FTT0382 / hypothetical protein
FTT0961 / modulator of drug activity B
FTT0982 / hypothetical membrane protein
FTT0983 / hypothetical membrane protein
FTT1066c / hypothetical protein
FTT1067c / Type III restriction-modification system restriction enzyme R, pseudogene
FTT1068c / hypothetical protein
FTT1069c / hypothetical protein
FTT1070c / conserved hypothetical protein, pseudogene
FTT1071c / conserved hypothetical protein
FTT1072 / hypothetical protein
FTT1073c / hypothetical protein
FTT1361c / conserved hypothetical protein, pseudogene
FTT1580c / conserved hypothetical protein
FTT1670 / Na+/H+ antiporter, fragment
FTT1716c / conserved hypothetical protein, pseudogene
FTT1791 / hypothetical protein
Supplementary Table 2: OSU18 CDSs not found in Schu4.
49410 / 49580 / hypothetical protein
49584 / 50246 / conserved hypothetical protein
267493 / 267645 / hypothetical protein
447265 / 447432 / hypothetical protein
447551 / 447712 / hypothetical protein
448001 / 448384 / hypothetical protein
856105 / 856260 / hypothetical protein
953084 / 953206 / hypothetical protein
1233650 / 1233772 / hypothetical protein
1819268 / 1820263 / pseudogene of 3-isopropylmalate dehydrogenase
1820331 / 1820900 / 3-isopropylmalate dehydratase small subunit
1820903 / 1822306 / 3-isopropylmalate dehydratase large subunit
Supplementary Table 3: Location and type of rearrangement events in OSU18. Type 1: IS element found at rearrangement location in both OSU18 and Schu4. Type 2: IS element found only in OSU18. Type 3: IS element found only in Schu4. Type 4: Rearrangement takes place at rRNA gene. For Type 2 and Type 3 rearrangements, we assume the missing element was lost after the rearrangement occurred.
OSU18 / Schu4 / Type / OSU18 / Schu4 / Type
3062 / 3204 / 1 / 940950 / 534458 / 1
3062 / 1831894 / 1 / 982348 / 578377 / 1
15937 / 8350 / 1 / 982348 / 1073413 / 1
15937 / 1844792 / 1 / 1039512 / 1017131 / 2
21081 / 3204 / 1 / 1039512 / 1121518 / 1
21081 / 1738767 / 1 / 1076228 / 1085437 / 1
54129 / 1707737 / 1 / 1076228 / 1429994 / 1
54129 / 1760964 / 1 / 1128048 / 1307578 / 4
76495 / 1738767 / 1 / 1128048 / 1374701 / 4
76495 / 1844792 / 1 / 1147306 / 1286996 / 1
99988 / 1868850 / 1 / 1147306 / 1017131 / 2
99988 / 1405075 / 2 / 1234360 / 930937 / 1
130323 / 1374701 / 2 / 1234360 / 357362 / 1
130323 / 269466 / 1 / 1259232 / 381348 / 1
140184 / 259569 / 1 / 1259232 / 606905 / 1
140184 / 269466 / 1 / 1285065 / 582509 / 1
158704 / 287567 / 1 / 1285065 / 785003 / 1
158704 / 234258 / 1 / 1319062 / 753265 / 1
167091 / 242739 / 1 / 1319062 / 1516553 / 1
167091 / 259569 / 1 / 1334210 / 1531763 / 1
184050 / 242739 / 1 / 1334210 / 839218 / 1
184050 / 287567 / 1 / 1390129 / 785003 / 1
250469 / 354206 / 1 / 1390129 / 1332321 / 1
258288 / 1576266 / 1 / 1430327 / 1370480 / 1
303229 / 1531763 / 1 / 1430327 / 738565 / 2
303229 / 839218 / 1 / 1445975 / 753265 / 1
372559 / 906973 / 2 / 1445975 / 738565 / 2
372559 / 1317971 / 2 / 1473545 / 710738 / 1
387169 / 1332321 / 1 / 1473545 / 534458 / 1
387169 / 906973 / 2 / 1559638 / 453350 / 1
411837 / 930937 / 1 / 1559638 / 1665164 / 1
411837 / 1317971 / 2 / 1572870 / 1648874 / 1
424062 / 1307578 / 4 / 1572870 / 143567 / 1
424062 / 1374701 / 4 / 1614317 / 102215 / 1
427463 / 383703 / 3 / 1614317 / 1678234 / 1
427463 / 1370480 / 3 / 1643918 / 1707737 / 1
