| Gene (Pseudomonas aeruginosa) |
PA14 |
NCBI |
Accession: GCF_000014625.1 |
Reference file |
| Strain, strain background (Saccharomyces cerevisiae) |
Saccharomyces cerevisiae
|
PMID:16820502
|
|
Cloning yeast |
| Strain, strain background (Escherichia coli) |
DH5a |
Invitrogen |
|
Electrocompetent cells |
| Strain, strain background (Escherichia coli) |
S17 λpir |
PMID:8226632
|
|
Electrocompetent cells made in lab |
| Strain, strain background (P. aeruginosa) |
PA14 WT |
PMID:7604262
|
|
Hogan Laboratory reference strain |
| Strain, strain background (P. aeruginosa) |
DH2417; NC-AMT0101-1-2 |
PMID:16687478
|
|
Chronic CF lung infection isolate with functional LasR allele |
| Strain, strain background (P. aeruginosa) |
PA14 WT |
PMID:33771779
|
|
Laub Lab; strain background of kinase clean deletion mutants |
| Genetic reagent (P. aeruginosa)
|
PA14 ∆lasR
|
PMID:15554963
|
|
|
| Genetic reagent (P. aeruginosa) |
PAO-MW1qsc102 |
PMID:10570171; PMID:11544214
|
|
AHL-sensing bioreporter; PAO1 lasIrhlI mutant with Tn5-B22, which contains promoterless lacZ located within PA1896 (hypothetical protein) at chromosomal location of 2,067,716. Responsive to 3OC12-HSL but not C4-HSL. |
| Genetic reagent (P. aeruginosa) |
PAO-MW1qsc131 |
PMID:10570171; PMID:11544214
|
|
AHL-sensing bioreporter; PAO1 lasIrhlI mutant with Tn5-B22, which contains promoterless lacZ, under phzC promoter control. Responsive to either 3OC12-HSL or C4-HSL but requires both for full activation. |
| Genetic reagent (P. aeruginosa) |
PA14 WT att::lacZ
|
PMID:31980538
|
|
PA14 WT with constitutive expression of lacZ for competition assays |
| Genetic reagent (P. aeruginosa) |
PA14 ∆cheA
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆chpA
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆creC
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆uhpB
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆bfiS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆bphP
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_10770 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_11630 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆rocS1
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆narX
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆wspE
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_19340 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆mxtR
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆cpxS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆gtrS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_24340 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆rocS2
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_26810 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆sagS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆copS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆pfeS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆bqsS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_30700 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_30840 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆czcS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_32570 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_36420 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆ercS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆exaD
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆ercS’
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆parS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆kdpD
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_43670 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_45590 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_45870 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_46370 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_46980 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_48160 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆phoQ
