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. 2020 May 15;12(5):328. doi: 10.3390/toxins12050328

Table 1.

Two component system (TCS) genes encoded in the genome of C. tetani E88 and their homology with regulatory genes in other clostridia. The recombinant RNA antisense plasmids targeting TCS genes are indicated in column 1. Genetic environment indicates functional genes in close proximity of TCS in C. tetani E88.

Recombinant Antisense mRNA Plasmid Gene Bank Accession Number Other Gene Name Role Familly (RR) Genetic Environment Homology Homologs (RR) in Other Clostridia (Protein Identity > 60%) Homolog TCS in C. botulinum strain Hall Homolog TCS in C. botulinum Strain ATCC 3502
Old Locus Tag Locus Tag Homolog System (RR/SHK) Protein Identity (RR) Regulation of Botulism Neurotoxin Homolog System (RR/SHK) Protein Identity/Positive
chromosomal localization
CTC_00189 CTC_RS00820 RR OmpR Periplasmic endopeptidase ResD, respiration control C. botulinum, C. cochlearium, C. tetanomorphum, C. scatologenes, C. drakei, C. magnum, C. sporogenes, C. tyrobutyricum, C. acetireducens, C. ljungdahlii, C. novyi, C. pasteurianum, CLC_3521/CLC_3520 81% None CBO3543 81/87
CTC_00191 CTC_RS00825 SHK CBO3542 67/73
CTC_00392 CTC_RS01985 RR OmpR ABC Transporter BacS/BacR regulation of resistance to bacitracin C. botulinum, C. tetanomorphum, C. sporogenes, C. lundense, C. cavendishii, C. acetobutylicum, C. pasteurianum, C. ljungdahlii CLC_0331/CLC_0332 90% None CBO0272 90/92
CTC_00393 CTC_RS01990 SHK CBO0273 86/89
CTC_00411 CTC_RS02080 phoP RR OmpR hydroxylamne reductase VirI/VirJ regulation of toxin synthesis C. botulinum, C. perfringens, C. carboxidivorans, C. pasteurianum, C. lundense, C. novyi, C. Septicum CLC_0661/CLC_0663 65% Positive CBO0607 64/72
p1308 CTC_00412 CTC_RS02085 phoR SHK CBO0608 46/55
CTC_00455 CTC_RS02330 RR phosphomannomutase/ phosphoglucomutase putative rRNA methylase C. tetanomorphum, C. ljungdahlii, C. homopropionicum CLC_0413 55% unknown CBO0355 54/59
CTC_00456 CTC_RS14405 SHK no
CTC_00597 CTC_RS02990 RR OmpR Glycerine-deshydrogenase BacR regulation of resistance to bacitracin C. lundense, C. tetanomorphum, C. ljungdahlii, C. argetinense, C. drakei CLC_2212/CLC_2211 45% None several 45/66
CTC_00598 CTC_RS02995 SHK no
CTC_00628 CTC_RS03125 spaR RR OmpR ABC Transporter SpaEFG: export subtiline SpaR/SpaK regulation of resistance to subtilin C. botulinum, C. novyi, C. beijerinckii, C. saccharobutylicum, C. butyricum, C. sporogenes CLC_1615/CLC_1616 65% unknown CBO1585 65/69
CTC_00629 CTC_RS03130 spaK SHK CBO1586 37/43
CTC_00805 CTC_RS04010 RR OmpR Protein transport VanR/VanS regulation of resistance to vancomycin C. botulinum, C. cochlearium, C. tetanomorphum, C. lundens, C. carboxidivorans, C. sporogenes, C. pasteurianum CLC_0423/CLC_0424 76% None CBO0365 78/82
CTC_00806 CTC_RS04015 SHK CBO0366 44/50