497711 / 453350 / 1 / 1643918 / 1766156 / 1
497711 / 1678234 / 1 / 1649010 / 1760964 / 1
510880 / 1665164 / 1 / 1649010 / 185991 / 1
510880 / 1648874 / 1 / 1691490 / 143567 / 1
581107 / 1576266 / 1 / 1691490 / 102215 / 1
581107 / 1516553 / 1 / 1787847 / 8350 / 3
668923 / 1429994 / 1 / 1787847 / 1800775 / 3
668923 / 582509 / 1 / 1818262 / 1831894 / 1
673104 / 1283996 / 1 / 1824837 / 218947 / 1
673104 / 578377 / 1 / 1856697 / 185991 / 1
837184 / 1121518 / 3 / 1856697 / 218947 / 1
837184 / 606905 / 3 / 1872803 / 234258 / 1
940950 / 710738 / 1 / 1872803 / 1868850 / 1
Supplemenatary Table 4: Potential Virulence Factors Identified in the OSU18 Genome. Annotation definitions and classifications are highlighted: stress response, efflux pumps, & antibiotic resistance (tan); LPS, capsule & polysaccharide decoration (purple); post-translational processing & secretion (green); Francisella tularensis pathogenicity island (blue); intracellular survival (light green); iron acquisition, transport & metabolism (yellow); pili & OMPs (light purple); transcriptional & translational regulation (turquoise); and extracellular toxins, enzymes & effectors (light blue). Locus tags in pink are pseudogenes. References (in parentheses) are located immediately following the list of genes.
Start / Stop / OSU18 / Schu4
6478 / 6833 / pseudogene of probable ferredoxin Fdx (77) / FTH_0007 / FTT1745
9045 / 9494 / preprotein translocase subunit SecB (14) / FTH_0011 / FTT1749
39326 / 40291 / probable multidrug efflux pump (58) / FTH_0038 / FTT1654
62277 / 63413 / MFS family major facilitator transporter / FTH_0062 / FTT1683
83430 / 83753 / ferredoxin Fdx (77) / FTH_0084 / FTT1764
86572 / 88764 / possible chitinase (87) / FTH_0088 / FTT1768
89015 / 91594 / S14 family endopeptidase ClpB (31) / FTH_0089 / FTT1769
91814 / 92451 / pseudogene of NMN family nicotinamide mononucleotide uptake permease PnuC (19) / FTH_0099 / FTT1779
99476 / 99964 / pseudogene of NMN family nicotinamide mononucleotide uptake permease PnuC (19) / FTH_0101 / FTT1717
101709 / 102448 / pseudogene of Francisella conserved hypothetical protein PdpD2 (57) / FTH_0102 / FTT1715
102493 / 103083 / intracellular growth locus A protein IglA2 / FTH_0103 / FTT1714
103073 / 104617 / intracellular growth locus B protein IglB2 / FTH_0104 / FTT1713
104628 / 105263 / intracellular growth locus C protein IglC2 (57) / FTH_0105 / FTT1712
105284 / 106480 / intracellular growth locus D protein IglD2 / FTH_0106 / FTT1711
106487 / 107062 / Francisella conserved hypothetical protein / FTH_0107 / FTT1710
107080 / 111066 / Francisella conserved hypothetical protein PdpC / FTH_0108 / FTT1709
111106 / 111879 / Francisella conserved hypothetical protein / FTH_0109 / FTT1708
111845 / 112996 / Francisella conserved hypothetical protein / FTH_0110 / FTT1707
113018 / 113641 / Francisella conserved hypothetical protein / FTH_0111 / FTT1706
113654 / 115084 / Francisella conserved hypothetical protein / FTH_0112 / FTT1705
115097 / 115618 / Francisella conserved hypothetical protein / FTH_0113 / FTT1704
115619 / 117350 / pseudogene of Francisella conserved hypothetical protein / FTH_0114 / FTT1703
117355 / 117849 / Francisella conserved hypothetical protein / FTH_0115 / FTT1702
117862 / 118239 / Francisella conserved hypothetical protein / FTH_0116 / FTT1701
