TABLE 1.
IncP-1 plasmid subgroupings based on TrfA phylogeny
| Subgroup and plasmid (size in bp) | Host species (strain) | TrfA protein accession no. |
|---|---|---|
| α | ||
| pRK2 derivative pRK310a (19,041) | Pseudomonas sp.b | AAK73385 |
| pTB11 (68,869) | Uncultured bacterium | YP_112366 |
| pRK2 derivative pLAFRa (20,352) | Pseudomonas sp.b | AAS78884 |
| β | ||
| pTP6 (54,344) | Uncultured bacterium | YP_447013 |
| pA1 (46,557) | Sphingomonas sp. (A1) | YP_302632 |
| pA81 (98,192) | Achromobacter xylosoxidans (A8) | YP_195827 |
| pBP136 (41,268) | Bordetella pertussis (clinical isolate) | YP_787935 |
| pAOV002 (63,609) | Acidovorax sp. (JS42) | YP_974111 |
| γ | ||
| pQKH54 (69,966) | Epilithic bacterium | YP_619825 |
| δ | ||
| pIJB1 (99,448) | Burkholderia cepacia (2a) | YP_003358062 |
| pAKD4 (56,803) | Uncultured bacterium | ADD63272 |
| ɛ | ||
| pKJK5 (54,383) | Uncultured bacterium | YP_709140 |
| pEMT3 (unknown) | Uncultured bacterium | CAC9491 |
| γ-(expanded) | ||
| pXF-RIV11 (25,105) | Xylella fastidiosa (Riv11) | YP_003603481 |
| pVEIS01 (31,194) | Verminephrobacter eiseniae (EF01-2) | YP_980135 |
| pVEIS01 (31,194) | Verminephrobacter eiseniae (EF01-2) | YP_980145 |
| NAc | Thiobacillus denitrificans (ATCC 25259) | YP_314688 |
| pALLVIN1 (102,242) | Allochromatium vinosum (DSM180; ATCC 17899) | YP_003445082 |
| NA | Polaromonas naphthalenivorans (CJ2) | YP_982724 |
| pPNAP02 (190,172) | Polaromonas naphthalenivorans (CJ2) | YP_973488 |
| pPNAP01 (353,291) | Polaromonas naphthalenivorans (CJ2) | YP_973419 |
| pPNAP05 (58,808) | Polaromonas naphthalenivorans (CJ2) | YP_973925 |
| NA | Pseudomonas putida (GB1) | YP_001666930 |
| pAph03 (37,695) | “Candidatus Accumulibacter phosphatis” (clade IIA, UW-1) | YP_003162894 |
| pBglu-3 (141,067) | Burkholderia glumae(BGR1) | YP_002907630 |
| pJS666 (360,405) | Polaromonas sp. (JS666) | YP_551815 |
| pT118-1 (257,447) | Rhodoferax ferrireducens (T118) | YP_515978 |
| pBM1 (167,422) | Burkholderia multivorans (ATCC 17616) | YP_001573703 |
| pBglu-1 (133,591) | Burkholderia glumae (BGR1) | YP_002909816 |
| pHI2424-1 (164,857) | Burkholderia cenocepacia (HI2424) | YP_840495 |
| NA | Nitrosococcus oceani (ATCC 19707) | YP_342138 |
a
Cloning vector with trfA derived from pRK2, originally isolated from Pseudomonas sp.
b
Host of pRK2 parent plasmid.
c
NA, not applicable; integrated in host chromosome.