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33 protocols using 7h10 agar

1

Bacterial Growth Conditions Protocol

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Staphylococcus aureus (ATCC25923) was grown on blood agar plates (BioMerieux SA, Fr). Legionella pneumophila (ATCC33152) was grown on buffered charcoal yeast extract (BCYE) agar (Oxoid). Mycobacterium avium (BAA-535) was grown on 7H10 agar (Becton Dickinson).
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2

Mycobacterium tuberculosis Strain Cultivation

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The Mtb strains used in this study were H37Ra, H37Rv, W6 (Beijing strain); two multidrug-resistant (MDR) strains, KVGH376 and KVGH264, from Kaohsiung Veterans General Hospital (Kaohsiung, Taiwan); two extensively drug-resistant (XDR) strains, TCHL002, TCHL017, from Taipei City Hospital-Linsen branch (Taipei, Taiwan); and two strains from Changhua Christian Hospital (Changhua, Taiwan), CHCH005 (Beijing strain) and CHCH029 (East African-Indian strain). All strains were routinely grown at 37°C with 5% CO2 in 7H10 agar (Becton, Dickinson and company (BD), MD, United States) supplied with 10% oleic acid-albumin-dextrose-catalase (OADC) (Creative life sciences, Taipei, Taiwan) enrichment and 0.5% glycerol (Union Chemical works LTD., Hsinchu, Taiwan) or 7H9 broth (BD, MD, United States) supplied with 10% OADC enrichment and 0.5 mg/ml Tween 80 (Sigma, St. Louis, MO, United States).
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3

Intranasal M. bovis BCG Infection in Mice

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M. bovis bacillus Calmette-Guérin (M. bovis BCG) Pasteur strain was cultured in 7H9 media (Sigma) plus OADC (Fisher) containing 0.05% Tween-80 (Sigma) at 37°C, shaking at ~50 r.p.m. M. bovis BCG bacilli were washed twice with sterile PBS and passed through a 40 μm nylon mesh strainer prior to use. M. bovis BCG concentration was determined by measuring absorbance at A600 and adjusted to appropriate concentrations in sterile PBS. Mice were anesthetized with isoflurane, and M. bovis BCG was administered via intranasal inoculation in 50 μL containing ~1.0 to 5.0 × 106 bacilli. Blood was collected from euthanized mice, and lungs and spleens were removed, weighed, and homogenized in sterile PBS. Homogenate dilutions were plated on 7H10 agar (Becton Dickinson) containing OADC and antimicrobials: polymyxin B sulfate (26 μg/mL, Sigma), trimethoprim lactate (20 μg/mL, Sigma), carbenicillin disodium (50 μg/mL, Sigma), and amphotericin B (2.5 μg/mL, Sigma). Plates were incubated at 37°C for 14–21 days prior to counting. Colony forming units (CFU) from the left lung, or spleen (spleen CFU were determine per gram of tissue as half of the spleen was used for additional assays) were determined. For histology, alternate lobes of the lungs were inflated with 10% formalin and processed for H & E staining.
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4

Mycobacterium marinum Infection Protocols

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M. marinum (ATCC 927) was cultured and inoculated as described previously35 (link). However, here M. marinum was suspended in phosphate buffered saline (PBS) rather than in potassium chloride prior to infections. In the zebrafish embryos, PBS with 2% polyvinylpyrrolidone-40 and 0.3 mg/ml phenol red (Sigma-Aldrich, Missouri, USA) was used as a mycobacterial carrier solution. A volume of 1 nl was injected 0–6 hours post fertilization into the yolk sac with aluminosilicate capillary needles (Sutter instrument Co., California, USA) using a micromanipulator (Narishige International, London UK) and a PV830 Pneumatic PicoPump (World Precision Instruments, Sarasota, Florida, USA) and visualized with a Stemi 2000 microscope (Carl Zeiss MicroImaging GmbH, Göttingen, Germany). Survival was followed daily by inspecting the larvae under a microscope. For the adult zebrafish infections, fish were anesthetized with 0.02% 3-amino benzoic acid ethyl ester, and 5 µl of M. marinum with 0.3 mg/ml phenol red (Sigma-Aldrich, Missouri, USA) was injected into the abdominal cavity with a 30 gauge Omnican 100 insulin needle (Braun, Melsungen, Germany). The M. marinum amounts (CFU) used in both the embryonic and adult infections were verified by plating bacterial inoculates on 7H10 agar (Becton Dickinson, New Jersey, USA) plates.
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5

Expression and Culture of Mycobacterial Proteins

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Escherichia coli Rosetta2 containing plasmid pET30b-Hsp18 (strain TPS681) or pDest17-MUL_3720 (strain TPS682) was grown at 37 °C in Luria-Bertani (LB) broth (Difco, Becton Dickinson, MD, USA) supplemented with 100 µg/ml ampicillin (Sigma-Aldrich, USA) or 50 µg/ml kanamycin to express 6xHIS-tagged Hsp18 or MUL_3720 recombinant protein. Mycobacterium ulcerans (strain Mu_1G897 from French Guiana (De Gentile et al., 1992 (link))) was grown at 30 °C in 7H9 broth or 7H10 agar (Middlebrook, Becton Dickinson, MD, USA) supplemented with oleic acid, albumin, dextrose and catalase growth supplement (OADC) (Middlebrook, Becton Dickinson, MD, USA), and 0.5% glycerol (v/v). M. bovis BCG (strain Sanofi Pasteur) used for vaccinations was grown at 37 °C in 7H9 broth or 7H10 agar supplemented with OADC. Mycobacterial colony counts from cultures or tissue specimens were performed using spot plating as previously described (Wallace et al., 2017 (link)).
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6

