Appendix 1—key resources table.
| Reagent type (species) or resource |
Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Strain, strain background (Escherichia coli) | DH5α | Thermo Fisher Scientific Cat#18258012 | F–φ80lacZΔM15 Δ (lacZYA-argF)U169 recA1 endA1 hsdR17(rK–, mK+) phoAsupE44 λ–thi-1 gyrA96relA1 | Used for cloning |
| Strain, strain background (Escherichia coli) | BL21 (DE3) | EMD Millipore Cat#69450 | F–ompT hsdSB(rB–, mB–)gal dcm (DE3) | Used for protein expression |
| Strain, strain background (Escherichia coli) | BL21 ung-151 | PMID:15096615 | BDSC:31777; FLYB:FBtp0001612; RRID:BDSC_31777 | Used for protein expression |
| Strain, strain background (Escherichia coli) | XK1502 | PMID:16923902 | F– ompT hsdSB (rB–, mB–) gal dcm ung-151 | Used for protein expression |
| Strain, strain background (Escherichia coli) | XK1502 Δung | PMID:32641830 | F− ΔlacU169 nalA Δung | Used for protein expression |
| Strain, strain background (Escherichia coli) | AB1157 | PMID:17248104 | F- thr-1 leuB6(Am) glnX44(AS) hisG4(Oc) rfbC1 rpsL31(strR) argE3(Oc) | |
| Strain, strain background (Escherichia coli) | AB1157 γpet-dnaN | PMID:28114307 | γpet-dnaN, KanR | |
| Strain, strain background (Escherichia coli) | CJ236 | PMID:24723723 | F+ung-1 relA1 dut-1 spoT1 thiE1 | |
| Strain, strain background (Burkholderia cenocepacia) | H111 | PMID:10713433 | Wild-type | |
| Strain, strain background (Burkholderia cenocepacia) | H111 ΔI35_RS01770 | PMID:32641830 | ΔI35_RS01770 | |
| Strain, strain background (Burkholderia cenocepacia) | H111 dddAE1347A | PMID:32641830 | dddA E1347A | |
| Strain, strain background (Pseudomonas aeruginosa) | PAO1 | PMID:10984043 | Wild-type | |
| Strain, strain background (Klebsiella pneumoniae) | MGH 78578 | PMID:11677609 | Wild-type | |
| Strain, strain background (Escherichia coli) | O157:H7 EDL933 | PMID:11206551 | ||
| Strain, strain background (Acinetobacter baumannii) | ATCC 17978 | PMID:18931120 | Wild-type | |
| Strain, strain background (Burkholderia thailandensis) | E264 | PMID:16336651 | Wild-type | |
| Strain, strain background (Burkholderia thailandensis) | F1 | PMID:23618999 | Wild-type | |
| Strain, strain background (Burkholderia cenocepacia) | K56-2 | PMID:29208119 | Wild-type | |
| Strain, strain background (Salmonella enterica) | Sv. Typhimurium 14028 s | PMID:19897643 | Wild-type | |
| Recombinant DNA reagent | pPSV39-CV (plasmid) |
PMID:23954347 | For inducible expression of proteins in E. coli | |
| Recombinant DNA reagent | pScrhaB2-V (plasmid) |
PMID:15925406 | For inducible expression of proteins in E. coli | |
| Recombinant DNA reagent | pEXG2 (plasmid) |
PMID:15911752 | For generation of markless P. aeruginosa mutants | |
| Recombinant DNA reagent | pScrhaB2-V::ssdA
(plasmid) |
