Table 10. Bacterial gene expression in the nodule

GI Name Description SLR SD

Increased in Rm1021 bacteroids compared to Rm1021 grown in TY medium 14523116 SMa0112 Conserved hypothetical 2.07 0.52 14523122 SMa0121 Hypothetical 5.28 0.60 14523123 SMa0123 Conserved hypothetical 4.09 1.16 14523124 SMa0124 GroEL3 chaperonin 4.50 0.46 14523125 SMa0125 GroES3 chaperonin 4.35 0.26 14523165 SMa0191 Conserved hypothetical 2.32 0.26 14523166 SMa0193 Conserved hypothetical 2.50 0.43 14523189 SMa0229 Conserved hypothetical 1.74 0.21 14523190 SMa0232 Conserved hypothetical 3.10 0.24 14523293 SMa0407 Conserved hypothetical 3.13 0.27 14523315 SMa0453 Similar to Yle from A. tumefaciens 1.92 0.22 14523318 SMa0462 Conserved hypothetical 2.05 0.25 14523325 SMa0471 Conserved hypothetical 1.98 0.42 14523326 SMa0473 Conserved hypothetical 1.17 0.34 14523327 SMa0475 TRm17a 2.51 0.28 14523328 SMa0476 TRm17b transposase 3.71 1.02 14523341 SMa0498 LysR family transcriptional regulator 3.84 0.46 14523384 SMa0576 Leu or Leu/Val/Ile transport binding protein 4.28 0.60 14523385 SMa0579 Adenylate cyclase 1.94 0.71 14523412 SMa0625 Hypothetical 4.29 0.47 14523419 SMa0636 Conserved hypothetical 4.18 1.07 14523433 SMa0661 Conserved hypothetical 3.59 0.92 14523439 SMa0667 Conserved hypothetical 3.57 0.31 14523440 SMa0669 Conserved hypothetical 2.00 0.25 14523445 SMa0677 Glutamate/aspartate transport protein 2.50 0.62 14523453 SMa0689 Conserved hypothetical 3.36 0.33 14523454 SMa0690 Conserved hypothetical 4.57 0.49 14523491 SMa0751 Aromatic-ring hydroxylating dioxygenase 3.86 1.22 14523492 SMa0752 Dioxygenase reductase subunit 4.47 0.79 14523493 SMa0753 Conserved hypothetical 2.93 0.85 14523493 SMa0753 Conserved hypothetical 2.85 0.35 14523494 SMa0754 Hypothetical 3.09 0.98 14523500 SMa0762 FixK2 transcriptional regulator 6.84 0.87 14523501 SMa0763 Conserved hypothetical 8.23 0.72 14523502 SMa0765 FixN2 cytochrome c oxidase polypeptide I 5.88 0.52 14523503 SMa0766 FixO2 cytochrome c oxidase 5.64 0.57 14523504 SMa0767 FixQ2 cbb3-type cytochrome oxidase 6.97 0.23 14523505 SMa0769 FixP2 cytochrome c oxidase 6.87 0.99 14523506 SMa0771 Conserved hypothetical 5.76 0.69 14523507 SMa0772 NodL Nod factor acetyltransferase 5.49 1.33 14523508 SMa0773 NoeA host specific nodulation protein 3.00 0.35 14523509 SMa0774 NoeB host specific nodulation protein 2.20 0.63 14523534 SMa0810 FixU nitrogen fixation protein 5.02 0.85 14523535 SMa0811 FdxN ferredoxin 5.66 0.15 14523536 SMa0814 NifB FeMo biosynthesis protein 7.09 0.14 14523538 SMa0815 NifA transcriptional activator 6.20 0.32 GI Name Description SLR SD

14523539 SMa0816 FixX ferredoxin-like protein 5.58 0.27 14523540 SMa0817 FixC 6.35 0.86 14523541 SMa0819 FixB electron transfer flavoprotein alpha chain 6.99 0.42 14523542 SMa0822 FixA electron transfer flavoprotein beta chain 6.93 0.68 14523544 SMa0825 NifH nitrogenase Fe protein 7.54 0.75 14523545 SMa0827 NifD nitrogenase Fe-Mo alpha chain 6.41 0.45 14523547 SMa0829 NifK nitrogenase Fe-Mo beta chain 6.45 0.35 14523548 SMa0830 NifE oxidoreductase 8.02 0.58 14523549 SMa0831 NifX nitrogen fixation protein 4.94 0.62 14523550 SMa0833 Conserved hypothetical 6.97 1.19 14523551 SMa0834 FdxB ferredoxin III 3.96 0.68 14523552 SMa0835 Hypothetical 10.5 kDa ORF, upstream from syrA 3.51 1.46 14523553 SMa0838 SyrA protein involved in EPS production 5.81 0.62 14523556 SMa0846 Conserved hypothetical 1.97 0.61 14523557 SMa0848 Hypothetical, upstream from syrM 2.21 0.30 14523558 SMa0849 SyrM transcriptional regulator 4.25 1.36 14523575 SMa0872 Hypothetical (ORF 110) 1.74 0.32 14523576 SMa0873 NifN Nitrogenase Fe-Mo cofactor biosynthesis protein 1.61 0.46 14523633 SMa0981 NtrR2 transcriptional regulator 1.79 0.15 14523634 SMa0983 Hypothetical 2.64 0.26 14523635 SMa0985 LysR-family transcriptional regulator 3.01 0.42 14523641 SMa0997 Transposase fragment 1.96 0.46 14523687 SMa1073 TRm23b IS ATP-binding protein 3.90 1.65 14523692 SMa1079 TspO tryptophan rich sensory protein 2.04 0.54 14523694 SMa1082 Conserved hypothetical 2.12 0.29 14523704 SMa1096 Conserved hypothetical 2.16 0.32 14523707 SMa1100 Conserved hypothetical 2.57 0.35 14523715 SMa1118 HspC2 heat shock protein 3.03 0.91 14523719 SMa1126 Conserved hypothetical 2.27 0.25 14523720 SMa1128 DegP4 protease 2.64 0.79 14523723 SMa1132 Hypothetical 6.99 1.16 14523724 SMa1134 Hypothetical 5.23 0.53 14523725 SMa1136 Conserved hypothetical 4.70 0.45 14523728 SMa1141 Fnr/Crp family transcriptional regulator 3.01 0.45 14523731 SMa1147 Conserved hypothetical 2.41 0.71 14523736 SMa1154 Conserved hypothetical 2.23 0.75 14523748 SMa1169 Conserved hypothetical 1.74 0.55 14523770 SMa1201 Conserved hypothetical 2.38 0.52 14523771 SMa1207 FixK-like regulator 3.51 1.40 14523772 SMa1208 FixS1 nitrogen fixation protein 5.33 0.36 14523773 SMa1209 FixI1 copper transport ATPase 2.75 0.34 14523774 SMa1210 FixH nitrogen fixation protein 4.64 0.28 14523775 SMa1211 FixG iron sulfur membrane protein 5.55 0.61 14523777 SMa1213 FixP1 di-heme cytochrome c 6.36 0.21 14523778 SMa1214 FixQ1 cbb3-type cytochrome oxidase 6.02 0.53 14523779 SMa1216 FixO1 c-type cytochrome 5.53 0.64 14523780 SMa1220 FixN1 Heme b / copper cytochrome c oxidase subunit 6.08 0.93 14523781 SMa1223 FixM flavoprotein oxidoreductase 7.85 0.46 14523786 SMa1231 Conserved hypothetical 3.02 0.79 14523849 SMa1334 Conserved hypothetical 2.80 0.76 14523852 SMa1339 ABC transporter 2.01 0.18 14523920 SMa1455 Conserved hypothetical 2.30 0.30 GI Name Description SLR SD

14523921 SMa1456 Conserved hypothetical 1.97 0.28 14523953 SMa1515 Hypothetical 1.51 0.20 14524122 SMa1770 Conserved hypothetical 1.63 0.44 14524135 SMa1797 Hypothetical 3.38 0.41 14524201 SMa1910 Conserved hypothetical 4.16 1.17 14524205 SMa1918 Conserved hypothetical 2.30 0.81 14524207 SMa1921 Hypothetical 2.41 0.65 14524208 SMa1924 Conserved hypothetical 1.88 0.32 14524256 SMa2009 Conserved hypothetical 5.38 0.93 14524257 SMa2011 Hypothetical 3.69 0.21 14524281 SMa2055 Conserved hypothetical 2.38 0.26 14524340 SMa2167 Conserved hypothetical 1.45 0.20 14524360 SMa2215 GntR-family transcriptional regulator 3.23 0.14 14524386 SMa2263 Hypothetical 2.02 0.29 14524391 SMa2273 Hypothetical 2.66 0.57 14524392 SMa2275 Conserved hypothetical 5.06 1.20 15139922 SMb20047 Hypothetical 1.71 0.37 15139923 SMb20048 Transcriptional regulator 2.06 0.46 15139924 SMb20049 FusA2 elongation factor G 2.19 0.42 15139938 SMb20066 Hypothetical 1.27 0.47 15139974 SMb20102 Acetoin catabolism regulator 1.58 0.17 15139990 SMb20118 Conserved hypothetical 1.30 0.46 15140033 SMb20161 Hypothetical 2.24 1.08 15140094 SMb20231 ABC transporter, sugar 2.39 0.55 15140095 SMb20232 ABC transporter 2.02 1.15 15140117 SMb20255 Conserved hypothetical 2.10 0.23 15140190 SMb20331 Conserved hypothetical 2.86 0.36 15140199 SMb20340 Conserved hypothetical 1.60 0.36 15140214 SMb20355 Hypothetical 2.84 1.03 15140224 SMb20365 ABC transporter, iron 2.62 1.38 15140320 SMb20465 Conserved hypothetical 2.35 0.31 15140339 SMb20484 ABC transporter, sugar 3.30 0.63 15140363 SMb20508 ABC transporter, sugar 2.28 0.29 15140369 SMb20515 Chemotaxis methyltransferase 1.58 0.17 15140370 SMb20516 Response regulator 2.44 0.55 15140374 SMb20520 Conserved hypothetical 4.20 0.45 15140375 SMb20521 Conserved hypothetical 3.38 0.40 15140376 SMb20522 Conserved hypothetical 2.97 0.51 15140383 SMb20531 RpoE RNA ECF sigma factor 1.73 0.39 15140391 SMb20539 CyaF6 adenylate cyclase 3.52 1.34 15140407 SMb20544 ISRm14 protein 3.08 0.35 15141392 SMb20592 RpoE RNA polymerase sigma factor 4.77 0.35 15141394 SMb20594 AmcY amicyanin precursor 3.49 0.14 15141415 SMb20615 ThiC thiamine biosynthesis protein 2.09 0.36 15141416 SMb20616 ThiO thiamine biosynthesis oxidoreductase 1.48 0.45 15141242 SMb20647 Conserved hypothetical 2.31 0.71 15141259 SMb20665 ISRm17 partial transposase 2.16 0.20 15141267 SMb20673 ABC transporter 2.77 1.19 15141312 SMb20717 LacI-family transcriptional regulator 2.18 0.63 15140443 SMb20818 MocD hydrocarbon oxygenase 3.59 0.47 15140444 SMb20819 MocE ferredoxin of the Rieseke type 4.48 0.39 15140445 SMb20820 MocF ferredoxin reductase 5.56 1.00 GI Name Description SLR SD

15140446 SMb20821 ATP/GTP-binding hydroxymethyltransferase 3.62 0.89 15140452 SMb20827 Transposase 2.82 0.83 15140465 SMb20837 Conserved hypothetical, transmembrane 1.93 1.17 15140468 SMb20840 Conserved hypothetical 2.63 0.25 15140471 SMb20843 AlgI involved in acetylating a cell surface saccharide 2.12 0.18 15141047 SMb20866 Conserved hypothetical 3.24 0.59 15141089 SMb20906 Hypothetical 2.46 0.51 15141100 SMb20914 Conserved hypothetical 2.19 0.67 15140956 SMb20947 ExoX posttranscriptional repressor 2.06 0.26 15140964 SMb20953 Conserved hypothetical, exported 4.39 0.45 15140501 SMb21044 ATP-dependent DNA 3.86 0.91 15140582 SMb21118 Hypothetical 2.46 0.78 15140764 SMb21212 Conserved hypothetical 1.57 0.29 15140625 SMb21236 ATP/GTP-binding protein 1.56 0.43 15140683 SMb21294 Hsp20-family small heat shock protein 2.74 0.83 15140684 SMb21295 Hsp20-family small heat shock protein 2.44 0.73 15140689 SMb21300 DeoC deoxyribose-phosphate aldolase 1.78 0.31 15140690 SMb21301 Aldehyde dehydrogenase 1.48 0.26 15140795 SMb21333 Hypothetical 2.07 0.43 15140807 SMb21345 ABC transporter, sugar uptake 2.07 0.21 15141112 SMb21399 Conserved hypothetical 3.02 0.29 15141114 SMb21400 Conserved hypothetical 3.32 0.64 15141123 SMb21409 Hypothetical 3.32 0.20 15141158 SMb21442 Conserved hypothetical 3.12 0.27 15141159 SMb21443 Conserved hypothetical 2.04 0.15 15141161 SMb21445 DNA topoisomerase I 5.09 0.34 15141162 SMb21446 GlgX2 glycosyl 3.00 0.27 15141168 SMb21454 Conserved hypothetical 2.06 0.18 15141209 SMb21493 AsnC-family transcriptional regulator 1.30 0.29 15141238 SMb21521 Conserved hypothetical, exported 1.33 0.40 15140900 SMb21574 Sensor histidine 2.83 1.23 15141444 SMb21637 PaaD phenylacetic acid degradation protein 2.73 1.26 15141445 SMb21638 PaaC phenylacetic acid degradation protein 2.69 0.56 15141446 SMb21639 PaaB phenylacetic acid degradation protein 5.10 1.27 15141447 SMb21640 PaaA phenylacetic acid degradation protein 3.20 0.97 15141454 SMb21647 AgpA ABC transporter, alpha-galactosides 2.38 0.34 15141113 SMb21683 Conserved hypothetical 4.89 1.41 15140502 SMb21695 Hypothetical 2.33 0.57 15140503 SMb21698 Hypothetical 3.16 0.47 15964718 SMc00041 Conserved hypothetical, transmembrane 1.87 0.53 15964678 SMc00080 Conserved hypothetical 3.73 0.19 15964703 SMc00095 BetI transcriptional regulator 2.35 0.38 15964732 SMc00109 Transcriptional regulator 3.70 0.47 15964743 SMc00116 Conserved hypothetical 3.22 0.51 15964753 SMc00118 Conserved hypothetical 2.75 0.38 15965431 SMc00251 Conserved hypothetical 2.60 0.89 15965438 SMc00257 RopB2 outer-membrane protein 2.96 0.17 15965451 SMc00270 Transketolase alpha subunit 3.31 1.29 15965457 SMc00276 Conserved hypothetical 4.23 0.79 15965458 SMc00277 Conserved hypothetical 3.38 0.53 15965461 SMc00280 Conserved hypothetical 5.42 0.35 15965462 SMc00281 Conserved hypothetical 3.41 0.49 GI Name Description SLR SD

15965546 SMc00479 Transcriptional regulator 1.38 0.27 15965530 SMc00490 Transcriptional regulator 1.40 0.23 15965489 SMc00529 NifS pyridoxal-phosphate-dependent aminotransferase 2.90 0.38 15966479 SMc00646 RpoH1 RNA polymerase sigma-32 factor 2.13 0.18 15966464 SMc00661 Hypothetical 2.43 0.27 15966453 SMc00672 HisX histidine-binding periplasmic signal peptide 1.84 0.41 15966432 SMc00693 Conserved hypothetical 1.65 0.41 15966386 SMc00739 Conserved hypothetical 2.45 0.23 15964483 SMc00785 Conserved hypothetical 2.33 0.40 15964498 SMc00800 Conserved hypothetical, transmembrane 2.60 0.88 15964520 SMc00822 Conserved hypothetical 1.48 0.53 15964526 SMc00828 Conserved hypothetical 2.86 0.30 15964595 SMc00864 Hypothetical 2.89 0.86 15964573 SMc00886 Conserved hypothetical 3.56 1.07 15965383 SMc00938 Hypothetical 2.44 0.38 15965386 SMc00941 Hypothetical 1.55 0.36 15965387 SMc00942 Conserved hypothetical 1.82 0.07 15965394 SMc00949 Conserved hypothetical 1.39 0.35 15965403 SMc00958 Hypothetical 2.21 0.58 15965172 SMc01004 HisI phosphoribosyl-AMP cyclohydrolase 1.78 0.22 15965202 SMc01034 Conserved hypothetical 1.57 0.19 15965204 SMc01036 Conserved hypothetical, transmembrane 1.51 0.34 15964167 SMc01106 Small heat shock protein 2.62 0.22 15964155 SMc01118 Conserved hypothetical 1.50 0.37 15964133 SMc01140 Sigma-54 modulation protein 2.11 0.65 15965364 SMc01182 Conserved hypothetical 2.46 0.55 15965362 SMc01184 Conserved hypothetical, transmembrane 1.32 0.55 15965351 SMc01195 Partial transposase 2.62 1.16 15965351 SMc01195 Partial transposase 2.46 0.46 15965347 SMc01199 Conserved hypothetical 3.84 1.22 15965318 SMc01226 Transcriptional regulator 3.23 0.36 15965317 SMc01227 NerA glycerol trinitrate reductase 1.57 0.33 15965316 SMc01228 Antibiotic resistance protein 2.25 0.20 15965315 SMc01229 Acetyltransferase (antibiotic resistance ) 2.27 0.33 rna19 SMc01251 tRNA Cys_GCA 1.95 1.00 15965161 SMc01256 Sda L-serine dehydratase 2.66 0.26 15965152 SMc01265 Conserved hypothetical 1.68 0.61 15965151 SMc01266 Conserved hypothetical 2.66 0.16 15965150 SMc01267 Conserved hypothetical 2.51 0.25 15965139 SMc01278 SugE chaperonin 3.25 0.65 rna20 SMc01377 tRNA Thr_TGT 1.60 0.25 15965863 SMc01427 Conserved hypothetical 1.56 0.38 15965878 SMc01442 FolA dihydrofolate reductase 2.18 0.53 15965879 SMc01443 Gst6 glutathione S- 1.43 0.25 15965886 SMc01450 Conserved hypothetical 2.24 0.29 15965887 SMc01451 Conserved hypothetical 3.14 0.16 15965888 SMc01452 Conserved hypothetical 4.26 0.61 15965892 SMc01456 Conserved hypothetical, transmembrane 2.71 0.32 15965837 SMc01488 Conserved hypothetical, transmembrane 1.83 0.47 15965844 SMc01490 Hypothetical 1.62 0.30 15966198 SMc01496 SmoE ABC transporter, sorbitol/mannitol 2.97 0.13 15966197 SMc01497 SmoF ABC transporter, sorbitol/mannitol 2.47 1.50 GI Name Description SLR SD

15966196 SMc01498 SmoG ABC transporter, sorbitol/mannitol 2.85 0.32 15966195 SMc01499 SmoK ABC transporter, sorbitol/mannitol 1.71 0.46 15966194 SMc01500 SmoS sorbitol dehydrogenase 2.22 0.39 15966055 SMc01551 Conserved hypothetical, transmembrane 1.67 0.37 15966058 SMc01554 Conserved hypothetical 2.41 0.19 rna25 SMc01596 tRNA Met_CAT 3.68 1.59 15964194 SMc01724 Conserved hypothetical 3.33 0.98 15966174 SMc01748 Conserved hypothetical 2.51 0.34 15964950 SMc01759 Conserved hypothetical 2.39 0.80 15964965 SMc01774 Hypothetical, transmembrane 1.85 0.60 15964979 SMc01788 Conserved hypothetical 2.42 0.76 15966222 SMc01836 Conserved hypothetical 2.25 0.46 15964981 SMc01902 Hypothetical 2.30 0.23 15966244 SMc01957 Conserved hypothetical 2.32 0.54 15966268 SMc01981 Cytochrome c 1.59 0.34 15966269 SMc01982 CoxM cytochrome c oxidase polypeptide II 1.97 0.63 15966276 SMc01989 Conserved hypothetical 3.22 0.53 15966221 SMc01995 Conserved hypothetical 2.06 0.38 15965274 SMc02075 Conserved hypothetical 1.44 0.21 15965262 SMc02087 GltA citrate synthase 2.29 0.16 15965261 SMc02088 Conserved hypothetical 5.73 0.14 15965236 SMc02113 CysE serine acetyltransferase 2.16 0.27 15964237 SMc02162 FadD1 long-chain-fatty-acid-CoA ligase 3.33 0.34 15964246 SMc02201 Conserved hypothetical 1.13 0.29 15964287 SMc02229 Acyl-CoA dehydrogenase 2.45 0.55 15964323 SMc02266 Conserved hypothetical 2.66 0.49 15966330 SMc02350 Conserved hypothetical 1.50 0.26 15966331 SMc02351 Conserved hypothetical 2.65 0.39 15964782 SMc02373 Hypothetical 2.69 0.82 15964783 SMc02374 Hypothetical 1.72 0.25 15964800 SMc02391 Conserved hypothetical, transmembrane 3.03 0.47 15964803 SMc02394 Conserved hypothetical 2.18 0.36 15964814 SMc02406 Conserved hypothetical 3.09 0.29 15966369 SMc02441 Conserved hypothetical 3.23 0.32 15966371 SMc02443 GrxC glutaredoxin 3 1.99 0.47 15966764 SMc02524 FdsG NAD-dependent formate dehydrogenase 2.08 0.41 15963823 SMc02589 Conserved hypothetical 4.08 0.89 15963827 SMc02593 Conserved hypothetical, transmembrane 3.31 0.38 15964834 SMc02642 Conserved hypothetical 4.45 0.38 15964826 SMc02651 Era GTP-binding protein 2.05 0.13 15964825 SMc02652 Rnc ribonuclease III 2.23 0.15 15964823 SMc02654 AcpS holo-acyl-carrier protein synthase 3.71 0.19 15964821 SMc02656 Conserved hypothetical 3.90 0.23 rna56 SMc02669 rRNA 5S 3.28 0.59 15966124 SMc02709 Hypothetical 1.68 0.31 15963774 SMc02773 ABC transporter 2.34 0.33 15963769 SMc02778 Hydroxyacid aldolase 2.62 0.95 15963929 SMc02851 Transcriptional regulator 4.28 1.23 15966625 SMc02980 Conserved hypothetical 2.10 0.54 15966627 SMc02982 Conserved hypothetical 1.38 0.33 15964400 SMc03015 VisN transcriptional regulator 2.37 0.46 15964401 SMc03016 VisR transcriptional regulator 1.93 0.30 GI Name Description SLR SD rna47 SMc03076 tRNA Arg_CCT 1.88 0.75 15966745 SMc03101 Carbon monoxide dehydrogenase small subunit 1.60 0.20 15966845 SMc03244 Conserved hypothetical 6.55 0.36 15966853 SMc03247 /recombinase 2.30 0.29 15966854 SMc03248 Transposase 3.33 0.93 15966857 SMc03250 Conserved hypothetical 5.39 0.23 15966858 SMc03251 Conserved hypothetical 3.53 0.15 15966859 SMc03252 ProB2 glutamate 5-kinase 4.82 0.37 15966860 SMc03253 L-proline 3-hydroxylase 6.59 0.22 15966862 SMc03256 Conserved hypothetical 3.05 0.72 15966885 SMc03286 Protease 3.42 0.33 15966886 SMc03287 Oxidoreductase 3.30 0.41 15966889 SMc03290 Hypothetical 3.66 1.16 15966095 SMc03744 Conserved hypothetical 2.08 0.46 15966856 SMc03751 Conserved hypothetical 4.30 1.27 15966916 SMc03780 Conserved hypothetical 2.49 0.77 15966917 SMc03781 Conserved hypothetical 2.36 0.39 15966918 SMc03782 Conserved hypothetical 2.10 0.33 15966930 SMc03794 Conserved hypothetical, transmembrane 2.31 0.35 15966579 SMc04043 Conserved hypothetical 3.34 0.29 15966590 SMc04054 Conserved hypothetical 1.47 0.39 15965743 SMc04161 Conserved hypothetical 1.77 0.31 15965744 SMc04162 Transcriptional regulator 2.11 0.53 15965745 SMc04163 Transcriptional regulator 1.39 0.22 15965771 SMc04189 Conserved hypothetical, transmembrane 2.11 0.61 15965774 SMc04194 Hypothetical, transmembrane 2.10 0.70 15965662 SMc04239 Hypothetical 2.37 0.44 15965721 SMc04313 Conserved hypothetical 2.98 0.26 15965723 SMc04315 Transcriptional regulator 2.57 0.20 15965810 SMc04318 Csp1 cold shock transcriptional regulator 3.89 0.61 15965811 SMc04319 Conserved hypothetical 3.19 0.32 15965812 SMc04320 RpsU1 30S ribosomal protein S21 3.87 0.27 15965734 SMc04335 Conserved hypothetical, lipoprotein 3.91 1.41 15965736 SMc04337 Conserved hypothetical 2.15 0.25 15965737 SMc04339 Conserved hypothetical 3.72 0.28 15965738 SMc04340 Oxidoreductase 3.29 0.40 15965831 SMc04363 Conserved hypothetical 1.47 0.32 15967067 SMc04408 Virulence-associated protein homolog 1.69 0.29 rna61 SMc04478 tmRNA 3.78 0.64

Decreased in Rm1021 bacteroids compared to Rm1021 grown in TY medium 14523071 SMa0031 Hypothetical -2.64 0.38 14523074 SMa0036 ABC transporter -3.15 0.23 14523104 SMa0089 Conserved hypothetical -2.84 0.29 14523109 SMa0101 Conserved hypothetical -3.05 0.76 14523198 SMa0247 Conserved hypothetical -2.04 0.34 14523199 SMa0249 Conserved hypothetical -1.95 0.55 14523200 SMa0250 Conserved hypothetical -3.96 0.20 14523201 SMa0252 Conserved hypothetical -3.51 1.24 14523276 SMa0380 Conserved hypothetical -2.60 0.34 14523285 SMa0396 ABC transporter -4.04 1.57 14523286 SMa0398 HisD2 histidinol dehydrogenase -4.44 0.45 GI Name Description SLR SD

14523308 SMa0444 TRm1b transposase -1.16 0.36 14523485 SMa0744 GroEL2 chaperonin -3.16 0.35 14523486 SMa0745 GroES2 chaperonin -1.71 0.26 14523489 SMa0748 MucR-family transcriptional regulator -2.35 0.30 14523532 SMa0806 SyrB3 regulator -1.71 0.33 14523533 SMa0809 Conserved hypothetical -2.44 0.92 14523580 SMa0878 NodM glutamine aminotransferase -1.60 0.22 14523666 SMa1033 Conserved hypothetical -2.88 0.39 14523667 SMa1036 Conserved hypothetical -2.05 0.34 14523669 SMa1038 Copper-containing oxidase -4.81 1.45 14523670 SMa1041 Copper-containing oxidase -4.07 0.66 14523671 SMa1043 Conserved hypothetical -3.82 0.66 14523884 SMa1389 EtfA2 electron-transport flavoprotein, alpha-subunit -4.19 0.48 14523885 SMa1391 EtfB2 electron transport flavoprotein, beta subunit -2.72 0.47 14523996 SMa1586 SyrB2 regulator -2.46 0.37 14523997 SMa1587 EglC endo-1,3-1,4-beta-glycanase -2.74 0.69 14524072 SMa1698 SyrB regulator -2.14 0.34 14524076 SMa1702 Hypothetical 21.7 kDa protein in syrB 5' region (orf4) -1.95 0.23 14524210 SMa1927 Conserved hypothetical -1.49 0.09 14524309 SMa2107 GntR-family transcriptional regulator -1.16 0.21 14524376 SMa2245 Conserved hypothetical -4.66 0.25 14524460 SMa2379 Catalase/peroxidase -2.91 0.31 15139895 SMb20020 Pdh pyruvate dehydrogenase E1 component -2.87 0.43 15139928 SMb20056 ABC transporter -4.56 0.27 15139929 SMb20057 ABC transporter -4.88 0.39 15139930 SMb20058 ABC transporter -4.02 0.18 15139931 SMb20059 Conserved hypothetical -4.50 0.43 15139941 SMb20069 Amino acid carrier protein -2.60 0.32 15139944 SMb20072 Rhizopine binding protein -4.50 1.38 15140026 SMb20154 Transcriptional regulator -2.44 0.61 15140042 SMb20170 Fdh glutathione-dependent formaldehyde dehydrogenase -2.35 0.21 15140124 SMb20262 Semialdehyde dehydrogenase -3.75 0.17 15140125 SMb20263 ABC transporter, amino acids -5.88 0.65 15140126 SMb20264 ABC transporter, amino acids -3.96 0.86 15140127 SMb20265 ABC transporter, amino acids -4.23 1.11 15140128 SMb20266 ABC transporter, amino acids -5.83 0.69 15140129 SMb20267 D-amino acid dehydrogenase -4.27 0.36 15140154 SMb20292 Conserved hypothetical -1.20 0.35 15140280 SMb20421 ISRm21 transposase -1.79 0.38 15140303 SMb20448 Conserved hypothetical -1.38 0.28 15140311 SMb20456 Dehydrogenase -2.85 0.96 15140377 SMb20523 Conserved hypothetical, transmembrane -2.35 1.62 15140420 SMb20556 Conserved hypothetical -4.02 0.68 15141395 SMb20595 FtsK2 cell division protein -5.20 0.53 15141396 SMb20596 Conserved hypothetical -4.19 0.70 15141245 SMb20650 Long-chain fatty-acid-CoA ligase -5.91 0.59 15141246 SMb20651 Conserved hypothetical -4.14 0.83 15141300 SMb20705 Conserved hypothetical, transmembrane -3.93 0.95 15141307 SMb20712 MocB ABC transporter, rhizopines -2.56 1.05 15141329 SMb20749 UxuB D-mannonate oxidoreductase -1.93 0.52 15141335 SMb20755 PccB propionyl-CoA carboxylase beta chain -3.99 1.15 15141336 SMb20756 PccA propionyl-CoA carboxylase alpha chain -4.78 0.38 GI Name Description SLR SD

15141339 SMb20759 PhnG C-P (carbon-phosphorus) -2.37 0.88 15141342 SMb20762 PhnJ C-P (carbon-phosphorus) lyase -4.73 0.77 15140431 SMb20806 Conserved hypothetical -3.58 0.38 15140432 SMb20807 Conserved hypothetical -2.98 0.58 15140433 SMb20808 Membrane-anchored protein -4.66 0.50 15140448 SMb20823 RkpZ2 cell surface saccharide synthesis protein, truncated N-terminus -3.46 0.24 15140449 SMb20824 Membrane protein, slightly similar to carrier proteins -4.76 0.34 15140450 SMb20825 Acetyltransferase, CysE/LacA/LpxA/NodL family -2.61 0.36 15140459 SMb20831 RkpR/KpsE polysaccharide export-associated protein -2.17 0.21 15141054 SMb20873 Ureidoglycolate hydrolase -2.85 0.92 15141055 SMb20874 Conserved hypothetical -3.50 0.88 15141056 SMb20875 Conserved hypothetical -2.51 0.40 15141057 SMb20876 Conserved hypothetical -4.73 0.47 15141061 SMb20880 RhlE2 ATP-dependent RNA -1.81 0.33 15141071 SMb20890 IlvD5 dihydroxy-acid dehydratase -3.53 0.33 15141072 SMb20891 Dehydrogenase -4.19 1.51 15141074 SMb20893 GguB ABC transporter, sugar -3.73 0.52 15141075 SMb20894 GguA ABC transporter, sugar -2.60 0.42 15141081 SMb20899 IdhA myo-inositol dehydrogenase -3.40 0.74 15140951 SMb20942 ExoB UDP glucose 4-epimerase -2.92 0.31 15140955 SMb20946 ExoY galactosyltransferase -3.07 0.77 15140958 SMb20949 ExoV pyruvyltransferase -3.84 0.55 15140971 SMb20960 ExoN UDP glucose pyrophosphorylase -2.92 0.61 15140972 SMb20961 ExoP -1.27 0.41 15141009 SMb20996 Conserved hypothetical -1.20 0.20 15141010 SMb20997 Similar to periplasmic nitrate reductase NnuR -1.37 0.18 15141012 SMb20999 BacA transport protein, essential for bacteroid development -2.06 0.51 15141022 SMb21009 GlpK -2.49 0.79 15141023 SMb21010 BdhA D-beta-hydroxybutyrate dehydrogenase -2.93 0.47 15140492 SMb21035 Conserved hypothetical -1.90 0.26 15140509 SMb21045 /maturase -1.82 0.28 15140556 SMb21092 Acetyltransferase -5.24 0.51 15140575 SMb21111 Oxidoreductase, RED superfamily -2.23 0.29 15140576 SMb21112 HpaG bifunctional -2.24 0.18 15140595 SMb21131 ABC transporter, sulfate uptake -3.21 0.94 15140717 SMb21165 HutH1 histidine ammonia-lyase -1.66 0.56 15140722 SMb21170 PhnN -2.81 0.35 15140723 SMb21171 PhnM phosponate metabolism protein -6.34 0.58 15140726 SMb21174 PhoT ABC transporter, phosphate uptake -5.08 1.02 15140727 SMb21175 PhoE ABC transporter, phosphate uptake -5.36 1.01 15140728 SMb21176 PhoD ABC transporter, phosphate uptake -5.07 0.53 15140729 SMb21177 PhoC ABC transporter, phosphate uptake -4.12 0.63 15140733 SMb21181 Glutaryl-CoA dehydrogenase -2.98 0.27 15140734 SMb21182 Conserved hypothetical, membrane-anchored -2.79 0.42 15140735 SMb21183 HtpG chaperonin, hsp90 family -1.91 0.43 15140737 SMb21185 GabD2 succinate-semialdehyde dehydrogenase -5.26 1.24 15140738 SMb21186 GabT 4-aminobutyrate aminotransferase -6.47 0.45 15140744 SMb21192 CbbA2 fructose-bisphosphate aldolase -3.67 1.01 15140747 SMb21196 OppA ABC transporter, oligopeptide uptake -3.85 0.24 15140748 SMb21197 OppB ABC transporter, oligopeptide uptake -4.79 0.58 15140749 SMb21198 OppC ABC transporter, oligopeptide uptake -4.94 0.63 15140750 SMb21199 OppD ABC transporter, oligopeptide uptake -6.53 0.74 GI Name Description SLR SD