CTC_00848 CTC_RS04235 RR OmpR Heat shock protein GtcS/GtcR regulation of antibiotic synthesis (gramicidin) C. lundense, C. tetanomorphum, C. amylolyticum, C. perfringens CLC_1640/CLC_1639 48% None several 47/55
CTC_00849 CTC_RS04240 SHK no
CTC_00872 CTC_RS04365 RR OmpR Efflux-ATPase Copper Arc, regulation of aerobic/anaerobic respiration C. botulinum, C. tetanomorphum, C. lundense, C. sporogenes, C. pasteurianum, C. beijerinckii,, C. ljungdahlii CLC_1088/CLC_1089 68% None CBO1035 66/71
CTC_00873 CTC_RS04370 SHK CBO1036 55/63
CTC_00924 CTC_RS04645 SHK PucR Zn-dependent protease regulation of purine catabolism, methyl-accepting chemotaxis protein No CBO1773 43/50
CTC_00925 CTC_RS04650 RR no
p1309 CTC_00934 CTC_RS04705 SHK AraC amihydrolase; Pyruvate formate lyase LytS, autolysis regulation C. botulinum B str. Eklund 17B, C. novyi CLC_1627 41% unknown no
CTC_00935 CTC_RS04710 RR no
CTC_00949 CTC_RS04780 virS SHK LytR/AlgR transcriptional regulator, merR family; putative methyl-accepting chemotaxis protein virulence regulation C. butyricum, C. septicum CLC_1105/CLC_1104 35% None no
p1310 CTC_00950 CTC_RS04785 virR RR CBO1053 35/54
CTC_01130 CTC_RS05745 RR OmpR ABC Transporteur: phosphates PhoP/PhoR, regulation of phosphate uptake C. lundense, C. carboxidivorans, C. ljungdahlii, C. botulinum, C. sporogenes, C. butyricum, C. acetobutylicum, C. butyricum, C. pasteurianum, C. neonatale, C. baratii CLC_2386/CLC_2385 73% None CBO2527 73/87
p1311 CTC_01131 CTC_RS05750 phoR SHK CBO2526 52/75
p1312 CTC_01211 CTC_RS06180 tlpA SHK LysR anaerobic sulfite reductase LytR, autolysis regulation, methyl-accepting chemotaxis protein tlpA C. cochlearium CLC_3570 35% unknown CBO2828 36/61
CTC_01212 CTC_RS06185 RR several 35/57
CTC_01420 CTC_RS07310 resE SHK OmpR ABC Transporter YycG/YycF, regulation of cell division C. lundense, C. cellulovorans, C. amylolyticum, C. botulinum, CLC_0842/CLC_0843 CB00786/CB00787 * 58% None Negative CBO0787 47/65
p1419 CTC_01421 CTC_RS07315 RR CBO0786 58/76
CTC_01481 CTC_RS07700 SHK OmpR Conserved proteins with transmembrane helices and 4Fe4S motif FeuQ/FeuP, regulation of iron acquisition C. novyi, C. yurii CLC_3521/CLC_3520 43% None no
CT_01482 CTC_RS07705 RR several 43/60
CTC_01490 CTC_RS07755 RR OmpR Heat shock protein HtpG (chaperonne); Membrane protein unknown C. lundense, C. tetanomorphum, C. kluyveri, C. pasteurianum, C. carboxidivorans, C. ljungdahlii, C. tyrobutyricum, C. acetobutylicum CLC_0423/CLC_0424 44% None several 44/64
CTC_01491 CTC_RS07760 SHK no
CTC_01523 CTC_RS07895 RR NarL Fumarate-reductase soluble flavoprotein DcuR, regulation of fumarate anaerobic respiration through C4-dicarboxylates C. cochlearium CLC_0307/CLC_0306 48% None CBO0249 48/69
CTC_01524 CTC_RS07900 dpiB SHK CBO0248 41/60
CTC_01804 CTC_RS09305 SHK OmpR ABC Transporter BacS/BacR, AB-Bacitracine synthesis and regulation C. tetanomorphum, C. lundense, C. novyi CLC_2212/CLC_2211 56% None CBO2284 47/72
CTC_01805 CTC_RS09310 RR CBO2285 56/79
