Table 2 List of the pTi sequences analyzed. These include 15 from the genome data set listed in Table 1 and five additional representatives downloaded from GenBank. The pTi type assignments are based on k-mer profiles. A type V pTi from Agrobacterium vitis is included as the outgroup. Species name abbreviations: At, Agrobacterium tumefaciens; Al, Agrobacterium larrymoorei; Av, Agrobacterium vitis
From: Modular evolution of secretion systems and virulence plasmids in a bacterial species complex
Species | Strain | pTi | pTi type | Opine type | Accession | Size (bp) | Coding sequences | Geographic origin | Isolation source |
|---|---|---|---|---|---|---|---|---|---|
At G1 | 1D1108 | pTi1D1108 | I.b | ? | NZ_CP032925 | 176,213 | 159 | MD, USA | Euonymus sp. |
At G1 | Ach5 | pTiAch5 | II | Octopine | NZ_CP011249 | 194,264 | 153 | CA, USA | Achillea ptarmica |
At G1 | 183 | pTi183 | I.b | ? | NZ_CP029048 | 192,674 | 173 | Tunisia | Prunus dulcis |
At G4 | 186 | pTi186 | I.b | ? | NZ_CP042277 | 177,577 | 159 | CA, USA | Juglans regia |
At G4 | 1D1460 | pTi1D1460 | I.a | ? | NZ_CP032929 | 214,233 | 198 | CA, USA | Rubus sp. |
At G4 | MAFF301001 | pTiSAKURA | I.b | Nopaline | NC_002147 | 206,479 | 195 | Japan | Cerasus pseudocerasus |
At G6 | CFBP5499 | pTiCFBP5499 | III | ? | NZ_CP039893 | 220,025 | 178 | South Africa | Dahlia sp. |
At G6 | CFBP5877 | pTiCFBP5877 | III | ? | NZ_CP039902 | 220,025 | 181 | Israel | Dahlia sp. |
At G7 | 1D1609 | pTi1D1609 | II | Octopine | NZ_CP026926 | 166,117 | 138 | CA, USA | Medicago sativa |
At G7 | CFBP4996 | pTiCFBP4996 | XI | ? | NZ_CM016551 | 605,495 | 521 | UK | Flacourtia ramontchi |
At G7 | CFBP7129 | pTiCFBP7129 | I.b | ? | NZ_CP039927 | 189,955 | 176 | Tunisia | Pyrus communis |
At G8 | 1D132 | pTi1D132 | I.b | ? | NZ_CP033026 | 177,577 | 160 | CA, USA | Cerasus pseudocerasus |
At G8 | C58 | pTiC58 | I.a | Nopaline | NC_003065 | 214,233 | 197 | NY, USA | Cerasus pseudocerasus |
At G9 | CFBP5507 | pTiCFBP5507 | I.a | ? | NZ_CM016546 | 248,634 | 225 | Australia | Soil |
? | Bo542 | pTiBo542 | III | Agropine | NC_010929 | 244,978 | 223 | Germany | Dahlia sp. |
? | Chry5 | pTiChry5 | III | Chrysopine | KX388536 | 197,268 | 210 | FL, USA | Chrysanthemum sp. |
? | EU6 | pTiEU6 | I.b | Succinamopine | KX388535 | 176,375 | 194 | CT, USA | Euonymus sp. |
Al | CFBP5473 | pTiCFBP5473 | X | ? | NZ_CP039694 | 404,101 | 360 | FL, USA | Ficus benjamina |
Al | CFBP5477 | pTiCFBP5477 | I.b | ? | NZ_CM016547 | 190,036 | 169 | Italy | ? |
Av | S4 | pTiS4 | V | Vitopine | NC_011982 | 258,824 | 193 | Hungary | Vitis sp. |