15140643 SMb21254 Conserved hypothetical -3.05 0.89 15140645 SMb21256 Nucleotide sugar oxidase -4.59 1.07 15140777 SMb21315 ExpD2 membrane fusion protein, secretes ExpE1 -2.46 0.36 15140779 SMb21317 ExpG transcriptional activator of exopolysaccharide II synthesis -1.75 0.41 15141132 SMb21418 NDP-hexose 3-C-methyltransferase -3.12 0.81 15141146 SMb21431 ABC transporter, iron -2.39 0.86 15141192 SMb21479 Conserved hypothetical -3.39 0.95 15141207 SMb21491 Conserved hypothetical -1.59 0.31 15141210 SMb21494 Ocd ornithine cyclodeaminase -2.05 0.19 15141231 SMb21514 HemK2 modification methylase -4.21 0.45 15141239 SMb21522 MinE cell division inhibitor -3.72 0.87 15141240 SMb21523 MinD cell division inhibitor -2.50 0.21 15140892 SMb21566 GroEL5 chaperonin -3.60 0.53 15140893 SMb21567 Hypothetical -2.66 0.51 15140926 SMb21600 AmpC exported beta-lactamase -3.29 0.72 15141437 SMb21630 Conserved hypothetical -2.77 0.23 15140959 SMb21690 ExoW glucosyltransferase -3.35 0.53 15964651 SMc00005 FabI1 enoyl-acyl-carrier-protein reductase -3.23 0.29 15964652 SMc00006 Conserved hypothetical -4.00 0.51 15964657 SMc00009 CtaC Cytochrome c oxidase subunit II -2.67 0.26 15964658 SMc00010 CtaD cytochrome c oxidase polypeptide I -4.05 0.24 15964661 SMc00012 CtaG cytochrome c oxidase assembly protein -2.43 0.30 15964662 SMc00013 CtaE cytochrome c oxidase subunit III -3.99 0.22 15964665 SMc00016 LytB penicillin tolerance protein -1.54 0.26 15964666 SMc00017 ThrB -2.15 0.42 15964675 SMc00020 Conserved hypothetical -1.98 0.30 15964679 SMc00021 CcrM adenine DNA methyltransferase -3.43 0.60 15964683 SMc00023 Conserved hypothetical -1.13 0.25 15964705 SMc00033 Conserved hypothetical -4.91 0.76 15964706 SMc00034 Oxidoreductase -0.96 0.46 15964709 SMc00036 Gst1 glutathione S-transferase -1.68 0.20 15964715 SMc00040 Conserved hypothetical -3.29 0.39 15964747 SMc00053 PhaC2 cation efflux system protein -1.29 0.39 15964752 SMc00058 MucR transcriptional regulator -2.33 0.31 15964755 SMc00059 Sensor -5.37 0.30 15964769 SMc00067 LppA outer-membrane lipoprotein -3.17 0.24 15964653 SMc00070 Conserved hypothetical -1.82 0.76 15964692 SMc00088 Conserved hypothetical, transmembrane -2.25 0.76 15964711 SMc00097 Gst2 glutathione S-transferase -5.07 0.83 15964717 SMc00100 Conserved hypothetical -1.50 0.24 15964723 SMc00105 Oxidoreductase -1.86 0.28 15964758 SMc00120 Conserved hypothetical -1.80 0.32 15964660 SMc00130 Conserved hypothetical, transmembrane -3.52 0.26 15965630 SMc00133 Oxidoreductase -2.01 0.33 15965629 SMc00134 Conserved hypothetical -2.38 0.45 15965625 SMc00138 ABC transporter, amino acids -2.52 0.32 15965624 SMc00139 ABC transporter, amino acids -3.14 0.49 15965623 SMc00140 ABC transporter, amino acids -1.40 0.29 15965621 SMc00141 Conserved hypothetical -2.54 0.82 15965613 SMc00148 Conserved hypothetical -4.18 0.88 15965612 SMc00149 FumC fumarate hydratase class II -2.33 0.17 15965611 SMc00150 Membrane protein -2.24 0.37 GI Name Description SLR SD

15965610 SMc00151 Gph1 phosphoglycolate phosphatase -1.91 0.43 15965608 SMc00153 Conserved hypothetical -2.47 0.38 15965606 SMc00155 AroF DAHP synthetase -1.79 0.36 15965602 SMc00159 Conserved hypothetical -3.36 1.42 15965590 SMc00169 Dme NAD-malic enzyme oxidoreductase -1.04 0.20 15965591 SMc00170 Transcriptional regulator -0.97 0.08 15965586 SMc00174 Conserved hypothetical, transmembrane -1.58 0.49 15965585 SMc00175 ABC transporter -2.31 0.54 15965584 SMc00176 Conserved hypothetical -2.06 0.71 15965574 SMc00185 ABC transporter -2.64 0.50 15965573 SMc00186 ABC transporter -1.66 0.41 15965572 SMc00187 FbcF ubiquinol-cytochrome c reductase iron-sulfur subunit -1.70 0.29 15965571 SMc00188 FbcB cytochrome b -2.08 0.41 15965570 SMc00189 FbcC cytochrome c1 -2.19 0.14 15965568 SMc00191 Conserved hypothetical -2.77 0.66 15965622 SMc00198 Hypothetical -2.78 0.93 15965405 SMc00227 Conserved hypothetical -1.90 0.26 15965408 SMc00230 Conserved hypothetical -4.13 0.35 15965412 SMc00234 PpiD peptidyl-prolyl cis-trans -3.00 0.26 15965413 SMc00235 TrpD anthranilate phosphoribosyltransferase -1.84 0.29 15965414 SMc00236 TrpC indole-3-glycerol phosphate synthase -1.69 0.22 15965416 SMc00238 MoeA molybdopterin biosynthesis protein -2.31 1.07 15965424 SMc00246 Quinone oxidoreductase -2.90 0.45 15965425 SMc00247 Pcs phosphatidylcholine synthase -3.27 0.81 15965429 SMc00249 Hypothetical -1.76 0.45 15965471 SMc00289 CspA5 cold shock transcriptional regulator -1.02 0.27 15965475 SMc00293 ThrA Homoserine dehydrogenase -1.90 0.35 15965476 SMc00294 Aminotransferase -2.54 0.14 15965477 SMc00295 Conserved hypothetical -1.88 0.34 15965480 SMc00298 Map1 methionine aminopeptidase -2.48 0.85 15965481 SMc00299 RadC DNA repair protein -1.22 0.26 15965482 SMc00300 Oxidoreductase -1.28 0.46 rna8 SMc00308 tRNA Arg_TCT -1.86 0.25 15963996 SMc00323 RpsO 30S ribosomal protein S15 -2.95 0.79 15963997 SMc00324 Pnp polyribonucleotide -3.69 0.28 15963998 SMc00325 Conserved hypothetical -3.88 0.75 15963999 SMc00326 FabI2 enoyl-acyl-carrier-protein reductase -3.82 0.83 15964000 SMc00327 FabB 3-oxoacyl-acyl-carrier-protein synthase I -2.39 0.48 15964001 SMc00328 FabA 3-hydroxydecanoyl-acyl-carrier-protein dehydratase -1.47 0.29 15964005 SMc00332 Conserved hypothetical -3.03 0.61 15964006 SMc00333 AroA 3-Phosphoshikimate 1-carboxyvinyltransferase -1.65 0.27 15964007 SMc00334 Cmk -2.78 1.03 15964008 SMc00335 RpsA 30S ribosomal protein S1 -3.21 0.38 15964015 SMc00342 Conserved hypothetical -2.06 0.31 15964022 SMc00349 LepA GTP-binding protein -3.22 0.40 15964030 SMc00357 Efp Elongation factor P -2.18 0.75 15964035 SMc00362 InfC translation initiation factor IF-3 -1.68 0.21 15964036 SMc00363 RpmI 50S ribosomal protein L35 -3.09 0.38 15964037 SMc00364 RplT 50S ribosomal protein L20 -3.31 0.36 15964038 SMc00365 PheS phenylalanyl-tRNA synthetase alpha chain -3.97 0.29 15964039 SMc00366 PheT phenylalanyl-tRNA synthetase beta chain -2.94 0.21 15964048 SMc00375 Oxidoreductase -1.37 0.25 GI Name Description SLR SD

15964055 SMc00382 Aminopeptidase -2.69 0.14 15964056 SMc00383 Gst3 glutathione S-transferase -2.27 0.42 15964067 SMc00394 GuaA GMP synthase -3.12 0.35 15964080 SMc00407 Gst4 glutathione S-transferase -1.24 0.27 15964082 SMc00409 Conserved hypothetical -1.63 0.79 15964083 SMc00410 Oxidoreductase -1.88 0.09 15964084 SMc00411 Conserved hypothetical -1.28 0.38 15964087 SMc00414 Conserved hypothetical -2.12 0.24 15964088 SMc00415 DnaN DNA polymerase III, beta chain -2.76 0.27 15964099 SMc00427 PrfC peptide chain release factor RF-3 -2.14 0.70 15964103 SMc00431 Conserved hypothetical -2.20 0.59 15964104 SMc00432 IolB myo-inositol catabolism protein -5.39 1.27 15964105 SMc00433 IolE myo-inositol catabolism protein -4.40 0.68 rna10 SMc00435 tRNA Ala_GGC -2.29 0.57 15964659 SMc00450 CtaB heme O synthase -2.54 0.49 15964673 SMc00451 Processing protease -1.51 0.41 15964098 SMc00461 DnaS deoxyuridine 5' -triphosphate nucleotidohydrolase -3.68 1.01 15965551 SMc00475 AlaS alanyl-tRNA ligase -2.59 0.36 15965545 SMc00480 Icd Isocitrate dehydrogenase -2.71 0.18 15965540 SMc00485 RpsD 30S ribosomal subunit protein S4 -3.29 0.30 15965532 SMc00488 Phosphoribosylformyl glycinamidine synthetase II -3.00 0.35 15965531 SMc00489 Conserved hypothetical -3.53 0.81 15965528 SMc00492 Conserved hypothetical, transmembrane -2.79 0.47 15965527 SMc00493 PurQ phosphoribosylformyl glycinamidine synthase I -2.10 0.27 15965526 SMc00494 Conserved hypothetical -2.67 0.19 15965525 SMc00495 PurC phosphoribosylaminoimidazole-succinocarboxamide-synthase -3.55 0.24 15965515 SMc00505 Conserved hypothetical -2.06 0.44 15965512 SMc00508 PurB adenylosuccinate lyase -2.64 0.11 15965503 SMc00517 Conserved hypothetical -3.32 1.07 15965499 SMc00521 Conserved hypothetical -2.40 0.49 15965498 SMc00522 RhlE1 ATP-dependent RNA helicase -2.77 0.38 15965490 SMc00528 Conserved hypothetical -4.03 0.46 15965561 SMc00548 Conserved hypothetical -3.83 0.36 15964874 SMc00551 Conserved hypothetical, transmembrane -1.53 0.12 15964876 SMc00553 Oxidoreductase -2.72 0.90 15964877 SMc00554 PurF amidophosphoribosyltransferase -1.37 0.28 15964878 SMc00555 CrpA colicin V production homolog -2.04 0.13 15964888 SMc00565 RplI 50S ribosomal protein L9 -3.70 1.04 15964889 SMc00566 Conserved hypothetical, transmembrane -3.63 0.63 15964890 SMc00567 RpsR 30S ribosomal protein S18 -4.36 0.26 15964891 SMc00568 RpsF 30S ribosomal protein S6 -4.08 0.29 15964893 SMc00570 Oxidoreductase -2.53 0.24 15964894 SMc00571 FabD malonyl CoA-acyl carrier protein transacylase -2.59 0.51 15964895 SMc00572 FabG 3-oxoacyl-acyl-carrier protein reductase -3.57 0.61 15964896 SMc00573 AcpP acyl carrier protein -1.95 0.34 15964897 SMc00574 FabF 3-oxoacyl-acyl-carrier-protein synthase II -2.72 0.32 15964898 SMc00575 Conserved hypothetical -2.39 0.39 15964899 SMc00576 Conserved hypothetical -1.80 0.17 15964902 SMc00579 KsgA dimethyladenosine transferase -3.54 0.31 15964904 SMc00581 Conserved hypothetical -2.03 0.52 15964905 SMc00582 Conserved hypothetical -3.07 0.33 15964906 SMc00583 Conserved hypothetical, transmembrane -1.49 0.48 GI Name Description SLR SD

15964912 SMc00590 ABC transporter -2.40 0.17 15964915 SMc00593 Conserved hypothetical -2.49 0.38 15964916 SMc00594 LigE beta-etherase -2.38 0.32 15964917 SMc00595 Ndk Nucleoside diphosphate kinase -2.44 0.74 15964922 SMc00600 MoaD molybdopterin converting factor -2.41 0.21 15964923 SMc00601 PgsA phosphatidyltransferase -2.96 0.48 15964926 SMc00604 RopB1 outer membrane protein -4.43 0.39 15964927 SMc00605 Conserved hypothetical -1.11 0.19 15964930 SMc00608 Conserved hypothetical -1.65 0.30 15964931 SMc00609 DmsA anaerobic dimethyl sulfoxide reductase chain A -2.70 0.66 15964932 SMc00610 Conserved hypothetical -3.99 0.90 15964937 SMc00615 PurM phosphoribosylformylglycinamidine cyclo-ligase -2.38 0.30 15964940 SMc00618 Ppk -5.57 0.48 15964941 SMc00619 Conserved hypothetical -2.10 0.34 15964942 SMc00620 Conserved hypothetical -3.02 0.83 15966486 SMc00638 Heat resistant agglutinin 1 -4.59 0.82 15966484 SMc00640 SerC phosphoserine aminotransferase -1.83 0.36 15966483 SMc00641 SerA D-3-Phosphoglycerate dehydrogenase -2.29 0.33 15966481 SMc00643 PurA adenylosuccinate synthetase -2.99 0.24 15966480 SMc00644 Conserved hypothetical -2.29 0.61 15966477 SMc00648 Conserved hypothetical, transmembrane -3.35 0.84 15966474 SMc00651 Conserved hypothetical -2.98 0.54 15966473 SMc00652 Conserved hypothetical -3.10 0.28 15966472 SMc00653 2-component receiver domain protein -2.19 0.31 15966471 SMc00654 CtrA response regulator -2.01 0.24 15966470 SMc00655 Conserved hypothetical -5.39 0.31 15966468 SMc00657 Conserved hypothetical -3.05 0.48 15966443 SMc00682 HipO1 hippurate hydrolase -1.41 0.24 15966442 SMc00683 Penicillin-binding protein -3.06 0.48 15966441 SMc00685 Conserved hypothetical -1.93 0.42 15966435 SMc00690 AccA acetyl-coenzyme A carboxylase -2.29 0.42 15966429 SMc00696 AroB 3-dehydroquinate synthase -1.95 0.25 15966425 SMc00700 CobS cobalamin biosynthesis protein -2.04 0.27 15966424 SMc00701 CobT cobalamin biosynthesis protein -1.78 0.57 15966422 SMc00703 Conserved hypothetical, transmembrane -3.46 0.21 15966421 SMc00704 RpmB 50S ribosomal protein L28 -2.26 0.60 15966405 SMc00720 2-component receiver domain protein -2.52 0.38 15966402 SMc00723 LysA diaminopimelate decarboxylase -2.57 0.39 15966401 SMc00724 Conserved hypothetical -3.50 0.27 15966400 SMc00725 ArgH1 argininosuccinate lyase -1.50 0.19 15966398 SMc00727 HbdA 3-hydroxybutyryl-CoA dehydrogenase -1.87 0.28 15966388 SMc00737 Conserved hypothetical -1.38 0.36 15964459 SMc00762 Glutamine synthetase -2.89 0.38 15964469 SMc00772 PotF ABC tranporter, putrescine -1.58 0.63 15964479 SMc00781 IolA malonic semialdehyde oxidative decarboxylase -3.15 0.48 15964484 SMc00786 DppA1 ABC transporter, dipeptides -2.20 0.26 15964485 SMc00787 DppB1 ABC transporter, dipeptides -3.72 0.27 15964486 SMc00788 DppC1 ABC transporter, dipeptides -3.94 0.40 15964487 SMc00789 DppD1 ABC transporter, dipeptides -3.75 0.32 15964488 SMc00790 DppE1 ABC transporter, dipeptides -3.69 0.33 15964489 SMc00791 Conserved hypothetical -2.20 0.54 15964511 SMc00813 Conserved hypothetical, transmembrane -2.03 0.63 GI Name Description SLR SD

15964514 SMc00816 Conserved hypothetical, transmembrane -3.94 0.30 15964518 SMc00820 Transcriptional regulator -2.03 0.93 15964519 SMc00821 Conserved hypothetical -2.33 0.33 15964523 SMc00825 Gsh1 glutamate--cysteine ligase -2.13 0.18 15964528 SMc00830 Conserved hypothetical, transmembrane -3.93 0.51 rna13 SMc00841 tRNA His_GTG -1.90 0.58 15964608 SMc00851 GlyS glycyl-tRNA synthetase beta chain -2.01 0.31 15964606 SMc00853 Conserved hypothetical, transmembrane -1.69 0.30 15964599 SMc00860 IspB octaprenyl-diphosphate synthase -1.08 0.20 15964591 SMc00868 AtpF ATP synthase chain B -2.72 0.13 15964590 SMc00869 AtpF2 ATP synthase subunit B' -3.68 0.19 15964589 SMc00870 AtpE ATP synthase subunit C -3.47 0.19 15964588 SMc00871 AtpB ATP synthase chain A -3.40 0.22 15964587 SMc00872 AtpI FOF1 ATP synthase, subunit I -1.82 0.36 15964581 SMc00878 Transcriptional regulator -1.81 0.39 15964578 SMc00881 DgoK1 2-dehydro-3-deoxygalactonokinase -1.48 0.36 15964577 SMc00882 KHG/KDPG aldolase -1.89 0.27 15964576 SMc00883 Conserved hypothetical -1.94 0.25 15964575 SMc00884 IlvD1 dihydroxy-acid dehydratase -1.66 0.35 15964571 SMc00887 Conserved hypothetical, GGDEF, EAL motifs -1.64 0.40 15964570 SMc00888 2-component receiver domain protein -4.62 0.56 15964561 SMc00896 Sulfite biosynthesis protein -2.26 0.16 15964551 SMc00907 Conserved hypothetical, transmembrane -1.80 0.24 15964544 SMc00914 Oxidoreductase -2.24 0.22 15964542 SMc00916 Gst11 glutathione S-transferase -1.63 0.30 15964539 SMc00919 HisS histidyl-tRNA synthetase -2.02 0.29 15964536 SMc00922 Transport protein -1.64 0.18 15964534 SMc00924 Conserved hypothetical -4.42 0.57 15964533 SMc00925 Conserved hypothetical -3.66 0.18 15965388 SMc00943 WrbA1 trp repressor binding protein homolog -1.74 0.32 15965389 SMc00944 Conserved hypothetical -2.20 0.74 15965390 SMc00945 Gpt xanthine-guanine phosphoribosyltransferase -2.16 0.53 15965392 SMc00947 GlnB nitrogen regulatory protein PII -1.08 0.44 15965393 SMc00948 GlnA glutamine synthetase I -3.42 0.26 15965395 SMc00950 Conserved hypothetical -2.51 0.30 15964641 SMc00964 Conserved hypothetical, transmembrane -3.91 0.42 15964640 SMc00965 Conserved hypothetical -3.06 0.34 15964639 SMc00966 Acetyl-CoA acyltransferase -1.47 0.53 15964636 SMc00969 Conserved hypothetical -1.71 0.16 15964635 SMc00970 Exodeoxyribonuclease -1.12 0.30 15964630 SMc00975 McpU methyl-accepting chemotaxis protein -5.16 0.41 15964627 SMc00978 Conserved hypothetical, transmembrane -4.50 0.70 15964622 SMc00983 Conserved hypothetical -2.92 0.84 15964618 SMc00987 Conserved hypothetical -1.20 0.36 15964614 SMc00990 Fsr fosmidomycin resistance protein -4.43 0.54 15965164 SMc00996 Conserved hypothetical -4.42 0.19 15965178 SMc01010 ThrS threonyl-tRNA synthetase -2.01 0.56 15965186 SMc01018 ParE topoisomerase IV subunit B -2.83 0.34 15965193 SMc01025 PyrG CTP synthase -1.42 0.13 15965195 SMc01027 KdsA 2-dehydro-3-deoxyphosphooctonate aldolase -2.12 0.11 15965196 SMc01028 Eno enolase -2.52 0.15 15965214 SMc01045 NtrX nitrogen regulation protein -2.07 0.13 GI Name Description SLR SD

15965217 SMc01048 NrfA RNA binding protein -1.65 0.60 15965220 SMc01051 Conserved hypothetical -1.93 0.21 15965221 SMc01052 Conserved hypothetical -1.97 0.22 15965163 SMc01068 Conserved hypothetical -3.87 0.70 15964185 SMc01089 Conserved hypothetical, transmembrane -1.69 0.71 15964173 SMc01100 Fmt methionyl-tRNA formyltransferase -3.67 0.52 15964172 SMc01101 Def1 polypeptide deformylase -2.72 0.48 15964169 SMc01104 McpX methyl-accepting chemotaxis protein -2.71 0.43 15964165 SMc01108 Conserved hypothetical -2.30 0.44 15964164 SMc01109 MetK S-adenosylmethionine synthetase -3.09 0.23 15964153 SMc01120 Conserved hypothetical -2.08 0.31 15964152 SMc01121 TrpS tryptophanyl-tRNA synthetase -2.96 0.64 15964146 SMc01127 Conserved hypothetical -2.78 0.69 15964137 SMc01136 Conserved hypothetical, transmembrane -1.62 0.90 15964136 SMc01137 Conserved hypothetical, transmembrane -1.82 0.22 15964135 SMc01138 ABC transporter -1.82 0.30 15964120 SMc01152 RpsT 30S ribosomal protein S20 -2.20 0.66 15964109 SMc01163 Oxidoreductase -4.09 0.79 15964108 SMc01164 Conserved hypothetical -2.73 0.90 15964107 SMc01165 IolC sugar kinase -4.20 1.14 15964106 SMc01166 IolD malonic semialdehyde oxidative decarboxylase -5.82 1.21 15964121 SMc01167 DnaA chromosomal replication initiator protein -3.98 0.42 15965377 SMc01169 Ald alanine dehydrogenase -1.54 0.33 15965373 SMc01173 Conserved hypothetical -1.95 0.36 15965359 SMc01187 RlpA rare lipoprotein A precursor -2.86 0.93 15965357 SMc01189 Tmk -1.77 0.29 15965344 SMc01200 Conserved hypothetical, transmembrane -1.93 0.33 15965343 SMc01202 Lipoprotein -1.34 0.19 15965337 SMc01208 PpiB peptidyl-prolyl cis-trans isomerase B -3.53 0.37 15965335 SMc01209 CoaD phosphopantetheine adenylyltransferase -2.60 0.27 15965329 SMc01215 CarB carbamoyl-phosphate synthase large chain -1.55 0.34 15965313 SMc01231 GyrA DNA gyrase subunit A -2.52 0.36 15965310 SMc01235 UvrA excinuclease ABC subunit A -1.73 0.36 15965147 SMc01270 AdhC1 alcohol dehydrogenase class III -2.17 0.15 15965142 SMc01275 RluC ribosomal large subunit pseudouridine synthase C -1.09 0.20 15965134 SMc01283 RplQ 50S ribosomal protein L17 -2.51 0.28 15965133 SMc01285 RpoA DNA-directed RNA polymerase alpha chain -3.44 0.17 15965132 SMc01286 RpsK 30S ribosomal protein S11 -3.26 0.29 15965131 SMc01287 RpsM 30S ribosomal protein S13 -2.23 0.28 15965130 SMc01288 Adk -2.81 0.21 15965129 SMc01289 SecY preprotein -4.51 0.39 15965128 SMc01290 RplO 50S ribosomal protein L15 -3.96 0.18 15965127 SMc01291 RpmD 50S ribosomal protein L30 -4.02 0.25 15965126 SMc01292 RpsE 30S ribosomal protein S5 -4.01 0.24 15965125 SMc01293 RplR 50S ribosomal protein L18 -3.66 0.26 15965124 SMc01294 RplF 50S ribosomal protein L6 -4.09 0.20 15965123 SMc01295 RpsH 30S ribosomal protein S8 -3.56 0.22 15965122 SMc01296 RpsN 30S ribosomal protein S14 -3.63 0.35 15965121 SMc01297 RplE 50S ribosomal protein L5 -4.05 0.24 15965120 SMc01298 RplX 50S ribosomal protein L24 -3.87 0.30 15965119 SMc01299 RplN 50S ribosomal protein L14 -3.57 0.44 15965118 SMc01300 RpsQ 30S ribosomal protein S17 -4.40 0.51 GI Name Description SLR SD

15965117 SMc01301 RpmC 50S ribosomal protein L29 -3.30 0.14 15965116 SMc01302 RplP 50S ribosomal protein L16 -4.37 0.32 15965115 SMc01303 RpsC 30S ribosomal protein S3 -4.37 0.35 15965114 SMc01304 RplV 50S ribosomal protein L22 -5.02 0.36 15965113 SMc01305 RpsS 30S ribosomal protein S19 -4.72 0.40 15965112 SMc01306 RplB 50S ribosomal protein L2 -4.46 0.41 15965111 SMc01307 RplW 50S ribosomal protein L23 -5.06 0.32 15965110 SMc01308 RplD 50S ribosomal protein L4 -4.73 0.26 15965109 SMc01309 RplC 50S ribosomal protein L3 -4.55 0.30 15965108 SMc01310 RpsJ 30S ribosomal protein S10 -4.60 0.17 15965106 SMc01312 TufA elongation factor G -4.98 0.26 15965105 SMc01313 RpsG 30S ribosomal protein S7 -4.00 0.27 15965104 SMc01314 RpsL 30S ribosomal protein S12 -3.79 0.22 15965102 SMc01316 RpoC DNA-directed RNApolymerase beta' chain -3.78 0.33 15965101 SMc01317 RpoB DNA-directed RNA polymerase beta chain -2.97 0.10 15965100 SMc01318 RplL 50S ribosomal protein L7/L12 (L8) -1.71 0.14 15965099 SMc01319 RplJ 50S ribosomal protein L10 (L8) -2.81 0.32 15965098 SMc01320 RplA 50S ribosomal protein L1 -3.22 0.29 15965097 SMc01321 RplK 50S ribosomal protein L11 -2.83 0.25 15965096 SMc01322 NusG transcription antitermination protein -1.89 0.21 15965095 SMc01323 SecE translocase -2.01 0.13 15965092 SMc01326 TufB elongation factor TU -4.03 0.14 15965091 SMc01327 tRNA/rRNA methyltransferase -4.08 0.44 15965086 SMc01331 Conserved hypothetical -2.78 0.84 15965084 SMc01333 PrfB peptide chain release factor 2 -1.47 0.42 15965083 SMc01334 MrcA1 penicillin-binding 1A protein -2.03 0.27 15965081 SMc01336 Rne ribonuclease E -2.37 0.18 15965075 SMc01342 Outer membrane protein -2.58 0.28 15965074 SMc01343 AroQ 3-dehydroquinate dehydratase -2.59 0.25 15965073 SMc01344 AccB biotin carboxyl carrier protein -2.72 0.23 15965072 SMc01345 AccC biotin carboxylase -3.19 0.26 15965070 SMc01347 Conserved hypothetical -2.81 0.38 15965069 SMc01348 Conserved hypothetical -2.27 0.48 15965067 SMc01350 GatB glutamyl-tRNA amidotransferase subunit B -2.04 0.24 15965065 SMc01352 GatA glutamyl-tRNA amidotransferase subunit A -3.82 0.65 15965063 SMc01354 Conserved hypothetical -2.62 0.96 15965061 SMc01356 Conserved hypothetical, transmembrane -2.23 0.40 15965060 SMc01357 Hypothetical, transmembrane -4.88 0.21 15965058 SMc01359 AidB oxidoreductase -3.30 0.33 15965057 SMc01360 PyrB aspartate carbamoyltransferase -1.97 0.45 15965056 SMc01361 Dihydropyrimidinase -1.77 0.50 15965055 SMc01362 Conserved hypothetical, transmembrane -1.86 0.57 15965053 SMc01364 TopA DNA topoisomerase I -5.41 0.38 15965049 SMc01368 Conserved hypothetical, transmembrane -1.44 0.27 15965047 SMc01370 CelR2 Transcriptional regulator -2.50 0.34 15965046 SMc01371 CelR1 2-component receiver domain protein -4.54 1.30 15964176 SMc01394 Transposase, N-terminal fragment -2.25 0.29 15965855 SMc01419 RpoE1 RNA polymerase sigma factor -1.82 0.23 15965856 SMc01420 Conserved hypothetical, transmembrane -2.78 0.25 15965857 SMc01421 Conserved hypothetical -2.62 0.17 15965864 SMc01428 CspA2 cold shock transcriptional regulator -1.24 0.25 15965866 SMc01430 IlvH acetolactate synthase isozyme III small subunit -3.30 0.31 GI Name Description SLR SD

15965867 SMc01431 IlvI acetolactate synthase isozyme III large subunit -4.00 0.40 15965876 SMc01440 HflC hydrolase serine protease -1.31 0.46 15965877 SMc01441 HflK membrane bound protease -1.37 0.17 15965904 SMc01468 CheW2 chemotaxis protein -4.36 0.62 15966167 SMc01524 Dipeptidase -3.91 0.39 15966163 SMc01528 DppD2 ABC transporter, dipeptides -4.06 0.56 15966162 SMc01529 DppF2 ABC transporter, dipeptides -5.24 0.21 15966160 SMc01531 KdgK 2-dehydro-3-deoxygluconokinase -3.67 0.33 15966157 SMc01534 Omega-amino acid--pyruvate aminotransferase -2.28 0.11 15966156 SMc01535 Conserved hypothetical -3.96 0.23 15966043 SMc01546 Conserved hypothetical -1.47 0.49 15966060 SMc01556 Conserved hypothetical -1.45 0.34 15966061 SMc01557 Conserved hypothetical -2.38 0.85 15966073 SMc01569 CarA carbamoyl-phosphate synthetase -1.46 0.28 15965961 SMc01575 Conserved hypothetical -2.31 0.28 15966078 SMc01578 Aspartate aminotransferase A -3.24 0.36 15965963 SMc01579 Conserved hypothetical -3.29 0.27 15965964 SMc01582 Alcohol dehydrogenase -2.68 0.49 15966082 SMc01584 Conserved hypothetical, transmembrane -2.16 0.29 15966083 SMc01585 CspA3 cold shock transcriptional regulator -3.03 0.81 15965965 SMc01588 Aldehyde dehydrogenase -2.25 0.33 15966089 SMc01592 Transcriptional regulator -2.59 0.37 15965970 SMc01605 ABC transporter -3.57 0.55 15965971 SMc01606 ABC transporter -3.19 0.81 15965972 SMc01607 ABC transporter -3.71 1.22 15965973 SMc01608 ABC transporter -2.27 0.98 15965974 SMc01609 RibH2 6,7-dimethyl-8-ribityllumazine synthase -2.70 0.25 15965975 SMc01610 Transcriptional regulator -1.22 0.41 15965336 SMc01700 PpiA peptidyl-prolyl cis-trans isomerase A -3.02 0.29 15964206 SMc01713 Hypothetical -3.32 0.76 15964205 SMc01714 Conserved hypothetical, transmembrane -4.05 0.88 15964200 SMc01719 McpT methyl-accepting chemotaxis protein -4.24 0.29 15964198 SMc01720 RnpA ribonuclease P -2.82 0.21 15964197 SMc01721 Inner-membrane protein -2.74 0.18 15964195 SMc01723 Conserved hypothetical, transmembrane -4.03 0.63 15964192 SMc01726 ArgB -2.37 0.55 15964188 SMc01730 Conserved hypothetical -2.90 0.97 15964187 SMc01731 Conserved hypothetical -2.11 0.23 15964186 SMc01732 2,3,4,5-Tetrahydropyridine-2-carboxylate N-succinyltransferase -2.09 0.39 15964947 SMc01756 AspS aspartyl-tRNA synthetase -2.26 0.44 15964955 SMc01764 Conserved hypothetical -0.97 0.26 15964956 SMc01765 Conserved hypothetical, transmembrane -3.47 0.42 15964959 SMc01768 Transcriptional regulator -2.59 0.63 15964960 SMc01769 Conserved hypothetical -3.44 0.19 15964961 SMc01770 GlyA1 serine hydroxymethyltransferase -2.80 0.18 15964963 SMc01772 RibD riboflavin biosynthesis protein -1.68 0.39 15964968 SMc01777 RibH1 6,7-dimethyl-8-ribityllumazine synthase -2.15 0.36 15964969 SMc01778 NusB N utilization substance protein B -3.19 1.24 15964972 SMc01781 Conserved hypothetical, transmembrane -3.02 0.16 15964973 SMc01782 Conserved hypothetical -3.62 0.60 15964975 SMc01784 PlsX fatty acid/phospholipid synthesis protein -1.40 0.27 15964985 SMc01793 Glycosyltransferase -5.64 0.54 GI Name Description SLR SD

