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6 protocols using catalase

1

Comprehensive Microbial Characterization

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Biochemical substrates are tested using API ZYM (enzymatic activities), API 50 CH (carbohydrate fermentation), and API 20Strep (specific criteria) galleries. We also carried out the ability to form spores using a thermal shock. The motility assay was performed by directly examining a fresh colony using a DM 1000 optical microscope (Leica, Nanterre, France) at a ×400 magnification. Detection of catalase (bioMerieux) and oxidase activities (Becton Dickinson, Franklin Lakes, NJ, USA) was also tested.
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2

Bacterial Isolation and Characterization

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All specimens were cultured in a distinct range of media, including blood agar, triple sugar iron agar (TSI), sulfide indole motility (SIM), citrate agar, mannitol salt agar, and DNase (Merck, Germany) to distinguish the most important organisms. Isolation and characterization of our isolates was done using a combination of phenotypic and biochemical methods, such as colony morphology, Gram staining, oxidase, catalase, methyl red (MR)/Voges–Proskauer (VP), urease, coagulase, and API systems (bioMerieux, France).
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3

Bacterial Isolation and Identification Protocol

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Each swab sample was streaked in the laboratory onto appropriate culture media, including blood agar, MacConkey agar, and chocolate agar (Saudi Prepared Media Laboratory Company, Riyadh, Saudi Arabia). The media were then incubated at 37 °C for 24 to 48 h. After incubation, the colonies were identified on the basis of morphological characteristics, including colony shape, size, color, hemolysis patterns, and Gram staining. Further identification of the isolates was performed using standard biochemical tests, including catalase, coagulase, oxidase, and API identification systems (BioMérieux, Craponne, France). Final identification and antibiotic sensitivity profiles were established using the VITEK®2 automated identification system (BioMérieux, Craponne, France) for first identification with appropriate cards for Gram-positive and Gram-negative bacteria according to the manufacturer’s instructions. The Microscan Walkaway automated system (Beckman Coulter, Inc., Sacramento, CA, USA) was used for further confirmation and antimicrobial susceptibility patterns following the manufacturer’s instructions.
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4

Biochemical Characterization of Bacterial Strains

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Biochemical characteristics of the strains were investigated using API ZYM, 20A and 50CH strips (BioMérieux) according to the manufacturer's instructions. A 20‐min‐thermic shock of fresh colonies at 80°C was done in order to test sporulation. Catalase (BioMerieux) activity was determined in 3% hydrogen peroxide solution and oxidase activity was assessed using an oxidase reagent (Becton‐Dickinson).
Cellular fatty acid methyl ester (FAME) analysis was performed by gas chromatography/mass spectrometry (GC/MS). Two samples were prepared with approximately 17 mg of bacterial biomass per tube for strain Marseille‐P2849T and 5 mg per tube for strain Marseille‐P3277T. Briefly, fatty acid methyl esters were separated using an Elite 5‐MS column and monitored by mass spectrometry (Clarus 500—SQ 8 S, Perkin Elmer, Courtaboeuf, France) as previously described (Dione et al., 2016). Spectral database search was performed using MS Search 2.0 operated with the Standard Reference Database 1A (NIST, Gaithersburg, USA) and the FAMEs mass spectral database (Wiley, Chichester, UK).
Antibiotic susceptibility was tested using the E test gradient strip method (BioMerieux) to determine the minimal inhibitory concentration (MIC) of each tested antibiotic on blood Colombia agar media (BioMerieux, France).
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5

Phenotypic and Molecular Characterization of Lactobacillus plantarum

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The L. plantarum strain previously isolated in the Applied and Environmental Microbiology Research Group was preserved in cryovials Cryioinstant (Ref: 409113/6, Deltalab S.L., Spain) in the − 80 °C freezer. The microorganism was recovered by incubating two porous beads in 30 mL of MRS broth (Ref: BK070HA, Biokar Diagnostics, France) for 24 h at 37 °C in aerobic environment.
After the incubation period, a serial dilution was prepared up to the concentration of 10–8. From the dilution bank, MRS agar (Ref: BK089HA, Biokar Diagnostics, Francia) was seeded to establish the concentration of the microorganism and a blood agar (Ref: 254005, Becton Dickinson, Germany) was also seeded to evaluate its possible hemolytic capacity. Plates were incubated at 37 °C for 24 h, in aerobic environment.
So, to corroborate the absence of contamination throughout the preservation period, the strain was identified by phenotypic and molecular tests.
The tests carried out for phenotypical identification were Gram stain, spore stain and enzymatic tests of Catalase and Oxidase (Ref: 55 635, bioMérieux SA, France). The methodologies used have been the traditional in Microbiology16 .
Then, an API 50 CH gallery (Ref: 50 300, bioMérieux SA, France) was inoculated with API 50 CHL Medium (Ref: 50 410, bioMérieux SA, France) to corroborate the identification of the strain.
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6

Biochemical Characterization of Bacterial Isolate

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API Gallery systems—API ZYM, API 20 NE and API 50CH—were used to investigate biochemical analyses according to the manufacturer's instructions (bioMérieux). Catalase (bioMérieux) and oxidase (Becton Dickinson, Franklin Lakes, NJ, USA) tests were also performed separately. A thermal shock at 80°C for 30 min was done on bacterial colonies (diluted in phosphate-buffered saline) to check for sporulation ability in this bacterium. A DM1000 photonic microscope (Leica Microsystems, Nanterre, France) was used to assess the motility of the bacteria by observing the fresh colony between blades and slats with a 40 × objective lens.
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