Mycobacterium tuberculosis MIC Assay

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MIC assays were conducted using Sensititre MYCOTB MIC plates (Thermo Fisher Scientific) according to the manufacturer’s instructions. In brief, the MTB isolate was first subcultured on 7H10 Agar (Becton, Dickinson and Co., Sparks, MD). Multiple colonies were resuspended with glass beads in a saline-Tween solution, and the turbidity was adjusted to a McFarland standard of 0.5. A 100-μL volume of the resuspension was next mixed with 11 mL 7H9 broth containing oleic acid albumin-dextrose-catalase (Trek Diagnostic Systems, Cleveland, OH). A 100-μL volume of diluent was inoculated in each well of the MYCOTB plate and sealed with a permanent plastic seal at 37°C in 5% CO2. Plates were monitored on days 7, 10, 14, and 21 using a mirrored viewer. The lowest concentration with no visible growth was considered the MIC of rifampin or rifabutin.
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7

Culturing M. marinum for Genetic Studies

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M. marinum (laboratory M stains, resuscitated form a frozen stock) as the source of knock-down strains was grown in Middlebrook 7H9 broth (DifcoTM) with 10% acid–albumin–dextrose–catalase (ADC) (Becton Dickinson) or on 7H10 agar supplemented with 0.5% glycerol and 10% oleic acid–albumin–dextrose–catalase (Becton Dickinson) at 30α under aerobic conditions. Tween-80 was not added to the liquid culture because of its disruptive effects on the cell wall.
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8

Mycobacterium marinum Culture and Quantification

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We used the “M” strain (ATCC BAA-535) of Mycobacterium marinum. The bacteria were grown at 30°C with slow agitation in Middlebrook 7H9 broth medium (Becton Dickinson), enriched with 0.5% albumin (SIGMA), 0.5% glycerol (SIGMA), 0.4% glucose (Biopack), and 0.25% Tween 80 (SIGMA) and was used at the mid‐ to late‐log phase (OD = 1.0). The bacteria were kindly provided to us by Professor Maria I. Colombo (IHEM-CONICET, Mendoza, Argentina) (9 (link)). Cultured bacteria were washed twice with phosphate‐buffered saline (PBS) before use. For disrupting bacterial clumps, suspensions were passed 5–10 times through a 200 μL-micropipette tip and centrifuged at 1500 rpm for 1 min. To verify the bacterial dose, M. marinum suspension was diluted in serial dilutions and plated on 7H10 agar (Becton Dickinson) enriched with 0.5% albumin (Sigma), 0.5% glycerol (Sigma) and 0.4% glucose (Biopack) for counting bacterial colonies.
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9

Mycobacterium tuberculosis MIC Assay

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MIC assays were conducted using Sensititre MYCOTB MIC plates (Thermo Fisher Scientific) according to the manufacturer’s instructions. In brief, the MTB isolate was first subcultured on 7H10 Agar (Becton, Dickinson and Co., Sparks, MD). Multiple colonies were resuspended with glass beads in a saline-Tween solution, and the turbidity was adjusted to a McFarland standard of 0.5. A 100-μL volume of the resuspension was next mixed with 11 mL 7H9 broth containing oleic acid albumin-dextrose-catalase (Trek Diagnostic Systems, Cleveland, OH). A 100-μL volume of diluent was inoculated in each well of the MYCOTB plate and sealed with a permanent plastic seal at 37°C in 5% CO2. Plates were monitored on days 7, 10, 14, and 21 using a mirrored viewer. The lowest concentration with no visible growth was considered the MIC of rifampin or rifabutin.
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10

Mycobacterium tuberculosis Growth Assay

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Mtb H37Rv was grown in Middlebrook 7H9 (Becton, Dickinson and Company) liquid medium supplemented with 10% (v/v) Albumin–Dextrose Complex (ADC), 0.2% (v/v) glycerol and 0.1% (w/v) Tween 80 at 37°C with shaking or in SMM containing hygromycin with or without pristinamycin. SMM comprised of 0.3 M sucrose, 20 mM MgSO4, 0.1% Tween 80 (w/v), 10% (v/v) ADC in standard 7H9 broth. Bacterial growth was measured by absorbance at 580nm, or by colony-forming unit (CFU) counting on 7H10 agar (Becton, Dickinson and Company), or by most probable number (MPN) counting using established protocols (Loraine et al., 2016 (link)) and the MPN calculator program (Jarvis et al., 2010 (link)). Escherichia coli OverExpress™ C41(DE3) and DH5α were grown in Lysogeny broth. For protein expression, E. coli was grown to mid-log phase (OD600 0.6-0.8) at 37°C with shaking at 200 rpm before adding 0.5 mM isopropyl β-D-1-thiogalactopyranoside followed by incubation at 18°C overnight. Antibiotics were used at the following concentrations (μg/ml): pristinamycin, 0.5; kanamycin, 50; hygromycin, 50; ampicillin, 50. Wayne model of non-replicating persistence was set up as previously described (Wayne and Sramek, 1994 (link)). CFU and MPN counts were determined at 0-, 7- and 12-week time points.
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