15964986 SMc01794 Polysaccharide export system periplasmic protein -3.63 1.33 15964991 SMc01799 Conserved hypothetical -2.11 0.44 15964993 SMc01801 ArgC N-acetyl-gamma-glutamyl-phosphate reductase -1.51 0.43 15964995 SMc01803 RpsI 30S ribosomal protein S9 -2.83 0.31 15964996 SMc01804 RplM 50S ribosomal protein L13 -3.58 0.14 15965000 SMc01808 Conserved hypothetical -2.41 0.56 15965002 SMc01810 Conserved hypothetical -2.61 0.78 15965005 SMc01812 Cytochrome P450-like monooxygenase -2.53 0.34 15966217 SMc01831 UreF accessory protein -2.59 0.50 15966218 SMc01832 UreE urease accessory protein -3.36 1.03 15966219 SMc01833 Conserved hypothetical -2.30 0.20 15966220 SMc01834 Conserved hypothetical -3.07 0.28 15965953 SMc01842 Conserved hypothetical -2.49 0.40 15965950 SMc01845 Transglycosylase -2.22 0.24 15965949 SMc01846 Hydrolase/glycosidase -1.97 0.60 15965947 SMc01848 Conserved hypothetical -5.14 0.90 15965945 SMc01850 Conserved hypothetical -2.99 0.42 15965943 SMc01852 Pfk pyrophosphate--fructose 6-phosphate 1- -2.55 0.42 15965931 SMc01864 MurD UDP-N-acetylmuramoylalanine--D-glutamate ligase -1.81 0.40 15965924 SMc01871 DdlB D-alanine--D-alanine ligase B -5.63 0.32 15965923 SMc01872 FtsQ cell division protein -5.59 0.43 15965922 SMc01873 FtsA cell division protein -2.97 0.42 15965921 SMc01874 FtsZ1 cell division protein -5.36 0.18 15965920 SMc01875 LpxC deacetylase -2.17 0.39 15965919 SMc01876 Conserved hypothetical, transmembrane -2.45 0.25 15965914 SMc01881 PanB 3-methyl-2-oxobutanoate hydroxymethyltransferase -1.26 0.32 15965913 SMc01882 Conserved hypothetical, transmembrane -2.18 0.31 15965912 SMc01883 Conserved hypothetical, transmembrane -2.97 0.53 15965910 SMc01885 Aminopeptidase P -2.08 0.33 15965008 SMc01903 ClpP1 ATP-dependent clp protease proteolytic subunit -1.66 0.34 15965009 SMc01904 ClpX ATP-dependent clp protease ATP-binding subunit -2.22 0.17 15965012 SMc01907 Conserved hypothetical, transmembrane -4.59 0.59 15965014 SMc01909 Conserved hypothetical -4.08 1.10 15965016 SMc01911 Conserved hypothetical -1.35 0.35 15965017 SMc01912 NuoA1 NADH dehydrogenase I chain A -2.58 0.41 15965018 SMc01913 NuoB1 NADH-ubiqionone oxidoreductase subunit K -2.68 0.21 15965019 SMc01914 NuoC1 NADH dehydrogenase I chain C -3.04 0.38 15965020 SMc01915 NuoD1 NADH dehydrogenase I chain D -3.26 0.26 15965021 SMc01916 Conserved hypothetical -2.45 0.33 15965022 SMc01917 NuoE1 NADH dehydrogenase I chain E -2.87 0.20 15965023 SMc01918 NuoF1 NADH dehydrogenase I chain F -2.81 0.23 15965024 SMc01919 Conserved hypothetical, transmembrane -1.89 0.34 15965025 SMc01920 NuoG1 NADH dehydrogenase I chain G -2.81 0.44 15965026 SMc01921 NuoH NADH dehydrogenase I chain H -3.68 0.32 15965027 SMc01922 NuoI NADH-ubiquinone oxidoreductase chain I -4.55 0.70 15965028 SMc01923 NuoJ NADH dehydrogenase I chain J -3.86 0.48 15965029 SMc01924 NuoK1 NADH dehydrogenase I chain K -4.04 0.66 15965030 SMc01925 NuoL NADH dehydrogenase I chain L -4.32 0.59 15965031 SMc01926 NuoM NADH dehydrogenase I chain M -4.30 1.07 15965032 SMc01927 NuoN NADH dehydrogenase I chain N -3.96 0.22 15965033 SMc01928 BirA biotin--[acetyl-CoA-carboxylase] synthetase -2.35 0.45 15965034 SMc01929 Conserved hypothetical -3.05 0.59 GI Name Description SLR SD

15965039 SMc01934 ProS prolyl-tRNA synthetase -3.87 0.48 15965040 SMc01935 Conserved hypothetical, transmembrane -2.39 0.51 15966234 SMc01947 Conserved hypothetical, transmembrane -2.37 0.38 15966238 SMc01951 LivH high-affinity branched-chain amino acid ABC transporter -1.79 0.50 15966252 SMc01965 ABC transporter, spermidine/putrescine -3.64 0.40 15965302 SMc02047 GcvT aminomethyltransferase (glycine cleavage system) -3.19 0.29 15965301 SMc02048 GcvH glycine cleavage system protein -3.06 0.32 15965300 SMc02049 GcvP glycine dehydrogenase decarboxylase -3.77 0.22 15965299 SMc02050 Tig trigger factor protein -3.05 0.16 15965296 SMc02053 Conserved hypothetical -2.29 0.44 15965292 SMc02057 SecD1 protein-export protein -3.16 0.63 15965291 SMc02058 Conserved hypothetical -3.65 0.31 15965290 SMc02059 Conserved hypothetical -1.74 0.26 15965289 SMc02060 LppB lipoprotein precursor -2.88 0.17 15965287 SMc02062 Pcm L-isoaspartyl protein carboxyl methyltransferase -2.08 0.42 15965286 SMc02063 SurE survival protein -1.37 0.19 15965284 SMc02065 TatC sec-independent translocase -2.08 0.39 15965283 SMc02066 TatB sec-independent translocase -2.44 0.61 15965282 SMc02067 Conserved hypothetical, transmembrane -2.10 0.13 15965277 SMc02072 Conserved hypothetical, transmembrane -2.42 0.38 15965276 SMc02073 ArgS arginyl-tRNA synthetase -2.58 0.21 15965267 SMc02082 Outer membrane secretion protein -3.08 0.23 15965266 SMc02083 Methyltransferase (pcm-like) -2.64 0.48 15965258 SMc02091 LpxA UDP-N-acetylglucosamine acyltransferase -2.09 0.35 15965257 SMc02092 FabZ 3R-hydroxymyristoyl-acyl carrier protein dehydratase -2.63 0.24 15965256 SMc02093 LpxD UDP-3-O-3-hydroxymyristoyl glucosamine N-acyltransferase -3.20 0.34 15965255 SMc02094 Omp outer membrane protein -2.89 0.17 15965254 SMc02095 Conserved hypothetical, transmembrane -1.84 0.41 15965253 SMc02096 CdsA phosphatidate cytidylyltransferase -2.02 0.69 15965252 SMc02097 UppS undecaprenyl pyrophosphate synthetase -2.06 0.19 15965251 SMc02098 Rrf ribosome recycling factor -2.53 0.29 15965250 SMc02099 PyrH uridylate kinase -2.41 0.32 15965249 SMc02100 Tsf elongation factor TS -5.98 0.33 15965248 SMc02101 RpsB 30S ribosomal protein S2 -3.91 0.36 15965246 SMc02103 Conserved hypothetical -1.54 0.34 15965245 SMc02104 Conserved hypothetical -2.54 0.43 15965234 SMc02115 Conserved hypothetical -1.90 0.28 15965232 SMc02117 MetC cystathionine beta-lyase -2.23 0.18 15965231 SMc02118 AapJ ABC transporter, L-amino acids -2.49 0.35 15965230 SMc02119 AapQ ABC transporter, L-amino acids -2.63 0.55 15965228 SMc02121 AapP ABC transporter, L-amino acids -1.55 0.24 15965224 SMc02124 Nitrite reductase -1.69 0.33 15964270 SMc02138 ArgD acetylornithine aminotransferase -1.53 0.37 15964268 SMc02140 PhoB phosphate regulon transcriptional regulator -2.82 1.05 15964267 SMc02141 PhoU phosphate regulon transcriptional regulator -4.26 0.97 15964266 SMc02142 PstB ABC transporter, phosphate -2.71 0.56 15964265 SMc02143 PstA ABC transporter, phosphate -3.81 0.54 15964264 SMc02144 PstC ABC transporter, phosphate -4.51 0.79 15964263 SMc02145 Conserved hypothetical -5.67 1.15 15964262 SMc02146 Phosphate-binding periplasmic protein -4.63 0.20 15964261 SMc02147 PhoR phosphate regulon sensor histidine kinase -2.92 0.61 15964239 SMc02160 Permease -2.07 0.38 GI Name Description SLR SD

15964236 SMc02163 Pgi glucose-6-phosphate isomerase -1.61 0.24 15964233 SMc02166 PyrC -1.91 0.47 15964231 SMc02169 ABC transporter -4.66 0.35 15964230 SMc02170 ABC transporter -3.92 0.49 15964226 SMc02174 Conserved hypothetical, transmembrane -2.22 0.39 15964219 SMc02181 PutA bifunctional proline dehydrogenase -1.69 0.19 rna33 SMc02206 tRNA Gly_CCC -1.83 0.48 15964288 SMc02230 Conserved hypothetical, transmembrane -2.85 0.66 15964297 SMc02240 Conserved hypothetical, transmembrane -3.55 1.09 15964299 SMc02242 Conserved hypothetical, transmembrane -3.96 0.63 15964303 SMc02246 Conserved hypothetical -3.74 0.61 15964321 SMc02264 Conserved hypothetical, transmembrane -2.47 0.30 15964331 SMc02274 RkpU capsule polysaccharide exporter -3.03 0.17 15964332 SMc02275 PncB pyrazinamidase/nicotinamidase -2.03 0.47 15964351 SMc02295 HsdS specificity protein S -2.07 0.30 15964352 SMc02296 HsdM modification enzyme -1.78 0.46 15964362 SMc02305 MurA UDP-N-acetylglucosamine 1-carboxyvinyltransferase -2.90 0.31 15964363 SMc02306 Conserved hypothetical -3.08 0.28 15964364 SMc02307 HisD1 histidinol dehydrogenase -1.75 0.42 15964367 SMc02310 InfA translation initiation factor IF-1 -1.27 0.54 15964368 SMc02311 Maf septum formation protein -2.49 0.23 15964379 SMc02320 Conserved hypothetical, transmembrane -1.98 0.31 15964787 SMc02378 Conserved hypothetical, transmembrane -2.82 0.23 15964801 SMc02392 Conserved hypothetical -4.56 0.49 15964805 SMc02396 Outer membrane protein -2.73 0.13 15964812 SMc02404 DapA1 dihydrodipicolinate synthase -1.79 0.18 15964813 SMc02405 Conserved hypothetical -1.51 0.21 15964817 SMc02408 RpoZ DNA-directed RNA polymerase omega chain -2.21 0.35 15966353 SMc02425 Transcriptional regulator -1.44 0.30 15966366 SMc02438 LysC aspartokinase -2.86 0.30 15966375 SMc02447 Conserved hypothetical, transmembrane -3.77 0.65 15966379 SMc02451 Outer membrane protein -2.41 0.43 15966825 SMc02463 SdhC succinate dehydrogenase -1.20 0.26 15966823 SMc02465 SdhA succinate dehydrogenase -1.53 0.24 15966809 SMc02479 Mdh malate dehydrogenase -1.39 0.27 15966808 SMc02480 SucC succinyl-CoA synthetase beta chain -1.70 0.14 15966807 SMc02481 SucD succinyl-CoA synthetase alpha chain -1.78 0.17 15966806 SMc02482 SucA2-oxoglutarate dehydrogenase -2.04 0.21 15966805 SMc02483 SucB 2-oxoglutarate dehydrogenase complex protein -2.09 0.25 15966804 SMc02484 Amino acid efflux protein -2.31 0.29 15966801 SMc02487 LpdA2 2-oxoglutarate dehydrogenase complex protein -1.84 0.33 15966793 SMc02495 Transaldolase-like protein -2.92 0.24 15966790 SMc02498 AtpH ATP synthase delta chain -3.18 0.37 15966789 SMc02499 AtpA ATP synthase alpha chain -3.39 0.13 15966788 SMc02500 AtpG ATP synthase gamma chain -3.43 0.31 15966787 SMc02501 AtpD ATP synthase beta chain -3.31 0.20 15966786 SMc02502 AtpC ATP synthase epsilon chain -3.76 0.13 15966785 SMc02503 Conserved hypothetical -1.85 0.13 15966781 SMc02507 SitC ABC transporter, manganese -2.10 0.93 15966774 SMc02514 ABC transporter -4.92 0.35 15966773 SMc02515 Conserved hypothetical, transmembrane -5.65 0.31 15966772 SMc02516 ABC transporter -4.53 0.45 GI Name Description SLR SD

15966771 SMc02517 ABC transporter -4.87 0.75 15966770 SMc02518 ABC transporter -4.55 0.75 15966769 SMc02519 ABC transporter -5.13 0.59 15966768 SMc02520 GlpD glycerol-3-phosphate dehydrogenase -3.56 0.72 15964872 SMc02543 Conserved hypothetical, transmembrane -1.81 1.04 15964870 SMc02545 Conserved hypothetical, transmembrane -2.41 0.42 15964867 SMc02548 Conserved hypothetical -2.28 0.84 15964863 SMc02552 Conserved hypothetical -1.93 0.68 15963797 SMc02560 ChvI transcriptional regulator -2.21 0.37 15963798 SMc02562 PckA phosphoenolpyruvate carboxykinase -2.69 0.37 15963803 SMc02568 HisE phosphoribosyl-ATP pyrophosphatase -1.17 0.21 15963804 SMc02569 HisF cyclase -1.86 0.20 15963815 SMc02581 GlcB malate synthase G -2.93 0.28 15964846 SMc02603 Transporter -4.26 0.57 rna40 SMc02621 tRNA Ile_GAT -2.26 0.12 rna41 SMc02622 tRNA Ala_TGC -1.12 0.25 15964842 SMc02634 Conserved hypothetical, transmembrane -4.96 0.30 15964840 SMc02636 Conserved hypothetical -3.64 0.50 15964835 SMc02641 RkpK UDP-glucose 6-dehydrogenase -2.18 0.22 15966093 SMc02677 ProC pyrroline-5-carboxylate reductase -2.17 0.38 15966094 SMc02678 Conserved hypothetical -2.50 0.25 15966096 SMc02681 Lgt prolipoprotein diacylglyceryl transferase -4.93 0.95 15966101 SMc02686 PrsA ribose-phosphate pyrophosphokinase -2.54 0.09 15966107 SMc02692 RplY 50S ribosomal protein L25 -3.12 0.31 15966110 SMc02695 GTP-binding protein -1.77 0.38 15966119 SMc02704 Conserved hypothetical -1.88 0.30 15966122 SMc02707 Conserved hypothetical -2.13 0.80 15966132 SMc02717 LeuA1 2-isopropylmalate synthase -1.76 0.31 15966133 SMc02718 Hypothetical -1.95 0.45 15966140 SMc02725 TrpE anthranilate synthase -2.58 0.39 15966152 SMc02737 OpuC ABC transporter, glycine betaine -1.91 0.36 15966154 SMc02739 OpuA ABC transporter, glycine betaine -3.31 0.85 15963794 SMc02753 IIA component of PTS system protein -2.16 0.61 15963792 SMc02755 AhcY adenosylhomocysteinase -4.31 0.46 15963784 SMc02763 FolC bifunctional protein -2.12 0.58 15963783 SMc02764 AccD acetyl-coenzyme A carboxylase carboxyl transferase -3.37 0.55 15963781 SMc02766 TrpB tryptophan synthase beta chain -1.99 0.29 15963768 SMc02779 ISRm19 transposase -1.74 0.27 15963766 SMc02781 Oxidoreductase -3.19 0.27 15963765 SMc02782 GyrB DNA gyrase subunit B -1.40 0.18 15963759 SMc02788 SecB protein-export protein -1.46 0.39 15967092 SMc02796 Rho transcription termination factor -1.40 0.22 15967085 SMc02803 Conserved hypothetical -3.43 0.48 15967084 SMc02804 LeuS leucyl-tRNA synthetase -2.74 0.19 15965956 SMc02818 Conserved hypothetical -1.99 0.35 15963903 SMc02826 Transcriptional regulator -2.92 0.90 15963904 SMc02827 Conserved hypothetical -1.50 0.25 15963906 SMc02829 ABC transporter -2.00 0.52 15963907 SMc02830 ABC transporter -2.40 0.54 15963915 SMc02838 GpmA phosphoglycerate mutase -2.36 0.31 15963924 SMc02846 Sugar kinase -2.10 0.54 15963951 SMc02873 ABC transporter -1.01 0.25 GI Name Description SLR SD

15963962 SMc02884 Lipoprotein precursor -1.35 0.23 15963974 SMc02896 IlvE1 branched-chain amino acid aminotransferase -2.23 0.35 15963975 SMc02897 Cytochrome c -2.31 0.34 15963976 SMc02898 KdsB 3-deoxy-manno-octulosonate cytidylyltransferase -3.09 0.15 15963977 SMc02899 PheA prephenate dehydratase -3.97 1.00 15963988 SMc02910 Conserved hypothetical, transmembrane -2.33 1.26 15963989 SMc02911 Conserved hypothetical -2.15 0.33 15963990 SMc02912 NusA N utilization substance protein A -2.32 0.15 15963991 SMc02913 Conserved hypothetical -2.01 0.32 15963992 SMc02914 InfB translation initiation factor IF-2 -3.19 0.26 15966490 SMc02941 Conserved hypothetical, transmembrane -1.95 0.22 15966491 SMc02942 Pal peptidoglycan-associated lipoprotein precursor -3.77 0.58 15966623 SMc02978 Conserved hypothetical -1.39 0.53 15966624 SMc02979 Conserved hypothetical -1.29 0.40 15966630 SMc02985 Conserved hypothetical -1.80 0.27 15966631 SMc02986 Conserved hypothetical, transmembrane -2.66 0.34 15966633 SMc02988 Conserved hypothetical -1.29 0.25 15966634 SMc02989 Conserved hypothetical, transmembrane -2.18 0.20 15964389 SMc03004 McpE methyl-accepting chemotaxis protein -3.77 0.49 15964390 SMc03005 Conserved hypothetical -4.28 0.36 15964391 SMc03006 CheY1 chemotaxis regulator -4.10 0.25 15964392 SMc03007 CheA chemotaxis histidine kinase -4.05 0.92 15964393 SMc03008 CheW1 chemotaxis protein -4.35 0.24 15964394 SMc03009 CheR chemotaxis methyltransferase -5.17 0.33 15964395 SMc03010 CheB protein-glutamate methylesterase -3.53 0.64 15964397 SMc03012 CheD chemotaxis protein -5.06 0.87 15964398 SMc03013 Conserved hypothetical -3.62 0.78 15964404 SMc03019 FliG flagellar motor switch protein -3.90 0.88 15964405 SMc03020 FliN flagellar motor switch protein -2.25 0.57 15964406 SMc03021 FliM flagellar motor switch protein -4.82 0.57 15964407 SMc03022 MotA motility protein A -5.00 0.79 15964409 SMc03024 FlgF flagellar basal-body rod protein -2.36 0.56 15964412 SMc03027 FlgB flagellar basal-body rod protein -2.57 1.03 15964413 SMc03028 FlgC flagellar basal-body rod protein -2.84 0.44 15964414 SMc03029 FliE flagellar hook-basal body complex protein -3.47 0.73 15964415 SMc03030 FlgG flagellar basal-body rod protein -4.02 0.44 15964416 SMc03031 FlgA flagellar precursor protein -2.31 0.67 15964418 SMc03033 Conserved hypothetical, transmembrane -3.45 0.56 15964420 SMc03035 FliL flagellar transmembrane protein -2.23 0.83 15964422 SMc03037 FlaA flagellin A -9.61 1.19 15964422 SMc03037 FlaA flagellin A -6.77 0.52 15964423 SMc03038 FlaB flagellin B -8.32 0.64 15964424 SMc03039 FlaD flagellin D -3.83 0.43 15964429 SMc03044 MotD motility protein D -3.46 0.42 15964431 SMc03046 Transcriptional regulator -5.87 0.79 15964432 SMc03047 FlgE flagellar hook protein -4.14 0.90 15964434 SMc03049 FlgL flagellar hook-associated protein -6.67 0.46 15964435 SMc03050 FlaF flagellin synthesis regulator -7.75 0.45 15964436 SMc03051 FlbT flagellin synthesis repressor -4.83 0.37 15964437 SMc03052 FlgD basal-body rod modification protein -4.40 0.34 15964444 SMc03057 Conserved hypothetical, transmembrane -4.52 0.87 15964448 SMc03061 AglE ABC transporter, alpha-glucosides -2.57 0.44 GI Name Description SLR SD

15964449 SMc03062 AglF ABC transporter, alpha-glucosides -2.23 0.24 15964451 SMc03064 AglA alpha-glucosidase -3.15 0.95 15964452 SMc03065 AglK ABC transporter, alpha-glucosides -4.07 1.36 15964453 SMc03066 Conserved hypothetical -2.72 0.62 15964457 SMc03070 Zwf glucose-6-phosphate 1-dehydrogenase -1.10 0.20 15964442 SMc03071 Conserved hypothetical -2.66 0.39 15964443 SMc03072 Conserved hypothetical -5.15 0.65 15966756 SMc03090 CheW3 chemotaxis protein -3.32 0.59 15966746 SMc03100 Conserved hypothetical -3.08 0.51 15966742 SMc03104 HemA 5-aminolevulinic acid synthase -2.08 0.40 15966736 SMc03110 Conserved hypothetical -2.46 0.54 15966734 SMc03112 MetH 5-methyltetrahydrofolate--homocysteine methyltransferase -3.56 1.28 15966722 SMc03124 ABC transporter -4.38 0.49 15966721 SMc03125 ABC transporter -3.64 0.91 15966720 SMc03126 ABC transporter -4.77 1.34 15966716 SMc03130 Conserved hypothetical -4.26 0.72 15966715 SMc03131 ABC transporter, amino acids -4.28 0.95 15966714 SMc03132 OrdL3 oxidoreductase -2.63 0.20 15966711 SMc03135 ABC transporter, amino acids -4.33 0.50 15966635 SMc03151 Conserved hypothetical -2.47 0.17 15966637 SMc03153 Eda2 KHG/KDPG aldolase -2.28 0.22 15966640 SMc03156 Conserved hypothetical -2.05 0.41 15966641 SMc03157 Outer membrane lipoprotein -2.75 0.31 15966647 SMc03163 XylA xylose isomerase -1.51 0.26 15966655 SMc03171 Conserved hypothetical, transmembrane -1.32 0.24 15966656 SMc03172 GltX glutamyl-tRNA synthetase -2.86 0.31 15966657 SMc03173 LysS lysyl-tRNA synthetase -1.82 0.34 15966662 SMc03178 Conserved hypothetical, transmembrane -3.17 0.62 15966676 SMc03192 CobH precorrin-8X methylmutase -1.90 0.32 15966689 SMc03205 PurU1 formyltetrahydrofolate deformylase -4.63 0.45 15966828 SMc03227 Conserved hypothetical -3.37 0.49 15966829 SMc03228 Conserved hypothetical -2.22 0.40 15966836 SMc03235 Conserved hypothetical -3.35 1.07 15966840 SMc03239 Ppa inorganic pyrophosphatase -2.33 0.26 15966904 SMc03766 Hypothetical -1.43 0.10 15966908 SMc03770 RplU 50S ribosomal protein L21 -1.92 0.49 15966909 SMc03772 RpmA 50S ribosomal protein L27 -2.08 0.46 15966912 SMc03775 CgtA GTP-binding protein -2.51 0.38 15966922 SMc03786 Bfr bacterioferritin -2.53 0.70 15966937 SMc03801 Thioredoxin -1.54 0.13 15966945 SMc03809 Conserved hypothetical, transmembrane -2.46 0.32 15966954 SMc03818 XthA3 exodeoxyribonuclease III -2.84 0.42 15966962 SMc03826 ArgG argininosuccinate synthase -2.73 0.38 15966965 SMc03829 ABC transporter -5.09 0.76 15966966 SMc03830 Conserved hypothetical -3.88 0.24 15966968 SMc03832 Conserved hypothetical -1.00 0.34 15966982 SMc03846 AcnA aconitate hydratase -1.02 0.13 15966985 SMc03849 CcmD heme exporter c (cytochrome c-type biogenesis) -4.42 0.82 15966987 SMc03851 CcmG thiol:disulfide interchange protein (cytochrome c biogenesis) -2.95 0.80 15966988 SMc03852 Conserved hypothetical, transmembrane -1.66 0.52 15966989 SMc03853 Conserved hypothetical, transmembrane -3.44 0.20 15966993 SMc03857 Ffh signal recognition particle -2.27 0.38 GI Name Description SLR SD

15966994 SMc03858 PheAa chorismate mutase -3.14 0.36 15966995 SMc03859 RpsP 30S ribosomal protein S16 -3.27 0.50 15966996 SMc03860 RimM 16S rRNA processing protein -2.10 0.74 15966998 SMc03862 Conserved hypothetical, transmembrane -1.54 0.21 15966999 SMc03863 RplS 50S ribosomal protein L19 -2.74 0.37 15967003 SMc03867 Conserved hypothetical -2.65 0.82 15967010 SMc03874 Conserved hypothetical -1.22 0.46 15967014 SMc03878 PhbB acetoacetyl-CoA reductase -2.43 0.82 15967015 SMc03879 PhbA acetyl-CoA acetyltransferase -2.31 0.31 15967017 SMc03881 RpmF 50S ribosomal protein L32 -2.74 0.58 15967018 SMc03882 Gst8 glutathione S-transferase -4.64 0.58 15967020 SMc03884 IspA geranyltranstransferase -4.23 0.62 15967024 SMc03888 Conserved hypothetical -1.39 0.14 15967027 SMc03891 ABC transporter, amino acids -2.76 1.17 15967029 SMc03893 ABC transporter, amino acids -3.06 0.53 15967031 SMc03895 Pyc pyruvate carboxylase -1.69 0.59 15967035 SMc03899 Hypothetical -1.86 0.36 15966598 SMc03923 GlcC glucose-1-phosphate adenylyltransferase -2.84 0.43 15966600 SMc03925 Pgm phosphoglucomutase -3.07 0.84 15966602 SMc03927 NodN2 putative nodulation protein -2.11 0.23 15966605 SMc03930 SoxG2 sarcosine oxidase gamma subunit -3.26 0.34 15966607 SMc03932 SoxD2 sarcosine oxidase delta subunit -4.16 0.23 15966608 SMc03933 SoxB2 sarcosine oxidase subunit B -4.08 0.71 15966609 SMc03934 RpsU2 30S ribosomal protein -3.05 0.50 15966613 SMc03938 PntB NAD(P) transhydrogenase -2.47 0.24 15966616 SMc03941 Conserved hypothetical, transmembrane -2.49 0.36 15966615 SMc03950 PntAa proton-translocating NND transhydrogenase -1.80 0.20 15966493 SMc03956 TolA signal-peptide protein -2.56 0.27 15966494 SMc03957 TolR transport protein -3.33 0.31 15966495 SMc03958 TolQ transport protein -3.76 0.17 15966498 SMc03961 SqdB sulfolipid biosynthesis (UDP-sulfoquinovose) -1.28 0.32 15966504 SMc03967 RuvC holliday junction endodeoxyribonuclease -1.65 0.74 15966506 SMc03969 Conserved hypothetical -1.81 0.30 15966515 SMc03978 Tkt2 transketolase -3.63 0.16 15966516 SMc03979 Gap glyceraldehyde 3-phosphate dehydrogenase -3.65 0.22 15966517 SMc03980 Conserved hypothetical -2.62 0.25 15966524 SMc03987 Transport protein -2.99 0.76 15966527 SMc03990 RpmE 50S ribosomal protein L31 -2.50 0.46 15966528 SMc03991 ABC transporter -1.80 0.16 15966537 SMc04000 Conserved hypothetical -1.84 0.93 15966538 SMc04001 PurE phosphoribosylaminoimidazole carboxylase -2.12 0.63 15966540 SMc04003 RpmJ 50S ribosomal protein L36 -3.08 0.91 15966542 SMc04005 PykA II -3.55 0.51 15966547 SMc04010 Conserved hypothetical -2.60 0.22 15966548 SMc04011 TacA sigma-54-dependent transcriptional regulator -4.17 1.01 15966549 SMc04012 PepF oligoendopeptidase F -2.47 0.23 15966553 SMc04016 Hss homospermidine synthase -3.05 0.21 15966555 SMc04018 5' -nucleotidase precursor -1.66 0.48 15966561 SMc04024 Membrane-bound lytic murein transglycosylase -1.87 0.25 15966566 SMc04030 Conserved hypothetical, transmembrane -4.15 0.99 15966586 SMc04050 Conserved hypothetical, transmembrane -2.52 0.36 15966587 SMc04051 RpoE4 RNA polymerase sigma-E factor -3.03 0.42 GI Name Description SLR SD

15966499 SMc04081 SqdD glycosyl transferase (sulfolipid biosynthesis) -3.29 0.40 15967073 SMc04085 Conserved hypothetical -3.19 0.54 15967075 SMc04088 PurH bifunctional enzyme -1.37 0.19 15967080 SMc04093 AcsA1 acetyl-coenzyme A synthetase -3.46 0.83 15963896 SMc04109 CpaE1 response regulator -3.58 0.86 15963893 SMc04112 CpaB1 pilus assembly protein -2.58 0.15 15963892 SMc04113 CpaA1 pilus assembly protein -3.55 0.59 15963891 SMc04114 PilA pilin -2.37 0.59 15963890 SMc04115 Conserved hypothetical -2.90 0.82 15963888 SMc04117 Conserved hypothetical, transmembrane -3.07 0.61 15965752 SMc04170 2-component receiver domain protein -2.53 0.56 15965757 SMc04175 Conserved hypothetical, transmembrane -2.23 0.26 15965761 SMc04179 Conserved hypothetical, transmembrane -1.98 0.23 15965779 SMc04198 Phage repressor protein -3.48 0.58 15965649 SMc04226 Lipoprotein -2.18 0.47 15965653 SMc04230 Conserved hypothetical, transmembrane -3.44 0.84 15965674 SMc04251 Mannitol-binding periplasmic protein -2.04 0.20 15965675 SMc04252 Oxidoreductase -2.38 0.24 15965684 SMc04261 Hypothetical -4.89 0.94 15965692 SMc04273 3-oxoacyl-acyl-carrier-protein synthase -3.31 0.34 15965694 SMc04277 (3R)-hydroxymyristoyl-[acyl carrier] dehydratase -1.44 0.23 15965695 SMc04278 AcpXL acyl carrier protein -1.91 0.95 15965701 SMc04286 Conserved hypothetical, transmembrane -2.41 0.95 15965802 SMc04291 L-sorbosone dehydrogenase -1.41 0.22 15965804 SMc04296 FtsZ2 cell division protein -2.35 0.33 15965711 SMc04304 CobW cobalamine biosynthesis protein -2.37 0.13 15965712 SMc04305 CobP bifunctional cobalamin biosynthesis protein -2.61 0.49 15965809 SMc04317 AfuA iron-binding periplasmic protein -4.28 0.48 15965815 SMc04323 Aminotransferase -2.57 0.43 15965730 SMc04331 MtbC dimethylamine corrinoid protein -1.76 0.22 15965821 SMc04346 IlvC ketol-acid reductoisomerase -2.49 0.31 15965825 SMc04352 Conserved hypothetical -3.55 0.26 15967038 SMc04381 Conserved hypothetical, transmembrane -1.62 0.34 15967041 SMc04383 Conserved hypothetical -2.55 0.50 15967042 SMc04384 Oxidoreductase -2.28 0.45 15967043 SMc04385 Aldehyde dehydrogenase -3.29 0.30 15967044 SMc04386 AatB aspartate aminotransferase B -3.90 0.35 15967046 SMc04388 Omega-amino acid--pyruvate aminotransferase -5.09 0.63 15967063 SMc04405 LeuB 3 isopropylmalate dehydrogenase -1.21 0.24 15967069 SMc04410 Asd aspartate-semialdehyde dehydrogenase -2.74 0.14 15967070 SMc04411 Membrane-bound lytic murein transglycosylase -2.34 0.48 15964254 SMc04429 Conserved hypothetical -2.22 0.33 15964199 SMc04434 RpmH 50S ribosomal protein L34 -2.95 1.28 15965379 SMc04449 CpdB 2',3'-cyclic-nucleotide 2' -phosphodiesterase -3.43 0.93 15965404 SMc04450 Mfd transcription-repair coupling factor -3.33 0.56 15966380 SMc04458 SecA preprotein translocase -3.09 0.31 15966596 SMc04460 GlgP glycogen -1.39 0.35 15966492 SMc04461 TolB protein -4.24 0.38 15967040 SMc04882 Transcriptional regulator -2.60 0.66

