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. 2011 Jan 24;2011:685015. doi: 10.4061/2011/685015

Table 2.

Plasmids containing the gene encoding HU homologa.

Plasmid name Accession no. Source organism Length (nt) G+C content (%)b Identity (%)c Query coverage (%) Subject start Subject end Classificationd MOB familye
1 NC_006823 Aromatoleum aromaticum EbN1 207355 58 55 99 186175 185909 −
1 NC_007949 Polaromonas sp. JS666 360405 57 52 99 61052 60786 − MOBH
1 NC_008010 Deinococcus geothermalis DSM 11300 574127 66 38 97 550805 550545 +
1 NC_008503 Lactococcus lactis subsp. cremoris SK11 14041 34 37 94 9732 10007 + MOBP
1 NC_008242 Chelativorans sp. BNC1 343931 62 41 94 133932 133678 − MOBQ
2 NC_012529 Deinococcus deserti VCD115 314317 64 38 93 269648 269899 +
3 NC_012528 Deinococcus deserti VCD115 396459 61 40 96 8700 8957 +
Megaplasmid NC_007974 Cupriavidus metallidurans CH34 2580084 64 51 99 1393415 1393149 − MOBV
Megaplasmid NC_005863 Desulfovibrio vulgaris str. Hildenborough 202301 66 31 98 5502 5765 −
Megaplasmid pDF308 NC_013940 Deferribacter desulfuricans SSM1 308544 24 41 100 253817 253548 −
Megaplasmid pHG1 NC_005241 Ralstonia eutropha H16 452156 62 48 99 343060 342791 −
p49879.1 NC_006907 Leptospirillum ferrooxidans 28878 58 47 99 3281 3015 − MOBQ
p49879.2 NC_006909 Leptospirillum ferrooxidans 28012 55 48 99 15858 15592 − MOBQ
pAH187_270 NC_011655 Bacillus cereus AH187 270082 34 59 100 113139 112870 +
pAH820_272 NC_011777 Bacillus cereus AH820 272145 34 58 100 153060 152791 +
pAM04528 NC_012693 Salmonella enterica 158213 52 57 99 14067 14333 − MOBH
pAOVO01 NC_008765 Acidovorax sp. JS42 72689 62 46 100 65140 64871 − MOBF
pAPA01-011 NC_013210 Acetobacter pasteurianus IFO 3283-01 191799 53 47 100 154736 154467 −
46 99 38442 38708
pAR060302 NC_012692 Escherichia coli 166530 53 57 99 15755 16021 − MOBH
pAsa4 NC_009349 Aeromonas salmonicida subsp. salmonicida A449 166749 53 60 99 26844 26578 − MOBH
pAtS4c NC_011984 Agrobacterium vitis S4 211620 59 45 94 141245 140991 − MOBQ
pAtS4e NC_011981 Agrobacterium vitis S4 631775 57 41 94 40476 40222 − MOBQ
pBc239 NC_011973 Bacillus cereus Q1 239246 33 52 100 191895 192164 +
pBF9343 NC_006873 Bacteroides fragilis NCTC 9343 36560 32 35 92 15803 15558 − MOBP
pBPHY01 NC_010625 Burkholderia phymatum STM815 1904893 62 43 99 826527 826252 −
pBPHY02 NC_010627 Burkholderia phymatum STM815 595108 59 45 99 98625 98359 −
pBtoxis NC_010076 Bacillus thuringiensis serovar israelensis 127923 32 52 99 77382 77648 +
pBWB401 NC_010180 Bacillus weihenstephanensis KBAB4 417054 34 59 100 338347 338078 +
pCAR1 NC_004444 Pseudomonas resinovorans 199035 56 42 99 97809 98075 − MOBH
pCAUL01 NC_010335 Caulobacter sp. K31 233649 67 44 99 97598 97329 − MOBQ
pCER270 NC_010924 Bacillus cereus 270082 34 59 100 169548 169279 +
pDBORO NC_009137 Lactococcus lactis subsp. lactis bv. diacetylactis 16404 35 37 94 16387 16112 +
pDVUL01 NC_008741 Desulfovibrio vulgaris DP4 198504 66 31 98 198317 198054 −
peH4H NC_012690 Escherichia coli 148105 53 57 99 14067 14333 − MOBH
pG9842_209 NC_011775 Bacillus cereus G9842 209488 30 60 100 88828 88559 +