CTC_01818 CTC_RS09380 resE SHK OmpR ABC Transporter; RNA polymerase sigma factor unknown C. tetanomorphum, C. lundense, C. ljungdahlii, C. cavendishii CLC_0842/CLC_0843 CB00786/CB00787* 51% None Negative CBO0787 38/63
CTC_01819 CTC_RS09385 RR CBO0786 51/71
CTC_01848 CTC_RS14320 yesM SHK NarL/FixJ Fumarate-reductase unknown C. cochlearium CLC_2236/CLC_2235 26% None no
CTC_01849 CTC_RS09510 RR no
CTC_01857 CTC_RS09550 SHK XRE Helicase, oleate hydratase SinR regulation of entry in stationary phase, to nutrient depletion; Spo0A repressor C. botulinum CDC_69094, C. magnum, C. beijerinckii No CBO0693 48/70
CTC_01858 CTC_RS09555 sinR RR no
CTC_01905 CTC_RS09790 SHK OmpR ABC Transporter BacR; VanR (synthèse et régulation AB) C. indolis, C. methoxybenzovorans CLC_0423/CLC_0424 45% None no
CTC_01906 CTC_RS09795 RR CBO0365 45/66
CTC_01918 CTC_RS09860 resE SHK OmpR ABC Transporter BacR; VanR (synthèse et régulation AB) C. kluyveri, C. uliginosum, C. puniceum, C. scatologenes, C. saccharobutylicum, C. oryzae, C. ljungdahlii, C. lundense, C. drakey, C. botulinum B2 331, C. sporogenes, C. acetobutylicum, C. butyricum CLC_0842/CLC_0843 CB00786/CB00787* 42% None Negative CBO0787 32/53
CTC_01919 CTC_RS09865 RR CBO0786 42/60
p1313 CTC_01951 CTC_RS10030 phoR SHK OmpR Heavy metal translocating P-type aTPase PhoP/PhoR regulation of phosphate uptake C. cochlearium, C. lundense, C. tetanomorphum, C. intestinale, C. amylolyticum, C. baratii, C. botulinum, C. chauvoei, C. sporogenes, C. perfringens, C. ljungdahlii CLC_0410/CLC_0411 68% Positive CBO0353 57/78
CTC_01953 CTC_RS10035 phoP RR CBO0352 68/86
CTC_01978 CTC_RS10150 SHK LytR/AlgR carbon starvation protein A CstA LytS/LytR autolysis regulation C. cochlearium, C. tetanomorphum, C. lundense CLC_3250/CLC_3251 55% None CBO3309 51/71
p1314 CTC_01979 CTC_RS10155 RR CBO3308 55/78
CTC_02155 CTC_RS11115 SHK OmpR DNA mismatch repair protein hexA VanS/VanR regulation of resistance to glycopeptides C. carboxidivorans, C. lundense, C. amylolyticum, C. botulinum, C. oryzae, C. pasteurianum, C. sporogenes, C. novyi, C. neonatale CLC_1640/CLC_1639 77% None CBO1612 48/68
CTC_02156 CTC_RS11120 RR CBO1613 77/86
CTC_02178 CTC_RS11240 SHK Fis ethanolamine utilization protein EutA, EutP EutS/EutR regulation of éthanolamine utilization C. argentinense, C. drakei, C. lundense, C. tetanomorphum No no
CTC_02179 CTC_RS11245 RR no
CTC_02322 CTC_RS11915 RR Fis sodium/glutamate symport carrier protein; V-Typ-ATPase-protein AtoS/AtoC regulation of acetoacetate metabolism C. cochlearium, C. lundense, C. tetanomorphum CLC_1882 40% unknown several 46/63
CTC_02323 CTC_RS11920 SHK no
plasmid localization
p1307 CTC_p22 CTC_RS13810 SHK OmpR ATP-binding protein unknown C. lundense CLC_1431/CLC_1432 56% None CBO1395 39/60
CTC_p21 CTC_RS13805 RR CBO1394 56/74

RR, Response Regulator; SHK, Sensor Histidine Kinase, * 100% homology with TCSs of C. botulinum ATCC3502.