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14 protocols using bhi broth

1

Microbial Strain Cultivation Protocols

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Staphylococcus aureus ATCC 25923, Staphylocccus epidermidis FMCC B-202 C5M6 (kindly provided by Dr. A. Nisiotou, Athens Wine Institute, ELGO-DEMETER, Greece), Escherichia coli ATCC 25922, Listeria monocytogenes NCTC 10527 serotype 4b, Salmonella enterica subsp. enterica ser. Enteritidis FMCC Β56 PT4 (kindly provided by Professor G.J.E. Nychas, Agricultural University of Athens, Greece), and Salmonella enterica subsp. enterica ser. Typhimurium DSMZ 554 were grown in Brain Heart Infusion (BHI) broth (LABM, Heywood, UK) at 37 °C for 24 h. Pseudomonas fragi 211 (kindly provided by Professor G.J.E. Nychas) was grown in BHI broth (LABM) at 25 °C for 24 h. Saccharomyces cerevisiae uvaferm NEM (Lallemand, Montreal, QC, Canada) was grown in YPD broth (yeast extract 10 g/L, peptone 20 g/L, and dextrose20 g/L) at 28 °C for 3 days. Aspergillus niger 19111 (kindly provided by Professor G.J.E. Nychas) was grown on Malt extract agar (LABM) for 7 days at 37 °C.
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2

Reagents and Materials for Biological Assays

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Brain heart infusion (BHI) broth, malt extract agar, and Ringer’s solution were obtained from LABM (Heywood, UK). Ciproxin was obtained from Oxoid Ltd. (Basingstoke, UK) and amphotericin B from Mast Group Ltd. (Merseyside, UK). Dulbecco’s Modified Eagle’s Medium (DMEM), DMEM high glucose, RPMI media, and low melting agarose were purchased from Gibco® (Gaithersburg, MD, USA). Fetal bovine serum (FBS), trypsin, penicillin/streptomycin, trypan blue 0.5%, and phosphate-buffered saline (PBS) were purchased from Biosera (Boussens, France). Dimethyl sulfoxide (DMSO) and propidium iodide were purchased from Biotium (Hayward, CA, USA), while hydrogen peroxide, ABTS, potassium persulfate, ascorbic acid, sulforhodamine B (SRB), Trizma base, and etoposide were purchased from Sigma-Aldrich (St. Louis, MO, USA). TrichloroAcetic acid (TCA) was obtained from MP Biomedicals (Santa Ana, CA, USA). Acetic acid and ethanol were purchased from Scharlau (Barcelona, Spain) and DPPH from Calbiochem® (Darmstadt, Germany).
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3

Preparation of Candida Strains for Research

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Three different Candida strains were used including C. tropicalis T26, C. tropicalis U71 and C. tropicalis V89. All strains were clinical isolates and previously characterized as highly biofilm forming (Sahal and Bilkay, 2018) . Identification was done using the 18S Ribosomal RNA Gene Sequence Analysis (Ref Gen Biotechnology Co. Ltd., 2017; Ankara, Turkey).
All Candida strains were first grown on Brain Heart Infusion (BHI) agar (Lab M Ltd, Lancashire, UK) for 24 h at 37 °C. For pre-culture preparations, single colonies were inoculated into 10 mL BHI broth (Lab M Ltd, Lancashire, UK) and incubated overnight at 37 °C. This preculture was used to inoculate a second culture of 200 mL BHI broth, which was subsequently grown for 24 h at 37 °C. Cells were harvested by centrifugation at 3220g for 10 min at 5 °C (Eppendorf 5810R, with an Eppendorf Swing-bucket rotor A-4-62, Hamburg, Germany) and washed 3 times with 10 mM potassium phosphate buffer (pH 7). Cells were counted in a thoma counting chamber and diluted appropriately to obtain the cell concentrations required for the experiments.
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4

Antimicrobial Assays of Bacterial Strains

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Four bacterial species (one strain/species) were used as the target microorganisms in the antimicrobial assays. Their codes, isolation origins, and some other relevant information are presented in Table 1. Two of them were Gram-positive (S. aureus, L. monocytogenes), whereas the other two were Gram-negative (S. enterica, Y. enterocolitica). Before their use in the assays, they were stored deep-frozen at −80 °C in a Brain Heart Infusion (BHI) broth (Lab M, Heywood, Lancashire, UK) containing 15% (v/v) glycerol. When needed for the experiments, each strain was resuscitated through its streaking on the surface of Tryptone Soy Agar (TSA; Lab M) and its incubation at 37 °C for 24 h (preculture). Working cultures were prepared by inoculating a discrete colony from each preculture into 10 mL of fresh Tryptone Soy Broth (TSB; Lab M) and then incubating at 37 °C for 24 h. The purity of each working culture was always confirmed through its streaking on TSA and incubation under the same conditions.
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5