pH308197_258 NC_011339 Bacillus cereus H3081.97 258484 34 59 100 83033 83302 +
pHD5AT NC_012752 Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum) 59032 45 45 99 14981 15247 − MOBP
pIP1202 NC_009141 Yersinia pestis bv. Orientalis str. IP275 182913 53 57 99 14067 14333 − MOBH
plasmid 2 NC_007972 Cupriavidus metallidurans CH34 171459 61 46 99 125530 125261 −
pMOL28 NC_006525 Cupriavidus metallidurans CH34 171461 61 46 99 51529 51798 −
pMP118 NC_007930 Lactobacillus salivarius UCC118 242436 32 54 99 56763 56497 + MOBV
pNPUN02 NC_010632 Nostoc punctiforme PCC 73102 254918 41 44 99 74804 74538 − MOBV
pOANT02 NC_009670 Ochrobactrum anthropi ATCC 49188 101491 59 49 94 32700 32446 −
pP91278 NC_008613 Photobacterium damselae subsp. piscicida 131520 52 57 99 125918 126184 − MOBH
pP99-018 NC_008612 Photobacterium damselae subsp. piscicida 150157 51 57 99 133314 133580 − MOBH
pPER272 NC_010921 Bacillus cereus 272145 34 58 100 153060 152791 +
pPMA4326A NC_005918 Pseudomonas syringae pv. maculicola 46697 55 42 99 1520 1786 −
pPMA4326B NC_005919 Pseudomonas syringae pv. maculicola 40110 55 45 99 1457 1723 −
pQBR103 NC_009444 Pseudomonas fluorescens SBW25 425094 53 51 99 182862 183128 −
pR132503 NC_012853 Rhizobium leguminosarum bv. trifolii WSM1325 516088 59 47 94 300662 300916 − MOBQ
pRA1 NC_012885 Aeromonas hydrophila 143963 51 58 99 15573 15839 − MOBH
pRALTA NC_010529 Cupriavidus taiwanensis 557200 60 46 98 153542 153276 −
pREB1 NC_009926 Acaryochloris marina MBIC11017 374161 47 46 100 339743 340012 − MOBF
pREB2 NC_009927 Acaryochloris marina MBIC11017 356087 45 48 100 57583 57852 − MOBF
pREB3 NC_009928 Acaryochloris marina MBIC11017 273121 45 46 100 234682 234951 − MOBF
42 100 243339 243608
pRL7 NC_008382 Rhizobium leguminosarum bv. viciae 3841 151564 58 48 94 20484 20230 − MOBQ
pRLG203 NC_011370 Rhizobium leguminosarum bv. trifolii WSM2304 308747 58 49 94 141121 140867 −
pRp12D01 NC_012855 Ralstonia pickettii 12D 389779 58 37 99 321346 321080 − MOBH
pSG2 NC_007184 Sodalis glossinidius 27240 45 45 86 10072 9845 −
pSG3 NC_007186 Sodalis glossinidius 19201 51 51 100 13812 13543 −
pSN254 NC_009140 Salmonella enterica subsp. enterica serovar Newport str. SL254 176473 53 57 99 14067 14333 − MOBH
pTiS4 NC_011982 Agrobacterium vitis S4 258824 57 41 94 27356 27102 − MOBQ
40 94 83408 83154
pTi-SAKURA NC_002147 Agrobacterium tumefaciens 206479 56 44 94 95763 95509 − MOBQ
pVSAL840 NC_011311 Aliivibrio salmonicida LFI1238 83540 40 60 99 31361 31627 − MOBF
58 99 77350 77084
pYR1 NC_009139 Yersinia ruckeri 158038 51 57 99 15070 15336 − MOBH
Ti NC_003065 Agrobacterium tumefaciens str. C58 214233 57 44 94 139735 139481 − MOBQ

aThis list is the result of a TBLASTN analysis using the amino acid sequence of HUα or HUβ as a query under strict conditions (i.e., thresholds of 30% identity and 70% query coverage).

bAverage G+C content of the plasmid.

cReported TBLASTN identity to HU.

dPlasmid classification according to its source organism (−, Gram-negative plasmid; +, Gram-positive plasmid).

ePlasmid classification according to its relaxase gene sequence as described by Garcillán-Barcia et al. [16].