Increased in VO2675 (fixJ::Tn5) nodule bacteria compared to VO2675 grown in TY medium 14523122 SMa0121 Hypothetical 3.26 0.29 GI Name Description SLR SD

14524392 SMa2275 Conserved hypothetical 5.39 0.62 15140069 SMb20204 PqqA pyrroloquinoline quinone synthesis protein A 3.31 0.63 15140214 SMb20355 Hypothetical 3.96 0.72 15141114 SMb21400 Conserved hypothetical 2.03 0.32 15141158 SMb21442 Conserved hypothetical 3.09 0.56 15141170 SMb21456 Conserved hypothetical 4.25 0.60 15141196 SMb21483 Conserved hypothetical 4.17 0.81 15965461 SMc00280 Conserved hypothetical 4.40 1.15 15964498 SMc00800 Conserved hypothetical, transmembrane 2.84 0.60 15966189 SMc01505 Conserved hypothetical 2.68 0.40 15966055 SMc01551 Conserved hypothetical, transmembrane 2.64 0.34 15964965 SMc01774 Hypothetical, transmembrane 2.65 0.43 15964979 SMc01788 Conserved hypothetical 3.40 0.51 15965261 SMc02088 Conserved hypothetical 4.98 0.91 15964243 SMc02156 Conserved hypothetical 2.85 0.24 15964375 SMc02316 Conserved hypothetical 4.40 0.62 15966845 SMc03244 Conserved hypothetical 4.63 0.43

Decreased in VO2675 (fixJ::Tn5) nodule bacteria compared to VO2675 grown in TY medium 14523065 SMa0018 TRm2011-2a transposase -2.17 0.28 14523066 SMa0020 TRm2011-2b transposase -3.43 1.88 14523071 SMa0031 Hypothetical -3.92 0.38 14523074 SMa0036 ABC transporter -2.76 0.46 14523104 SMa0089 Conserved hypothetical -4.91 0.65 14523109 SMa0101 Conserved hypothetical -3.83 0.81 14523161 SMa0185 Transporter -2.77 1.38 14523195 SMa0241 Conserved hypothetical -3.20 0.48 14523198 SMa0247 Conserved hypothetical -2.52 0.53 14523199 SMa0249 Conserved hypothetical -3.09 0.81 14523200 SMa0250 Conserved hypothetical -4.14 0.66 14523201 SMa0252 Conserved hypothetical -4.70 0.74 14523203 SMa0254 Conserved hypothetical -3.06 1.24 14523266 SMa0359 Conserved hypothetical -1.50 0.71 14523276 SMa0380 Conserved hypothetical -4.05 1.92 14523283 SMa0392 ABC transporter -1.58 0.34 14523285 SMa0396 ABC transporter -4.45 0.79 14523286 SMa0398 HisD2 histidinol dehydrogenase -3.97 0.36 14523295 SMa0412 Hypothetical -2.14 0.81 14523308 SMa0444 TRm1b transposase -2.56 0.18 14523309 SMa0445 TRm1a transposase -1.45 0.29 14523366 SMa0545 Conserved hypothetical -2.26 0.89 14523463 SMa0708 Isomerase -2.48 1.04 14523481 SMa0738 CspA6 cold shock transcriptional regulator -2.46 0.73 14523485 SMa0744 GroEL2 chaperonin -2.46 0.44 14523486 SMa0745 GroES2 chaperonin -2.02 0.53 14523489 SMa0748 MucR-family transcriptional regulator -3.25 1.19 14523532 SMa0806 SyrB3 regulator -1.12 0.40 14523533 SMa0809 Conserved hypothetical -3.21 0.30 14523566 SMa0857 NodQ1 ATP-sulfurylase large subunit)-APS kinase -3.72 1.70 14523580 SMa0878 NodM Glutamine aminotransferase -4.18 1.73 14523590 SMa0896 Conserved hypothetical -1.22 0.53 14523630 SMa0976 TRm3 transposase fragment -2.08 0.83 GI Name Description SLR SD

14523640 SMa0995 TRm5 transposase -4.03 0.35 14523650 SMa1009 Conserved hypothetical -3.54 0.60 14523666 SMa1033 Conserved hypothetical -3.40 0.86 14523667 SMa1036 Conserved hypothetical -5.12 1.02 14523668 SMa1037 Conserved hypothetical -2.75 1.16 14523669 SMa1038 Copper-containing oxidase -5.46 0.49 14523670 SMa1041 Copper-containing oxidase -5.81 0.60 14523671 SMa1043 Conserved hypothetical -3.86 0.55 14523698 SMa1089 Conserved hypothetical -1.77 0.47 14523710 SMa1104 Conserved hypothetical -2.95 0.46 14523823 SMa1297 Conserved hypothetical -2.84 1.12 14523825 SMa1299 Conserved hypothetical -3.31 0.47 14523884 SMa1389 EtfA2 electron-transport flavoprotein, alpha-subunit -3.97 0.14 14523885 SMa1391 EtfB2 electron transport flavoprotein, beta subunit -3.96 0.41 14523896 SMa1413 Conserved hypothetical -1.63 0.45 14523912 SMa1440 5-dehydro-4-deoxyglucarate dehydratase -1.73 1.19 14523945 SMa1501 Conserved hypothetical -2.61 0.97 14523948 SMa1505 GntR-family transcriptional regulator -2.92 0.98 14523949 SMa1507 Conserved hypothetical -2.09 0.61 14523996 SMa1586 SyrB2 regulator -2.14 0.17 14524035 SMa1646 ABC transporter -2.00 1.06 14524071 SMa1697 Conserved hypothetical -3.04 0.22 14524072 SMa1698 SyrB regulator -1.71 0.47 14524076 SMa1702 Hypothetical 21.7 kda protein in syrB 5' region (orf4) -2.12 0.19 14524079 SMa1706 Conserved hypothetical -1.52 0.26 14524192 SMa1894 Conserved hypothetical -1.96 0.92 14524210 SMa1927 Conserved hypothetical -2.34 0.92 14524309 SMa2107 GntR-family transcriptional regulator -1.93 0.10 14524333 SMa2151 DNA-binding protein -1.16 0.22 14524361 SMa2217 Decarboxylase -2.99 1.15 14524366 SMa2227 Histidine utilization repressor protein -2.91 0.34 14524368 SMa2231 Conserved hypothetical -0.99 0.28 14524372 SMa2237 Hypothetical -3.77 0.63 14524374 SMa2241 Conserved hypothetical -2.16 1.46 14524376 SMa2245 Conserved hypothetical -5.20 0.51 14524383 SMa2257 Integrase-like protein -3.55 0.51 14524450 SMa2361 Conserved hypothetical -1.35 0.16 14524460 SMa2379 Catalase/peroxidase -2.28 0.33 14524463 SMa2385 ABC transporter -3.06 0.85 14524468 SMa2393 RepB2 replication protein -2.39 0.66 14524469 SMa2395 RepA2 replication protein -2.01 0.22 15139895 SMb20020 Pdh pyruvate dehydrogenase E1 component -2.66 0.23 15139928 SMb20056 ABC transporter -4.59 0.47 15139929 SMb20057 ABC transporter -4.63 0.37 15139930 SMb20058 ABC transporter -4.07 0.29 15139931 SMb20059 Conserved hypothetical -5.09 1.30 15139932 SMb20060 ISRm5 transposase -1.57 0.22 15139941 SMb20069 Amino acid carrier protein -2.82 0.21 15139977 SMb20105 Transcriptional regulator -3.21 1.07 15140026 SMb20154 Transcriptional regulator -3.29 0.86 15140042 SMb20170 Fdh glutathione-dependent formaldehyde dehydrogenase -2.94 0.83 15140122 SMb20260 Conserved hypothetical -2.69 0.87 GI Name Description SLR SD

15140124 SMb20262 Semialdehyde dehydrogenase -3.36 0.32 15140125 SMb20263 ABC transporter, amino acids -4.14 0.33 15140126 SMb20264 ABC transporter, amino acids -4.92 1.04 15140127 SMb20265 ABC transporter, amino acids -5.17 1.34 15140128 SMb20266 ABC transporter, amino acids -5.29 0.33 15140129 SMb20267 D-amino acid dehydrogenase -4.24 0.54 15140130 SMb20268 Proline racemase -1.63 0.25 15140131 SMb20269 Conserved hypothetical -3.78 0.42 15140143 SMb20281 ABC transporter, spermidine/putrescine -1.44 0.19 15140148 SMb20286 Conserved hypothetical -2.25 0.28 15140154 SMb20292 Conserved hypothetical -1.96 0.32 15140167 SMb20304 ISRm2011-2 transposase, C-terminal portion -3.71 0.62 15140168 SMb20306 ISRm2011-2 protein -1.91 0.39 15140194 SMb20335 Conserved hypothetical -2.10 0.84 15140206 SMb20347 Transcriptional regulator -1.93 0.70 15140280 SMb20421 ISRm21 transposase -3.94 0.30 15140303 SMb20448 Conserved hypothetical -2.20 0.30 15140304 SMb20449 Methyltransferase -2.98 0.44 15140311 SMb20456 Dehydrogenase -4.81 0.17 15140377 SMb20523 Conserved hypothetical, transmembrane -4.41 0.52 15140409 SMb20545 Hypothetical -4.15 0.50 15140420 SMb20556 Conserved hypothetical -4.42 0.35 15141385 SMb20585 Ggt gamma-glutamyltranspeptidase -2.44 0.94 15141395 SMb20595 FtsK2 cell division protein -4.96 0.89 15141396 SMb20596 Conserved hypothetical -4.79 0.63 15141398 SMb20598 RepA3 replication protein -2.88 0.60 15141245 SMb20650 Long-chain fatty-acid-CoA ligase -5.22 1.31 15141246 SMb20651 Conserved hypothetical -3.53 0.54 15141263 SMb20669 Conserved hypothetical, possibly hydroxypyruvate isomerase -2.92 0.50 15141300 SMb20705 Conserved hypothetical, transmembrane -3.89 1.49 15141327 SMb20747 Haloacid dehalogenase-epoxide hydrolase -2.57 1.03 15141329 SMb20749 UxuB D-mannonate oxidoreductase -1.69 0.76 15141335 SMb20755 PccB propionyl-CoA carboxylase beta chain -3.81 0.80 15141339 SMb20759 PhnG C-P (carbon-phosphorus) lyase -2.20 0.42 15141340 SMb20760 PhnH C-P (carbon-phosphorus) lyase -1.65 0.36 15141341 SMb20761 PhnI C-P (carbon-phosphorus) lyase -2.13 0.33 15141342 SMb20762 PhnJ C-P (carbon-phosphorus) lyase -4.50 0.26 15141359 SMb20779 ISRm2011-2, orfC N-terminus -1.87 0.42 15140431 SMb20806 Conserved hypothetical -2.07 0.30 15140432 SMb20807 Membrane protein -2.41 1.09 15140433 SMb20808 Membrane-anchored protein -3.71 0.98 15140440 SMb20815 Similar to protein involved in assembly of outer membrane proteins -1.17 0.16 15140448 SMb20823 RkpZ2 cell surface saccharide synthesis protein, truncated N-terminus -3.60 0.63 15140449 SMb20824 Membrane protein, slightly similar to carrier proteins -2.68 0.17 15140450 SMb20825 Acetyltransferase, CysE/LacA/LpxA/NodL family -3.14 1.22 15140458 SMb20830 KpsF2 involved in export machinery of a cell surface saccharide -3.29 1.19 15140459 SMb20831 RkpR/KpsE polysaccharide export-associated protein -2.07 0.08 15140466 SMb20838 Secreted calcium-binding protein -2.07 0.67 15141030 SMb20850 LldD3 L-lactate dehydrogenase (cytochrome) -4.26 0.51 15141054 SMb20873 Ureidoglycolate hydrolase -3.76 1.52 15141055 SMb20874 Conserved hypothetical -4.59 0.92 15141056 SMb20875 Conserved hypothetical -2.54 0.38 GI Name Description SLR SD

15141057 SMb20876 Conserved hypothetical -5.26 0.70 15141066 SMb20885 Conserved hypothetical -1.30 0.58 15141072 SMb20891 Dehydrogenase -4.49 0.25 15141074 SMb20893 GguB ABC transporter, sugar -3.05 1.21 15141075 SMb20894 GguA ABC transporter, sugar -2.62 0.53 15141078 SMb20897 Conserved hypothetical -2.06 0.53 15141081 SMb20899 IdhA myo-inositol dehydrogenase -2.72 0.76 15141101 SMb20915 AslA1 arylsulfatase protein -1.40 0.35 15140948 SMb20939 ExsC 6-pyruvoyl tetrahydropterin synthase -2.04 0.70 15140951 SMb20942 ExoB UDP glucose 4-epimerase -2.45 0.49 15140953 SMb20944 ExoQ polysaccharide polymerase -2.28 1.19 15140958 SMb20949 ExoV pyruvyltransferase -3.45 1.34 15140971 SMb20960 ExoN UDP glucose pyrophosphorylase -2.55 0.39 15140972 SMb20961 ExoP tyrosine kinase -1.56 0.57 15141009 SMb20996 Conserved hypothetical -1.32 0.19 15141010 SMb20997 Similar to periplasmic nitrate reductase NnuR -1.66 0.43 15141018 SMb21005 Conserved hypothetical -2.58 0.81 15141019 SMb21006 Hypothetical, membrane -3.45 0.98 15141020 SMb21007 Conserved hypothetical -2.18 0.85 15141022 SMb21009 GlpK glycerol kinase -2.70 0.73 15141023 SMb21010 BdhA D-beta-hydroxybutyrate dehydrogenase -2.70 0.25 15140492 SMb21035 Conserved hypothetical -1.86 0.54 15140509 SMb21045 Reverse transcriptase/maturase -2.42 0.43 15140556 SMb21092 Acetyltransferase -4.58 0.34 15140575 SMb21111 Oxidoreductase, RED superfamily -3.28 0.44 15140576 SMb21112 HpaG bifunctional enzyme -3.15 0.18 15140577 SMb21113 Similar to human rTSbeta protein -4.49 0.59 15140581 SMb21117 Transcriptional regulator -3.43 1.13 15140594 SMb21130 ABC transporter, sulfate uptake -1.06 0.35 15140595 SMb21131 ABC transporter, sulfate uptake -2.79 0.39 15140696 SMb21144 ABC transporter, choline uptake -1.39 0.50 15140708 SMb21156 Conserved hypothetical -3.72 0.28 15140715 SMb21163 HutU urocanate hydratase -2.02 0.16 15140717 SMb21165 HutH1 histidine ammonia-lyase -1.95 0.72 15140722 SMb21170 Guanylate kinase, also similar to PhnN -2.71 0.29 15140723 SMb21171 PhnM phosponate metabolism protein -4.70 1.11 15140726 SMb21174 PhoT ABC transporter, phosphate uptake -3.69 0.39 15140727 SMb21175 PhoE ABC transporter, phosphate uptake -4.31 0.49 15140728 SMb21176 PhoD ABC transporter, phosphate uptake -3.81 0.21 15140729 SMb21177 PhoC ABC transporter, phosphate uptake -3.36 0.56 15140733 SMb21181 Glutaryl-CoA dehydrogenase -2.79 0.38 15140734 SMb21182 Conserved hypothetical, membrane-anchored -1.98 0.58 15140735 SMb21183 HtpG chaperonin, hsp90 family -2.16 0.35 15140737 SMb21185 GabD2 succinate-semialdehyde dehydrogenase -6.16 0.39 15140738 SMb21186 GabT 4-aminobutyrate aminotransferase -5.06 0.41 15140740 SMb21188 Acyltransferase, possibly surface-saccharide-specific -3.20 1.24 15140744 SMb21192 CbbA2 fructose-bisphosphate aldolase -3.75 0.53 15140747 SMb21196 OppA ABC transporter, oligopeptide uptake -3.44 0.25 15140748 SMb21197 OppB ABC transporter, oligopeptide uptake -4.49 0.49 15140749 SMb21198 OppC ABC transporter, oligopeptide uptake -3.86 0.55 15140750 SMb21199 OppD ABC transporter, oligopeptide uptake -5.42 1.30 15140761 SMb21209 Two-component sensor histidine kinase -2.89 0.77 GI Name Description SLR SD

15140643 SMb21254 Conserved hypothetical -2.77 0.47 15140645 SMb21256 Nucleotide sugar oxidase -3.14 0.55 15140647 SMb21258 Adenylate cyclase, truncated -1.07 0.24 15140662 SMb21273 PotD ABC transporter, spermidine/putrescine -2.54 0.79 15140688 SMb21299 DeoR-family transcriptional regulator -3.05 0.56 15140692 SMb21302 Conserved hypothetical -2.64 0.92 15140777 SMb21315 ExpD2 membrane fusion protein, secretes ExpE1 -1.77 0.54 15141130 SMb21416 DdhA glucose-1-phosphate cytidylyltransferase -2.04 0.20 15141131 SMb21417 DdhB CDP-glucose 4,6-dehydratase -1.15 0.45 15141132 SMb21418 NDP-hexose 3-C-methyltransferase -3.70 0.75 15141142 SMb21427 Acetyltransferase -2.18 0.50 15141146 SMb21431 ABC transporter, iron -1.95 0.76 15141178 SMb21465 PrsE secretion protein, HlyD family -2.86 0.57 15141179 SMb21466 ABC transporter -2.29 0.37 15141180 SMb21467 Hypothetical -3.02 0.55 15141192 SMb21479 Conserved hypothetical -2.45 0.27 15141207 SMb21491 Conserved hypothetical -2.16 0.28 15141210 SMb21494 Ocd ornithine cyclodeaminase -2.62 0.67 15141221 SMb21504 Slightly similar to carbohydrate deacetylase -2.67 1.15 15141223 SMb21506 Cell surface polysaccharide export, slightly ExoP-like -1.44 0.35 15141231 SMb21514 HemK2 modification methylase -4.45 0.40 15141232 SMb21515 Conserved hypothetical -2.06 0.75 15141239 SMb21522 MinE cell division inhibitor -4.67 0.56 15141240 SMb21523 MinD cell division inhibitor -2.80 0.37 15141241 SMb21524 MinC cell division inhibitor -2.18 0.22 15140892 SMb21566 GroEL5 chaperonin -4.34 1.07 15140893 SMb21567 Hypothetical -3.95 1.07 15140895 SMb21569 Transcriptional regulator -2.73 1.37 15140905 SMb21579 MerR-family transcriptional regulator -2.28 0.50 15140926 SMb21600 AmpC exported beta-lactamase -2.02 1.04 15141437 SMb21630 Conserved hypothetical -3.45 0.33 15141438 SMb21631 NspC carboxynorspermidine decarboxylase -2.19 0.27 15141450 SMb21643 AgaL2 alpha-galactosidase -1.60 0.41 15141205 SMb21688 Hypothetical -3.12 0.60 15140959 SMb21690 ExoW glucosyltransferase -2.86 0.56 15141362 SMb21702 ISRm2011-2, orfB -2.64 0.27 15964649 SMc00002 Conserved hypothetical -2.44 0.80 15964651 SMc00005 FabI1 enoyl-acyl-carrier-protein reductase -2.95 0.20 15964652 SMc00006 Conserved hypothetical -4.08 0.80 15964657 SMc00009 CtaC cytochrome c oxidase subunit II -2.47 0.35 15964658 SMc00010 CtaD cytochrome c oxidase polypeptide I -3.87 0.14 15964661 SMc00012 CtaG cytochrome c oxidase assembly protein -2.20 0.14 15964662 SMc00013 CtaE cytochrome c oxidase subunit III -4.34 0.39 15964663 SMc00014 Conserved hypothetical -2.12 0.38 15964666 SMc00017 ThrB homoserine kinase -2.40 0.50 15964675 SMc00020 Conserved hypothetical -1.98 0.60 15964679 SMc00021 CcrM adenine DNA methyltransferase -3.62 0.76 15964705 SMc00033 Conserved hypothetical -4.40 0.37 15964706 SMc00034 Oxidoreductase -2.85 0.47 15964709 SMc00036 Gst1 glutathione S-transferase -1.67 0.26 15964715 SMc00040 Conserved hypothetical -2.23 0.25 15964726 SMc00043 SodB superoxide dismutase -2.13 0.42 GI Name Description SLR SD

15964745 SMc00051 PhaA2 cation efflux system protein -3.11 0.76 15964747 SMc00053 PhaC2 cation efflux system protein -2.28 0.56 15964752 SMc00058 MucR transcriptional regulator -1.42 0.14 15964755 SMc00059 Sensor histidine kinase -2.04 0.54 15964759 SMc00062 Conserved hypothetical -1.27 0.53 15964769 SMc00067 LppA outer-membrane lipoprotein -3.94 0.24 15964648 SMc00069 PdxH pyridoxamine 5' -phosphate oxidase -1.62 0.37 15964653 SMc00070 Conserved hypothetical -1.19 0.41 15964656 SMc00071 IalB Conserved hypothetical -2.05 0.27 15964672 SMc00075 RimJ ribosomal-protein-alanine acetyltransferase -1.77 0.31 15964676 SMc00078 LivJ Leu/Ile/Val-binding protein -2.47 0.52 15964677 SMc00079 Conserved hypothetical -1.27 0.40 15964680 SMc00081 Conserved hypothetical -1.58 0.25 15964692 SMc00088 Conserved hypothetical, transmembrane -3.37 0.89 15964711 SMc00097 Gst2 glutathione S-transferase -5.78 0.83 15964717 SMc00100 Conserved hypothetical -2.38 0.45 15964731 SMc00108 Acetyltransferase -1.83 0.44 15964736 SMc00112 Conserved hypothetical -2.21 0.99 15964738 SMc00114 PtrB serine protease -2.03 0.66 15964758 SMc00120 Conserved hypothetical -2.78 0.73 15964660 SMc00130 Conserved hypothetical, transmembrane -3.37 0.69 15965630 SMc00133 Oxidoreductase -2.72 0.52 15965629 SMc00134 Conserved hypothetical -2.48 0.56 15965627 SMc00136 Oxidoreductase -3.60 0.89 15965625 SMc00138 ABC transporter, amino acids -1.99 0.34 15965624 SMc00139 ABC transporter, amino acids -2.17 0.29 15965623 SMc00140 ABC transporter, amino acids -1.41 0.26 15965621 SMc00141 Conserved hypothetical -2.19 0.45 15965617 SMc00144 MoaA molybdenum cofactor biosynthesis protein -1.38 0.57 15965616 SMc00145 Conserved hypothetical -2.14 0.62 15965613 SMc00148 Conserved hypothetical -2.10 0.39 15965612 SMc00149 FumC fumarate hydratase class II -2.48 0.27 15965611 SMc00150 Conserved hypothetical -3.50 1.01 15965610 SMc00151 Gph1 phosphoglycolate phosphatase -1.29 0.34 15965608 SMc00153 Conserved hypothetical -2.41 0.23 15965607 SMc00154 Gor glutathione reductase -2.12 0.11 15965606 SMc00155 AroF DAHP synthetase -2.56 0.38 15965602 SMc00159 Conserved hypothetical -4.31 0.39 + 15965599 SMc00161 NadE2 NH3-dependent NAD synthetase -1.16 0.20 15965586 SMc00174 Conserved hypothetical, transmembrane -2.28 0.41 15965585 SMc00175 ABC transporter -3.34 0.56 15965584 SMc00176 Conserved hypothetical -1.85 0.39 15965583 SMc00177 Conserved hypothetical -1.78 0.40 15965580 SMc00180 HemF coproporphyrinogen III oxidase, aerobic protein -1.82 0.72 15965574 SMc00185 ABC transporter -1.96 0.42 15965573 SMc00186 ABC transporter -1.67 0.22 15965572 SMc00187 FbcF ubiquinol-cytochrome c reductase, iron-sulfur subunit -2.34 0.20 15965571 SMc00188 FbcB cytochrome b -2.48 0.63 15965570 SMc00189 FbcC cytochrome c1 -3.03 0.41 15965568 SMc00191 Conserved hypothetical -2.76 0.82 15965566 SMc00193 Hypothetical -1.60 0.75 15965622 SMc00198 Hypothetical -1.85 0.76 GI Name Description SLR SD

15964720 SMc00225 Tam trans-aconitate methyltransferase -1.56 0.38 15965405 SMc00227 Conserved hypothetical -1.89 0.37 15965408 SMc00230 Conserved hypothetical -4.93 0.70 15965412 SMc00234 PpiD peptidyl-prolyl cis-trans isomerase -2.93 0.46 15965413 SMc00235 TrpD anthranilate phosphoribosyltransferase -3.50 1.15 15965414 SMc00236 TrpC Indole-3-glycerol phosphate synthase -1.24 0.24 15965416 SMc00238 MoeA molybdopterin biosynthesis protein -3.13 1.07 15965419 SMc00241 Transcriptional regulator -3.58 1.09 15965420 SMc00242 Conserved hypothetical -1.60 0.09 15965424 SMc00246 Quinone oxidoreductase -2.80 0.41 15965425 SMc00247 Pcs phosphatidylcholine synthase -5.36 0.84 15965429 SMc00249 Hypothetical -2.78 0.36 15965436 SMc00255 Hypothetical -1.36 0.32 15965471 SMc00289 CspA5 cold shock transcriptional regulator -2.52 0.46 15965475 SMc00293 ThrA homoserine dehydrogenase -2.97 1.03 15965476 SMc00294 Aminotransferase -2.81 0.24 15965477 SMc00295 Conserved hypothetical -1.66 0.23 15965478 SMc00296 PhbC poly3-hydroxybutyrate polymerase -1.28 0.67 15965480 SMc00298 Map1 methionine aminopeptidase -1.50 0.49 15965482 SMc00300 Oxidoreductase -2.81 1.34 rna8 SMc00308 tRNA Arg_TCT -2.69 0.26 15963994 SMc00321 TruB TRNA pseudouridine synthase b -2.21 0.65 15963996 SMc00323 RpsO 30S ribosomal protein S15 -1.73 0.51 15963997 SMc00324 Pnp polyribonucleotide nucleotidyltransferase -3.18 0.53 15963998 SMc00325 Conserved hypothetical -3.02 0.64 15963999 SMc00326 FabI2 enoyl-acyl-carrier-protein reductase -3.99 1.01 15964000 SMc00327 FabB 3-oxoacyl-acyl-carrier-protein synthase I -2.75 0.20 15964001 SMc00328 FabA 3-hydroxydecanoyl-acyl-carrier-protein dehydratase -2.01 0.21 15964002 SMc00329 Irr iron response regulator protein -1.39 0.13 15964005 SMc00332 Conserved hypothetical -2.43 0.26 15964006 SMc00333 AroA 3-phosphoshikimate 1-carboxyvinyltransferase -2.09 0.19 15964007 SMc00334 Cmk cytidylate kinase -1.56 0.18 15964008 SMc00335 RpsA 30S ribosomal protein S1 -2.66 0.37 15964009 SMc00336 Conserved hypothetical -2.12 0.93 15964015 SMc00342 Conserved hypothetical -2.17 0.57 15964022 SMc00349 LepA GTP-binding protein -2.41 0.32 15964026 SMc00353 Conserved hypothetical -1.53 0.31 15964027 SMc00354 Conserved hypothetical -2.62 0.12 15964030 SMc00357 Efp elongation factor P -1.85 1.12 15964035 SMc00362 InfC translation initiation factor IF-3 -1.67 0.27 15964036 SMc00363 RpmI 50S ribosomal protein L35 -2.90 0.23 15964037 SMc00364 RplT 50S ribosomal protein L20 -3.22 0.25 15964038 SMc00365 PheS phenylalanyl-tRNA synthetase alpha chain -4.26 0.54 15964039 SMc00366 PheT phenylalanyl-tRNA synthetase beta chain -2.63 0.37 15964048 SMc00375 Oxidoreductase -3.70 0.31 15964055 SMc00382 Aminopeptidase -2.79 0.58 15964056 SMc00383 Gst3 glutathione S-transferase -3.38 1.10 15964061 SMc00388 Conserved hypothetical -3.58 0.39 15964067 SMc00394 GuaA GMP synthase -4.47 0.47 15964069 SMc00396 Conserved hypothetical -2.98 0.57 15964076 SMc00403 Conserved hypothetical -1.90 0.56 15964080 SMc00407 Gst4 glutathione S-transferase -1.80 0.37 GI Name Description SLR SD

15964081 SMc00408 -3.30 1.02 15964082 SMc00409 Conserved hypothetical -1.72 0.23 15964083 SMc00410 Oxidoreductase -2.84 0.32 15964084 SMc00411 Conserved hypothetical -2.17 0.28 15964087 SMc00414 Conserved hypothetical -2.93 0.17 15964088 SMc00415 DnaN DNA polymerase III, beta chain -3.12 0.34 15964092 SMc00420 Conserved hypothetical -2.70 1.11 15964093 SMc00421 CysK1 cysteine synthase A -1.60 0.24 15964099 SMc00427 PrfC peptide chain release factor RF-3 -2.20 1.36 15964105 SMc00433 IolE myo-inositol catabolism protein -4.81 0.85 15964659 SMc00450 CtaB heme O synthase -2.59 0.37 15964673 SMc00451 Protease -2.84 1.56 15964762 SMc00457 Conserved hypothetical, transmembrane -3.21 1.08 15965563 SMc00463 FolB dihydroneopterin aldolase -1.13 0.38 15965558 SMc00468 Conserved hypothetical -1.43 0.41 15965554 SMc00472 Conserved hypothetical -2.52 0.44 15965551 SMc00475 AlaS alanyl-tRNA ligase -2.14 0.32 15965545 SMc00480 Icd isocitrate dehydrogenase -2.48 0.42 15965541 SMc00484 Conserved hypothetical -3.42 0.50 15965540 SMc00485 RpsD 30S ribosomal subunit protein S4 -2.69 0.42 15965532 SMc00488 Phosphoribosylformyl glycinamidine synthetase II -3.40 1.78 15965531 SMc00489 Conserved hypothetical -5.07 0.58 15965528 SMc00492 Conserved hypothetical, transmembrane -3.25 0.30 15965527 SMc00493 PurQ phosphoribosylformyl glycinamidine synthase I -2.17 0.22 15965526 SMc00494 Conserved hypothetical -2.39 0.21 15965525 SMc00495 PurC Phosphoribosylaminoimidazole-succinocarboxamide synthase -3.12 0.40 15965515 SMc00505 Conserved hypothetical -2.58 0.52 15965512 SMc00508 PurB adenylosuccinate lyase -2.12 0.51 15965499 SMc00521 Conserved hypothetical -2.17 0.20 15965498 SMc00522 RhlE1 ATP-dependent RNA helicase -1.60 0.37 15965492 SMc00526 TyrS tyrosyl-tRNA synthetase -1.82 0.47 15965490 SMc00528 Conserved hypothetical -4.19 0.38 15965538 SMc00534 Conserved hypothetical -1.75 0.21 15965536 SMc00536 Transport protein -3.24 1.12 15965535 SMc00537 Transport protein -4.66 1.22 15965561 SMc00548 Conserved hypothetical -3.62 0.34 15964873 SMc00550 ABC transporter -2.53 0.59 15964874 SMc00551 Conserved hypothetical, transmembrane -1.61 0.53 15964876 SMc00553 Oxidoreductase -2.93 0.62 15964877 SMc00554 PurF amidophosphoribosyltransferase -1.66 0.53 15964878 SMc00555 CrpA colicin V production homolog -2.98 0.18 15964884 SMc00561 DnaB replicative DNA helicase -3.39 1.57 15964888 SMc00565 RplI 50S ribosomal protein L9 -2.76 0.49 15964889 SMc00566 Conserved hypothetical, transmembrane -3.93 0.30 15964890 SMc00567 RpsR 30S ribosomal protein S18 -4.77 0.55 15964891 SMc00568 RpsF 30S ribosomal protein S6 -4.26 0.42 15964893 SMc00570 Oxidoreductase -2.57 0.61 15964894 SMc00571 FabD malonyl CoA-acyl carrier protein transacylase -2.03 0.42 15964895 SMc00572 FabG 3-oxoacyl-acyl-carrier protein reductase -3.98 0.94 15964896 SMc00573 AcpP acyl carrier protein -1.61 0.28 15964897 SMc00574 FabF 3-oxoacyl-acyl-carrier-protein synthase II -2.95 0.32 15964898 SMc00575 Conserved hypothetical -1.65 0.12 GI Name Description SLR SD