118229 / 121510 / Francisella conserved hypothetical protein PdpB2 / FTH_0117 / FTT1700
121515 / 123977 / Francisella conserved hypothetical protein PdpA2 / FTH_0118 / FTT1699
137330 / 139573 / family ferrous iron (Fe2+) uptake protein FeoB (2) / FTH_0124 / FTT0249
142771 / 143739 / possible lipopolysaccharide biosynthesis protein / FTH_0129 / FTT0256
146780 / 147682 / hydroxymethylbilane synthase HemC (69) / FTH_0132 / FTT0259
156712 / 157356 / outer membrane lipoprotein (74) / FTH_0143 / FTT0270
162402 / 163877 / pseudogene of phospholipase C (Acid phosphatase) AcpA (68) / FTH_0152 / FTT0221
164781 / 165398 / lactam utilization protein / FTH_0154 / FTT0223
168331 / 169167 / universal stress protein Ups (72) / FTH_0159 / FTT0245
182240 / 182647 / type IV pili assembly protein / FTH_0175 / FTT0230
184909 / 186027 / pseudogene of probable MFS family major facilitator transporter (24) / FTH_0180 / FTT0275
197094 / 198137 / UDP-3-[O-3-hydroxymyristoyl] glucosamine N-acyltransferase LpxD (49) / FTH_0191 / FTT0286
242946 / 244271 / preprotein translocase subunit Y SecY / FTH_0251 / FTT0345
252381 / 253366 / chaperone HtpG (Hsp90) (59) / FTH_0265 / FTT0356
268572 / 269456 / DMT superfamily drug/metabolite transporter (41) / FTH_0281 / FTT1511
279921 / 280364 / preprotein translocase subunit B SecB / FTH_0293 / FTT1500
311989 / 313242 / possible OmpA family protein (97) / FTH_0323 / FTT0831
313434 / 313898 / peptidylprolyl isomerase / FTH_0324 / FTT0832
336909 / 337544 / possible type IV pili assembly protein / FTH_0355 / FTT0861
352097 / 352609 / protein-methionine-S-oxide reductase MsrB (26) / FTH_0372 / FTT0878
352770 / 353327 / superoxide dismutase SodC (94) / FTH_0373 / FTT0879
362196 / 362792 / pseudogene of type IV pili fiber protein / FTH_0382 / FTT0888
363469 / 363902 / pseudogene of type IV pili fiber protein / FTH_0383 / FTT0889
364021 / 364428 / type IV pili fiber protein / FTH_0384 / FTT0890
364812 / 365531 / lipid A 1-phosphatase LpxE (108) / FTH_0385 / FTT0891
393118 / 394560 / type IV pilus glycosylation protein / FTH_0418 / FTT0905
402147 / 402632 / A8 signal peptidase II LspA (88) / FTH_0427 / FTT0914
408567 / 410240 / Francisella conserved hypothetical protein (102) / FTH_0431 / FTT0918
435739 / 435936 / cold shock protein CspC (80) / FTH_0454 / FTT0391
491432 / 493339 / psuedogene of peptidyl-arginine deiminase (56) / FTH_0500 / FTT0434
493341 / 494201 / pseudogene of carbon-nitrogen family hydrolase possible citrulline ureidase (56) / FTH_0502 / FTT0435
494218 / 494934 / UDP-2,3-diacylglucosamine hydrolase LpxH / FTH_0503 / FTT0436
499800 / 500036 / possible BolA family transcriptional regulator (106) / FTH_0509 / FTT1613
503476 / 504300 / septum site-determining protein MinD (3) / FTH_0513 / FTT1609
524427 / 525440 / UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase LpxD / FTH_0539 / FTT1571
525949 / 526728 / acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase / FTH_0541 / FTT1569
526728 / 527870 / lipid-A-disaccharide synthase / FTH_0542 / FTT1568
533371 / 534666 / KDO transferase (inner core) WaaA / FTH_0549 / FTT1561
538729 / 539592 / signal peptidase I LepB (43) / FTH_0554 / FTT1556
541179 / 543431 / ribonuclease R (13) / FTH_0557 / FTT1553
581948 / 583684 / dTDP-glucose 4,6-dehydratase WbtA (91, 92) / FTH_0592 / FTT1464
