Table 2.

iTRAQ quantitative mass spectrometry analysis using OMPs from each ON/OFF pair.

Gene ID	Gene	Ratio ON:OFF*	Stouffers P-value	Stouffer Adj
Increased expression in 723 modA2 ON
723_01555	N-acetylneuraminate epimerase NanM	2.36	5.40E - 14	6.32E - 13
723_01788	Adhesin translocation protein HMW2B	2.05	0	0
Decreased expression in 723 modA2 ON
723_01435	Haem/haemopexin utilization protein C HxuC1	0.28	0	0
723_00620	Transferrin-binding protein 1	0.32	4.74E - 08	3.45E - 07
723_01615	Major ferric iron-binding protein HitA†	0.37	0	0
723_01434	Haem/haemopexin transporter protein HxuB†	0.41	0	0
723_01596	Haemin receptor, HemR	0.42	0	0
723_01306	15 kDa peptidoglycan-associated lipoprotein OMP P6	0.6	2.57E - 04	1.12E - 03
Increased expression in C486 modA4 ON
C486_00892	OMP P2	1.52	0	0
Increased expression in 477 modA5 ON
477_00572	OMP P5	1.65	0	0
Increased expression in R2866 modA10 ON
R2866_0725	Adhesin Hia‡§	11.53	0	0
R2866_0192	OMP P6	1.85	0.046	0.17
R2866_1237	OMP P5	1.65	7.39E - 03	0.043

Gene designations from analysis with our SMRT produced genomes for each strain; differences are represented as ON:OFF; statistical significance is measured using Stouffers P value and Stouffers adjusted (Adj) value, as the results are the interpretation and comparison of two independently prepared sets of OMPs from each ON/OFF pair. Schematics of differentially regulated genes with locations of ModA methylation motifs are depicted in Supplementary Fig. 3.

^*Only samples with an ON:OFF ratio >1.5 or <0.7 were included. Complete iTRAQ data for all the five strain pairs are presented as Supplementary Data 2.

^†Indicates identification by microarray and iTRAQ.

^‡Identified by western blotting and iTRAQ.

^§Hia was subsequently shown to be regulated in a modA10-independent manner.