Strains. Pseudomonas aeruginosa strain PAO1, sourced from the Manoil Lab at the University of Washington in Seattle, WA, USA, served as the parental strain throughout our investigation. The isogenic mutant ΔodsAB (diol synthase operon deletion mutant) was obtained following previously established protocols 6. The construction of ΔnorCB (norCB operon deletion mutant) involved allelic exchange utilizing the suicide vector pEX100Tlink, which contained the upstream and downstream regions of the norCB operons (pEXΔnorCB). This vector facilitated an in-frame deletion of the norCB operon within the PAO1 chromosome. PCR and sequencing were employed to verify the mutant genotype. To complement the mutant, the mutated allele was replaced with the original copy from the parental strain PAO1, again employing allelic exchange. Green fluorescent P. aeruginosa strains were generated through transformation with plasmids pMF230, which constitutively express GFP. Plasmids pMF230 (Addgene plasmids #62546), generously provided by Michael Franklin of Montana State University, were utilized for this purpose. Escherichia coli DH5α (Invitrogen) served as the host for plasmid constructions, while E. coli S17-1 λpir, a gift from Jorge Benitez of Morehouse School of Medicine, was utilized as a donor strain for bacterial conjugation when necessary.
Culture conditions The strains were routinely cultivated in lysogeny broth (LB) medium at 30 °C, with agar incorporated when solid medium was necessary. To segregate the suicide plasmid from merodiploids during the construction of ΔnorCB by allelic exchange, LB agar devoid of NaCl but supplemented with 15% sucrose was employed. For biofilm formation assays, M63 medium was utilized, supplemented with 2% glucose, 5% casamino acids, and 1 mM MgSO4 (referred to as M63 complete). Antibiotics were supplemented as needed, with ampicillin (Amp) at 100 μg ml−1 and carbenicillin (Cb) at 300 μg ml−1. To induce oxylipin production and purification, cultures were supplemented with 90% oleic acid (Sigma 364525). When investigating biofilm formation in vitro, M63 complete media was supplemented with either 99% oleic acid (Sigma O1008) or purified oxylipins as required.
Thin layer chromatography. Thin layer chromatography (TLC) experiments were conducted using Whatman silica gel plates (60 Å), measuring 20 × 10 cm with a thickness of 200 μm. The mobile phase consisted of a mixture of hexane, ether, and acetic acid in proportions of 80:20:5, respectively. Visualization of the separated compounds on the TLC plates was achieved by treating them with a solution of 10% phosphomolybdic acid in ethanol.
Purification of 10-HOME and 7,10-DiHOME oxylipins. The supernatant from a 500 ml PAO1 culture cultivated in M63 complete medium supplemented with 1% oleic acid was utilized for the purification of oxylipins produced through diol synthase activity. Following centrifugation of the culture at 8000 x g for 15 minutes, the supernatant was carefully retrieved and acidified to a pH of 2 using hydrochloric acid. Subsequently, a one-to-one volume ratio organic extraction was conducted employing ethyl acetate. The organic phase was then evaporated, yielding a dried mixture that was dissolved in 3 ml of ethyl acetate for further purification steps. Purification of the oxylipins was carried out utilizing an Isco Teledyne Combiflash Rf 200 equipped with four channels and a 340CF ELSD (evaporative light scattering detector). Pre-packed cartridges of Universal RediSep solid sample loading (5.0 g silica) were employed for crude product absorption, followed by purification on 24 g silica RediSep Rf Gold Silica columns (20–40 μm spherical silica) using an ascending gradient of ethyl acetate (solvent B) against hexane (solvent A). Fractions corresponding to each detected peak were pooled and evaporated before being dissolved in ethanol. The purity of the oxylipins was assessed through HPLC/MS analysis.