This study | To express ssdA | |
| Recombinant DNA reagent | pPSV39-CV::ssdAI
(plasmid) |
This study | To express ssdAI | |
| Recombinant DNA reagent | pScrhaB2-V::TequE
(plasmid) |
This study | To express BadTF3 | |
| Recombinant DNA reagent | pPSV39-CV::TequE
(plasmid) |
This study | To express BadTF3-Imm | |
| Recombinant DNA reagent | pETDuet-1 mcs1::ssdA-his6 mcs1::ssdAI
(plasmid) |
This study | To express ssdA-ssdAI | |
| Recombinant DNA reagent | pexG2_Δung
(plasmid) |
This study | To delete ung in Pseudomonas aeruginosa | |
| Sequence-based reagent | ungDel-1 | This study | 5’-CAAGCTTCTGCAGGTCGACTCTAGAGGTATGGAGTTGTCCTTCGG | |
| Sequence-based reagent | ungDel-2 | This study | 5-AGAGGTCCGGATCGGTCATGGAACCCCC | |
| Sequence-based reagent | ungDel-3 | This study | 5’-CATGACCGATCCGGACCTCTGAAGGCCGC | |
| Sequence-based reagent | ungDel-4 | This study | GGAAATTAATTAAGGTACCGAATTCCCGCGCCGGTGGACTGGC | |
| Sequence-based reagent | PAO1-ung-F | This study | 5’-CCGGGGAGTACTTCTCGTTC | |
| Sequence-based reagent | PAO1-ung-R | This study | 5’-GGCGTTCCAGTACCTGCTC | |
| Sequence-based reagent | GA_duet_PsyrE1-F | This study | 5’-ACCATCATCACCACAGCCAGGATCCGAAGGTCTCAAATATTGCG | |
| Sequence-based reagent | GA_duet_PsyrE1-R | This study | 5’-CTTAAGCATTATGCGGCCGCTCATTCCGACCTCATAATTG | |
| Sequence-based reagent | GA_duet_PsyrI1-F | This study | 5’-TATAAGAAGGAGATATACATATGAATAACAAAAGTAAAGTATTGATTGAAAAGC | |
| Sequence-based reagent | GA_duet_PsyrI1-R | This study | 5’-GCCGGCCGATATCCAATTGAGATCTTCACACAACTTGCGGCAC | |
| Sequence-based reagent | GA_pRhB_PsyrE1-F | This study | 5’-TGAAATTCAGCAGGATCACATATGAAGGTCTCAAATATTGCG | |
| Sequence-based reagent | GA_pRhB_PsyrE1-R | This study | 5’-TCATTTCAATATCTGTATATCTAGATTCCGACCTCATAATTGTTTC | |
| Sequence-based reagent | GA_p39_PsyrI1-F | This study | 5’-ACAATTTCAGAATTCGAGCTCACGGGAGGAAAGATGAATAACAAAAGTAAAGTATTGATTGAAAAGC | |
| Sequence-based reagent | GA_p39_PsyrI1-R | This study | 5’-TCATTTCAATATCTGTATATCTAGATCACACAACTTGCGGCAC | |
| Sequence-based reagent | rpoB-F | This study | 5’-GGAAAACCAGTTCCGCGTTG | |
| Sequence-based reagent | rpoB-R | This study | 5’-TCCAAGTTGGAGTTCGCCTG | |
| Sequence-based reagent | nfo_del-F | This study | 5’-CATTACCGTTTTCCTCCAGCGGGTTTAACAGGAGTCCTCGCATGAAATACGTGTAGGCTGGAGCTGCTTC | |
| Sequence-based reagent | nfo_del-R | This study | 5’-CCGTAAAATTGCAAGGATCTCCTTTTCCCGGTTATTCATCTTCAGGCTACCATATGAATATCCTCCTTAG | |
| Sequence-based reagent | nfo_dt-F | This study | 5’-GCTGATGGCACTGGTACTGT | |
| Sequence-based reagent | nfo_dt-R | This study | 5’-CCTTTAATCCGGCCTTTGCG | |
| Sequence-based reagent | xthA_del-F | This study | 5’-TACCATCCACGCACTCTTTATCTGAATAAATGGCAGCGACTATGAAATTTGTGTAGGCTGGAGCTGCTTC | |
| Sequence-based reagent | xthA_del-R | This study | 5’-TTAATTCTCCTGACCCAGTTTGAGCCAGGAGAGCTGCTAAATTAGCGGCGCATATGAATATCCTCCTTAG | |