15964899 SMc00576 Conserved hypothetical -2.84 0.53 15964900 SMc00577 Gmk guanylate kinase -2.44 1.11 15964901 SMc00578 Conserved hypothetical -3.19 0.66 15964902 SMc00579 KsgA dimethyladenosine transferase -3.05 0.49 15964904 SMc00581 Conserved hypothetical -1.93 0.16 15964905 SMc00582 Conserved hypothetical -3.62 1.06 15964906 SMc00583 Conserved hypothetical, transmembrane -2.19 0.42 15964908 SMc00585 PepA aminopeptidase A/I -1.67 0.23 15964909 SMc00586 Conserved hypothetical -1.73 0.64 15964912 SMc00590 ABC transporter -2.78 0.42 15964915 SMc00593 Conserved hypothetical -5.35 0.73 15964916 SMc00594 LigE beta-etherase -1.81 0.36 15964917 SMc00595 Ndk nucleoside diphosphate kinase -1.53 0.46 15964922 SMc00600 MoaD molybdopterin mpt converting factor -1.86 0.44 15964923 SMc00601 PgsA phosphatidyltransferase -2.60 0.36 15964926 SMc00604 RopB1 outer membrane protein -3.60 0.29 15964927 SMc00605 Zinc finger domain protein -2.94 0.60 15964929 SMc00607 Conserved hypothetical -1.91 0.51 15964930 SMc00608 Conserved hypothetical -2.28 0.29 15964931 SMc00609 DmsA anaerobic dimethyl sulfoxide reductase chain A -3.09 0.65 15964932 SMc00610 Conserved hypothetical -4.40 0.70 15964937 SMc00615 PurM phosphoribosylformylglycinamidine cyclo-ligase -2.67 0.32 15964940 SMc00618 Ppk polyphosphate kinase -5.02 0.52 15964941 SMc00619 Conserved hypothetical -2.19 0.62 15964942 SMc00620 Conserved hypothetical -3.74 0.49 15964944 SMc00622 Rnd ribonuclease D -1.33 0.30 15966486 SMc00638 Heat resistant agglutinin 1 -3.75 0.97 15966484 SMc00640 SerC phosphoserine aminotransferase -1.90 0.47 15966481 SMc00643 PurA adenylosuccinate synthetase -2.07 0.69 15966480 SMc00644 Conserved hypothetical -1.67 0.57 15966478 SMc00647 RluD ribosomal large subunit pseudouridine synthase -1.49 0.32 15966477 SMc00648 Conserved hypothetical, transmembrane -2.25 0.29 15966474 SMc00651 Conserved hypothetical -1.78 0.19 15966473 SMc00652 Conserved hypothetical -3.53 0.41 15966471 SMc00654 CtrA response regulator -2.68 0.23 15966470 SMc00655 Conserved hypothetical -4.66 0.47 15966468 SMc00657 Conserved hypothetical -2.18 0.44 15966444 SMc00681 Lrp leucine-responsive regulatory protein -2.34 1.09 15966443 SMc00682 HipO1 hippurate hydrolase -3.14 0.30 15966442 SMc00683 Penicillin-binding protein -2.97 0.37 15966440 SMc00684 Conserved hypothetical -1.63 0.56 15966441 SMc00685 Conserved hypothetical -2.92 0.82 15966435 SMc00690 AccA acetyl-coenzyme A carboxylase -2.14 0.50 15966433 SMc00692 Conserved hypothetical -1.19 0.46 15966431 SMc00694 Conserved hypothetical -1.24 0.32 15966429 SMc00696 AroB 3-dehydroquinate synthase -3.82 0.85 15966425 SMc00700 CobS cobalamin biosynthesis protein -2.06 0.26 15966424 SMc00701 CobT cobalamin biosynthesis protein -1.54 0.33 15966422 SMc00703 Conserved hypothetical, transmembrane -3.37 0.44 15966421 SMc00704 RpmB 50S ribosomal protein L28 -1.77 0.52 15966414 SMc00711 TyrC cyclohexadienyl dehydrogenase -2.47 0.42 15966411 SMc00714 1-acyl-sn-glycerol-3-phosphate acyltransferase -1.91 0.32 GI Name Description SLR SD

15966406 SMc00719 Hpt hypoxanthine phosphoribosyltransferase -1.48 0.14 15966405 SMc00720 2-component receiver domain protein -2.26 0.33 15966402 SMc00723 LysA diaminopimelate decarboxylase -3.21 0.53 15966401 SMc00724 Conserved hypothetical -4.64 0.34 15966400 SMc00725 ArgH1 argininosuccinate lyase -1.65 0.46 15966398 SMc00727 HbdA 3-hydroxybutyryl-CoA dehydrogenase -2.47 0.26 15966393 SMc00732 Conserved hypothetical, transmembrane -1.84 0.37 15966382 SMc00743 Conserved hypothetical, transmembrane -2.28 0.77 15964459 SMc00762 Glutamine synthetase -3.75 0.25 15964462 SMc00765 McpZ methyl-accepting chemotaxis protein -3.48 0.77 15964467 SMc00770 PotF putrescine-binding periplasmic protein -1.53 0.35 15964469 SMc00772 PotH ABC transporter, putrescine -2.11 0.23 15964472 SMc00774 AcsA2 acetoacetyl-CoA synthetase -3.02 1.31 15964484 SMc00786 DppA1 ABC transporter, dipeptides -3.47 0.46 15964485 SMc00787 DppB1 ABC transporter, dipeptides -4.04 0.32 15964486 SMc00788 DppC1 ABC transporter, dipeptides -4.33 0.18 15964487 SMc00789 DppD1 ABC transporter, dipeptides -4.40 0.31 15964488 SMc00790 DppF1 ABC transporter, dipeptides -4.10 0.40 15964489 SMc00791 Conserved hypothetical -1.75 0.63 15964495 SMc00797 Oxidoreductase -2.82 1.01 15964508 SMc00810 Conserved hypothetical -2.01 1.00 15964511 SMc00813 Conserved hypothetical, transmembrane -2.47 1.14 15964514 SMc00816 Conserved hypothetical, transmembrane -3.69 0.77 15964515 SMc00817 Carboxymethylenebutenolidase -1.36 0.27 15964518 SMc00820 Transcriptional regulator -3.10 0.60 15964519 SMc00821 Conserved hypothetical -2.31 0.47 15964523 SMc00825 Gsh1 glutamate--cysteine ligase -2.88 0.07 15964525 SMc00827 Conserved hypothetical, transmembrane -1.92 0.24 15964528 SMc00830 Conserved hypothetical, transmembrane -2.72 0.80 15964471 SMc00838 Conserved hypothetical, transmembrane -3.17 1.03 rna13 SMc00841 tRNA His_GTG -2.15 0.41 rna13 SMc00841 tRNA His_GTG -1.67 0.53 15964608 SMc00851 GlyS glycyl-tRNA synthetase beta chain -1.54 0.54 15964606 SMc00853 Conserved hypothetical, transmembrane -2.00 0.27 15964604 SMc00855 GlyQ glycyl-tRNA synthetase alpha chain -1.64 0.21 15964599 SMc00860 IspB octaprenyl-diphosphate synthase -1.30 0.26 15964594 SMc00865 Conserved hypothetical -3.20 1.27 15964591 SMc00868 AtpF ATP synthase chain B -1.96 0.22 15964590 SMc00869 AtpF2 ATP synthase subunit B' -3.43 0.22 15964589 SMc00870 AtpE ATP synthase subunit C -2.68 0.69 15964588 SMc00871 AtpB ATP synthase chain A -3.33 0.15 15964587 SMc00872 AtpI1 ATP synthase, subunit I -2.18 0.27 15964584 SMc00874 CorA2 magnesium and cobalt transporter -1.81 1.07 15964581 SMc00878 Transcriptional regulator -1.33 0.28 15964579 SMc00880 Oxidoreductase -1.42 0.21 15964578 SMc00881 DgoK1 2-dehydro-3-deoxygalactonokinase -1.91 0.34 15964576 SMc00883 Conserved hypothetical -2.10 0.14 15964575 SMc00884 IlvD1 dihydroxy-acid dehydratase -2.22 0.27 15964571 SMc00887 Conserved hypothetical, GGDEF, EAL motifs -2.31 0.57 15964570 SMc00888 2-component receiver domain protein -4.59 0.57 15964561 SMc00896 Sulfite biosynthesis protein -3.02 0.53 15964560 SMc00897 PmbA, conserved hypothetical -2.76 0.86 GI Name Description SLR SD

15964551 SMc00907 Conserved hypothetical, transmembrane -1.51 0.18 15964550 SMc00908 IleS isoleucyl-tRNA synthetase -1.57 0.34 15964544 SMc00914 Oxidoreductase -3.49 1.28 15964542 SMc00916 Gst11 glutathione S-transferase -1.39 0.24 15964539 SMc00919 HisS histidyl-tRNA synthetase -1.86 0.22 15964536 SMc00922 Transport protein -2.32 0.35 15964535 SMc00923 Tag DNA-3-methyladenine glycosylase I -1.95 0.43 15964534 SMc00924 Conserved hypothetical -3.79 0.66 15964533 SMc00925 Conserved hypothetical -3.27 0.13 15965388 SMc00943 WrbA1 trp repressor binding protein homolog -1.96 0.28 15965389 SMc00944 Conserved hypothetical -2.60 1.52 15965390 SMc00945 Gpt xanthine-guanine phosphoribosyltransferase -3.75 1.21 15965392 SMc00947 GlnB nitrogen regulatory protein PII -1.96 0.22 15965393 SMc00948 GlnA glutamine synthetase I -3.92 0.27 15965395 SMc00950 Conserved hypothetical -2.01 0.25 15964644 SMc00961 Conserved hypothetical -3.86 0.49 15964641 SMc00964 Conserved hypothetical, transmembrane -3.16 0.39 15964640 SMc00965 Conserved hypothetical -2.92 0.46 15964639 SMc00966 Acetyl-CoA acyltransferase -1.58 0.34 15964636 SMc00969 Conserved hypothetical -2.14 0.48 15964635 SMc00970 Exodeoxyribonuclease -1.61 0.33 15964634 SMc00971 Conserved hypothetical -1.73 0.36 15964633 SMc00972 Dxs 1-deoxyxylulose-5-phosphate synthase -1.88 0.36 15964630 SMc00975 McpU methyl-accepting chemotaxis protein -4.97 0.40 15964627 SMc00978 Conserved hypothetical, transmembrane -3.15 0.46 15964622 SMc00983 Conserved hypothetical -3.98 1.05 15964618 SMc00987 Conserved hypothetical -1.30 0.47 15964614 SMc00990 Fsr fosmidomycin resistance protein -5.27 0.83 15964613 SMc00991 Putrescine-binding periplasmic protein -3.48 0.43 15964611 SMc00993 PurD phosphoribosylamine--glycine ligase -4.50 0.48 15965164 SMc00996 Conserved hypothetical -3.98 0.25 15965171 SMc01003 Conserved hypothetical -1.90 0.27 15965178 SMc01010 ThrS threonyl-tRNA synthetase -2.67 0.86 15965179 SMc01011 Conserved hypothetical -1.86 0.54 15965186 SMc01018 ParE topoisomerase IV subunit B -2.07 0.41 15965192 SMc01024 Conserved hypothetical, transmembrane -1.33 0.48 15965193 SMc01025 PyrG CTP synthase -1.34 0.15 15965195 SMc01027 KdsA 2-dehydro-3-deoxyphosphooctonate aldolase -2.78 0.26 15965196 SMc01028 Eno enolase -2.23 0.18 15965197 SMc01029 Conserved hypothetical -1.73 0.49 15965214 SMc01045 NtrX nitrogen regulation protein -3.89 0.66 15965217 SMc01048 NrfA RNA binding protein -1.01 0.31 15965220 SMc01051 Conserved hypothetical -1.88 0.52 15965221 SMc01052 Conserved hypothetical -2.16 0.11 15965163 SMc01068 Conserved hypothetical -3.31 0.40 15964185 SMc01089 Conserved hypothetical, transmembrane -2.08 0.33 15964179 SMc01095 Multidrug-efflux protein -1.64 0.60 15964173 SMc01100 Fmt methionyl-tRNA formyltransferase -3.32 0.88 15964172 SMc01101 Def1 polypeptide deformylase -2.67 0.25 15964169 SMc01104 McpX methyl-accepting chemotaxis protein -3.20 0.59 15964165 SMc01108 Conserved hypothetical -2.70 0.28 15964164 SMc01109 MetK S-adenosylmethionine synthetase -3.28 0.42 GI Name Description SLR SD

15964163 SMc01110 PhrR DNA-binding protein -1.59 0.40 15964161 SMc01112 Conserved hypothetical -2.18 0.10 15964159 SMc01114 Conserved hypothetical -2.28 0.09 15964153 SMc01120 Conserved hypothetical -2.36 0.51 15964152 SMc01121 TrpS tryptophanyl-tRNA synthetase -2.95 0.15 15964150 SMc01123 MviN virulence factor homolog, transmembrane -2.89 1.01 15964148 SMc01125 MutS DNA mismatch repair protein -1.56 0.49 15964147 SMc01126 Tme NADP-dependent malic enzyme -1.75 0.22 15964146 SMc01127 Conserved hypothetical -2.45 0.46 15964145 SMc01128 Sensor histidine kinase -3.11 0.35 15964144 SMc01129 LspA lipoprotein signal peptidase, transmembrane -1.81 1.28 15964142 SMc01131 Conserved hypothetical -1.34 0.19 15964136 SMc01137 Conserved hypothetical, transmembrane -1.86 0.36 15964135 SMc01138 ABC transporter -3.77 0.24 15964122 SMc01151 Conserved hypothetical -2.94 0.49 15964120 SMc01152 RpsT 30S ribosomal protein S20 -1.49 0.25 15964109 SMc01163 Oxidoreductase -3.56 1.30 15964108 SMc01164 Conserved hypothetical -2.47 0.93 15964121 SMc01167 DnaA chromosomal replication initiator protein -3.28 0.47 15965377 SMc01169 Ald alanine dehydrogenase -2.40 0.24 15965373 SMc01173 Conserved hypothetical -1.90 0.25 15965370 SMc01176 Conserved hypothetical -1.54 0.17 15965369 SMc01177 Conserved hypothetical -1.75 0.16 15965359 SMc01187 RlpA rare lipoprotein a precursor -2.74 0.87 15965357 SMc01189 Tmk thymidylate kinase -1.29 0.42 15965354 SMc01192 MetS methionyl-tRNA synthetase -2.14 0.32 15965353 SMc01193 Conserved hypothetical -1.73 1.05 15965344 SMc01200 Conserved hypothetical, transmembrane -1.68 0.33 15965343 SMc01202 Lipoprotein -2.95 0.30 15965342 SMc01203 Conserved hypothetical, transmembrane -3.52 1.52 15965340 SMc01205 Amino-acid-binding periplasmic protein -2.68 1.21 15965338 SMc01207 QueA S-adenosylmethionine:tRNA ribosyltransferase-isomerase -2.91 0.24 15965337 SMc01208 PpiB peptidyl-prolyl cis-trans isomerase B -3.81 0.89 15965335 SMc01209 CoaD phosphopantetheine adenylyltransferase -3.62 0.72 15965329 SMc01215 CarB carbamoyl-phosphate synthase large chain -1.62 0.42 15965326 SMc01218 GreA transcription elongation factor -1.85 0.91 15965323 SMc01221 LpSD lipopolysaccharide core biosynthesis glycosyl transferase -2.75 0.53 15965320 SMc01224 TrxB thioredoxin reductase -2.09 0.62 15965319 SMc01225 Transcriptional regulator -1.20 0.18 15965317 SMc01227 NerA glycerol trinitrate reductase -2.46 0.40 15965311 SMc01233 Ssb single-strand binding protein -1.59 0.09 15965310 SMc01235 UvrA excinuclease ABC subunit A -3.00 0.86 15965308 SMc01237 Nrd ribonucleotide reductase -3.50 0.30 15965303 SMc01242 Signal peptide -3.86 0.36 15965147 SMc01270 AdhC1 alcohol dehydrogenase class III -2.41 0.32 15965144 SMc01273 S-formylglutathione hydrolase -2.86 1.32 15965134 SMc01283 RplQ 50S ribosomal protein L17 -2.56 0.19 15965133 SMc01285 RpoA DNA-directed RNA polymerase alpha chain -3.38 0.39 15965132 SMc01286 RpsK 30S ribosomal protein S11 -3.45 0.39 15965131 SMc01287 RpsM 30S ribosomal protein S13 -2.79 0.68 15965130 SMc01288 Adk adenylate kinase -2.95 0.11 15965129 SMc01289 SecY preprotein translocase -4.70 0.18 GI Name Description SLR SD

15965128 SMc01290 RplO 50S ribosomal protein L15 -3.23 0.38 15965127 SMc01291 RpmD 50S ribosomal protein L30 -2.76 0.32 15965126 SMc01292 RpsE 30S ribosomal protein S5 -3.58 0.34 15965125 SMc01293 RplR 50S ribosomal protein L18 -3.25 0.18 15965124 SMc01294 RplF 50S ribosomal protein L6 -3.81 0.35 15965123 SMc01295 RpsH 30S ribosomal protein S8 -3.13 0.24 15965122 SMc01296 RpsN 30S ribosomal protein S14 -3.57 0.37 15965121 SMc01297 RplE 50S ribosomal protein L5 -3.36 0.22 15965120 SMc01298 RplX 50S ribosomal protein L24 -3.09 0.33 15965119 SMc01299 RplN 50S ribosomal protein L14 -3.40 0.61 15965118 SMc01300 RpsQ 30S ribosomal protein S17 -3.79 0.41 15965117 SMc01301 RpmC 50S ribosomal protein L29 -3.14 0.21 15965116 SMc01302 RplP 50S ribosomal protein L16 -3.94 0.44 15965115 SMc01303 RpsC 30S ribosomal protein S3 -3.42 0.43 15965114 SMc01304 RplV 50S ribosomal protein L22 -4.33 0.29 15965113 SMc01305 RpsS 30S ribosomal protein S19 -4.29 0.35 15965112 SMc01306 RplB 50S ribosomal protein L2 -4.21 0.68 15965111 SMc01307 RplW 50S ribosomal protein L23 -3.96 0.26 15965110 SMc01308 RplD 50S ribosomal protein L4 -3.94 0.37 15965109 SMc01309 RplC 50S ribosomal protein L3 -4.90 0.48 15965108 SMc01310 RpsJ 30S ribosomal protein S10 -4.12 0.31 15965106 SMc01312 TufA elongation factor G -4.25 0.30 15965105 SMc01313 RpsG 30S ribosomal protein S7 -3.16 0.30 15965104 SMc01314 RpsL 30S ribosomal protein S12 -3.00 0.17 15965102 SMc01316 RpoC DNA-directed RNA polymerase beta' chain -3.39 0.31 15965101 SMc01317 RpoB DNA-directed RNA polymerase beta chain -2.65 0.21 15965100 SMc01318 RplL 50S ribosomal protein L7/L12 (L8) -1.94 0.15 15965099 SMc01319 RplJ 50S ribosomal protein L10 (L8) -3.47 0.51 15965098 SMc01320 RplA 50S ribosomal protein L1 -3.73 0.44 15965097 SMc01321 RplK 50S ribosomal protein L11 -2.78 0.19 15965096 SMc01322 NusG transcription antitermination protein -2.60 0.22 15965095 SMc01323 SecE translocase -1.66 0.18 15965092 SMc01326 TufB elongation factor TU -3.80 0.25 15965091 SMc01327 tRNA/rRNA methyltransferase -2.28 0.64 15965085 SMc01332 Conserved hypothetical -2.94 1.43 15965084 SMc01333 PrfB peptide chain release factor 2 -1.88 0.35 15965083 SMc01334 MrcA1 penicillin-binding 1A protein -2.11 0.37 15965081 SMc01336 Rne ribonuclease E -1.47 0.11 15965075 SMc01342 Outer membrane protein -3.10 0.92 15965074 SMc01343 AroQ 3-dehydroquinate dehydratase -2.19 0.47 15965073 SMc01344 AccB biotin carboxyl carrier protein -1.94 0.34 15965072 SMc01345 AccC biotin carboxylase -2.31 0.32 15965070 SMc01347 Conserved hypothetical -2.77 0.36 15965069 SMc01348 Conserved hypothetical -1.97 0.25 15965067 SMc01350 GatB glutamyl-tRNA amidotransferase subunit B -2.03 0.58 15965065 SMc01352 GatA glutamyl-tRNA amidotransferase subunit A -2.87 0.92 15965063 SMc01354 Conserved hypothetical -2.23 0.21 15965061 SMc01356 Conserved hypothetical, transmembrane -3.01 0.59 15965060 SMc01357 Hypothetical, transmembrane -4.03 0.70 15965058 SMc01359 AidB oxidoreductase -3.22 0.68 15965055 SMc01362 Conserved hypothetical, transmembrane -2.00 0.19 15965053 SMc01364 TopA DNA topoisomerase I -5.50 0.53 GI Name Description SLR SD

15965049 SMc01368 Conserved hypothetical, transmembrane -1.59 0.25 15965047 SMc01370 CelR2 Transcriptional regulator -2.40 0.41 15965046 SMc01371 CelR1 2-component receiver domain protein -4.13 1.17 15964176 SMc01394 Transposase, N-terminal fragment -3.35 1.07 15965841 SMc01409 Conserved hypothetical -3.17 0.28 15965856 SMc01420 Conserved hypothetical, transmembrane -2.01 0.30 15965857 SMc01421 Conserved hypothetical -1.49 0.21 15965866 SMc01430 IlvH acetolactate synthase isozyme III small subunit -4.55 0.94 15965867 SMc01431 IlvI acetolactate synthase isozyme III large subunit -4.21 0.38 15965876 SMc01440 HflC hydrolase serine protease -1.70 0.35 15965877 SMc01441 HflK membrane bound protease -1.93 0.39 15965880 SMc01444 ThyA thymidylate synthase -1.29 0.52 15965886 SMc01450 Conserved hypothetical -1.40 0.21 15965897 SMc01461 UvrD1 DNA helicase II -3.92 0.87 15965904 SMc01468 CheW2 chemotaxis protein -4.75 1.11 15965905 SMc01469 McpW methyl accepting chemotaxis protein -4.28 0.39 15966167 SMc01524 Dipeptidase -3.49 0.05 15966166 SMc01525 DppA2 ABC transporter, dipeptides -2.77 0.31 15966165 SMc01526 DppB2 ABC transporter, dipeptides -3.00 0.65 15966164 SMc01527 DppC2 ABC transporter, dipeptides -1.93 0.46 15966163 SMc01528 DppD2 ABC transporter, dipeptides -4.49 0.62 15966162 SMc01529 DppAF2 ABC transporter, dipeptides -3.06 0.93 15966160 SMc01531 KdgK 2-dehydro-3-deoxygluconokinase -3.44 0.53 15966157 SMc01534 Omega-amino acid--pyruvate aminotransferase -3.39 0.35 15966156 SMc01535 Conserved hypothetical -3.32 0.38 15966043 SMc01546 Conserved hypothetical -1.94 0.11 15966060 SMc01556 Conserved hypothetical -2.25 0.20 15966067 SMc01563 SigA RNA polymerase sigma factor -1.97 0.29 15966073 SMc01569 CarA carbamoyl-phosphate synthetase -3.27 0.49 15965959 SMc01573 CarA carbamoyl-phosphate synthetase -2.31 0.50 15965961 SMc01575 Conserved hypothetical -2.95 0.47 15965962 SMc01576 Oxidoreductase -3.23 0.84 15966078 SMc01578 Aspartate aminotransferase A -3.43 0.34 15965964 SMc01582 Alcohol dehydrogenase -2.81 1.06 15966082 SMc01584 Conserved hypothetical, transmembrane -3.43 1.29 15965965 SMc01588 Aldehyde dehydrogenase -2.49 0.57 15966089 SMc01592 Transcriptional regulator -4.50 0.28 15965966 SMc01594 Conserved hypothetical -1.61 0.50 15965967 SMc01597 Amino-acid permease -2.06 0.47 15965970 SMc01605 ABC transporter -4.66 0.38 15965971 SMc01606 ABC transporter -4.62 0.67 15965972 SMc01607 ABC transporter -3.46 0.61 15965973 SMc01608 ABC transporter -3.32 0.51 15965974 SMc01609 RibH2 6,7-dimethyl-8-ribityllumazine synthase -2.63 0.36 15965975 SMc01610 Transcriptional regulator -2.03 0.78 15965978 SMc01613 RpiB ribose 5-phosphate isomerase B -3.85 1.42 15965979 SMc01614 TpiA2 triosephosphate isomerase -1.75 0.86 15965991 SMc01626 ABC transporter -4.35 0.70 15965345 SMc01698 Oxidoreductase -2.30 0.34 15965336 SMc01700 PpiA peptidyl-prolyl cis-trans isomerase A -3.38 0.55 15964206 SMc01713 Hypothetical -3.09 0.19 15964205 SMc01714 Conserved hypothetical, transmembrane -4.18 0.51 GI Name Description SLR SD

15964201 SMc01718 Conserved hypothetical, transmembrane -4.59 0.37 15964200 SMc01719 McpT methyl-accepting chemotaxis protein -4.12 0.59 15964198 SMc01720 RnpA ribonuclease P -2.23 0.23 15964197 SMc01721 Inner-membrane protein -2.80 0.15 15964192 SMc01726 ArgB acetylglutamate kinase -2.61 0.45 15964187 SMc01731 Conserved hypothetical -1.78 0.26 15964186 SMc01732 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase -2.24 0.43 15964946 SMc01755 Conserved hypothetical, transmembrane -1.55 1.18 15964947 SMc01756 AspS aspartyl-tRNA synthetase -1.85 0.52 15964951 SMc01760 Conserved hypothetical, transmembrane -1.39 0.34 15964954 SMc01763 Conserved hypothetical, transmembrane -3.40 0.84 15964956 SMc01765 Conserved hypothetical, transmembrane -2.98 0.61 15964959 SMc01768 Transcriptional regulator -4.47 1.92 15964960 SMc01769 Conserved hypothetical -2.55 0.15 15964961 SMc01770 GlyA1 serine hydroxymethyltransferase -3.23 0.08 15964962 SMc01771 Conserved hypothetical -1.61 0.46 15964963 SMc01772 RibD riboflavin biosynthesis protein -1.73 0.18 15964968 SMc01777 RibH1 6,7-dimethyl-8-ribityllumazine synthase -2.40 0.21 15964969 SMc01778 NusB N utilization substance protein B -2.89 0.54 15964970 SMc01779 Conserved hypothetical, transmembrane -2.16 1.01 15964972 SMc01781 Conserved hypothetical, transmembrane -2.66 0.26 15964973 SMc01782 Conserved hypothetical -2.90 0.97 15964978 SMc01787 Transcriptional regulator -2.54 0.83 15964984 SMc01792 Sugar transferase -3.91 0.45 15964985 SMc01793 Glycosyltransferase -4.45 0.50 15964986 SMc01794 Polysaccharide export system periplasmic protein -3.70 1.19 15964991 SMc01799 Conserved hypothetical -1.84 0.40 15964992 SMc01800 Cytochrome c oxidase assembly protein -2.47 0.63 15964993 SMc01801 ArgC N-acetyl-gamma-glutamyl-phosphate reductase -1.65 0.36 15964995 SMc01803 RpsI 30S ribosomal protein S9 -2.96 0.19 15964996 SMc01804 RplM 50S ribosomal protein L13 -2.78 0.29 15965000 SMc01808 Conserved hypothetical -2.92 1.24 15965005 SMc01812 Cytochrome P450-like monooxygenase -2.59 0.55 15966200 SMc01814 Glutamate synthase small chain -1.24 0.30 15966201 SMc01815 Oxidoreductase, iron-sulfur -1.27 0.33 15966212 SMc01826 ABC transporter -2.43 0.41 15966217 SMc01831 UreF urease accessory protein -2.62 0.50 15966218 SMc01832 UreE urease accessory protein -3.19 0.28 15966219 SMc01833 Conserved hypothetical -2.08 0.14 15966220 SMc01834 Conserved hypothetical -2.81 0.17 15966223 SMc01837 UreC urease alpha subunit -1.56 0.39 15965953 SMc01842 Conserved hypothetical -2.15 0.45 15965952 SMc01843 MetF 5,10-methylenetetrahydrofolate oxidoreductase -4.27 0.46 15965951 SMc01844 Conserved hypothetical, transmembrane -2.66 0.57 15965950 SMc01845 Transglycosylase -2.64 0.55 15965947 SMc01848 Conserved hypothetical -3.12 0.48 15965945 SMc01850 Conserved hypothetical -2.95 0.78 15965944 SMc01851 Amino acid efflux protein -1.84 0.33 15965943 SMc01852 Pfk pyrophosphate--fructose 6-phosphate 1-phosphotransferase -3.92 1.19 15965939 SMc01856 Sarcosine oxidase -2.36 0.89 15965936 SMc01859 Conserved hypothetical, transmembrane -1.08 0.19 15965935 SMc01860 FtsI penicillin-binding protein -2.57 0.55 GI Name Description SLR SD

15965934 SMc01861 MurE ligase -2.26 0.47 15965931 SMc01864 MurD UDP-N-acetylmuramoylalanine--D-glutamate ligase -2.97 1.11 15965927 SMc01868 MurB UDP-N-acetylenolpyruvoylglucosamine reductase -3.17 0.84 15965924 SMc01871 DdlB D-alanine--D-alanine ligase B -3.82 0.23 15965923 SMc01872 FtsQ cell division protein -4.71 0.57 15965922 SMc01873 FtsA cell division protein -2.64 0.56 15965921 SMc01874 FtsZ1 cell division protein -4.31 0.42 15965920 SMc01875 LpxC deacetylase -1.26 0.24 15965919 SMc01876 Conserved hypothetical, transmembrane -2.07 0.23 15965914 SMc01881 PanB 3-methyl-2-oxobutanoate hydroxymethyltransferase -1.10 0.39 15965913 SMc01882 Conserved hypothetical, transmembrane -2.73 0.51 15965912 SMc01883 Conserved hypothetical, transmembrane -3.01 0.78 15965910 SMc01885 Aminopeptidase P -4.01 0.87 15965008 SMc01903 ClpP1 ATP-dependent Clp protease proteolytic subunit -2.44 0.14 15965009 SMc01904 ClpX ATP-dependent Clp protease ATP-binding subunit -2.16 0.08 15965010 SMc01905 Lon ATP-dependent protease -1.20 0.33 15965012 SMc01907 Conserved hypothetical, transmembrane -3.79 0.48 15965014 SMc01909 Conserved hypothetical -4.39 1.25 15965016 SMc01911 Conserved hypothetical -1.82 0.42 15965017 SMc01912 NuoA1 NADH dehydrogenase I chain A -3.09 0.14 15965018 SMc01913 NuoB1 NADH-ubiqionone oxidoreductase subunit K -2.58 0.21 15965019 SMc01914 NuoC1 NADH dehydrogenase I chain C -3.28 0.47 15965020 SMc01915 NuoD1 NADH dehydrogenase I chain D -3.84 0.56 15965021 SMc01916 Conserved hypothetical -3.13 0.97 15965022 SMc01917 NuoE1 NADH dehydrogenase I chain E -2.87 0.31 15965023 SMc01918 NuoF1 NADH dehydrogenase I chain F -2.44 0.27 15965024 SMc01919 Conserved hypothetical, transmembrane -1.97 0.52 15965025 SMc01920 NuoG1 NADH dehydrogenase I chain G -3.75 0.84 15965026 SMc01921 NuoH NADH dehydrogenase I chain H -3.20 0.34 15965027 SMc01922 NuoI NADH-ubiquinone oxidoreductase chain I -3.59 0.80 15965028 SMc01923 NuoJ NADH dehydrogenase I chain J -3.40 0.66 15965029 SMc01924 NuoK1 NADH dehydrogenase I chain K -3.03 0.17 15965030 SMc01925 NuoL NADH dehydrogenase I chain L -4.10 0.70 15965031 SMc01926 NuoM NADH dehydrogenase I chain M -2.69 0.71 15965032 SMc01927 NuoN NADH dehydrogenase I chain N -3.05 0.19 15965033 SMc01928 BirA biotin--[acetyl-CoA-carboxylase] synthetase -2.18 0.64 15965034 SMc01929 Conserved hypothetical -2.16 0.35 15965039 SMc01934 ProS prolyl-tRNA synthetase -3.45 0.16 15965040 SMc01935 Conserved hypothetical, transmembrane -2.84 0.57 15966226 SMc01939 UreB urease beta subunit -1.60 0.42 15966234 SMc01947 Conserved hypothetical, transmembrane -1.37 0.46 15966237 SMc01950 LivM high-affinity branched-chain amino acid ABC transporter -1.21 0.59 15966238 SMc01951 LivH high-affinity branched-chain amino acid ABC transporter -1.52 0.14 15966241 SMc01954 Transcriptional regulator -1.46 0.20 15966252 SMc01965 ABC transporter, spermidine/putrescine -4.16 1.51 15966257 SMc01970 Conserved hypothetical, transmembrane -3.88 0.86 15966258 SMc01971 Aldehyde dehydrogenase -1.49 0.29 15966264 SMc01977 ABC transporter, sugar -1.99 0.51 15966225 SMc02046 Conserved hypothetical -2.85 0.74 15965302 SMc02047 GcvT aminomethyltransferase (glycine cleavage system) -3.61 0.19 15965301 SMc02048 GcvH glycine cleavage system protein -3.49 0.24 15965300 SMc02049 GcvP glycine dehydrogenase decarboxylase -4.16 0.47 GI Name Description SLR SD