HPLC/MS analysis. Mass spectrometry analysis was performed as described previously 22. Purified 7,10 Di-HOME and 10-HOME were prepared as stock solutions at a concentration of 1 mg ml−1 in ethanol. From these stock solutions, samples for analysis were prepared by diluting in ddH2O containing 0.1% formic acid. Each sample, with a 20 μl injection volume, was loaded onto a Synergi Hydro-RP 80A 250 × 2 mm C18 column (Phenomenex), employing a Shimadzu Prominence System Binary Pump (Shimadzu Scientific Instruments, Inc., Columbia, MD, USA) at a flow rate of 350 μl min−1. Mobile phase A consisted of ddH2O with 0.1% formic acid, while mobile phase B comprised acetonitrile with 0.1% formic acid. The gradient elution started at 10% B and increased to 80% B over 11 min, followed by a ramp to 100% B at 14 min, then re-equilibrated to initial conditions over 6 min, resulting in a total runtime of 20 min per analysis. The SCIEX 4000 Triple Quadrupole Mass Spectrometer (Concord, Ontario, Canada) operated in ESI negative ion mode, with nitrogen serving as the nebulizer and curtain gas (CUR=20). Collision gas, collision energy, and temperature were set at 10 °C (−30 eV for 10-HOME, −34 eV for 7,10-DiHOME) and 600 °C, respectively. Gas settings GS1 and GS2 were maintained at 40 °C and 60 °C, respectively. Analyst 1.6.2 software controlled the LC-MS/MS system.
Quantification of biofilm formation. Biofilm assays were conducted in accordance with the O'Toole protocol 23. Initially, P. aeruginosa strains were cultured overnight on LB agar plates at 37 °C. Bacterial suspensions were then prepared in M63 medium to achieve an OD600=1. Subsequently, 10 microliters of the bacterial suspension were inoculated into each well of a 96-well microtiter plate containing 200 μl of M63 complete media. When necessary, oleic acid or pure oxylipins were supplemented to the medium at desired concentrations. Biofilms were allowed to develop overnight at 30 °C. For quantification of biofilms, the wells were washed twice with 1 × PBS, and then 200 μl of 0.1% crystal violet was added to each well, followed by a 10-minute incubation period. Afterward, the wells were washed three times with 1 × PBS, and the crystal violet-stained biofilm was solubilized with 250 μl of 30% acetic acid. Absorbance was measured at 550 nm to determine biofilm formation.
HTS assay. The primary assay utilized in this study focused on the differential solubility properties of the diol-synthase pathway substrate, OA, compared to its oxylipin products. A suspension of OA at a concentration of 1 mg/mL results in a cloudy solution due to the formation of micelles. Upon treatment with semipurified diol-synthase enzymes, the suspension becomes transparent, indicating the conversion of OA to more soluble oxylipins. To identify inhibitors of diol-synthase activity, compounds were tested for their ability to maintain the cloudiness of the OA suspension, as this would suggest inhibition of the enzyme. The cloudiness of the suspension was quantified by measuring its optical density at a wavelength of 600 nm (OD600). A clear suspension after treatment would indicate enzyme activity, while a cloudy suspension would signal inhibition. The assay was validated in a 384-well plate format and subsequently adapted for robotic automation. The HTS group at SR conducted a screen of 200,000 compounds at a concentration of 10 µM, with each compound being tested in duplicate to ensure reproducibility and accuracy. Positive hits from the initial screen were further analyzed through a 10-point dose-response assay to determine their IC50 values. One particularly promising hit was selected in this study as a proof-of-concept for the feasibility of ODS inhibition in vivo.
Trans-well assay. Trans-well experiments were performed as described previously24. Initially, 5.0 × 10^5 murine colon epithelial cells (MCEC) were seeded onto Trans-well permeable inserts (12 mm diameter, 3-μm pore size; Costar) in 12-well plates and cultured for a minimum of 48 hours at 37°C with 5% CO2. Subsequently, 5.0 × 10^5 colony-forming units (cfu) of P. aeruginosa were introduced to the cells, followed by centrifugation at 500 × g for 5 minutes and incubation for 30 minutes at 37°C with 5% CO2. Following this, the inserts were washed thrice with prewarmed phosphate-buffered saline (PBS) and transferred to new plates, followed by incubation for 1 hour in Dulbecco's Modified Eagle Medium (DMEM). The translocated bacteria were quantified by enumerating the colony-forming units (CFU) recovered in the lower chamber.
