70	−2.81	−2.21	−2.30	−2.41	−1.81	(Anwari et al.2012)
BTH_I1483	wbpM	capsular polysaccharide biosynthesis	M	−2.12	−2.57	−1.68	−1.79	−2.24	−1.35
BTH_I0380		penicillin-binding protein 6	M	−1.81	−3.05	−1.94	−1.17	−2.41	−1.30
BTH_I1561	FtsK	cell division protein FtsK	M	−1.95	−1.55	−1.72	−1.41	−1.01	−1.18
Decreased Abundance
BTH_I0386	lipA	lipoic acid synthetase	H	−1.63	−1.78	−1.45	−1.68	−1.83	−1.49
BTH_II0614	dxs	1-deoxy-D-xylulose−5-phosphate synthase (EC 2.2.1.7)	H	−3.24	−3.51	−4.98	−2.78	−3.04	−4.51
BTH_I1139		octaprenyl-diphosphate synthase	H	−2.67	−2.83	−2.63	−1.91	−2.07	−1.86	(Okada et al.1997)
BTH_I0556	ubiB	2-octaprenylphenol hydroxylase (EC 1.14.13.-)	H	−2.41	−2.42	−2.27	−1.77	−1.79	−1.63
BTH_I3312	atpF	ATP synthase F0 subcomplex B subunit	C	−1.52	−2.59	−1.73	−1.25	−2.33	−1.46
BTH_I3311	atpH	ATP synthase F1 subcomplex delta subunit	C	−3.47	−3.58	−3.70	−3.36	−3.48	−3.59
BTH_I1069	nuoI	NADH dehydrogenase subunit I (EC 1.6.5.3)	C	−1.71	−2.04	−1.69	−1.42	−1.75	−1.39
BTH_I1064	nuoD	NADH dehydrogenase subunit D (EC 1.6.5.3)	C	−1.77	−2.52	−2.36	−1.61	−2.36	−2.20
BTH_I1063	nuoC	NADH dehydrogenase subunit C (EC 1.6.5.3)	C	−2.54	−3.08	−2.98	−2.32	−2.85	−2.75
BTH_I0646	sucC	succinyl-CoA synthase, beta subunit	C	−1.64	−1.21	−1.72	−1.76	−1.34	−1.85
BTH_I3110	maeB	allosteric NADP-dependent malic enzyme (EC 1.1.1.40)	C	−2.47	−4.12	−3.63	−2.45	−4.10	−3.61
BTH_I1654		electron transfer flavoprotein alpha subunit apoprotein	C	−1.79	−2.50	−2.68	−1.64	−2.35	−2.53
BTH_I1072		NADH dehydrogenase subunit L (EC 1.6.5.3)	C	−1.72	−2.33	−1.32	−1.61	−2.23	−1.22
BTH_I0608		cytochrome c family protein	C	−4.98	−3.96	−3.80	−3.90	−2.89	−2.72
BTH_I0600		homodimeric glycerol 3-phosphate dehydrogenase (quinone)	C	−3.18	−2.54	−2.23	−3.41	−2.78	−2.46
BTH_I0550		oxidoreductase, FAD-binding	C	−3.87	−4.13	−3.62	−2.53	−2.79	−2.28
BTH_I0427	ctaD	cytochrome c oxidase, subunit I	C	−2.47	−3.89	−3.03	−1.84	−3.26	−2.40
BTH_I0426	coxB	cytochrome c oxidase, subunit II	C	−2.53	−3.14	−2.37	−1.22	−1.83	−1.06
BTH_I0150		Domain of unknown function (DUF344) superfamily	C	−3.42	−2.65	−2.50	−3.18	−2.41	−2.26
BTH_II0708	fdxH	formate dehydrogenase (quinone-dependent) iron-sulfur subunit	C	−2.05	−1.96	−2.09	−1.59	−1.50	−1.63
BTH_II0663		succinate dehydrogenase subunit B (EC 1.3.5.1)	C	−1.57	−2.37	−2.24	−1.68	−2.48	−2.36
BTH_I2184		Protein of unknown function subfamily	S	−2.06	−2.54	−2.08	−1.41	−1.89	−1.43
BTH_I1907		Beta-barrel assembly machine subunit BamC	S	−1.49	−1.40	−1.56	−1.21	−1.13	−1.28	(Anwari et al.2012)
BTH_II1072	betA	choline dehydrogenase (EC 1.1.99.1)	R	−3.42	−1.31	−2.09	−3.43	−1.32	−2.10
Decreased Abundance
BTH_I1767		radical SAM domain protein	R	−2.28	−1.29	−2.52	−2.38	−1.39	−2.62
BTH_II2244		radical SAM domain protein	R	−4.77	−3.79	−4.73	−4.90	−3.91	−4.85
BTH_I2765		exopolyphosphatase	P	−2.82	−4.43	−4.17	−3.31	−4.91	−4.66	(Kornberg, Rao and Ault-Riche 1999; Malde et al. 2014; Chuang et al. 2015)