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_49420 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆fleS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆pirS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆gacS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆tctE
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆pprA
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆colS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_57170 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆roxS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆rcsC
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆pvrS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆pilS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆cbrA
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆pmrB
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆retS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_64580 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆aruS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆ntrB
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_68230 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆amgS
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆algZ
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆phoR
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆kinB
|
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆PA14_72740 |
PMID:33771779
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆rhlR
|
PMID:30936375
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆anr
|
PMID:31527114
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆cbrB
|
This paper |
|
PA14 WT with in-frame deletion of cbrB (PA14_62540) |
| Genetic reagent (P. aeruginosa) |
PA14 cbrB::TnM
|
PMID:22911607; PMID:16477005
|
|
cbrB MAR2xT7 transposon insertion mutant |
| Genetic reagent (P. aeruginosa) |
DH2417∆cbrB; NC-AMT0101-1-2∆cbrB
|
This paper |
|
CF clinical isolate NC-AMT0101-1-2 (DH2417) with in-frame deletion of cbrB (PA14_62540) |
| Genetic reagent (P. aeruginosa) |
PA14 ∆crc
|
This paper |
|
PA14 WT with in-frame deletion of crc (PA14_70390) |
| Genetic reagent (P. aeruginosa) |
PA14 ∆crc + crc
|
This paper |
|
PA14 ∆crc with complementation of crc (PA14_70390) at the native locus |
| Genetic reagent (P. aeruginosa) |
PA14 ∆lasR + lasR
|
PMID:31980538
|
|
|
| Genetic reagent (P. aeruginosa) |
PA14 ∆cbrB + pMQ70 cbrB (plasmid) |
This paper |
|
PA14 ∆cbrB expressing arabinose inducible pMQ70 cbrB expression vector |
| Genetic reagent (P. aeruginosa) |
PA14 ∆lasR∆cbrB
|
This paper |
|
PA14 ∆lasR with in-frame deletion of cbrB (PA14_62540) |
| Genetic reagent (P. aeruginosa) |
PA14 ∆lasR∆cbrB + cbrB
|
This paper |
|
PA14 ∆lasR∆cbrB with complementation of cbrB (PA14_62540) at the native locus |
| Genetic reagent (P. aeruginosa) |
PA14 ∆lasR∆cbrB∆crc
|
This paper |
|
PA14 ∆lasR∆cbrB with in-frame deletion of crc (PA14_70390) |
| Genetic reagent (P. aeruginosa) |
PA14 ∆lasR∆crc
|
This paper |
|
PA14 ∆lasR with in-frame deletion of crc (PA14_70390) |
| Genetic reagent (P. aeruginosa) |
PA14 ∆lasR∆crc + crc
|
This paper |
|
PA14 ∆lasR∆crc with complementation of crc (PA14_70390) at the native locus |
| Genetic reagent (P. aeruginosa) |
PA14 + pMQ72 EV |
This paper |
|
PA14 WT expressing pMQ72 empty vector |
| Genetic reagent (P. aeruginosa) |
PA14 + pMQ70 cbrB
|
This paper |
|
PA14 WT expressing arabinose inducible pMQ70 cbrB expression vector |
| Genetic reagent (P. aeruginosa) |
PA14 + pMQ72 crcZ
|
This paper |
|
PA14 WT expressing arabinose inducible pMQ72 crcZ expression vector |
| Recombinant DNA reagent |
pMQ30 EV |
PMID:16820502
|
|
|
| Recombinant DNA reagent |
pMQ72 EV |
PMID:16820502
|
|
|
| Recombinant DNA reagent |
pMQ70 EV |
PMID:16820502
|
|
|
| Recombinant DNA reagent |
pMQ30_cbrB_KO |
This paper |
|
pMQ30 plasmid for knocking out cbrb
|
| Recombinant DNA reagent |
pMQ30_crc_KO |
This paper |
|
pMQ30 plasmid for knocking out crc
|
| Recombinant DNA reagent |
pMQ30_cbrB_KON |
This paper |
|
pMQ30 plasmid for complementing cbrb at the native locus |
| Recombinant DNA reagent |
pMQ30_crc_KON |
This paper |
|
pMQ30 plasmid for complementing cbrb at the native locus |
