Table 1.
Strains and plasmids used in this study
| Strain or plasmid | Description or sequence (5′→3′)a | Source or reference |
|---|---|---|
| Strains | ||
| V. paradoxus | ||
| TBEA6 | Wild type, TDP and 3SP utilizing | 19 |
| TBEA6 mutant 1/1 | Tn5::mob-induced mutant, retarded growth on TDP, 3SP-negative, Kmr | 19 |
| TBEA6 mutant 1/1(pBBR1MCS-5::acdDPN7) | TDP negative, partially restored growth on 3SP | This study |
| TBEA6 ΔactTBEA6 | Precise deletion mutant of V. paradoxus TBEA6, lacks actTBEA6 | This study |
| EPS | Wild type, whole genome sequence available, TDP and 3SP negative | 53 |
| B4 | Wild type, mercaptosuccinic acid utilizing, TDP and 3SP negative | 60 |
| S110 | Wild type, first genome sequenced from genus Variovorax, TDP and 3SP negative | 61 |
| E. coli | ||
| One Shot Mach1-T1R | F− ϕ80lacZΔM15 ΔlacX74 hsdR(rK− mK+) ΔrecA1398 endA1 tonA | Invitrogen, Carlsbad, CA |
| Top10 | F− mczA Δ(mrr-hsdRMS-mcrBC) rpsL nupG ϕ80lacZΔM15 ΔlacX74 deoR recA1 araD139 Δ(ara-leu)7697 galU galK endA1 | Invitrogen, Carlsbad, CA |
| Lemo21(DE3) | fhuA2 [lon] ompT gal (λ DE3) [dcm] ΔhsdS/pLemo(Camr) λ DE3 = λ sBamHIo ΔEcoRI-B int::(lacI::PlacUV5::T7 gene 1) i21 Δnin5 pLemo = pACYC184-PrhaBAD-lysY | New England Biolabs, Inc. |
| Plasmids | ||
| pCR2.1-TOPO | Kmr Apr lacZα | Invitrogen, Carlsbad, CA |
| pCR2.1-TOPO::actTBEA6 | Kmr Apr lacZα actTBEA6 | This study |
| pET22b(+) | Apr, N-terminal pelB-leader sequence for potential excretion to cytoplasm, C-terminal His6 tag | Novagen, Madison, WI |
| pET22b(+)::actTBEA6 | Apr, actTBEA6, expressing pelB-ActTBEA6-His6 | This study |
| pJQ200mp18Tc | sacB oriV oriT traJ Tcr | 47–49 |
| pJQ200mp18Tc::ΔactTBEA6 | sacB oriV oriT traJ Tcr, 526-bp upstream and 691-bp downstream flanks of actTBEA6 ligated with NdeI (1,223 bp) | This study |
| pBBR1MCS-5 | Broad-host-range cloning vector, Gmr lacZα | 52 |
| pBBR1MCS-5::acdDPN7 | pBBR1MCS-5 containing acd gene of A. mimigardefordensis DPN7T and 14-bp upstream region as 1,220-bp ApaI-PstI fragment, Gmr | 51 |
a
For abbreviations used in the genotypes of E. coli, see reference 67. Apr, ampicillin resistance; Kmr, kanamycin resistance; Tcr, tetracycline resistance; Gmr, gentamicin resistance.