15965299 SMc02050 Tig trigger factor protein -3.27 0.15 15965296 SMc02053 Conserved hypothetical -1.83 0.12 15965291 SMc02058 Conserved hypothetical -2.68 0.22 15965290 SMc02059 Conserved hypothetical -2.41 0.58 15965289 SMc02060 LppB lipoprotein precursor -3.02 0.53 15965288 SMc02061 BioS biotin-regulated protein -2.08 0.86 15965287 SMc02062 Pcm L-isoaspartyl protein carboxyl methyltransferase -3.55 1.00 15965286 SMc02063 SurE survival protein -2.41 0.57 15965284 SMc02065 TatC Sec-independent translocase -2.17 0.18 15965283 SMc02066 TatB Sec-independent translocase -2.12 0.32 15965282 SMc02067 Conserved hypothetical, transmembrane -2.40 0.23 15965277 SMc02072 Conserved hypothetical, transmembrane -1.86 0.18 15965276 SMc02073 ArgS arginyl-tRNA synthetase -2.71 0.32 15965271 SMc02078 ExoR exopolysaccharide biosynthesis regulator -2.21 0.69 15965270 SMc02079 Outer membrane protein -2.86 0.44 15965269 SMc02080 ValS valyl-tRNA synthetase -3.01 0.82 15965267 SMc02082 Outer membrane secretion protein -3.08 0.43 15965266 SMc02083 Methyltransferase (pcm-like) -2.77 0.40 15965260 SMc02089 LpxB lipid-A-disaccharide synthase -1.90 0.49 15965258 SMc02091 LpxA UDP-N-acetylglucosamine acyltransferase -2.96 0.30 15965257 SMc02092 FabZ 3R-hydroxymyristoyl-acyl carrier protein dehydratase -3.15 0.66 15965256 SMc02093 LpxD UDP-3-O-3-hydroxymyristoyl glucosamine N-acyltransferase -3.18 0.26 15965255 SMc02094 Omp outer membrane protein -2.83 0.26 15965254 SMc02095 Conserved hypothetical, transmembrane -2.02 0.84 15965253 SMc02096 CdsA phosphatidate cytidylyltransferase -2.41 0.59 15965252 SMc02097 UppS undecaprenyl pyrophosphate synthetase -2.02 0.25 15965251 SMc02098 Rrf ribosome recycling factor -2.05 0.12 15965250 SMc02099 PyrH uridylate kinase -1.99 0.19 15965249 SMc02100 Tsf elongation factor TS -5.10 0.49 15965248 SMc02101 RpsB 30S ribosomal protein S2 -3.22 0.38 15965247 SMc02102 Conserved hypothetical, transmembrane -2.06 0.46 15965246 SMc02103 Conserved hypothetical -1.62 0.30 15965245 SMc02104 Conserved hypothetical -2.22 0.95 15965243 SMc02106 Conserved hypothetical -1.26 0.37 15965241 SMc02108 Conserved hypothetical, transmembrane -1.74 1.33 15965239 SMc02110 Conserved hypothetical -1.60 0.31 15965234 SMc02115 Conserved hypothetical -1.84 0.18 15965232 SMc02117 MetC cystathionine beta-lyase -2.00 0.12 15965231 SMc02118 AapJ ABC transporter, L-amino acids -3.22 0.55 15965230 SMc02119 AapQ ABC transporter, L-amino acids -2.16 0.10 15965229 SMc02120 AapM ABC transporter, L-amino acids -1.63 0.20 15965228 SMc02121 AapP ABC transporter, L-amino acids -1.45 0.25 15964271 SMc02137 ArgF1 ornithine carbamoyltransferase -2.32 0.47 15964270 SMc02138 ArgD acetylornithine aminotransferase -3.16 0.28 15964269 SMc02139 Conserved hypothetical -2.27 1.43 15964268 SMc02140 PhoB phosphate regulon transcriptional regulator -3.44 0.77 15964267 SMc02141 PhoU phosphate regulon transcriptional regulator -3.10 0.34 15964266 SMc02142 PstB ABC transporter, phosphate -3.10 0.42 15964265 SMc02143 PstA ABC transporter, phosphate -3.64 0.55 15964264 SMc02144 PstC ABC transporter, phosphate -4.59 1.29 15964263 SMc02145 Conserved hypothetical -4.33 0.76 15964262 SMc02146 Phosphate-binding periplasmic protein -4.11 0.27 GI Name Description SLR SD

15964261 SMc02147 PhoR phosphate regulon sensor histidine kinase -3.68 0.96 15964260 SMc02148 Conserved hypothetical -1.60 0.27 15964257 SMc02151 Hypothetical virulence-associated protein -1.70 0.12 15964255 SMc02153 Conserved hypothetical -3.43 0.93 15964253 SMc02154 Conserved hypothetical -2.55 0.69 15964252 SMc02155 Conserved hypothetical -2.44 0.91 15964239 SMc02160 Permease -2.17 0.35 15964236 SMc02163 Pgi glucose-6-phosphate isomerase -3.92 0.77 15964235 SMc02164 Frk -1.59 0.38 15964234 SMc02165 PyrE orotate phosphoribosyltransferase -2.60 1.01 15964233 SMc02166 PyrC dihydroorotase -3.08 0.71 15964232 SMc02167 Conserved hypothetical -4.29 0.95 15964231 SMc02169 ABC transporter -4.36 1.43 15964230 SMc02170 ABC transporter -3.82 0.78 15964229 SMc02171 ABC transporter -2.20 0.64 15964226 SMc02174 Conserved hypothetical, transmembrane -3.80 0.50 15964219 SMc02181 PutA bifunctional proline dehydrogenase -1.91 0.41 rna33 SMc02206 tRNA Gly_CCC -2.32 0.80 15964275 SMc02217 MetZ O-succinylhomoserine sulfhydrylase -1.88 0.60 15964277 SMc02219 Amino acid-binding periplasmic protein -2.39 0.25 15964288 SMc02230 Conserved hypothetical, transmembrane -3.36 0.35 15964290 SMc02232 Conserved hypothetical, transmembrane -2.82 0.19 15964291 SMc02234 Conserved hypothetical, transmembrane -2.83 0.47 15964292 SMc02235 Transcriptional regulator -1.71 0.35 15964297 SMc02240 Conserved hypothetical, transmembrane -3.99 0.68 15964299 SMc02242 Conserved hypothetical, transmembrane -4.60 0.69 15964300 SMc02243 Conserved hypothetical, transmembrane -2.01 0.27 15964303 SMc02246 Conserved hypothetical -2.76 0.43 15964307 SMc02250 MscL large-conductance mechanosensitive channel protein -2.53 0.43 15964308 SMc02251 Aminotransferase -1.89 0.60 15964319 SMc02262 Aminotransferase -3.09 0.93 15964321 SMc02264 Conserved hypothetical, transmembrane -2.75 0.72 15964331 SMc02274 RkpU capsule polysaccharide exporter -3.14 0.48 15964332 SMc02275 PncB pyrazinamidase/nicotinamidase -1.92 0.32 15964336 SMc02279 Conserved hypothetical -2.41 0.48 15964340 SMc02283 Copper-containing oxidoreductase -3.53 1.36 15964341 SMc02284 Conserved hypothetical -2.12 0.63 15964351 SMc02295 HsdS specificity protein S -2.48 0.17 15964352 SMc02296 HsdM modification enzyme -3.21 0.70 15964362 SMc02305 MurA UDP-N-acetylglucosamine 1-carboxyvinyltransferase -2.51 0.19 15964363 SMc02306 Conserved hypothetical -2.93 1.19 15964364 SMc02307 HisD1 histidinol dehydrogenase -1.47 0.52 15964367 SMc02310 InfA translation initiation factor IF-1 -1.32 0.24 15964368 SMc02311 Maf septum formation protein -2.67 0.28 15964372 SMc02313 Conserved hypothetical -1.27 0.53 15964376 SMc02317 Conserved hypothetical -2.93 0.27 15964378 SMc02319 Conserved hypothetical -1.82 0.27 15964379 SMc02320 Conserved hypothetical, transmembrane -3.01 0.35 15964772 SMc02363 CycK cytochrome c-type biogenesis protein -1.21 0.37 15964778 SMc02369 Sensor histidine kinase -2.10 0.71 15964779 SMc02370 PepN aminopeptidase N -3.37 0.38 15964784 SMc02375 Conserved hypothetical -1.52 0.19 GI Name Description SLR SD

15964785 SMc02376 Heat shock protein -1.77 0.39 15964786 SMc02377 Etf electron transfer flavoprotein-ubiquinone oxidoreductase -2.15 0.23 15964787 SMc02378 Conserved hypothetical, transmembrane -3.26 0.56 15964788 SMc02379 Permease -2.16 0.51 15964792 SMc02383 Conserved hypothetical, transmembrane -1.92 0.74 15964801 SMc02392 Conserved hypothetical -3.70 0.51 15964802 SMc02393 Aminotransferase -2.51 0.52 15964805 SMc02396 Outer membrane protein -2.69 0.52 15964812 SMc02404 DapA1 dihydrodipicolinate synthase -2.38 0.72 15964813 SMc02405 Conserved hypothetical -1.91 0.28 15964816 SMc02407 Conserved hypothetical -1.28 0.38 15964817 SMc02408 RpoZ DNA-directed RNA polymerase omega chain -2.07 0.30 15966353 SMc02425 Transcriptional regulator -2.62 1.60 15966359 SMc02431 Conserved hypothetical -1.52 0.59 15966364 SMc02436 PrfA peptide chain release factor 1 -2.05 0.44 15966365 SMc02437 PtsP phosphoenolpyruvate phosphotransferase -2.10 0.29 15966366 SMc02438 LysC aspartokinase -2.19 0.46 15966373 SMc02445 Conserved hypothetical -1.65 0.66 15966375 SMc02447 Conserved hypothetical, transmembrane -2.56 0.37 15966378 SMc02450 ArgJ Glutamate N-acetyltransferase-ornithine acetyltransferase -2.08 0.59 15966379 SMc02451 Outer membrane protein -2.31 0.73 15964804 SMc02461 Conserved hypothetical -2.63 1.10 15966813 SMc02475 Outer membrane lipoprotein precursor -2.61 0.45 15966812 SMc02476 Conserved hypothetical -1.54 0.42 15966811 SMc02477 Conserved hypothetical -1.59 0.37 15966810 SMc02478 Conserved hypothetical -2.56 0.17 15966807 SMc02481 SucD succinyl-CoA synthetase alpha chain -1.41 0.42 15966806 SMc02482 SucA2-oxoglutarate dehydrogenase -1.67 0.57 15966805 SMc02483 SucB 2-oxoglutarate dehydrogenase complex protein -1.34 0.53 15966804 SMc02484 Amino acid efflux protein -1.81 0.23 15966801 SMc02487 LpdA2 2-oxoglutarate dehydrogenase complex protein -1.83 0.23 15966793 SMc02495 Transaldolase-like protein -2.09 0.22 15966791 SMc02497 Conserved hypothetical, transmembrane -2.06 0.53 15966790 SMc02498 AtpH ATP synthase delta chain -3.22 0.25 15966789 SMc02499 AtpA ATP synthase alpha chain -3.19 0.37 15966788 SMc02500 AtpG ATP synthase gamma chain -2.58 0.30 15966787 SMc02501 AtpD ATP synthase beta chain -3.13 0.50 15966786 SMc02502 AtpC ATP synthase epsilon chain -3.52 0.80 15966785 SMc02503 Conserved hypothetical -1.06 0.31 15966774 SMc02514 ABC transporter -4.02 0.60 15966773 SMc02515 Conserved hypothetical, transmembrane -4.14 0.59 15966772 SMc02516 ABC transporter -4.81 0.62 15966771 SMc02517 ABC transporter -4.45 0.55 15966770 SMc02518 ABC transporter -4.28 0.75 15966769 SMc02519 ABC transporter -5.38 0.77 15966768 SMc02520 GlpD glycerol-3-phosphate dehydrogenase -3.11 0.26 15966766 SMc02522 Oxidoreductase -1.49 0.45 15964872 SMc02543 Conserved hypothetical, transmembrane -2.35 0.72 15964870 SMc02545 Conserved hypothetical, transmembrane -3.17 0.19 15964867 SMc02548 Conserved hypothetical -2.61 1.21 15964863 SMc02552 Conserved hypothetical -1.83 0.39 15964858 SMc02557 Conserved hypothetical -1.88 0.34 GI Name Description SLR SD

15964856 SMc02559 Conserved hypothetical -1.20 0.63 15963797 SMc02560 ChvI transcriptional regulator -2.74 0.10 15963804 SMc02569 HisF cyclase -1.10 0.20 15963806 SMc02572 HisH glutamine amidotransferase -1.05 0.52 15963808 SMc02574 HisB imidazoleglycerol-phosphate dehydratase -1.15 0.11 15963811 SMc02577 HslU heat shock protein -1.02 0.35 15963812 SMc02578 Conserved hypothetical, transmembrane -1.72 0.89 15963815 SMc02581 GlcB malate synthase G -2.69 0.31 15963816 SMc02582 Conserved hypothetical -2.83 1.12 15963818 SMc02584 ActR transcriptional regulator -1.11 0.30 15963824 SMc02590 Conserved hypothetical, transmembrane -2.66 1.45 15963832 SMc02600 Conserved hypothetical, transmembrane -3.70 0.42 15964846 SMc02603 Transporter -4.06 0.42 rna40 SMc02621 tRNA Ile_GAT -3.97 0.66 rna41 SMc02622 tRNA Ala_TGC -1.67 0.51 15964845 SMc02631 Conserved hypothetical -3.79 0.78 15964842 SMc02634 Conserved hypothetical, transmembrane -4.61 0.28 15964840 SMc02636 Conserved hypothetical -3.94 0.45 15964835 SMc02641 RkpK UDP-glucose 6-dehydrogenase -2.74 0.75 15964818 SMc02659 RelA GTP pyrophosphokinase -1.37 0.18 15966093 SMc02677 ProC pyrroline-5-carboxylate reductase -2.31 0.57 15966094 SMc02678 Conserved hypothetical -3.23 0.74 15966096 SMc02681 Lgt prolipoprotein diacylglyceryl transferase -4.39 0.74 15966099 SMc02684 Hydrolase/peptidase -2.63 0.22 15966100 SMc02685 Conserved hypothetical, transmembrane -1.99 1.20 15966101 SMc02686 PrsA ribose-phosphate pyrophosphokinase -2.96 0.11 15966107 SMc02692 RplY 50S ribosomal protein L25 -2.80 0.37 15966108 SMc02693 Pth peptidyl-tRNA hydrolase -2.92 1.06 15966110 SMc02695 GTP-binding protein -1.87 0.44 15966111 SMc02696 Conserved hypothetical -1.56 0.44 15966115 SMc02700 Conserved hypothetical -3.74 0.26 15966119 SMc02704 Conserved hypothetical -1.81 0.39 15966121 SMc02706 Conserved hypothetical, transmembrane -1.57 0.38 15966122 SMc02707 Conserved hypothetical -2.66 0.21 15966132 SMc02717 LeuA1 2-isopropylmalate synthase -1.83 0.21 15966133 SMc02718 Hypothetical -2.35 0.21 15966135 SMc02720 ClpP2 Clp protease proteolytic subunit -1.85 0.33 15966140 SMc02725 TrpE anthranilate synthase -2.48 0.77 15966152 SMc02737 OpuC ABC transporter, glycine betaine -1.31 0.30 15963794 SMc02753 IIA component of PTS system protein -1.70 0.29 15963792 SMc02755 AhcY adenosylhomocysteinase -3.74 0.44 15963785 SMc02762 Transposase -2.30 0.28 15963783 SMc02764 AccD acetyl-coenzyme A carboxylase carboxyl transferase -2.67 0.23 15963781 SMc02766 TrpB tryptophan synthase beta chain -2.33 0.27 15963780 SMc02767 TrpF N-5' -phosphoribosylanthranilate isomerase -1.76 0.28 15963768 SMc02779 ISRm19 transposase -3.36 0.82 15963767 SMc02780 GabD1 succinate-semialdehyde dehydrogenase -1.81 0.28 15963766 SMc02781 Oxidoreductase -4.26 0.63 15963765 SMc02782 GyrB DNA gyrase subunit B -1.59 0.12 15963764 SMc02783 Conserved hypothetical -2.62 0.23 15963762 SMc02785 Lytic murein transglycosylase A -1.93 0.97 15963761 SMc02786 Translocase -0.96 0.54 GI Name Description SLR SD

15963759 SMc02788 SecB protein-export protein -1.98 0.51 15963758 SMc02789 DnaQ DNA polymerase III, epsilon chain -3.16 1.12 15963756 SMc02791 AroE1 shikimate 5-dehydrogenase -2.49 0.27 15967092 SMc02796 Rho transcription termination factor -1.47 0.17 15967088 SMc02800 ParA chromosome partitioning protein -2.25 0.24 15967085 SMc02803 Conserved hypothetical -3.08 0.63 15967084 SMc02804 LeuS leucyl-tRNA synthetase -2.44 0.44 15967083 SMc02812 Conserved hypothetical -2.12 0.62 15965956 SMc02818 Conserved hypothetical -1.92 0.30 15963903 SMc02826 Transcriptional regulator -2.33 0.14 15963904 SMc02827 Conserved hypothetical -1.40 0.28 15963906 SMc02829 ABC transporter -2.35 0.39 15963907 SMc02830 ABC transporter -1.95 0.81 15963908 SMc02831 ABC transporter -2.93 0.64 15963913 SMc02836 ABC transporter -1.33 0.20 15963914 SMc02837 DapB dihydrodipicolinate reductase -1.44 0.21 15963915 SMc02838 GpmA phosphoglycerate mutase -2.31 0.37 15963924 SMc02846 Sugar kinase -3.53 0.78 15963925 SMc02847 Conserved hypothetical -3.89 0.36 15963930 SMc02852 Conserved hypothetical -3.08 0.32 15963935 SMc02857 DnaK heat shock protein 70 -1.35 0.16 15963946 SMc02868 Multidrug efflux system protein -2.63 0.74 15963947 SMc02869 ABC transporter -1.82 0.40 15963948 SMc02870 ABC transporter -1.69 0.14 15963951 SMc02873 ABC transporter -1.81 0.38 15963952 SMc02874 Conserved hypothetical -1.40 0.41 15963954 SMc02876 Transcriptional regulator -2.86 0.58 15963962 SMc02884 Lipoprotein precursor -1.76 0.09 15963974 SMc02896 IlvE1 branched-chain amino acid aminotransferase -3.34 1.59 15963975 SMc02897 Cytochrome c -2.99 0.14 15963976 SMc02898 KdsB 3-deoxy-manno-octulosonate cytidylyltransferase -3.95 0.43 15963977 SMc02899 PheA prephenate dehydratase -5.01 0.56 15963986 SMc02908 RecR recombination protein -1.92 0.60 15963988 SMc02910 Conserved hypothetical, transmembrane -2.55 0.50 15963989 SMc02911 Conserved hypothetical -3.04 0.40 15963990 SMc02912 NusA N utilization substance protein A -2.41 0.24 15963991 SMc02913 Conserved hypothetical -2.06 0.14 15963992 SMc02914 InfB translation initiation factor IF-2 -2.42 0.33 15963916 SMc02937 ISRm5 partial transposase -2.73 0.61 15966490 SMc02941 Conserved hypothetical, transmembrane -2.01 0.41 15966491 SMc02942 Pal peptidoglycan-associated lipoprotein precursor -2.50 0.31 15966621 SMc02976 Transcriptional regulator -3.28 0.64 15966623 SMc02978 Conserved hypothetical -1.80 0.41 15966624 SMc02979 Conserved hypothetical -1.45 0.36 15966628 SMc02983 Ornithine, DAP, or arginine decarboxylase -1.72 0.29 15966630 SMc02985 Conserved hypothetical -2.31 0.29 15966631 SMc02986 Conserved hypothetical, transmembrane -2.81 0.42 15966633 SMc02988 Conserved hypothetical -2.08 0.52 15966634 SMc02989 Conserved hypothetical, transmembrane -2.78 0.28 15964389 SMc03004 McpE methyl-accepting chemotaxis protein -4.24 1.02 15964390 SMc03005 Conserved hypothetical -4.55 0.41 15964391 SMc03006 CheY1 chemotaxis regulator -4.24 0.38 GI Name Description SLR SD

15964392 SMc03007 CheA chemotaxis histidine kinase -3.76 0.48 15964393 SMc03008 CheW1 chemotaxis protein -4.00 0.54 15964394 SMc03009 CheR chemotaxis methyltransferase -6.82 1.30 15964395 SMc03010 CheB protein-glutamate methylesterase -4.23 0.81 15964397 SMc03012 CheD chemotaxis protein -5.55 0.59 15964398 SMc03013 Conserved hypothetical -3.68 0.96 15964400 SMc03015 VisN transcriptional regulator -1.10 0.34 15964402 SMc03017 Conserved hypothetical -4.19 0.37 15964404 SMc03019 FliG flagellar motor switch protein -5.78 0.58 15964405 SMc03020 FliN flagellar motor switch protein -2.72 0.33 15964406 SMc03021 FliM flagellar motor switch protein -3.97 1.18 15964407 SMc03022 MotA motility protein A -4.13 0.48 15964408 SMc03023 Conserved hypothetical -3.55 0.83 15964409 SMc03024 FlgF flagellar basal-body rod protein -4.04 0.91 15964412 SMc03027 FlgB flagellar basal-body rod protein -2.72 0.56 15964413 SMc03028 FlgC flagellar basal-body rod protein -5.68 0.99 15964414 SMc03029 FliE flagellar hook-basal body complex protein -6.89 0.38 15964415 SMc03030 FlgG flagellar basal-body rod protein -4.60 1.20 15964416 SMc03031 FlgA flagellar precursor protein -3.13 0.31 15964418 SMc03033 Conserved hypothetical, transmembrane -4.56 1.07 15964420 SMc03035 FliL flagellar transmembrane protein -5.07 0.18 15964422 SMc03037 FlaA flagellin A -6.82 0.43 15964422 SMc03037 FlaA flagellin A -5.99 0.42 15964423 SMc03038 FlaB flagellin B -8.06 0.57 15964424 SMc03039 FlaD flagellin D -5.46 0.81 15964425 SMc03040 FlaC flagellin C -3.65 0.25 15964426 SMc03041 Conserved hypothetical -2.96 0.43 15964429 SMc03044 MotD motility protein D -4.29 0.82 15964431 SMc03046 Transcriptional regulator -5.01 1.18 15964432 SMc03047 FlgE flagellar hook protein -5.55 0.48 15964434 SMc03049 FlgL flagellar hook-associated protein -7.05 0.42 15964435 SMc03050 FlaF flagellin synthesis regulator -8.17 0.55 15964437 SMc03052 FlgD basal-body rod modification protein -6.06 1.22 15964444 SMc03057 Conserved hypothetical, transmembrane -4.77 0.49 15964448 SMc03061 AglE ABC transporter, alpha-glucosides -2.53 1.11 15964449 SMc03062 AglF ABC transporter, alpha-glucosides -3.85 0.79 15964450 SMc03063 AglG ABC transporter, alpha-glucosides -2.09 0.50 15964451 SMc03064 AglA alpha-glucosidase -4.64 1.07 15964452 SMc03065 AglK ABC transporter, alpha-glucosides -4.56 0.88 15964453 SMc03066 Conserved hypothetical -3.21 0.52 15964457 SMc03070 Zwf glucose-6-phosphate 1-dehydrogenase -2.06 0.79 15964442 SMc03071 Conserved hypothetical -4.86 0.47 15964443 SMc03072 Conserved hypothetical -4.23 0.29 15966756 SMc03090 CheW3 chemotaxis protein -2.57 0.34 15966755 SMc03091 ArgI1 -2.60 0.83 15966750 SMc03096 Conserved hypothetical -2.40 1.05 15966746 SMc03100 Conserved hypothetical -2.03 0.47 15966742 SMc03104 HemA 5-aminolevulinic acid synthase -3.78 0.36 15966738 SMc03108 Calcium-binding protein -2.22 1.25 15966737 SMc03109 Conserved hypothetical -2.73 0.66 15966736 SMc03110 Conserved hypothetical -3.99 0.87 15966734 SMc03112 MetH 5-methyltetrahydrofolate--homocysteine methyltransferase -3.10 1.39 GI Name Description SLR SD

15966733 SMc03113 ISRm5 partial transposase -2.11 0.38 15966733 SMc03113 ISRm5 partial transposase -1.86 0.45 15966722 SMc03124 ABC transporter -3.33 0.21 15966721 SMc03125 ABC transporter -3.39 0.64 15966720 SMc03126 ABC transporter -3.70 0.94 15966716 SMc03130 Conserved hypothetical -4.36 0.51 15966715 SMc03131 ABC transporter, amino acids -2.84 0.63 15966714 SMc03132 OrdL3 oxidoreductase -4.20 1.03 15966711 SMc03135 ABC transporter, amino acids -3.50 0.27 15966635 SMc03151 Conserved hypothetical -3.24 0.41 15966637 SMc03153 Eda2 KHG/KDPG aldolase -2.60 0.27 15966640 SMc03156 Conserved hypothetical -3.02 1.08 15966641 SMc03157 Outer membrane lipoprotein -2.44 0.33 15966642 SMc03158 ABC transporter -1.18 0.16 15966646 SMc03162 Conserved hypothetical, transmembrane -1.36 0.55 15966647 SMc03163 XylA xylose isomerase -1.98 0.39 15966655 SMc03171 Conserved hypothetical, transmembrane -1.97 0.45 15966656 SMc03172 GltX glutamyl-tRNA synthetase -3.05 0.32 15966657 SMc03173 LysS lysyl-tRNA synthetase -1.79 0.42 15966658 SMc03174 Conserved hypothetical, transmembrane -2.74 1.11 15966659 SMc03175 Nucleoside hydrolase -2.28 1.36 15966662 SMc03178 Conserved hypothetical, transmembrane -3.81 1.24 15966665 SMc03181 PhaD1 pH adaptation potassium efflux system D -4.61 1.32 15966666 SMc03182 PhaE1 pH adaptation potassium efflux system E -2.93 1.66 15966689 SMc03205 PurU1 formyltetrahydrofolate deformylase -4.79 0.24 15966828 SMc03227 Conserved hypothetical -3.44 0.23 15966829 SMc03228 Conserved hypothetical -2.39 0.39 15966836 SMc03235 Conserved hypothetical -3.45 1.86 15966839 SMc03238 Conserved hypothetical, transmembrane -2.13 1.04 15966840 SMc03239 Ppa inorganic pyrophosphatase -2.47 0.19 15966843 SMc03242 TypA GTP-binding protein -1.46 0.38 15966852 SMc03246 Integrase -2.53 0.36 15966855 SMc03249 Conserved hypothetical -3.47 0.67 15966858 SMc03251 Conserved hypothetical -1.28 0.34 15966865 SMc03259 Conserved hypothetical -2.01 0.71 15966901 SMc03763 Cytosine-specific methyltransferase -2.96 0.65 15966903 SMc03765 Conserved hypothetical -0.96 0.40 15966908 SMc03770 RplU 50S ribosomal protein L21 -2.16 0.34 15966909 SMc03772 RpmA 50S ribosomal protein L27 -1.91 0.38 15966910 SMc03773 Conserved hypothetical -2.22 0.28 15966912 SMc03775 CgtA GTP-binding protein -2.23 0.38 15966914 SMc03777 ProA gamma-glutamyl phosphate reductase -1.21 0.57 15966917 SMc03781 Conserved hypothetical -1.66 0.29 15966919 SMc03783 CtpA carboxy-terminal processing protease -1.52 0.18 15966922 SMc03786 Bfr bacterioferritin -2.03 0.39 15966931 SMc03795 LeuD 3-isopropylmalate dehydratase small subunit -2.58 0.18 15966933 SMc03797 MetA homoserine O-succinyltransferase -2.07 0.65 15966937 SMc03801 Thioredoxin -2.07 0.28 15966944 SMc03808 FtsK cell division protein -2.25 0.29 15966945 SMc03809 Conserved hypothetical, transmembrane -1.89 0.26 15966950 SMc03814 ABC transporter -4.18 0.72 15966951 SMc03815 ABC transporter -1.43 0.31 GI Name Description SLR SD

15966954 SMc03818 XthA3 exodeoxyribonuclease III -4.65 0.19 15966955 SMc03819 Conserved hypothetical -1.88 0.77 15966956 SMc03820 Transcriptional regulator -1.38 0.22 15966962 SMc03826 ArgG argininosuccinate synthase -2.58 0.45 15966963 SMc03827 Amino acid efflux protein -3.56 0.22 15966964 SMc03828 ABC transporter -1.69 0.73 15966965 SMc03829 ABC transporter -3.48 0.49 15966966 SMc03830 Conserved hypothetical -3.42 0.27 15966968 SMc03832 Conserved hypothetical -2.54 0.35 15966975 SMc03839 Conserved hypothetical, transmembrane -2.04 0.37 15966976 SMc03840 Acetyltransferase (antibiotic resistance) -3.04 0.49 15966982 SMc03846 AcnA aconitate hydratase -1.87 0.43 15966985 SMc03849 CcmD heme exporter c (cytochrome c-type biogenesis) -3.57 0.44 15966987 SMc03851 CcmG thiol:disulfide interchange protein (cytochrome c biogenesis) -3.06 0.50 15966988 SMc03852 Conserved hypothetical, transmembrane -2.11 0.28 15966989 SMc03853 Conserved hypothetical, transmembrane -2.91 0.38 15966990 SMc03854 FtsY cell division protein -2.10 0.32 15966993 SMc03857 Ffh signal recognition particle -2.72 0.98 15966994 SMc03858 PheAa chorismate mutase -3.04 0.19 15966995 SMc03859 RpsP 30S ribosomal protein S16 -2.43 0.27 15966996 SMc03860 RimM 16S rRNA processing protein -2.56 0.76 15966997 SMc03861 TrmD tRNA guanine-N1-methyltransferase -1.29 0.43 15966998 SMc03862 Conserved hypothetical, transmembrane -2.01 0.25 15966999 SMc03863 RplS 50S ribosomal protein L19 -2.09 0.44 15967000 SMc03864 ABC transporter, amino acids -1.74 0.68 15967003 SMc03867 Conserved hypothetical -2.11 0.46 15967011 SMc03875 Ferredoxin -1.68 0.16 15967012 SMc03876 Heat shock-like protein -3.02 0.86 15967014 SMc03878 PhbB acetoacetyl-CoA reductase -2.06 0.44 15967015 SMc03879 PhbA acetyl-CoA acetyltransferase -2.13 0.31 15967017 SMc03881 RpmF 50S ribosomal protein L32 -2.46 0.32 15967018 SMc03882 Gst8 glutathione S-transferase -4.09 1.15 15967020 SMc03884 IspA geranyltranstransferase -3.85 0.38 15967021 SMc03885 HisC2 histidinol-phosphate aminotransferase -1.59 0.41 15967023 SMc03887 Amino acid efflux protein -1.64 0.46 15967024 SMc03888 Conserved hypothetical -2.88 1.85 15967027 SMc03891 ABC transporter, amino acids -2.93 0.68 15967029 SMc03893 ABC transporter, amino acids -2.97 0.71 15967030 SMc03894 ABC transporter, amino acids -1.88 0.38 15967035 SMc03899 Hypothetical -1.51 0.37 15967036 SMc03900 NdvA beta-1->2glucan export ATP-binding protein -1.34 0.53 15966600 SMc03925 Pgm phosphoglucomutase -2.67 0.69 15966602 SMc03927 NodN2 putative nodulation protein -2.42 0.35 15966605 SMc03930 SoxG2 sarcosine oxidase gamma subunit -4.86 0.53 15966607 SMc03932 SoxD2 sarcosine oxidase delta subunit -2.93 0.35 15966608 SMc03933 SoxB2 sarcosine oxidase subunit B -3.70 0.78 15966609 SMc03934 RpsU2 30S ribosomal protein -2.49 0.28 15966610 SMc03935 Conserved hypothetical -2.31 0.10 15966613 SMc03938 PntB NAD(P) transhydrogenase -3.34 0.35 15966616 SMc03941 Conserved hypothetical, transmembrane -2.70 0.22 15966170 SMc03949 NtrP nitrogen regulatory protein -1.97 0.49 15966615 SMc03950 PntAa proton-translocating NND transhydrogenase -3.30 0.53 GI Name Description SLR SD