| Recombinant DNA reagent |
pMQ72_crcZ
|
This paper |
|
pMQ72 plasmid backbone with arabinose inducible crcZ expression |
| Recombinant DNA reagent |
pMQ70_cbrB
|
This paper |
|
pMQ70 plasmid backbone with arabinose inducible cbrB expression |
| Sequence-based reagent |
pMQ72 crcZ OE 1 F |
This paper |
PCR Primers; construct design |
gtttctccatacccgtttttttgggctagcGCACAACAACAATA
ACAAGCAACGACGAAG
|
| Sequence-based reagent |
pMQ72 crcZ OE 2 R |
This paper |
PCR Primers; construct design |
ctagaggatccccgggtaccgagctcgaattcgaaatggtgtaaggcgaaggaaaaacgg
|
| Sequence-based reagent |
pMQ70 cbrB OE 1 F |
This paper |
PCR Primers; construct design |
ctctctactgtttctccatacccgtttttttgggctagcgAGACGAGCgaattcACGTCGAGAGAGCtgaatacatggcac
|
| Sequence-based reagent |
pMQ70 cbrB OE 2 R |
This paper |
PCR Primers; construct design |
ttgcatgcctgcaggtcgactctagaggatccccgggtacGTAACAGGTTGCAGGGTaccGTtacgagtcggccgaggcccc
|
| Sequence-based reagent |
pMQ30 cbrB KO 1 F |
This paper |
PCR Primers; construct design |
taacaatttcacacaggaaacagctatgaccatgattacgaattcAGGAAGTGCTGATGTGGAACC
|
| Sequence-based reagent |
pMQ30 cbrB KO 2 R |
This paper |
PCR Primers; construct design |
GTAACAGGTTGCAGGGTGTTTATTCAGCTCTCTCGACGTGCT
|
| Sequence-based reagent |
pMQ30 cbrB KO 3 F |
This paper |
PCR Primers; construct design |
CACGTCGAGAGAGCTGAATAAACACCCTGCAACCTGTTACC
|
| Sequence-based reagent |
pMQ30 cbrB KO 4 R |
This paper |
PCR Primers; construct design |
aggtcgactctagaggatccccgggtaccgagctcgaattcCAGGGAGTGCTGGTTGTTACCGATGACTtc
|
| Sequence-based reagent |
pMQ30 crc KO 1 F |
This paper |
PCR Primers; construct design |
taacaatttcacacaggaaacagctatgaccatgattacgaattcTGGAATACAGGCGCAGCAac
|
| Sequence-based reagent |
pMQ30 crc KO 2 R |
This paper |
PCR Primers; construct design |
TAGAAAAGCCGGCGCATGCGCTGGCTTTTTCGTGTCTGACGGGGCAAATGGCCCCCAAAATCACGTGCG
|
| Sequence-based reagent |
pMQ30 crc KO 4 R |
This paper |
PCR Primers; construct design |
ctgcaggtcgactctagaggatccccgggtaccgagctcgaattcttggctgaccgccgagtacggcatgc
|
| Sequence-based reagent |
pMQ30 crc KO 3 F |
This paper |
PCR Primers; construct design |
TTTGAGCTCGGGTATCATACACGCACGTGATTTTGGGGGCCATTTGCCCCGTCAGACACGAAAAAGCCAG
|
| Sequence-based reagent |
cbrB check F |
This paper |
PCR primer, KO check |
GCGTCTGCTCCCTGGCCAAG
|
| Sequence-based reagent |
cbrB check R |
This paper |
PCR primer, KO check |
GTGGCGCTGGTGGCGACATC
|
| Sequence-based reagent |
crc check F |
This paper |
PCR primer, KO check |
GCTCGATGGCGAAACGAATG
|
| Sequence-based reagent |
crc check R |
This paper |
PCR primer, KO check |
GCGCTGGTGTTGACCATCATC
|
| Sequence-based reagent |
crcZ RT 1 F |
PMID:31911486
|
PCR Primers |
GCACAACAACAATAACAAGCAACG
|
| Sequence-based reagent |
crcZ RT 2 R |
PMID:31911486
|
PCR Primers |
AGTTTTATTCTTCTTCCGACTGGCT
|
| Sequence-based reagent |
rpsL RT1F |
PMID:31911486
|
PCR Primers |
GTAAGGTATGCCGTGTACG
|
| Sequence-based reagent |
rpsL RT 2 R |
PMID:31911486
|
PCR Primers |
CACTACGCTGTGCTCTTG
|
| Sequence-based reagent |
rpoD RT 1 F |
PMID:30936375
|
PCR Primers |
CGCCGAGATCAAGGAAATCA
|
| Sequence-based reagent |
rpoD RT 2 R |
PMID:30936375
|
PCR Primers |
TACTTCTTGGCGATGGAAATCA
|
| Commercial assay, kit |
NEBuilder HiFi DNA Assembly |
Biolabs |
Cat. #: E2621L |
Gibson cloning |
| Commercial assay, kit |
Master Pure Yeast DNA purification kit |
Lucigen |
Cat. No.: MPY80200 |
|
| Commercial assay, kit |
RNAeasy Mini kit |
QIAGEN |
Cat. No.: 74,104 |
|
| Commercial assay, kit |
Turbo DNA-free kit |
Thermo Fisher Scientific |
AM1907 |
|
| Commercial assay, kit |
RevertAid H Minus First Strand cDNA synthesis |
Thermo Scientific |
Cat. No.: EP0451 |
cDNA synthesis with IDT random hexamer |
| Commercial assay, kit |
SsoFast EvaGreen Supermix |
BIO-RAD |
Cat.#: 1725201 |
|
| Commercial assay, kit |
Zymoprep Yeast Plasmid Miniprep II |
Zymo Research |
Cat. No.: D2004 |
Yeast cloning |
| Commercial assay, kit |
Biocrates AbsoluteIDQ p180 kit |
biocrates |
|
Amino acid. quantification |
| Chemical compound, drug |
Brain Heart Infusion |
BD |
SKU:211,059 |
BBL Brain Heart Infusion |
| Chemical compound, drug |
Agar |
BD |