| Sequence-based reagent | xthA_dt-F | This study | 5’-TACGTTTGCGATGTGGGTGA | |
| Sequence-based reagent | xthA_dt-R | This study | 5’-ATAACAAAGGACGGCAGGCA | |
| Sequence-based reagent | EL142_RS06975[tox]-gBlock | This study | 5’-TGAAATTCAGCAGGATCACATATGCTTTTAGGTGGACTTAACAACTACCAATACGCCCCAAATCCAGTCGAATGGGTCGATCCTTTGGGTTGGAAATTCTCCAATGGCAAGCGTCGTCCGCCCCACAAGGCAACGGTTACCGTCACAGACAAGAACGGAGTGGTCAAACACAAATCCAATTTGGTGTCAGGAAATATGACAGAAGCCGAAAAAAAACTGGGTTTCCCGAACAACTCTTTGGCAACACATACCGAGAATCGTGCAACGCGCTTAATTGACCTGAATCAAGGTGATACCATGTTAATTGAAGGACAGTATCGCCCGTGCCCACGCTGTAAGGGTGCGATGCGTGTTAAGGCAGAGGAATCTGGGGCTAAGGTTATCTACACCTGGCCCGAAGACGGTGACTTGAAGAAGCGCGAGTGGGAAGGAACCCCCTGTGATAAAAAGTCTAGATATACAGATATTGAAATGA | |
| Sequence-based reagent | EL142_RS06970 -gBlock | This study | 5’-GCCCCAAGGGGTTATGCTAAAGCTTTCTTAATTATCGAACAGGAATTTCAGATGATTCTCGACTTCAAGAATGTCAATCTTTTCAATCAAGCGAAGACGAACGTAGTTATTAGGCTCAATTAAAAGATCGACACAATTTGGTTCGGACAGTAAATAGCCGGACAAGCCATAGGGGTTAAAATCAAGGAACAGATTAGACTCCAGATAGATGTCTCCCTCGGGGATACCACCGCTGCGTTCCGTTGTTGAACGTGTAATGATGAAATACTGCTCAGGCACTTCATAGCTATCAGATGCAAACGAAAGGATGGCGCAATAATCCTCAATCGCAAACTTCACTTCTTGAATCACGATGTTACTCAGCATCTTTCCTCCCGTGAGCTCGAATTCTGAAATTGT | |
| Sequence-based reagent | RNA-GGCCGG | This study | 5’-GAGGCCGGAAGUGGAUGUGGAUAAGAUGGAG | |
| Sequence-based reagent | RNA-GGCUGG | This study | 5’-GAGGCUGGAAGUGGAUGUGGAUAAGAUGGAG | |
| Sequence-based reagent | PPE-Oligonucleotide | This study | 5’FAM-CTCCATCTTATCCACATCCACT | |
| Sequence-based reagent | DNA-ATGCGCCA | This study | 5’FAM-AAAAAAAAAAAAAA ATGCGCCAAAAAAAAAAAAAAA | |
| Sequence-based reagent | revDNA-ATGCGCCA | This study | 5’-TTTTTTTTTTTTTTTGGCGCATTTTTTTTTTTTTTT | |
| Sequence-based reagent | DNA-GCG | This study | 5’-FAM-AAAAAAAAAAAAAAAA GCGAAAAAAAAAAAAAAAAA | |
| Sequence-based reagent | DNA-CCG | This study | 5’-FAM-AAAAAAAAAAAAAAAA CCGAAAAAAAAAAAAAAAAA | |
| Sequence-based reagent | DNA-TCG | This study | 5’-FAM-AAAAAAAAAAAAAAAA TCGAAAAAAAAAAAAAAAAA | |
| Sequence-based reagent | DNA-ACG | This study | 5’-FAM-AAAAAAAAAAAAAAAA ACGAAAAAAAAAAAAAAAAA | |
| Sequence-based reagent | revDNA-GCG | This study | 5’-TTTTTTTTTTTTTTTTTCGCTTTTTTTTTTTTTTTT | |
| Sequence-based reagent | revDNA-CCG | This study | 5’-TTTTTTTTTTTTTTTTTCGGTTTTTTTTTTTTTTTT | |
| Sequence-based reagent | revDNA-TCG | This study | 5’-TTTTTTTTTTTTTTTTTCGATTTTTTTTTTTTTTTT | |
| Sequence-based reagent | revDNA-ACG | This study | 5’-TTTTTTTTTTTTTTTTTCGTTTTTTTTTTTTTTTTT | |
| Gene (Pseudomonas syringae) | ssdA | GeneBank | PSYRH_RS14050 | |
| Gene (Pseudomonas syringae) | ssdAI | GeneBank | PSYRH_RS1404 | |
| Gene (Taylorella equigenitalis) | BadTF3 | GeneBank | EL142_RS06975 | |
| Gene (Taylorella equigenitalis) | BadTF3-Immunity | GeneBank | EL142_RS06970 |