Bacterial Strains Characterization and Maintenance

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The bacterial strains that were used in this study were S. enterica str. FMCC_B137, which was kindly provided by Prof. George-John Nychas (Agricultural University of Athens, Athens, Greece), and L. monocytogenes str. AAL 20107, which was kindly supplied by Dr. Nikolaos Andritsos (Athens Analysis Laboratories S.A., Microbiology Laboratory, Metamorfosi, Greece). The strain of S. enterica belongs to serovar Typhimurium; it is an epidemic strain of phage type DT193 and was originally isolated from a human salmonellosis outbreak [25 (link)]. The strain of L. monocytogenes belongs to serovar 1/2b and was originally isolated from a mixed green salad [26 (link)]. Before use, both strains were maintained frozen at −80 °C in BHI broth (Lab M, Heywood, Lancashire, UK) containing 15% v/v glycerol. When needed, each strain was streaked on Tryptone Soya Agar (TSA; Oxoid, Thermo Fisher Specialty Diagnostics Ltd., Hampshire, UK) and incubated at 37 °C for 24 h (preculture). Working cultures were prepared by inoculating a single colony from each preculture into 10 mL of fresh TSB (Condalab, Torrejón de Ardoz, Madrid, Spain) and then incubating at 37 °C for 18 h. The final concentration of each working culture was ca. 109 CFU/mL and its purity was always confirmed by streaking on TSA and incubating it at 37 °C for 24 h.
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6

Virulent Listeria monocytogenes Strains Activation

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Two virulent L. monocytogenes strains of cheese origin, ISS G79 (serotype 1/2b) and ISS G185 (serotype 1/2a) plus L. monocytogenes no.10 (serotype 4ab), an avirulent reference strain, were used in accordance with previous studies [44] ,[46] ,[49] (link). Frozen (−30 °C) stock cultures of each strain in tryptic soy broth with 0.6% yeast extract (Lab M, Heywood, UK) plus 20% glycerol were activated twice (30 °C, 24 h) in 10 mL of brain heart infusion (BHI) broth (Lab M) before use. For inoculation purposes, fresh (24-h) 10-mL BHI cultures of the strains were centrifuged (3,200 × g for 15 min), the cells were washed with 10 mL of quarter-strength Ringer solution (Lab M), resuspended in the same diluent, and suspensions were combined as before [11] ,[44] ,[51] . Afterward the three-strain cocktail of L. monocytogenes was diluted to yield an inoculum in milk of approximately 103 CFU/mL [48] .
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7

Candida Isolates from Ankara Hospitals

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We evaluated 99 clinical Candida isolates that were randomly collected from patients treated at two different hospitals in Ankara, Turkey, between July 2005 and March 2014. Collected isolates were inoculated into the brain heart infusion (BHI) broth (Lab M Ltd, Lancashire, UK) media supplemented with 10% glycerol and stored at -20°C for use in further experiments.
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8

Microbial Cultivation Protocol

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Listeria monocytogenes NCTC 10527 (serotype 4b) and Clostridium difficile (kindly provided by the Laboratoty of Clinical Microbiology of Sismanoglio Hospital, Athens, Greece), Saccharomyces cerevisiae uvaferm NEM (Lallemand, Montreal, QC, Canada), and Aspergillus niger 19111 (kindly provided by Prof. G.J.E Nychas, Agricultural University of Athens) were used in the present study.
Both bacterial strains were grown in brain heart infusion (BHI) broth (LabM, Heywood, UK) at 37 • C for 24 h, whereas YPD broth (yeast extract 10 g/L, peptone 20 g/L, and dextrose 20 g/L) or malt extract agar (LabM) were used for the growth of S. cerevisiae or A. niger at 28 • C for 3 days or at 37 • C for 7 days, respectively.
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9

Listeria monocytogenes GAD system strains

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L. monocytogenes WT strains of EGD-e, 10403S and LO28 and their isogenic mutants in different genes of the GAD system (Table 1) were used in this study. Stock cultures were stored at -80°C in 15% (v/v) dimethyl sulfoxide (DMSO) (Sigma-Aldrich, Dorset, United Kingdom).
Prior to experiments, stock cultures were streaked onto brain heart infusion (BHI) agar (LAB M, Lancashire, United Kingdom) and incubated at 37°C overnight.
A single colony was transferred to 3 ml of either sterile BHI broth (LAB M) for EGD-e and 10403S or tryptone soy broth (Lab M) supplemented with 0.6% (w/v) of yeast extract (TSBY) for LO28 and incubated at 37°C with shaking (160 rpm). Bacteria were allowed to grow until stationary phase and used to inoculate the experimental culture with a 1% inoculum (v/v). These cultures were prepared in 250 ml conical flasks containing 20 ml of the same medium as used for the inoculum and incubated overnight at 37°C with shaking (120 rpm).
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10

Preparation and Validation of Bacterial Cultures

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The bacterial strains used in this work belonged to the species S. enterica, L. monocytogenes, and Y. enterocolitica (one strain/species). Some critical information on these strains is provided in Table 4. Before their experimental use, these were stored long-term at −80 °C in BHI broth (Lab M, Heywood, Lancashire, UK) containing 15% v/v glycerol. When needed for the assays, each strain was streaked on the surface of Tryptone Soya Agar (TSA; Oxoid, Thermo Fisher Specialty Diagnostics Ltd., Hampshire, UK) and incubated at 37 °C for 24 h (preculture). Working cultures were prepared by inoculating an individual colony from each preculture into 10 mL of fresh TSB (Condalab, Torrejón de Ardoz, Madrid, Spain) and then incubating at 37 °C for 24 h (thereby achieving a final concentration of ca. 109 CFU/mL). The purity of each working culture was always confirmed by streaking a small volume of it (10–20 μL) on TSA and incubating it at 37 °C for 24–48 h.
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