15966493 SMc03956 TolA signal-peptide protein -1.75 0.30 15966494 SMc03957 TolR transport protein -2.32 0.33 15966495 SMc03958 TolQ transport protein -3.41 0.47 15966498 SMc03961 SqdB sulfolipid biosynthesis (UDP-sulfoquinovose) -2.16 0.42 15966503 SMc03966 RuvB holliday junction DNA helicase -2.69 0.60 15966504 SMc03967 RuvC holliday junction endodeoxyribonuclease -2.29 0.59 15966506 SMc03969 Conserved hypothetical -1.95 0.25 15966515 SMc03978 Tkt2 transketolase -3.39 0.39 15966516 SMc03979 Gap glyceraldehyde 3-phosphate dehydrogenase -2.86 0.22 15966517 SMc03980 Conserved hypothetical -2.78 0.47 15966524 SMc03987 Transport protein -3.14 0.77 15966527 SMc03990 RpmE 50S ribosomal protein L31 -2.61 0.35 15966531 SMc03994 SuhB inositol monophosphatase -2.90 1.44 15966537 SMc04000 Conserved hypothetical -1.99 0.35 15966538 SMc04001 PurE phosphoribosylaminoimidazole carboxylase -3.02 0.51 15966540 SMc04003 RpmJ 50S ribosomal protein L36 -2.75 0.29 15966542 SMc04005 PykA pyruvate kinase II -3.13 0.16 15966544 SMc04007 Conserved hypothetical -3.60 0.57 15966545 SMc04008 Conserved hypothetical -1.95 0.14 15966547 SMc04010 Conserved hypothetical -1.95 0.29 15966549 SMc04012 PepF oligoendopeptidase F -2.72 0.24 15966553 SMc04016 Hss homospermidine synthase -3.19 0.24 15966554 SMc04017 Omp10 outer membrane lipoprotein -2.92 0.41 15966555 SMc04018 5' -nucleotidase precursor -1.78 0.35 15966556 SMc04019 HemH ferrochelatase -1.30 0.11 15966560 SMc04023 ExoN2 UTP--glucose-1-phosphate uridylyltransferase -2.80 1.18 15966561 SMc04024 Membrane-bound lytic murein transglycosylase -2.95 0.46 15966562 SMc04025 Conserved hypothetical, transmembrane -1.68 0.61 15966566 SMc04030 Conserved hypothetical, transmembrane -4.82 0.86 15966578 SMc04042 Monophosphatase -1.29 0.33 15966580 SMc04044 2-component receiver domain protein -1.26 0.19 15966584 SMc04048 Cytochrome c -1.88 0.33 15966592 SMc04056 Oxidoreductase -2.52 0.30 15966593 SMc04057 Conserved hypothetical -3.89 0.32 15967073 SMc04085 Conserved hypothetical -3.57 1.44 15967074 SMc04087 Conserved hypothetical, transmembrane -3.98 0.42 15967075 SMc04088 PurH bifunctional enzyme -1.42 0.40 15967080 SMc04093 AcsA1 acetyl-coenzyme A synthetase -4.80 0.45 15967081 SMc04094 Conserved hypothetical -2.05 0.59 15963896 SMc04109 CpaE1 response regulator -3.95 0.71 15963895 SMc04110 Conserved hypothetical -4.71 0.98 15963893 SMc04112 CpaB1 pilus assembly protein -1.86 0.54 15963892 SMc04113 CpaA1 pilus assembly protein -4.08 0.51 15963891 SMc04114 PilA pilin -2.16 0.35 15963890 SMc04115 Conserved hypothetical -1.95 0.39 15963888 SMc04117 Conserved hypothetical, transmembrane -2.44 0.44 15963851 SMc04154 PurU2 formyltetrahydrofolate deformylase -2.22 0.82 15965752 SMc04170 2-component receiver domain protein -3.17 1.14 15965757 SMc04175 Conserved hypothetical, transmembrane -2.25 0.61 15965759 SMc04177 Conserved hypothetical -2.27 0.36 15965761 SMc04179 Conserved hypothetical, transmembrane -2.44 0.81 15965779 SMc04198 Phage repressor protein -3.68 0.35 GI Name Description SLR SD

15965782 SMc04201 Conserved hypothetical -2.24 0.25 15965637 SMc04214 CobU phosphoribosyltransferase -1.92 0.50 15965642 SMc04219 ABC transporter -1.42 0.47 15965645 SMc04222 Conserved hypothetical -1.12 0.62 15965648 SMc04225 Conserved hypothetical -1.48 0.16 15965649 SMc04226 Lipoprotein -1.91 0.16 15965653 SMc04230 Conserved hypothetical, transmembrane -3.77 1.08 15965657 SMc04234 Csp4 cold shock transcriptional regulator -1.03 0.25 15965663 SMc04240 Conserved hypothetical -2.31 0.97 15965675 SMc04252 Oxidoreductase -2.41 0.32 15965684 SMc04261 Hypothetical -5.41 1.14 15965692 SMc04273 3-oxoacyl-acyl-carrier-protein synthase -3.10 0.29 15965796 SMc04274 Conserved hypothetical -1.22 0.24 15965695 SMc04278 AcpXL acyl carrier protein -1.21 0.20 15965798 SMc04280 Conserved hypothetical -2.45 1.14 15965701 SMc04286 Conserved hypothetical, transmembrane -1.80 0.21 15965804 SMc04296 FtsZ2 cell division protein -2.50 0.49 15965711 SMc04304 CobW cobalamine biosynthesis protein -3.83 0.45 15965712 SMc04305 CobP bifunctional cobalamin biosynthesis protein -4.29 1.10 15965808 SMc04316 AfuB ferric iron transport system permease -2.46 0.42 15965809 SMc04317 AfuA iron-binding periplasmic protein -3.91 0.69 15965729 SMc04330 MttB trimethylamine methyltransferase -3.15 0.51 15965730 SMc04331 MtbC dimethylamine corrinoid protein -1.47 0.22 15965739 SMc04342 Methyltransferase -1.17 0.35 15965821 SMc04346 IlvC ketol-acid reductoisomerase -2.69 0.26 15965825 SMc04352 Conserved hypothetical -2.94 0.21 15967038 SMc04381 Conserved hypothetical, transmembrane -1.62 0.34 15967039 SMc04382 NdvB beta-(1,2)-glucan production protein -1.42 0.35 15967042 SMc04384 Oxidoreductase -1.09 0.32 15967043 SMc04385 Aldehyde dehydrogenase -2.56 0.39 15967044 SMc04386 AatB aspartate aminotransferase B -3.13 0.55 15967046 SMc04388 Omega-amino acid--pyruvate aminotransferase -5.07 0.62 15967063 SMc04405 LeuB 3-isopropylmalate dehydrogenase -1.51 0.30 15967068 SMc04409 Hypothetical -1.90 0.41 15967069 SMc04410 Asd aspartate-semialdehyde dehydrogenase -2.76 0.67 15967070 SMc04411 Membrane-bound lytic murein transglycosylase -2.57 0.60 15964254 SMc04429 Conserved hypothetical -1.39 0.33 15964371 SMc04432 Conserved hypothetical -1.61 0.17 15964199 SMc04434 RpmH 50S ribosomal protein L34 -1.97 0.80 15965379 SMc04449 CpdB 2',3' -cyclic-nucleotide 2' -phosphodiesterase -3.90 0.86 15966380 SMc04458 SecA preprotein translocase -2.89 0.45 15966596 SMc04460 GlgP glycogen phosphorylase -2.20 0.57 15966492 SMc04461 TolB protein -3.19 0.23 15967040 SMc04882 Transcriptional regulator -2.38 1.15

Increased in Rm1021 bacteroids compared to VO2675 (fixJ::Tn5) nodule bacteria 14523065 SMa0018 TRm2011-2a transposase 1.29 0.26 14523066 SMa0020 TRm2011-2b transposase 4.32 2.12 14523122 SMa0121 Hypothetical 1.77 0.21 14523123 SMa0123 Conserved hypothetical 2.96 0.43 14523124 SMa0124 GroEL3 chaperonin 2.44 0.17 14523125 SMa0125 GroES3 chaperonin 2.11 0.33 GI Name Description SLR SD

14523130 SMa0132 Hypothetical 0.99 0.42 14523157 SMa0179 Transcriptional activator 2.51 0.84 14523165 SMa0191 Conserved hypothetical 3.11 0.77 14523166 SMa0193 Conserved hypothetical 2.35 0.92 14523189 SMa0229 Conserved hypothetical 2.29 0.47 14523190 SMa0232 Conserved hypothetical 2.17 0.44 14523213 SMa0273 ABC transporter 2.63 1.36 14523216 SMa0277 Conserved hypothetical 2.16 1.09 14523293 SMa0407 Conserved hypothetical 2.31 0.55 14523295 SMa0412 Hypothetical 1.34 0.66 14523300 SMa0426 Conserved hypothetical 1.57 0.58 14523303 SMa0431 Conserved hypothetical 1.37 0.42 14523308 SMa0444 TRm1b transposase 1.55 0.21 14523315 SMa0453 Similar to Yle from A. tumefaciens 3.55 0.95 14523325 SMa0471 Conserved hypothetical 3.04 0.44 14523326 SMa0473 Conserved hypothetical 1.69 0.35 14523327 SMa0475 TRm17a transposase 2.84 0.15 14523328 SMa0476 TRm17b transposase 1.66 0.18 14523336 SMa0489 ABC transporter 1.41 0.12 14523341 SMa0498 LysR family transcriptional regulator 3.19 0.85 14523344 SMa0503 ABC transporter 2.43 0.85 14523366 SMa0545 Conserved hypothetical 1.40 1.06 14523367 SMa0548 Conserved hypothetical 1.55 0.12 14523381 SMa0572 Conserved hypothetical 2.24 0.70 14523383 SMa0575 Hypothetical 1.66 0.30 14523384 SMa0576 Leu or Leu/Val/Ile transport Binding Protein 1.13 0.38 14523392 SMa0591 Conserved hypothetical 2.50 1.07 14523393 SMa0592 Conserved hypothetical 2.92 0.14 14523433 SMa0661 Conserved hypothetical 1.67 0.30 14523439 SMa0667 Conserved hypothetical 2.68 0.57 14523440 SMa0669 Conserved hypothetical 1.19 0.30 14523441 SMa0670 Regulatory protein 1.12 0.35 14523445 SMa0677 Glutamate/aspartate transport protein 1.76 0.52 14523448 SMa0682 Decarboxylase (lysine, ornithine, arginine) 2.51 1.35 14523453 SMa0689 Conserved hypothetical 1.41 0.48 14523454 SMa0690 Conserved hypothetical 2.71 0.29 14523456 SMa0695 ArcB catabolic ornithine carbamoyl transferase 3.81 0.93 14523457 SMa0697 ArcC 2.35 0.42 14523481 SMa0738 CspA6 cold shock transcriptional regulator 1.74 0.31 14523500 SMa0762 FixK2 transcriptional regulator 5.66 0.28 14523501 SMa0763 Conserved hypothetical 6.30 0.42 14523502 SMa0765 FixN2 cytochrome c oxidase polypeptide I 5.03 0.20 14523502 SMa0765 FixN2 cytochrome c oxidase polypeptide I 3.72 0.50 14523503 SMa0766 FixO2 cytochrome c oxidase 4.22 0.14 14523504 SMa0767 FixQ2 cbb3-type cytochrome oxidase 4.60 0.16 14523505 SMa0769 FixP2 cytochrome c oxidase 4.52 0.38 14523506 SMa0771 Conserved hypothetical 4.72 0.18 14523507 SMa0772 NodL Nod factor acetyltransferase 4.03 0.24 14523508 SMa0773 NoeA host specific nodulation protein 2.53 0.23 14523509 SMa0774 NoeB host specific nodulation protein 1.53 0.29 14523512 SMa0776 TRm23b IS ATP-binding protein 2.61 0.82 14523514 SMa0781 Conserved hypothetical 1.01 0.37 GI Name Description SLR SD

14523516 SMa0785 Site-specific recombinase 1.71 0.18 14523534 SMa0810 FixU nitrogen fixation protein 4.33 0.31 14523535 SMa0811 FdxN ferredoxin 5.91 0.22 14523536 SMa0814 NifB FeMo cofactor biosynthesis protein 5.44 0.41 14523538 SMa0815 NifA transcriptional activator 6.34 0.24 14523539 SMa0816 FixX ferredoxin-like protein 4.58 0.34 14523540 SMa0817 FixC oxidoreductase 6.07 1.38 14523541 SMa0819 FixB electron transfer flavoprotein alpha chain 5.50 1.07 14523542 SMa0822 FixA electron transfer flavoprotein beta chain 5.54 0.20 14523543 SMa0824 Conserved hypothetical 1.40 1.26 14523544 SMa0825 NifH nitrogenase Fe protein 5.84 0.24 14523545 SMa0827 NifD nitrogenase Fe-Mo alpha chain 5.65 0.19 14523547 SMa0829 NifK nitrogenase Fe-Mo beta chain 5.58 0.41 14523548 SMa0830 NifE oxidoreductase 5.98 0.78 14523549 SMa0831 NifX nitrogen fixation protein 5.33 0.62 14523550 SMa0833 Conserved hypothetical 4.83 0.33 14523551 SMa0834 FdxB ferredoxin III 3.75 0.54 14523552 SMa0835 Hypothetical 10.5 kDa ORF, upstream from syrA 4.40 1.17 14523553 SMa0838 SyrA protein involved in EPS production 4.38 0.90 14523555 SMa0841 Conserved hypothetical 3.83 0.32 14523556 SMa0846 Conserved hypothetical 1.52 0.37 14523557 SMa0848 Hypothetical, upstream from syrM 1.65 0.53 14523558 SMa0849 SyrM transcriptional regulator 3.38 0.57 14523564 SMa0854 NodG 3-oxoacyl-(acyl carrier protein) reductase 3.60 1.11 14523566 SMa0857 NodQ1 ATP-sulfurylase large subunit-APS kinase 4.26 1.70 14523567 SMa0861 Conserved hypothetical 1.32 0.30 14523575 SMa0872 Hypothetical (ORF 110) 1.54 0.23 14523576 SMa0873 NifN Nitrogenase Fe-Mo cofactor biosynthesis protein 3.03 0.95 14523630 SMa0976 TRm3 transposase fragment 3.79 1.21 14523633 SMa0981 NtrR2 transcriptional regulator 1.49 0.27 14523634 SMa0983 Hypothetical 1.75 0.47 14523635 SMa0985 LysR-family transcriptional regulator 1.54 0.63 14523640 SMa0995 TRm5 transposase 4.86 0.26 14523641 SMa0997 Transposase fragment 2.45 0.54 14523669 SMa1038 Copper-containing oxidase 3.31 0.57 14523682 SMa1062 Conserved hypothetical 2.43 0.81 14523687 SMa1073 TRm23b IS ATP-binding protein 4.19 2.00 14523694 SMa1082 Conserved hypothetical 3.14 0.44 14523697 SMa1087 Cation transport P-type ATPase 2.52 0.39 14523698 SMa1089 Conserved hypothetical 1.94 0.54 14523704 SMa1096 Conserved hypothetical 2.33 1.41 14523707 SMa1100 Conserved hypothetical 1.07 0.21 14523711 SMa1111 Hypothetical 1.81 1.23 14523715 SMa1118 HspC2 heat shock protein 3.98 0.63 14523716 SMa1120 ABC transporter 3.38 0.40 14523719 SMa1126 Conserved hypothetical 2.18 0.85 14523723 SMa1132 Hypothetical 4.88 1.08 14523724 SMa1134 Hypothetical 5.12 0.49 14523725 SMa1136 Conserved hypothetical 4.52 0.43 14523728 SMa1141 Fnr/Crp family transcriptional regulator 3.06 0.30 14523731 SMa1147 Conserved hypothetical 1.10 0.21 14523732 SMa1149 Conserved hypothetical 1.45 0.29 GI Name Description SLR SD

14523735 SMa1153 Conserved hypothetical 1.68 0.37 14523736 SMa1154 Conserved hypothetical 2.32 0.57 14523761 SMa1188 NosX required for nitrous oxide reduction 2.04 1.09 14523769 SMa1200 Conserved hypothetical 2.65 0.88 14523770 SMa1201 Conserved hypothetical 1.73 0.42 14523771 SMa1207 FixK-like regulator 3.92 1.24 14523772 SMa1208 FixS1 nitrogen fixation protein 3.74 0.64 14523773 SMa1209 FixI1 copper transport ATPase 3.81 0.61 14523774 SMa1210 FixH nitrogen fixation protein 3.62 0.57 14523775 SMa1211 FixG iron sulfur membrane protein 3.81 0.52 14523777 SMa1213 FixP1 di-heme cytochrome c 3.48 0.30 14523778 SMa1214 FixQ1 cbb3-type cytochrome oxidase 4.88 0.86 14523779 SMa1216 FixO1 c-type cytochrome 3.35 0.39 14523780 SMa1220 FixN1 Heme b / copper cytochrome c oxidase subunit 4.54 0.35 14523781 SMa1223 FixM flavoprotein oxidoreductase 6.42 0.56 14523786 SMa1231 Conserved hypothetical 2.27 0.91 14523789 SMa1236 NapA periplasmic nitrate reductase 2.02 1.07 14523794 SMa1243 Azu1 pseudoazurin (blue copper protein) 1.97 0.45 14523849 SMa1334 Conserved hypothetical 1.75 0.72 14523851 SMa1337 ABC transporter 3.84 0.39 14523852 SMa1339 ABC transporter 1.78 0.14 14523870 SMa1365 ABC transporter 2.24 0.64 14523896 SMa1413 Conserved hypothetical 2.38 0.44 14523920 SMa1455 Conserved hypothetical 2.28 0.30 14523921 SMa1456 Conserved hypothetical 1.65 0.15 14523948 SMa1505 GntR-family transcriptional regulator 1.77 0.74 14523973 SMa1547 Protein-L-isoaspartate(D-aspartate) O-methyltransferase 1.88 0.68 14524010 SMa1608 Conserved hypothetical 1.28 0.27 14524013 SMa1613 Conserved hypothetical 1.79 0.81 14524035 SMa1646 ABC transporter 1.04 0.74 14524094 SMa1732 Conserved hypothetical 2.69 0.82 14524134 SMa1793 Conserved hypothetical 1.81 0.25 14524135 SMa1797 Hypothetical 1.53 0.10 14524136 SMa1798 Kup2 Potassium uptake protein 1.01 0.11 14524176 SMa1867 AsnC (Lrp)-family transcriptional activator 2.84 0.42 14524201 SMa1910 Conserved hypothetical 1.16 0.17 14524205 SMa1918 Conserved hypothetical 1.11 0.34 14524206 SMa1919 Conserved hypothetical 1.51 0.31 14524207 SMa1921 Hypothetical 1.51 0.09 14524208 SMa1924 Conserved hypothetical 2.15 0.26 14524224 SMa1956 LysR-family transcriptional regulator 3.09 0.70 14524256 SMa2009 Conserved hypothetical 5.26 0.90 14524257 SMa2011 Hypothetical 3.48 0.47 14524262 SMa2020 Transcriptional regulator 1.13 0.41 14524268 SMa2031 Non-heme chloroperoxidase 1.40 0.37 14524281 SMa2055 Conserved hypothetical 1.15 0.29 14524340 SMa2167 Conserved hypothetical 1.70 0.35 14524360 SMa2215 GntR-family transcriptional regulator 3.51 0.25 14524368 SMa2231 Conserved hypothetical 1.69 0.13 14524371 SMa2235 Conserved hypothetical 1.12 0.57 14524385 SMa2261 Hypothetical 1.13 0.55 14524387 SMa2265 Hypothetical 3.31 1.29 GI Name Description SLR SD

14524463 SMa2385 ABC transporter 2.27 0.57 14524467 SMa2391 RepC2 replication protein 1.40 0.38 14524468 SMa2393 RepB2 replication protein 3.05 0.60 14524469 SMa2395 RepA2 replication protein 2.48 0.39 15139893 SMb20018 ABC transporter 1.61 0.14 15139922 SMb20047 Hypothetical 1.90 0.14 15139923 SMb20048 Transcriptional regulator 3.50 1.35 15139932 SMb20060 ISRm5 transposase 1.57 0.08 15139934 SMb20062 Conserved hypothetical 1.22 0.33 15139935 SMb20063 Conserved hypothetical 1.23 0.67 15139940 SMb20068 Conserved hypothetical 1.31 0.31 15139974 SMb20102 Acetoin catabolism regulator 1.38 0.15 15139990 SMb20118 Conserved hypothetical 1.70 0.18 15139991 SMb20119 Conserved hypothetical 1.49 0.19 15139993 SMb20121 Conserved hypothetical 1.61 0.12 15140022 SMb20150 Inositol monophosphatase 2.89 1.44 15140094 SMb20231 ABC transporter, sugar 2.37 0.20 15140117 SMb20255 Conserved hypothetical 1.14 0.23 15140167 SMb20304 ISRm2011-2 transposase, C-terminal portion 2.35 0.17 15140168 SMb20306 ISRm2011-2 protein 2.32 0.30 15140190 SMb20331 Conserved hypothetical 1.30 0.35 15140194 SMb20335 Conserved hypothetical 1.82 0.44 15140203 SMb20344 Transcriptional regulator 1.89 1.16 15140205 SMb20346 Efflux protein 1.52 0.27 15140206 SMb20347 Transcriptional regulator 2.81 0.56 15140224 SMb20365 ABC transporter, iron 1.74 0.50 15140274 SMb20415 Oxidoreductase 2.35 0.31 15140320 SMb20465 Conserved hypothetical 1.19 0.19 15140339 SMb20484 ABC transporter, sugar 3.81 0.21 15140340 SMb20485 ABC transporter, sugar 1.73 0.30 15140342 SMb20487 ABC transporter, sugar 2.83 0.90 15140363 SMb20508 ABC transporter, sugar 3.89 0.91 15140364 SMb20509 Transcriptional regulator 1.91 0.91 15140370 SMb20516 Response regulator 1.01 0.19 15140372 SMb20518 Conserved hypothetical 1.26 0.29 15140374 SMb20520 Conserved hypothetical 1.33 0.12 15140375 SMb20521 Conserved hypothetical 2.17 0.50 15140376 SMb20522 Conserved hypothetical 1.74 0.55 15140378 SMb20525 Transcriptional regulator 1.70 0.34 15140390 SMb20538 Solute-binding protein 2.60 1.54 15140391 SMb20539 CyaF6 adenylate cyclase 1.33 0.48 15140407 SMb20544 ISRm14 protein 2.76 0.39 15140418 SMb20554 Conserved hypothetical 1.66 1.16 15141392 SMb20592 RpoE RNA polymerase sigma factor 1.38 0.20 15141393 SMb20593 Conserved hypothetical 4.33 0.65 15141394 SMb20594 AmcY amicyanin precursor 1.28 0.28 15141397 SMb20597 Conserved hypothetical 0.98 0.10 15141406 SMb20606 Conserved hypothetical 0.96 0.17 15141407 SMb20607 Conserved hypothetical 1.93 0.63 15141408 SMb20608 ArsR-family transcriptional regulator 2.25 0.47 15141415 SMb20615 ThiC thiamine biosynthesis protein 1.39 0.47 15141242 SMb20647 Conserved hypothetical 2.17 0.20 GI Name Description SLR SD

15141259 SMb20665 ISRm17 partial transposase 1.78 0.21 15141285 SMb20691 Conserved hypothetical 1.13 0.52 15141288 SMb20693 Conserved hypothetical 2.83 0.84 15141290 SMb20695 Conserved hypothetical 1.16 0.27 15141310 SMb20715 LysR-family transcriptional regulator 2.38 0.82 15141312 SMb20717 LacI-family transcriptional regulator 1.54 0.23 15141313 SMb20718 ABC transporter, sugar uptake 1.96 0.93 15141314 SMb20719 ABC transporter, sugar uptake 3.22 0.37 15141359 SMb20779 ISRm2011-2, orfC N-terminus 2.07 0.45 15140443 SMb20818 MocD hydrocarbon oxygenase 1.89 0.12 15140444 SMb20819 MocE ferredoxin of the Rieseke type 2.55 0.47 15140445 SMb20820 MocF ferredoxin reductase 2.08 0.17 15140446 SMb20821 ATP/GTP-binding hydroxymethyltransferase 1.70 0.63 15140458 SMb20830 KpsF2 involved in export machinery of a cell surface saccharide 1.40 0.38 15140465 SMb20837 Conserved hypothetical, transmembrane 1.73 0.08 15140466 SMb20838 Secreted calcium-binding protein 1.10 0.22 15140468 SMb20840 Conserved hypothetical 2.60 0.19 15140469 SMb20841 Conserved hypothetical, membrane-anchored 2.31 0.80 15141027 SMb20847 LysR-family transcriptional regulator 1.51 0.41 15141030 SMb20850 LldD3 L-lactate dehydrogenase (cytochrome) 3.10 0.32 15141051 SMb20870 LysR-family transcriptional regulator 1.11 0.15 15141089 SMb20906 Hypothetical 1.96 0.58 15141105 SMb20920 Conserved hypothetical, secreted 1.46 0.24 15140956 SMb20947 ExoX posttranscriptional repressor 2.39 0.17 15140963 SMb20952 Conserved hypothetical 2.06 0.69 15140964 SMb20953 Conserved hypothetical, exported 5.31 0.49 15140967 SMb20956 ExoL glucosyltransferase 1.04 0.25 15140976 SMb20964 Anti-oxidant protein, AhpCTSA family 1.70 0.23 15141019 SMb21006 Hypothetical, membrane 1.84 0.84 15140478 SMb21019 ABC transporter, sugar 1.80 0.56 15140501 SMb21044 ATP-dependent DNA ligase 3.57 0.80 15140525 SMb21061 NDP-hexose 3-C-methyltransferase 1.30 0.45 15140580 SMb21116 Conserved hypothetical 1.09 0.35 15140581 SMb21117 Transcriptional regulator 2.52 1.20 15140582 SMb21118 Hypothetical 1.29 0.23 15140696 SMb21144 ABC transporter, choline uptake 1.28 0.38 15140702 SMb21150 ABC transporter, sugar uptake 2.49 0.79 15140704 SMb21152 ABC transporter, sugar uptake 1.07 0.42 15140708 SMb21156 Conserved hypothetical 2.14 0.55 15140710 SMb21158 Transcriptional regulator, sugar phosphate 2.45 0.75 15140721 SMb21169 ArsR-family transcriptional regulator 2.58 0.31 15140764 SMb21212 Conserved hypothetical 1.22 0.45 15140766 SMb21213 PphA serinethreonine protein phosphatase 2.53 1.32 15140628 SMb21239 Pectate lysase, possibly truncated 0.97 0.26 15140683 SMb21294 Hsp20-family small heat shock protein, 3.27 0.72 15140689 SMb21300 DeoC deoxyribose-phosphate aldolase 3.77 1.28 15140690 SMb21301 Aldehyde dehydrogenase 3.25 0.51 15140692 SMb21302 Conserved hypothetical 2.24 0.65 15140693 SMb21303 Conserved hypothetical, membrane-anchored 1.63 0.39 15140807 SMb21345 ABC transporter, sugar uptake 2.02 0.35 15141109 SMb21396 Conserved hypothetical 1.76 0.57 15141110 SMb21397 Hypothetical calcium-binding protein 4.53 1.16 GI Name Description SLR SD

15141111 SMb21398 Hypothetical 1.12 0.49 15141112 SMb21399 Conserved hypothetical 3.81 0.87 15141123 SMb21409 Hypothetical 2.33 0.38 15141129 SMb21415 Oxidoreductase, oxygen dependent, FAD-dependent 1.33 0.21 15141136 SMb21421 ABC transporter, sugar uptake 1.21 0.36 15141161 SMb21445 DNA topoisomerase I 1.77 0.47 15141162 SMb21446 GlgX2 glycosyl hydrolase 1.43 0.21 15141165 SMb21449 Gst12 glutathione S-transferase 1.61 0.46 15141169 SMb21455 Conserved hypothetical 1.20 0.36 15141185 SMb21472 Conserved hypothetical 1.00 0.55 15141208 SMb21492 Conserved hypothetical 1.48 0.18 15141209 SMb21493 AsnC-family transcriptional regulator 3.28 0.89 15141238 SMb21521 Conserved hypothetical, exported 3.11 0.22 15141241 SMb21524 MinC cell division inhibitor 0.97 0.11 15140896 SMb21570 StcD2 NADH-dependent oxidase 1.98 0.73 15140905 SMb21579 MerR-family transcriptional regulator 2.02 0.29 15141442 SMb21635 PaaZ aldehyde dehydrogenase 1.21 1.42 15141445 SMb21638 PaaC phenylacetic acid degradation protein 1.91 0.62 15141446 SMb21639 PaaB phenylacetic acid degradation protein 2.72 0.55 15141447 SMb21640 PaaA phenylacetic acid degradation protein 3.01 0.92 15141454 SMb21647 AgpA ABC transporter, alpha-galactosides 1.58 0.21 15141455 SMb21648 AgaL1 alpha-galactosidase 3.86 0.42 15141456 SMb21649 AgpT alpha-galactoside utilization transcriptional regulator 4.18 0.83 15141457 SMb21650 LacI-family transcriptional regulator 3.44 0.69 15141458 SMb21651 Plasmid stability protein 2.08 0.43 15140765 SMb21667 Hypothetical 1.03 0.30 15141113 SMb21683 Conserved hypothetical 2.52 0.20 15140502 SMb21695 Hypothetical 2.01 0.89 15141362 SMb21702 ISRm2011-2, orfB 1.97 0.13 15964718 SMc00041 Conserved hypothetical, transmembrane 1.87 0.29 15964726 SMc00043 SodB superoxide dismutase 1.53 0.39 15964674 SMc00077 ThrC1 threonine synthase 1.68 0.46 15964676 SMc00078 LivJ Leu/Ile/Val-binding protein 1.68 0.18 15964677 SMc00079 Conserved hypothetical 1.75 0.27 15964678 SMc00080 Conserved hypothetical 2.46 0.24 15964700 SMc00093 BetA choline dehydrogenase 1.98 0.64 15964701 SMc00094 BetB betaine aldehyde dehydrogenase 2.14 0.43 15964703 SMc00095 BetI transcriptional regulator 1.72 0.15 15964719 SMc00101 Oxidoreductase 1.69 0.08 15964732 SMc00109 Transcriptional regulator 6.42 0.67 15964736 SMc00112 Conserved hypothetical 1.59 0.75 15964743 SMc00116 Conserved hypothetical 1.44 0.34 15964744 SMc00117 Conserved hypothetical 1.38 0.40 15964753 SMc00118 Conserved hypothetical 3.12 0.55 15964763 SMc00122 Pbp penicillin-binding protein 1.25 0.28 15964765 SMc00123 Conserved hypothetical 1.13 0.13 15964702 SMc00127 BetC choline sulfatase 1.93 0.56 15964761 SMc00128 Conserved hypothetical, transmembrane 2.67 0.32 15965627 SMc00136 Oxidoreductase 1.99 1.02 15965617 SMc00144 MoaA molybdenum cofactor biosynthesis protein 1.59 0.24 15965582 SMc00178 Conserved hypothetical 1.30 0.33 15965419 SMc00241 Transcriptional regulator 3.54 0.71 GI Name Description SLR SD

