. 2021 Jan 6;21:8. doi: 10.1186/s12866-020-02065-2

Table 1.

Differentially secreted proteins of planktonic and biofilm-cultured ML09–119

Secreted Protein	Locus Tag	ROTS-Statistic	p value	FDR	Protein Abundance Fold Change	Significant Experimental Group
Transcription regulation/ e- Transport
DNA gyrase inhibitor	AHML_21105	2.2	0.01	0	16^a	BIO
Ribonuclease activity regulator	AHML_16315	1.55	0.02	0.02	2.5	BIO
FKBP-type peptidyl-prolyl cis-trans isomerase	AHML_05355	−2.10	0.01	0	22^a	TSB
Cytochrome d ubiquinol oxidase	AHML_19200	−1.71	0.02	0.02	16	TSB
Free Radical Scavenging
Superoxide dismutase	AHML_07590	2.95	0.01	0	6	BIO
Glyoxalase/dioxygenase protein	AHML_09045	1.89	0.01	0.03	13^a	BIO
Amino Acid/Cofactor Metabolism
Redox protein (hypothetical)	AHML_05250	2.33	0.01	0	19^a	BIO
Diaminopimelate epimerase	AHML_02440	1.82	0.02	0.03	9^a	BIO
Ornithine carbamoyltransferase	AHML_21555	−1.35	0.03	0.05	3.5	TSB
Riboflavin-biosynthesis protein	AHML_17795	1.4	0.02	0.05	2.4	BIO
Urocanate hydratase	AHML_01870	3.71	0.00	0	8	BIO
Dihydrodipicolinate synthase	AHML_04540	2.35	0.01	0	22^a	BIO
Succinylarginine dihydrolase	AHML_16715	5.49	0.00	0	66^a	BIO
Carbohydrate Metabolism
Maltose operon periplasmic protein	AHML_06220	2.57	0.01	0	15^a	BIO
Phosphoglyceromutase	AHML_01445	1.94	0.01	0	13^a	BIO
Transaldolase B	AHML_16890	8.08	0.00	0	89^a	BIO
Pullulanase	AHML_04415	3.62	0.00	0	10	BIO
Ribose-5-phosphate isomerase A	AHML_14480	2.92	0.01	0	3	BIO
Beta-glucosidase	AHML_14270	−1.68	0.02	0.0	14	TSB
Outer Membrane Proteins
Outer membrane protein A	AHML_21905	−1.99	0.01	0	4	TSB
Outer membrane protein A	AHML_20145	1.46	0.02	0.04	13^a	BIO
Outer membrane lipoprotein	AHML_00700	−1.58	0.02	0.02	13^a	TSB
Degradative Enzymes and Toxins
Hemolysin (Aerolysin-type)	AHML_02265	−2.37	0.01	0	3	TSB
Hemolysin (ahh1-type)	AHML_08400	−2.69	0.01	0	4	TSB
Elastase	AHML_04340	4.68	0.00	0	5	BIO
Chitinase	AHML_05225	4.07	0.00	0	3	BIO
Metalloprotease	AHML_05230	2.73	0.01	0	3	BIO
Basic endochitinase	AHML_05235	3.15	0.01	0	3	BIO
Zn-dependent carboxypeptidase	AHML_05535	2.15	0.01	0	13^a	BIO
Outer membrane porin protein	AHML_04355	2.91	0.01	0	15^a	BIO
Extracellular lipase	AHML_00550	−4.16	0.01	0	3	TSB
Chitin-binding domain 3	AHML_11110	−1.50	0.02	0.02	12	TSB
Zn-dependent protease with chaperone function	AHML_06635	1.51	0.02	0.02	11^a	BIO
Phosphoglyceromutase	AHML_01445	1.94	0.01	0	13^a	BIO
Phospholipid-cholesterol acyltransferase	AHML_20135	−1.55	0.02	0.02	14^a	TSB
Aminopeptidase	AHML_18480	−1.55	0.02	0.02	2	TSB
Chitin binding protein	AHML_03125	1.59	0.02	0.02	1.6	BIO
Proline iminopeptidase	AHML_18440	1.88	0.01	0.03	14^a	BIO
Serine Protease	AHML_14260	−1.91	0.01	0.03	19	TSB
Periplasmic carboxy-terminal protease	AHML_11480	2.28	0.01	0	14^a	BIO
Collagenase family	AHML_02655	−1.90	0.01	0.03	2.5	TSB
Extracellular alkaline serine protease	AHML_18455	−2.22	0.01	0	25^a	TSB
Small protease	AHML_08855	1.37	0.03	0.05	8^a	BIO
Pilus and Flagellin Proteins
Flagellin	AHML_09350	5.42	0.00	0	43^a	BIO
Flagellin-like protein	AHML_09345	2.05	0.01	0	2.6	BIO
Type I pilus assembly protein FimF	AHML_02690	−2.29	0.01	0	26^a	TSB
Fimbrial Proteain	AHML_02665	−2.61	0.01	0	36^a	TSB
Transport Proteins
ABC-type sugar transport	AHML_20895	1.77	0.02	0.02	14^a	BIO
TonB-dependent copper receptor	AHML_02545	1.79	0.02	0.02	9	BIO
Peptide ABC transporter	AHML_17755	3.2	0.00	0	98^a	BIO
Arginine ABC transporter	AHML_03370	4.58	0.00	0	7	BIO
Oligopeptide ABC transporter	AHML_13875	6.05	0.00	0	93^a	BIO
Leucine binding protein (ABC transport)	AHML_00595	3.74	0.00	0	18	BIO

Differentially secreted proteins of vAh ML09–119 cultured planktonically (TSB) and within a biofilm (BIO). Proteins are grouped based on their major biological process, determined by gene ontology. Protein abundance fold change marked with ^a denotes protein identified in only one condition and is reported as the average Quantitative Protein Value. Proteins and locus tags in Bold indicate putative virulence proteins. FDR = False Discovery rate