583677 / 584309 / galactosyltransferase WbtB / FTH_0593 / FTT1463
584311 / 585102 / UDP-glucose 4-epimerase WbtC / FTH_0594 / FTT1462
585092 / 586183 / galacturonosyltransferase WbtD / FTH_0595 / FTT1461
586201 / 587511 / UDP-N-acetyl-D-mannosaminuronate dehydrogenase WbtE / FTH_0596 / FTT1460
587499 / 588482 / UDP-glucose 4-epimerase WbtF / FTH_0597 / FTT1459
588499 / 589728 / O-antigen polymerase Wzy / FTH_0598 / FTT1458
589725 / 590825 / glycosyltransferase WbtG / FTH_0599 / FTT1457
590825 / 592711 / asparagine synthase (glutamine-hydrolyzing) WbtH / FTH_0600 / FTT1456
592704 / 593786 / pyridoxal phosphate-dependent sugar transaminase WbtI (40) / FTH_0601 / FTT1455
593783 / 594508 / probable formyltransferase WbtJ / FTH_0602 / FTT1454
594513 / 596000 / PST family polysaccharide transporter / FTH_0603 / FTT1453
595993 / 596853 / glycosyltransferase WbtK / FTH_0604 / FTT1452
596878 / 597762 / glucose-1-phosphate thymidylyltransferase WbtL / FTH_0605 / FTT1451
598309 / 599324 / pseudogene of dTDP-glucose 4,6-dehydratase WbtM / FTH_0607 / FTT1450
605893 / 606216 / thioredoxin TrxA (44) / FTH_0612 / FTT1445
611339 / 611824 / probable bacterioferritin (95) / FTH_0620 / FTT1441
612024 / 613321 / pseudogene of MFS family major facilitator transporter / FTH_0621 / FTT1440
645542 / 645766 / iron (Fe2+) transport protein A FeoA (85) / FTH_0662 / FTT1403
677612 / 678634 / probable multidrug resistance efflux pump HlyD Family EmrA / FTH_0689 / FTT1257
678656 / 680185 / possible multidrug efflux transporter MFS family major facilitator transporter EmrB / FTH_0690 / FTT1256
686859 / 687584 / probable ABC superfamily ATP binding cassette transporter, ABC/membrane protein (Mycobacterial cell entry Mce protein) (30) / FTH_0697 / FTT1249
700678 / 701568 / glycosyltransferase / FTH_0710 / FTT1237
702834 / 703898 / glycosyltransferase LpcC / FTH_0712 / FTT1235
709878 / 710684 / prolipoprotein diacylglyceryl transferase Lgt (88) / FTH_0718 / FTT1228
718873 / 720084 / 2-octaprenyl-6-methoxyphenyl hydroxylase UbiH (109) / FTH_0729 / FTT1217
757812 / 758774 / lipoprotein VacJ (98) / FTH_0766 / FTT1182
761574 / 763391 / tyrosine phosphoprotein TypA (29) / FTH_0769 / FTT1179
770404 / 770835 / pseudogene of possible cold shock protein (80) / FTH_0775 / FTT1172
786338 / 786901 / possible type IV pilus-associated protein PilN / FTH_0790 / FTT1159
786895 / 787491 / possible type IV pilus glycosylase / FTH_0791 / FTT1158
787497 / 788087 / type IV pilus assembly protein / FTH_0792 / FTT1157
788100 / 789872 / type IV pilus assembly protein pilQ / FTH_0793 / FTT1156
807886 / 808887 / ferrochelatase HemH (32) / FTH_0813 / FTT1138
810879 / 812108 / type IV pilus assembly protein PilC / FTH_0817 / FTT1134
812123 / 813904 / type IV pilus assembly protein PilB / FTH_0818 / FTT1133
832316 / 832672 / preprotein translocase subunit YajC (75) / FTH_0836 / FTT1116
832729 / 834666 / preprotein translocase subunit SecD (46) / FTH_0837 / FTT1115
834685 / 835629 / preprotein translocase subunit SecF (81) / FTH_0838 / FTT1114
839489 / 840526 / asparaginase AnsA (56) / FTH_0844 / FTT0591
843120 / 843290 / possible rubredoxin RubA (63) / FTH_0848 / FTT0595
860980 / 861843 / class A beta-lactamase (62) / FTH_0865 / FTT0611
864039 / 865529 / apolipoprotein N-acyltransferase (18) / FTH_0868 / FTT0614