SKU:214,510 |
Difco Agar, granulated (2 Kg pail) |
| Chemical compound, drug |
XGAL; 5-bromo-4-chloro-3-indolyl-β-D-galactopyranoside |
Research Products International |
B71800-5.0 |
Stock dissolved in DMSO |
| Chemical compound, drug |
Fluoroacetamide |
Aldrich |
128341–5 G |
dissolved in water, filter sterilized |
| Chemical compound, drug |
Lactamide |
Tokyo Chemical Industry |
Product Number: L0001 |
|
| Chemical compound, drug |
Mannitol |
Sigma |
M8429-500G |
D-Mannitol |
| Chemical compound, drug |
Succinate |
Sigma |
S9512-500G |
Succinic acid, to pH7 with NaOH |
| Chemical compound, drug |
Phenylalanine |
Sigma-Aldrich |
P2126-100G |
L-Phenylalanine |
| Chemical compound, drug |
Arginine |
Sigma |
A5131-100G |
L-arginine monohydrochloride |
| Chemical compound, drug |
Lactate |
Fisher Scientific |
S326-500 |
Sodium lactate syrup, 60% w/w |
| Chemical compound, drug |
Glucose |
VWR Chemicals |
BDH9230-2.5KG |
Dextrose, anhydrous |
| Chemical compound, drug |
Citrate |
FisherScientific |
A104-500 |
Citric acid, monohydrate |
| Chemical compound, drug |
Gentamicin |
Research Products International |
G38000-10.0 |
Gentamicin Sulfate |
| Chemical compound, drug |
Nalidixic acid |
Research Products International |
N42000-25.0 |
|
| Chemical compound, drug |
Carbinicillin |
Goldbio |
C-103–25 |
Carbenicillin (Disodium) |
| Chemical compound, drug |
Sucrose |
Fisher BioReagents |
BP220-212; 2.5 kg |
D-Sucrose |
| Chemical compound, drug |
HEPES |
SIGMA |
H3375-100G |
buffer |
| Chemical compound, drug |
Tryptone |
Fisher Bioreagents |
BP1421-500 |
LB |
| Chemical compound, drug |
NaCl; sodium chloride |
Fisher Chemical |
S271-3 |
LB |
| Chemical compound, drug |
Yeast extract |
Fisher Bioreagents |
BP1422-500 |
LB |
| Chemical compound, drug |
Ammonium sulfate |
Fisher Chemical |
A702-500 |
M63 |
| Chemical compound, drug |
Potassium phosphate monobasic |
Fisher Chemical |
P382-500 |
M63 |
| Chemical compound, drug |
Potassium phosphate dibasic, anhydrous |
Fisher Chemical |
P288-500 |
M63 |
| Chemical compound, drug |
Magnesium Sulfate |
Fisher Scientific |
M63-500 |
M63 |
| Chemical compound, drug |
Milk |
BD |
232,100 |
Difco Skim Milk |
| Chemical compound, drug |
Yeast Nitrogen Base without amino acids |
Research Products International |
Y20040-500.0 |
Yeast cloning |
| Chemical compound, drug |
Yeast Synthetic Drop-out Medium Supplements without uracil |
Sigma |
Y1501-20G |
Yeast cloning |
| Chemical compound, drug |
Peptone |
Fisher bioreagents |
BP1420-500 |
YPD |
| Chemical compound, drug |
Sodium phosphate dibasic anhydrous |
Fisher Chemicals |
S374-500 |
ASM |
| Chemical compound, drug |
Sodium phosphate monobasic |
Fisher Chemicals |
S369-500 |
ASM |
| Chemical compound, drug |
Potassium Nitrate |
Fisher Chemicals |
M-12636 |
ASM |
| Chemical compound, drug |
Potassium Sulfate |
Fisher Chemicals |
P304-500 |
ASM |
| Chemical compound, drug |
L-(+)-Lactic acid |
Sigma |
L1750-10G |
ASM; 1 M stock; pH to 7 with NaOH |
| Chemical compound, drug |
Calcium chloride dihydrate |
Sigma |
C7902-500G |
ASM |
| Chemical compound, drug |
Magnesium Chloride Hexahydrate |
Fisher chemical |
M33-500 |
ASM |
| Chemical compound, drug |
FeSO4*7H2O |
Sigma-Aldrich |
F-8048 |
ASM; Ferrous sulfate heptahydrate; Filter sterilized |
| Chemical compound, drug |
N-acetylglucosamine |
Fisher Scientific |
AAA1304718 |
ASM |
| Chemical compound, drug |
DPPC |
Sigma |
P0763-250MG |
ASM; 1,2-dipalmitoyl-sn-glycero-3-phosphocholine; dissolved in chloroform |
| Chemical compound, drug |
Tryptophan |
Sigma-Aldrich |
T0254-25G |
ASM, L-Tryptophan |
| Chemical compound, drug |
Mucin |
Sigma |
M2378-100G |
ASM; Mucin from porcine stomach, Type II |
| Peptide, recombinant protein |
Phusion |
New England BioLabs |
M0530L |
High-Fidelity DNA polymerase |
| Software, algorithm |
MATLAB |
MathWorks |
|
|
| Software, algorithm |
breseq |
PMID:24838886
|
|
Version 0.35.4 |
| Software, algorithm |
bcl2fastq |
Illumina |
RRID:SCR_015058
|
v2.20.0422 |
| Software, algorithm |
GraphPad Prism 9 |
GraphPad |
|
Version 9.2.0 |