BTH_I0818	cysN	sulfate adenylyltransferase subunit 1 (EC 2.7.7.4)	P	−2.50	−2.27	−2.49	−2.32	−2.09	−2.30
BTH_I0439		D-methionine ABC transporter	P	−1.80	−1.77	−1.73	−1.91	−1.88	−1.84
BTH_I3048	secY	protein translocase subunit secY/sec61 alpha	U	−3.59	−2.94	−3.82	−2.12	−1.47	−2.35	(Sachelaru et al. 2017)
BTH_I1729	lepB	signal peptidase I (EC:3.4.21.89). Serine peptidase.	U	−3.57	−4.13	−3.48	−1.89	−2.45	−1.81	(Rahman et al. 2003)
BTH_I1276	secD	protein-export membrane protein SecD	U	−2.35	−2.65	−2.63	−1.77	−2.06	−2.04
BTH_I0973	phaZ	intracellular PHB depolymerase	I	−2.55	−1.85	−1.38	−4.02	−3.32	−2.85
BTH_I0783	ispH	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	I	−1.31	−2.65	−2.29	−1.66	−2.99	−2.63
BTH_II2359	shc	squalene-hopene cyclase	I	−3.45	−3.70	−3.20	−2.64	−2.88	−2.39	(Schmerk, Bernards and Valvano 2011)
BTH_I2231	ndk	nucleoside diphosphate kinase (EC 2.7.4.6)	F	−2.26	−2.44	−2.96	−3.12	−3.30	−3.82	(Al-Maleki et al.2015; Yu, Rao and Zhang 2017)
BTH_I1250	purH	bifunctional purine biosynthesis protein PurH	F	−2.59	−2.11	−2.15	−3.02	−2.55	−2.59
BTH_I0739	adk	Adenylate kinase (EC 2.7.4.3)	F	−1.99	−1.82	−1.32	−2.87	−2.71	−2.21	(Markaryan et al.2001)
BTH_I0666	purC	phosphoribosylaminoimidazole-succinocarboxamide synthase	F	−1.62	−2.83	−2.19	−1.12	−2.33	−1.69
BTH_I2118	tig	trigger factor	O	−1.59	−2.71	−3.03	−1.96	−3.09	−3.40	(Hesterkamp et al. 1996)
BTH_I1306	grpE	co-chaperone GrpE	O	−3.12	−2.77	−2.98	−4.36	−4.01	−4.22	(Liberek et al.1991; Dubern et al. 2005)
BTH_I1876	iscU	FeS assembly scaffold apoprotein IscU	O	−1.83	−2.01	−1.95	−1.12	−1.31	−1.25	(Bonomi et al. 2005)
BTH_I1457	groES	chaperonin, 10 kDa	O	−2.16	−2.16	−2.64	−3.51	−3.50	−3.99
BTH_I0415		carboxy-terminal protease	O	−2.05	−1.22	−1.78	−2.15	−1.31	−1.88	(Bandara et al. 2008)
BTH_I1756		ABC transporter, permease/ATP-binding protein	Q	−2.40	−2.44	−2.13	−1.76	−1.80	−1.50	(Garmory and Titball 2004)
BTH_I2081		phage shock protein A (PspA) family protein	T	−3.76	−3.66	−3.96	−1.25	−1.15	−1.46	(Adrien et al.2017)
BTH_I2565	nusA	NusA antitermination factor	K	−1.38	−1.09	−1.85	−1.68	−1.39	−2.15	(Wells et al. 2016)
Decreased Abundance
BTH_I2248	tex	transcription accessory protein, TEX	K	−3.24	−3.35	−2.60	−3.23	−3.34	−2.59	(He et al.2006; Moule et al.2015)
BTH_I3071	fusA2	translation elongation factor 2 (EF-2/EF-G)	J	−1.01	−1.81	−1.16	−1.55	−2.36	−1.71
BTH_I2030	frr	ribosome recycling factor	J	−2.91	−2.22	−2.88	−3.81	−3.11	−3.78
BTH_I1056	pnp	polyribonucleotide nucleotidyltransferase	J	−1.41	−1.66	−2.40	−2.07	−2.32	−3.07
BTH_I0779	rpmG	LSU ribosomal protein L33P	J	−3.09	−3.03	−3.12	−3.64	−3.59	−3.67
BTH_I0584	glyS	glycyl-tRNA synthetase beta chain (EC 6.1.1.14)	J	−2.21	−3.12	−2.73	−1.09	−2.00	−1.61
BTH_I0366		hypothetical protein	S	−2.47	−1.96	−2.61	−1.91	−1.39	−2.05