15965430 SMc00250 Hypothetical, transmembrane 1.22 0.47 15965431 SMc00251 Conserved hypothetical 1.24 0.21 15965438 SMc00257 RopB2 outer-membrane protein 1.93 0.47 15965439 SMc00258 Hypothetical 1.11 0.22 15965457 SMc00276 Conserved hypothetical 1.22 0.34 15965458 SMc00277 Conserved hypothetical 1.81 0.29 15965462 SMc00281 Conserved hypothetical 1.91 0.40 15965463 SMc00282 Conserved hypothetical 3.84 0.49 15965471 SMc00289 CspA5 cold shock transcriptional regulator 1.29 0.34 15965473 SMc00291 Lipoprotein 1.44 0.85 15965478 SMc00296 PhbC poly3-hydroxybutyrate polymerase 1.67 0.34 15965479 SMc00297 SfsA sugar fermentation stimulation protein 0.99 0.21 15964018 SMc00345 Conserved hypothetical 1.58 0.18 15964020 SMc00347 Rnk regulator of nucleoside diphosphate kinase 1.02 0.44 15964021 SMc00348 Conserved hypothetical 1.96 0.14 15964027 SMc00354 Conserved hypothetical 2.47 0.26 15964033 SMc00360 Conserved hypothetical 1.53 0.16 15964060 SMc00387 TatA tyrosine aminotransferase 0.96 0.31 15964070 SMc00397 Conserved hypothetical 2.28 0.38 15964079 SMc00406 4FE-4S ferredoxin-like 1.15 0.41 15964083 SMc00410 Oxidoreductase 1.28 0.26 15964735 SMc00453 Conserved hypothetical 1.96 0.48 15964762 SMc00457 Conserved hypothetical, transmembrane 2.60 0.90 15965558 SMc00468 Conserved hypothetical 0.97 0.32 15965549 SMc00477 Conserved hypothetical 1.32 0.86 15965548 SMc00478 Conserved hypothetical 1.94 0.56 15965546 SMc00479 Transcriptional regulator 1.13 0.52 15965533 SMc00487 Conserved hypothetical 1.35 0.24 15965530 SMc00490 Transcriptional regulator 2.57 0.34 15965535 SMc00537 Transport protein 2.30 0.71 15965534 SMc00538 Conserved hypothetical 0.97 0.44 15964913 SMc00591 Hypothetical 2.02 0.71 15964914 SMc00592 Conserved hypothetical, transmembrane 1.40 0.12 15964915 SMc00593 Conserved hypothetical 3.14 0.56 15964918 SMc00596 Conserved hypothetical 3.20 0.60 15964919 SMc00597 Conserved hypothetical 2.11 0.27 15964927 SMc00605 Zinc finger domain protein 1.90 0.34 15964928 SMc00606 Ribonuclease 3.29 0.68 15964929 SMc00607 Conserved hypothetical 1.53 0.44 15966479 SMc00646 RpoH1 RNA Polymerase sigma-32 factor 1.70 0.21 15966464 SMc00661 Hypothetical 3.73 1.52 15966458 SMc00667 Conserved hypothetical 2.08 1.14 15966454 SMc00671 HisW ABC transporter, histidine 2.82 0.90 15966453 SMc00672 HisX histidine-binding periplasmic signal peptide 2.55 0.34 15966452 SMc00673 Hydrolase 2.34 0.66 15966443 SMc00682 HipO1 hippurate hydrolase 1.38 0.37 15966432 SMc00693 Conserved hypothetical 1.41 0.33 15966431 SMc00694 Conserved hypothetical 1.50 0.30 15966429 SMc00696 AroB 3-dehydroquinate synthase 2.21 1.01 15966417 SMc00708 GloB hydroxyacylglutathione hydrolase 1.11 0.10 15966393 SMc00732 Conserved hypothetical, transmembrane 1.09 0.21 15966386 SMc00739 Conserved hypothetical 1.48 0.17 GI Name Description SLR SD

15966385 SMc00740 Conserved hypothetical 1.33 0.11 15964463 SMc00766 Transcriptional regulator 0.98 0.27 15964467 SMc00770 PotF putrescine-binding periplasmic protein 1.28 0.42 15964477 SMc00779 FAD-dependent oxidoreductase 1.54 1.03 15964484 SMc00786 DppA1 ABC transporter, dipeptides 1.22 0.27 15964520 SMc00822 Conserved hypothetical 2.42 0.38 15964521 SMc00823 Conserved hypothetical 1.90 0.40 15964524 SMc00826 Conserved hypothetical 2.62 1.70 15964526 SMc00828 Conserved hypothetical 3.54 0.48 15964596 SMc00863 MoaB molybdenum cofactor biosynthesis protein B 1.28 0.09 15964592 SMc00867 RnhB ribonuclease HII 1.24 0.18 15964569 SMc00932 MutL DNA mismatch repair protein 1.37 0.23 15965380 SMc00935 Conserved hypothetical 1.17 0.33 15965384 SMc00939 Conserved hypothetical 1.15 0.35 15965385 SMc00940 Conserved hypothetical 1.05 0.49 15965387 SMc00942 Conserved hypothetical 1.15 0.16 15965392 SMc00947 GlnB nitrogen regulatory protein PII 0.99 0.19 15965394 SMc00949 Conserved hypothetical 1.16 0.32 15965402 SMc00956 XthA1 exodeoxyribonuclease III 1.28 0.65 15965401 SMc00959 Conserved hypothetical 1.14 0.66 15964644 SMc00961 Conserved hypothetical 3.15 0.62 15964619 SMc00986 Conserved hypothetical 1.80 0.40 15965162 SMc00995 Conserved hypothetical 1.89 0.41 15965171 SMc01003 Conserved hypothetical 1.60 0.30 15965172 SMc01004 HisI phosphoribosyl-AMP cyclohydrolase 3.72 1.03 15965173 SMc01005 FolE GTP cyclohydrolase I 1.50 0.25 15965174 SMc01006 Conserved hypothetical 1.26 0.12 15965175 SMc01007 Conserved hypothetical 1.98 1.20 15965176 SMc01008 Conserved hypothetical 2.05 0.93 15965192 SMc01024 Conserved hypothetical, transmembrane 1.34 0.38 15965197 SMc01029 Conserved hypothetical 1.29 0.37 15965205 SMc01037 LipA lipoic acid synthetase 1.06 0.25 15964167 SMc01106 Small heat shock protein 2.90 0.28 15964166 SMc01107 Conserved hypothetical 2.37 0.32 15964163 SMc01110 PhrR DNA-binding protein 1.97 0.37 15964157 SMc01116 OlsA acyltransferase 2.68 0.58 15964155 SMc01118 Conserved hypothetical 2.06 0.31 15964154 SMc01119 Conserved hypothetical 1.46 0.45 15964142 SMc01131 Conserved hypothetical 1.13 0.35 15964140 SMc01133 Conserved hypothetical, transmembrane 1.71 0.11 15964139 SMc01134 IhfB integration host factor beta-subunit 1.85 0.33 15964135 SMc01138 ABC transporter 2.24 0.39 15964134 SMc01139 RpoN RNA polymerase sigma-54 1.10 0.12 15964133 SMc01140 Sigma-54 modulation protein 1.97 0.37 15964132 SMc01141 PtsN nitrogen regulatory IIA protein 1.27 0.24 15964130 SMc01143 HrcC heat-inducible transcriptional repressor 3.47 0.61 15965370 SMc01176 Conserved hypothetical 1.38 0.26 15965369 SMc01177 Conserved hypothetical 1.56 0.27 15965362 SMc01184 Conserved hypothetical, transmembrane 2.79 0.78 15965351 SMc01195 Partial transposase 2.56 0.86 15965347 SMc01199 Conserved hypothetical 2.62 0.77 15965343 SMc01202 Lipoprotein 1.35 0.15 GI Name Description SLR SD

15965342 SMc01203 Conserved hypothetical, transmembrane 3.14 1.37 15965326 SMc01218 GreA transcription elongation factor 1.33 1.02 15965325 SMc01219 LpsB lipopolysaccharide core biosynthesis mannosyltransferase 1.01 0.18 15965320 SMc01224 TrxB thioredoxin reductase 1.75 0.56 15965319 SMc01225 Transcriptional regulator 1.76 0.10 15965318 SMc01226 Transcriptional regulator 3.42 0.47 15965317 SMc01227 NerA glycerol trinitrate reductase 3.84 0.45 15965315 SMc01229 Acetyltransferase (antibiotic resistance ) 1.88 0.19 15965314 SMc01230 Transglycosylase 2.57 0.58 15965308 SMc01237 Nrd ribonucleotide reductase 1.96 0.12 15965304 SMc01241 Conserved hypothetical 1.91 0.84 rna17 SMc01244 tRNA Ala_CGC 1.58 1.32 rna19 SMc01251 tRNA Cys_GCA 2.34 0.27 15965161 SMc01256 Sda L-serine dehydratase 2.29 0.64 15965157 SMc01260 Transcriptional regulator 1.53 0.18 15965151 SMc01266 Conserved hypothetical 2.17 0.26 15965150 SMc01267 Conserved hypothetical 2.29 0.36 15965139 SMc01278 SugE chaperonin 1.50 0.19 15965136 SMc01281 Conserved hypothetical 1.30 0.18 15965044 SMc01373 DinP DNA-damage-inducible protein P 2.09 1.10 rna21 SMc01378 tRNA Tyr_GTA 2.31 1.31 rna22 SMc01379 tRNA Gly_TCC 2.01 0.22 15965852 SMc01416 Conserved hypothetical 2.30 1.16 15965858 SMc01422 Conserved hypothetical 1.32 0.36 15965863 SMc01427 Conserved hypothetical 1.69 0.22 15965878 SMc01442 FolA dihydrofolate reductase 1.33 0.13 15965879 SMc01443 Gst6 glutathione S-transferase 1.82 0.21 15965880 SMc01444 ThyA thymidylate synthase 1.44 0.57 15965886 SMc01450 Conserved hypothetical 3.78 0.20 15965887 SMc01451 Conserved hypothetical 4.08 0.28 15965888 SMc01452 Conserved hypothetical 4.41 0.25 15965892 SMc01456 Conserved hypothetical, transmembrane 2.18 0.28 15965837 SMc01488 Conserved hypothetical, transmembrane 1.73 0.47 15965844 SMc01490 Hypothetical 1.69 0.21 15966198 SMc01496 SmoE ABC transporter, sorbitol/mannitol 2.10 0.16 15966196 SMc01498 SmoG ABC transporter, sorbitol/mannitol 1.93 0.59 15966195 SMc01499 SmoK ABC transporter, sorbitol/mannitol 2.10 1.02 15966194 SMc01500 SmoS sorbitol dehydrogenase 1.09 0.09 15966172 SMc01520 Conserved hypothetical 1.32 0.37 15966171 SMc01521 NtrR1 nitrogen regulatory protein 1.23 0.23 15966058 SMc01554 Conserved hypothetical 2.27 0.27 15966060 SMc01556 Conserved hypothetical 1.02 0.18 15966072 SMc01568 Conserved hypothetical 1.39 0.37 15966073 SMc01569 CarA carbamoyl-phosphate synthetase 1.71 0.18 15966089 SMc01592 Transcriptional regulator 2.14 0.40 15965978 SMc01613 RpiB ribose 5-phosphate isomerase B 3.94 1.14 15965979 SMc01614 TpiA2 triosephosphate isomerase 1.80 0.60 15965980 SMc01615 Transcriptional regulator 3.07 0.24 15964211 SMc01708 Conserved hypothetical 4.03 0.48 15966046 SMc01741 Conserved hypothetical 1.31 0.44 15964950 SMc01759 Conserved hypothetical 1.08 0.24 15964977 SMc01786 HimA integration host factor alpha-subunit 1.59 0.22 GI Name Description SLR SD

15964980 SMc01789 Conserved hypothetical 2.36 0.76 15966205 SMc01819 Transcriptional regulator 2.58 0.53 15966214 SMc01828 Transport protein 1.43 0.71 15966222 SMc01836 Conserved hypothetical 2.03 0.31 15965940 SMc01855 Conserved hypothetical, transmembrane 1.36 0.21 15965939 SMc01856 Sarcosine oxidase 2.23 0.67 15965936 SMc01859 Conserved hypothetical, transmembrane 1.88 0.28 15965935 SMc01860 FtsI penicillin-binding protein 2.75 0.73 15965934 SMc01861 MurE ligase 1.45 0.44 15965910 SMc01885 Aminopeptidase P 1.01 0.80 15964981 SMc01902 Hypothetical 1.28 0.42 15965013 SMc01908 Transcriptional regulator 1.26 0.14 15965037 SMc01932 Conserved hypothetical 1.11 0.24 15965038 SMc01933 Conserved hypothetical 1.87 0.24 15966244 SMc01957 Conserved hypothetical 3.36 1.30 15966258 SMc01971 Aldehyde dehydrogenase 1.07 0.50 15966264 SMc01977 ABC transporter, sugar 1.08 0.40 15966277 SMc01990 Ferredoxin reductase 2.02 0.75 15966221 SMc01995 Conserved hypothetical 2.30 0.29 15966225 SMc02046 Conserved hypothetical 1.64 0.94 15965298 SMc02051 Conserved hypothetical 2.29 0.18 15965280 SMc02069 Conserved hypothetical 1.37 0.52 15965274 SMc02075 Conserved hypothetical 2.27 0.27 15965270 SMc02079 Outer membrane protein 2.10 0.37 15965269 SMc02080 ValS valyl-tRNA synthetase 2.78 0.98 15965268 SMc02081 Conserved hypothetical 3.61 0.34 15965261 SMc02088 Conserved hypothetical 1.72 0.16 15965247 SMc02102 Conserved hypothetical, transmembrane 1.58 0.33 15965239 SMc02110 Conserved hypothetical 1.12 0.30 15965237 SMc02112 Conserved hypothetical 1.33 0.26 15965236 SMc02113 CysE serine acetyltransferase 1.87 0.22 15965226 SMc02122 Fpr ferredoxin--NADP reductase 1.18 0.33 15964270 SMc02138 ArgD acetylornithine aminotransferase 1.39 0.40 15964269 SMc02139 Conserved hypothetical 3.66 1.15 15964260 SMc02148 Conserved hypothetical 1.63 0.42 15964237 SMc02162 FadD1 long-chain-fatty-acid--CoA ligase 2.61 0.27 15964281 SMc02223 Transcriptional regulator 1.16 0.74 15964286 SMc02228 FadA acetyl-CoA acyltransferase 1.13 0.37 15964287 SMc02229 Acyl-CoA dehydrogenase 1.31 0.42 15964289 SMc02231 Conserved hypothetical 1.17 0.34 15964292 SMc02235 Transcriptional regulator 1.11 0.08 15964307 SMc02250 MscL large-conductance mechanosensitive channel protein 2.72 0.26 15964323 SMc02266 Conserved hypothetical 2.45 0.41 15964324 SMc02267 Conserved hypothetical 2.59 0.50 15964336 SMc02279 Conserved hypothetical 1.12 0.51 15964339 SMc02282 Copper-containing oxidoreductase 1.73 0.60 15964346 SMc02286 Hypothetical 2.01 0.30 15964360 SMc02303 ISRm1 partial transposase 1.17 0.34 15964361 SMc02304 Conserved hypothetical 1.08 0.27 15964372 SMc02313 Conserved hypothetical 1.64 0.57 15964382 SMc02323 Transcriptional regulator 1.35 0.24 15964383 SMc02324 ABC transporter 1.52 0.37 GI Name Description SLR SD

15966319 SMc02338 ABC transporter 1.76 0.73 15966320 SMc02339 Oxidoreductase 2.91 0.82 15966325 SMc02344 Periplasmic protein 1.61 0.40 15966329 SMc02349 Oxidoreductase 2.35 1.16 15966330 SMc02350 Conserved hypothetical 1.94 0.45 15966331 SMc02351 Conserved hypothetical 4.06 0.93 15964779 SMc02370 PepN aminopeptidase N 1.36 0.62 15964781 SMc02372 Conserved hypothetical, transmembrane 1.25 0.22 15964782 SMc02373 Hypothetical 2.37 0.29 15964783 SMc02374 Hypothetical 2.34 0.25 15964786 SMc02377 Etf electron transfer flavoprotein-ubiquinone oxidoreductase 1.21 0.20 15964790 SMc02381 Conserved hypothetical 2.72 0.91 15964793 SMc02384 Glycosyltransferase 1.14 0.28 15964795 SMc02386 Amn AMP nucleosidase 3.20 1.55 15964796 SMc02387 Conserved hypothetical, transmembrane 1.10 0.33 15964800 SMc02391 Conserved hypothetical, transmembrane 2.28 0.34 15964802 SMc02393 Aminotransferase 1.97 0.46 15964803 SMc02394 Conserved hypothetical 1.62 0.47 15964811 SMc02403 Murein transglycosylase 1.05 0.38 15964814 SMc02406 Conserved hypothetical 2.52 0.26 15966361 SMc02433 ClpB ATP-dependent protease 1.67 0.19 15966362 SMc02434 Conserved hypothetical 2.37 0.24 15966363 SMc02435 HemK1 methyltransferase 1.55 0.76 15966364 SMc02436 PrfA peptide chain release factor 1 1.03 0.38 15966365 SMc02437 PtsP phosphoenolpyruvate phosphotransferase 1.21 0.48 15966369 SMc02441 Conserved hypothetical 3.56 0.24 15966370 SMc02442 Hydrolase 3.24 0.75 15966371 SMc02443 GrxC glutaredoxin 3 2.70 0.15 15964804 SMc02461 Conserved hypothetical 3.94 0.89 15966819 SMc02469 Oxidoreductase 2.42 0.69 15966812 SMc02476 Conserved hypothetical 1.08 0.33 15966811 SMc02477 Conserved hypothetical 1.35 0.21 15966796 SMc02492 Conserved hypothetical, transmembrane 1.91 1.77 15966764 SMc02524 FdsG NAD-dependent formate dehydrogenase 2.75 0.26 15964866 SMc02549 Conserved hypothetical 1.02 0.26 15964858 SMc02557 Conserved hypothetical 1.20 0.31 15964857 SMc02558 Conserved hypothetical 1.32 0.24 15963823 SMc02589 Conserved hypothetical 1.38 0.51 15963827 SMc02593 Conserved hypothetical, transmembrane 2.49 0.48 15963842 SMc02612 GlxD oxidoreductase 1.74 0.19 rna40 SMc02621 tRNA Ile_GAT 1.62 0.15 rna42 SMc02623 tRNA Met_CAT 3.02 0.76 15964839 SMc02637 Conserved hypothetical 2.15 0.89 15964826 SMc02651 Era GTP-binding protein 1.34 0.12 15964825 SMc02652 Rnc ribonuclease III 1.31 0.16 15964824 SMc02653 LepB signal peptidase I 2.07 0.64 15964823 SMc02654 AcpS holo-acyl-carrier protein synthase 2.47 0.37 15964822 SMc02655 Conserved hypothetical, transmembrane 2.01 0.41 15964821 SMc02656 Conserved hypothetical 2.38 0.38 rna56 SMc02669 rRNA 5S 3.47 0.68 15966102 SMc02687 Conserved hypothetical 1.89 1.02 15966104 SMc02689 Aldehyde dehydrogenase 1.95 0.67 GI Name Description SLR SD

15966105 SMc02690 Conserved hypothetical 1.94 0.44 15966109 SMc02694 Conserved hypothetical 1.06 0.33 15966114 SMc02699 Conserved hypothetical 0.96 0.26 15966128 SMc02713 RpoE3 RNA polymerase sigma-E factor 1.32 0.21 15966129 SMc02714 Conserved hypothetical, transmembrane 1.52 0.37 15966131 SMc02716 Conserved hypothetical 1.06 0.31 15966135 SMc02720 ClpP2 Clp protease proteolytic subunit 1.03 0.54 15966136 SMc02721 Outer membrane receptor protein 3.33 1.14 15966145 SMc02730 Conserved hypothetical 2.33 0.43 15966150 SMc02735 Conserved hypothetical 1.20 0.35 15963791 SMc02756 Sensor histidine kinase 1.32 0.26 15963789 SMc02758 Nucleotidyl transferase 1.35 0.24 15963786 SMc02761 TrxA thioredoxin 1.56 0.96 15963785 SMc02762 Transposase 2.95 0.31 15963775 SMc02772 ABC transporter, sugar uptake 2.27 1.27 15963774 SMc02773 ABC transporter 1.99 0.59 15963772 SMc02775 L-fucose dehydrogenase 1.49 0.25 15963769 SMc02778 Hydroxyacid aldolase 1.72 0.27 15963767 SMc02780 GabD1 succinate-semialdehyde dehydrogenase 2.37 0.50 15963763 SMc02784 Conserved hypothetical 0.98 0.30 15963762 SMc02785 Lytic murein transglycosylase A 1.20 0.90 15963761 SMc02786 Translocase 1.33 0.57 15963758 SMc02789 DnaQ DNA polymerase III, epsilon chain 3.42 0.94 15967087 SMc02801 ParB chromosome partitioning protein 1.69 0.26 15966041 SMc02813 AacC aminoglycoside N3' -acetyltransferase 2.97 0.90 15963917 SMc02839 ISRm3 transposase 1.94 0.37 15963920 SMc02842 Conserved hypothetical, transmembrane 1.50 0.32 15963929 SMc02851 Transcriptional regulator 2.02 0.17 15963930 SMc02852 Conserved hypothetical 1.60 0.30 15963938 SMc02860 Conserved hypothetical 1.47 0.41 15963946 SMc02868 Multidrug efflux system protein 2.27 0.90 15963963 SMc02885 MsrA1 peptide methionine sulfoxide reductase 1.88 0.32 15963964 SMc02886 Conserved hypothetical 1.41 0.53 15963978 SMc02900 Conserved hypothetical 1.46 0.51 15963979 SMc02901 Conserved hypothetical 1.69 0.69 15963916 SMc02937 ISRm5 partial transposase 3.73 0.42 15966621 SMc02976 Transcriptional regulator 3.29 0.58 15966625 SMc02980 Conserved hypothetical 1.39 0.38 15966627 SMc02982 Conserved hypothetical 1.29 0.29 15966628 SMc02983 Ornithine, DAP, or arginine decarboxylase 1.69 0.30 15964400 SMc03015 VisN transcriptional regulator 3.63 0.57 15964401 SMc03016 VisR transcriptional regulator 3.46 0.93 15964425 SMc03040 FlaC flagellin C 1.37 0.47 rna47 SMc03076 tRNA Arg_CCT 3.39 0.75 15966744 SMc03102 Carbon monoxide dehydrogenase large subunit 1.58 0.38 15966742 SMc03104 HemA 5-aminolevulinic acid synthase 1.35 0.27 15966733 SMc03113 ISRm5 partial transposase 2.21 0.22 15966733 SMc03113 ISRm5 partial transposase 1.87 0.19 15966638 SMc03154 Conserved hypothetical 0.98 0.13 15966643 SMc03159 ABC transporter 1.73 0.53 15966652 SMc03168 Multidrug efflux protein 1.24 0.33 15966692 SMc03208 HmgA homogentisate 1,2-dioxygenase 2.11 0.96 GI Name Description SLR SD

15966841 SMc03240 Conserved hypothetical 3.40 0.45 15966844 SMc03243 Alkaline phosphatase 1.19 0.23 15966845 SMc03244 Conserved hypothetical 2.88 0.24 15966852 SMc03246 Integrase 1.92 0.48 15966853 SMc03247 Integrase/recombinase 3.18 1.08 15966854 SMc03248 Transposase 4.60 0.14 15966855 SMc03249 Conserved hypothetical 3.54 0.89 15966857 SMc03250 Conserved hypothetical 4.59 1.90 15966858 SMc03251 Conserved hypothetical 3.64 0.30 15966859 SMc03252 ProB2 glutamate 5-kinase 5.38 0.68 15966860 SMc03253 L-proline 3-hydroxylase 7.61 1.05 15966861 SMc03254 FixT3 antikinase 2.87 1.60 15966862 SMc03256 Conserved hypothetical 2.17 0.54 15966862 SMc03256 Conserved hypothetical 1.77 0.42 15966863 SMc03257 ISRm18 transposase 0.96 0.19 15966864 SMc03258 Transcriptional regulator 2.14 0.41 15966865 SMc03259 Conserved hypothetical 1.59 0.53 15966867 SMc03262 Hypothetical 3.10 1.34 15966869 SMc03264 Dipeptidase 1.29 0.16 15966871 SMc03267 Dipeptidase 2.01 0.67 15966872 SMc03268 ABC transporter, peptides 1.23 0.23 15966884 SMc03285 Hypothetical, lipoprotein 2.42 0.27 15966885 SMc03286 Protease 2.27 0.30 15966886 SMc03287 Oxidoreductase 2.68 0.42 15966889 SMc03290 Hypothetical 4.66 0.41 15966892 SMc03294 Conserved hypothetical 1.26 0.63 15966895 SMc03297 Hypothetical 0.98 0.36 15966896 SMc03298 ISRm26 transposase 1.14 0.83 15966850 SMc03312 ISRm11/ISRm2011-2 transposase 3.09 0.74 15966095 SMc03744 Conserved hypothetical 2.20 0.33 15966856 SMc03751 Conserved hypothetical 2.33 0.85 15966900 SMc03762 Conserved hypothetical, transmembrane 2.44 1.14 15966907 SMc03769 Protease, transmembrane 1.43 0.32 15966916 SMc03780 Conserved hypothetical 3.02 0.25 15966917 SMc03781 Conserved hypothetical 3.48 0.25 15966918 SMc03782 Conserved hypothetical 2.49 0.40 15966919 SMc03783 CtpA carboxy-terminal processing protease 1.19 0.27 15966920 SMc03784 Conserved hypothetical, transmembrane 2.48 0.16 15966927 SMc03791 Conserved hypothetical 2.00 0.30 15966930 SMc03794 Conserved hypothetical, transmembrane 3.10 0.26 15966931 SMc03795 LeuD 3-isopropylmalate dehydratase small subunit 2.18 0.33 15966932 SMc03796 Conserved hypothetical 1.70 0.38 15966933 SMc03797 MetA homoserine O-succinyltransferase 2.49 0.53 15966934 SMc03798 GalM aldose 1-epimerase 1.85 0.30 15966935 SMc03799 Conserved hypothetical 3.38 1.44 15966950 SMc03814 ABC transporter 2.93 1.08 15966951 SMc03815 ABC transporter 1.19 0.39 15966955 SMc03819 Conserved hypothetical 2.09 0.69 15966959 SMc03823 3-isopropylmalate dehydratase large subunit 1.38 0.67 15966968 SMc03832 Conserved hypothetical 1.45 0.20 15966969 SMc03833 Conserved hypothetical 1.24 0.30 15966970 SMc03834 PcbD pterin-4-alpha-carbinolamine dehydratase 1.16 0.18 GI Name Description SLR SD

15966975 SMc03839 Conserved hypothetical, transmembrane 1.67 0.25 15966976 SMc03840 Acetyltransferase (antibiotic resistance) 2.74 0.49 15966978 SMc03842 Conserved hypothetical 3.06 0.72 15966979 SMc03843 Transcriptional regulator 1.67 0.94 15967016 SMc03880 Conserved hypothetical 1.87 0.30 15966610 SMc03935 Conserved hypothetical 1.35 0.23 15966170 SMc03949 NtrP nitrogen regulatory protein 1.86 0.25 15966615 SMc03950 PntAa proton-translocating NND transhydrogenase 2.25 0.51 15966498 SMc03961 SqdB sulfolipid biosynthesis (UDP-sulfoquinovose) 1.12 0.28 15966508 SMc03971 MexF2 multidrug-efflux protein 1.65 1.21 15966514 SMc03977 Conserved hypothetical 1.46 0.32 15966541 SMc04004 Signal peptide 1.54 0.38 15966545 SMc04008 Conserved hypothetical 1.62 0.20 15966554 SMc04017 Omp10 outer membrane lipoprotein 2.23 0.39 15966561 SMc04024 Membrane-bound lytic murein transglycosylase 1.34 0.69 15966576 SMc04040 IpbA2 heat shock protein 2.10 0.23 15966578 SMc04042 Monophosphatase 2.27 0.50 15966579 SMc04043 Conserved hypothetical 3.60 0.25 15966580 SMc04044 2-component receiver domain protein 1.57 0.23 15966590 SMc04054 Conserved hypothetical 0.98 0.43 15966592 SMc04056 Oxidoreductase 1.53 0.58 15967079 SMc04092 Conserved hypothetical 1.50 0.22 15967081 SMc04094 Conserved hypothetical 1.35 0.31 15965743 SMc04161 Conserved hypothetical 1.63 0.12 15965750 SMc04168 Conserved hypothetical 1.38 0.34 15965760 SMc04178 Conserved hypothetical 1.10 0.41 15965762 SMc04180 Conserved hypothetical, transmembrane 1.18 0.70 15965777 SMc04196 Hypothetical 2.98 0.39 15965778 SMc04197 Conserved hypothetical 2.09 1.42 15965782 SMc04201 Conserved hypothetical 1.94 0.28 15965637 SMc04214 CobU phosphoribosyltransferase 1.56 0.38 15965639 SMc04216 Conserved hypothetical 1.58 0.31 15965641 SMc04218 Transport protein 1.43 1.16 15965642 SMc04219 ABC transporter 1.26 0.23 15965643 SMc04220 Transcriptional regulator 1.35 0.31 15965644 SMc04221 Conserved hypothetical 2.72 1.66 15965645 SMc04222 Conserved hypothetical 2.91 0.82 15965646 SMc04223 Conserved hypothetical, transmembrane 1.75 0.10 15965662 SMc04239 Hypothetical 1.55 0.25 15965663 SMc04240 Conserved hypothetical 3.12 1.03 15965664 SMc04241 Acetyltransferase 1.41 0.23 15965704 SMc04293 ABC transporter 1.01 0.06 15965711 SMc04304 CobW cobalamine biosynthesis protein 1.43 0.40 15965720 SMc04312 Hypothetical 2.19 0.42 15965721 SMc04313 Conserved hypothetical 2.63 0.23 15965723 SMc04315 Transcriptional regulator 1.13 0.46 15965810 SMc04318 Csp1 cold shock transcriptional regulator 2.28 0.27 15965811 SMc04319 Conserved hypothetical 1.91 0.24 15965812 SMc04320 RpsU1 30S ribosomal protein S21 2.23 0.13 15965732 SMc04333 Conserved hypothetical 1.93 0.51 15965733 SMc04334 Formyltransferase 1.91 0.40 15965734 SMc04335 Conserved hypothetical, lipoprotein 5.29 0.63 GI Name Description SLR SD

15965736 SMc04337 Conserved hypothetical 1.81 0.10 15965737 SMc04339 Conserved hypothetical 2.57 0.52 15965738 SMc04340 Oxidoreductase 2.29 0.16 15965739 SMc04342 Methyltransferase 1.74 0.36 15965740 SMc04345 Conserved hypothetical 1.21 0.36 15965741 SMc04347 Conserved hypothetical 2.35 1.34 15965828 SMc04360 Conserved hypothetical 2.12 1.20 15965830 SMc04362 Transport protein 1.11 0.21 15967067 SMc04408 Virulence-associated protein homolog 1.82 0.25 15964370 SMc04431 Conserved hypothetical 2.28 0.26 15964371 SMc04432 Conserved hypothetical 2.12 0.31 15965776 SMc04440 Conserved hypothetical 1.40 0.38 15965832 SMc04452 Ndh NADH dehydrogenase 1.64 0.67 rna61 SMc04478 tmRNA 2.16 0.40 15965206 SMc04865 Hypothetical 1.02 0.17 15967066 SMc04881 Virulence associated protein homologue 1.74 0.30

Decreased in Rm1021 bacteroids compared to VO2675 (fixJ::Tn5) nodule bacteria 15140069 SMb20204 PqqA pyrroloquinoline quinone synthesis protein A -2.84 0.51 15141170 SMb21456 Conserved hypothetical -3.20 0.20 15965190 SMc01022 Cytochrome b -2.71 0.18 15964375 SMc02316 Conserved hypothetical -3.04 0.71 15966586 SMc04050 Conserved hypothetical, transmembrane -2.38 0.18 15965802 SMc04291 L-sorbosone dehydrogenase -2.66 0.24

Increased in Rm1021 grown in TY compared to VO2675 (fixJ::Tn5) grown in TY 15964702 SMc00127 BetC choline sulfatase 1.57 1.02 15964700 SMc00093 BetA choline dehydrogenase 1.43 1.09 15964701 SMc00094 BetB betaine aldehyde dehydrogenase 1.08 0.8

At least three biological replicates were used for each experimental or control set: Rm1021-induced nodules (n = 3); fixJ mutant (VO2675)-induced nodules (n = 3); 2-week-old uninoculated roots (n = 4); TY-grown Rm1021 (n = 3); and TY-grown VO2675 (fixJ mutant, n = 3). There is virtually no difference between TY-grown cultures of Rm1021 and the fixJ mutant VO2675. For data mining using Affymetrix software, we analyzed data using two different normalization methods and deemed significant those changes present in both data sets. As for comparisons of culture-grown S. meliloti, we scaled to a target signal value of 500 using all probe sets. The values shown here are those from comparisons using global scaling. For the second analysis, we normalized to 18 probe sets hybridizing to a "spike in" internal standard corresponding to the bioB, bioC, bioD, and creX genes We used comparison, also known as relative, expression analysis: one array is designated as experimental and the other as baseline. Hence, an experiment with three control and three experimental arrays would yield nine pairwise comparisons, and a 4 x 4 experiment, 16 comparisons. We considered an average signal log ratio (SLR) of ³ 0.96 for the increase or decrease change calls to be significant only if all, or all but one, of the pairwise comparisons were deemed by the software to be significantly changed (p value £0.05). Note that SLR is expressed as the log2 ratio of the change, i.e., a SLR of 1 equals a 2-fold change.

GI, GenBank GI number or, for nontranslated RNA probesets, our unique probeset name Name, S. meliloti ORF name, as annotated Description, function or putative function based on sequence similarity. Those listed as hypothetical have no database match. SLR, average SLR change of all pairwise comparisons SD, standard deviation of the average SLR.