Virulence assay in mouse burn model. Mice infection was conducted following previously established protocols 25. In summary, five- to six-week-old BALBc mice (Jackson Labs) were anesthetized using a mixture of xylazine and ketamine. Their dorsal region was prepared by shaving with an electric clipper followed by depilation using depilatory cream. A thermal burn was then induced using a hot bar 26, after which intradermal infection was administered using 100 μl of bacterial suspension containing 105 CFU (colony-forming units) of either P. aeruginosa PAO1 or the odsAB mutant strain. Subsequent to infection, the bacterial burden in the skin, liver, and spleen was evaluated. This involved homogenizing the respective organs and plating serial dilutions onto LB agar plates for quantification.
P. aeruginosa imaging inside mice skin. Mice infected with 10^5 colony-forming units (cfu) of PAO1 or ΔodsAB constitutively expressing GFP were euthanized 24 hours post-infection, and a skin biopsy was embedded in Optimal Cutting Temperature Compound (Tissue-Tek, 4583) and frozen until analysis. Visualization of bacteria within the mice skin was performed using the Leica LMD 6 and Nikon Eclipse Ti microscope.
Treatment of burn wound infection with an oxylipin synthase inhibitor. One hour post-infection, mice were subjected to intradermal treatment with either 100 μl of a 10 micromolar solution of AB012 or 100 μl of phosphate-buffered saline for control purposes. Following treatment, mice were monitored daily for symptoms and mortality over a span of 10 days. Alternatively, mice were euthanized at either 24 or 48 hours post-infection to assess bacterial load in the skin, liver, and spleen.
OdsA expression and mice immunization. The OdsA gene was amplified using the PAO1 chromosome as a template with specific primers. The resulting fragment was then cloned into the PET23a expression vector, incorporating a His tag. This construct was subsequently transformed into E. coli BL21 (DE3) for protein expression. Upon reaching an OD600 of 0.4 to 0.6, cultures were induced using 1 mM isopropyl-β-d-thiogalactopyranoside (IPTG) for 4 hours at 37°C on a shaker. Bacterial cells were harvested by centrifugation at 4,000 × g for 15 minutes. The resulting cell pellets were resuspended in buffer A (50 mM Tris-HCl [pH 7.5] and 150 mM NaCl) containing 1 mM phenylmethylsulfonyl fluoride (PMSF), a serine protease inhibitor, and then sonicated at 35% amplitude (2 s on/2 s off) for 30 minutes on ice for lysis. Subsequently, the lysate was centrifuged at 12,000 × g for 30 minutes at 4°C. The overexpressed protein present in the supernatant was purified using a cobalt resin column following the manufacturer’s instructions for His tag purification. For immunization studies, mice were subcutaneously administered 0.1 mg of OdsA on day 1, followed by a booster of 0.05 mg of the protein administered 14 days later. Peripheral blood samples for serum collection were obtained one week post-booster via retro-orbital bleeding of anesthetized mice just before euthanasia.
Detection of oxylipins in the skin of P. aeruginosa infected mice. Groups of three mice were subjected to thermal burns and subsequently infected either with PAO1 or a odsAB deficient mutant. After 24 hours, the mice were euthanized, and their skin was homogenized using an Omni THQ homogenizer equipped with disposable Omni Tips plastic generator probes (OMNI international) in 2 ml of PBS 1×. The homogenates underwent centrifugation to remove tissue and bacterial debris, following which total fatty acids were extracted according to the method outlined previously (refer to the section titled "Purification of diol synthase-derived oxylipins"). Extracted samples were then subjected to analysis using HPLC/MS (refer to preceding sections for TLC and HPLC/MS analyses) to detect the presence of 10-HOME and 7,10-DiHOME. The identification of oxylipins was carried out utilizing the Multiple Reaction Monitoring (MRM) method, with mass transitions m/z 297.3/155.1 for 10-HOME and 313.3/141.1 for 7,10-DiHOME.
Ethics statement. The animal experimental design was approved by the Institutional Animal Care and Use Committee at The University of Alabama at Birmingham, UAB (protocol no. IACUC-22197).
Statistical analysis. The survival data from mice experiments were visualized through Kaplan-Meier plots, and their comparability was assessed via the log-rank (Mantel-Cox) test. Each experimental condition involved 6 mice. Subsequent analyses utilized either one-way ANOVA or unpaired t-tests as appropriate. Statistical computations were conducted using GraphPad Prism 8 software (GraphPad Software, La Jolla, CA).