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14 protocols using heat inactivated newborn calf serum

1

Cell Culture Conditions for Diverse Cell Lines

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A549, SK-MES-1, NCI-H1299, and 293T cells were acquired from Cobioer (Jiangsu, People's Republic of China). SK-MES-1 cells were cultured in MEM medium supplemented with 10% (v/v) heat-inactivated newborn calf serum (Thermo Fisher Scientific) with 1 ×105 U/L penicillin G and 1 ×105 U/L streptomycin in a humidified incubator at 37°C and 5% CO2. NCI-H1299, A549, and A549/control-shRNA cells were cultured in RPMI l640 medium supplemented with 10% (v/v) heat-inactivated newborn calf serum (Thermo Fisher Scientific) with 1 ×105 U/L penicillin G and 1 ×105 U/L streptomycin in a humidified incubator at 37°C and 5% CO2. 293T cells were cultured in DMEM medium supplemented with 10% (v/v) heat-inactivated newborn calf serum (Thermo Fisher Scientific) with 1 ×105 U/L penicillin G and 1 ×105 U/L streptomycin in a humidified incubator at 37°C and 5% CO2.
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2

Allelic Exchange of H. pylori Virulence Factors

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H. pylori strains J166 and PMSS1 are wild type human isolates that express the virulence factor cagA encoded within the cag pathogenicity island (cagPAI). Knockouts for cagA and cagY in these strains were constructed by an allelic exchange method as previously described [25 (link)]. All strains used for this study are listed in Table 1, along with their characteristics. Bacteria cultures were performed on brucella agar (BBL/Becton Dickinson, Sparks, MD) supplemented with 5% heat-inactivated newborn calf serum (Invitrogen, Carlsbad, CA) and TVPA antibiotics (trimethoprim, 5 mg/L; vancomycin, 10 mg/L; polymyxin B, 2.5 IU/L, amphotericin B, 2.5 mg/L (Sigma-Aldrich, St. Louis, MO). All H. pylori cultures were grown at 37°C under microaerophilic conditions of 5% O2 generated by an Anoxomat (Advanced Instruments, Norwood, MA).
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3

H. pylori Strains for In Vitro and In Vivo Studies

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H. pylori CagA+ strains, “J166” a clinical isolate of human-derived H. pylori, and “7.13” a rodent adapted strain derived from B128 H. pylori23 (link)–25 (link), were used in the in vitro studies. For the in vivo study, we used the wild-type rodent-adapted cag+ H. pylori strain PMSS1, a clinical isolate of a duodenal ulcer patient and the parental strain of the mouse-derivative Sydney strain 1 (SS1)26 (link). All H. pylori cultures were performed on brucella agar (BBL/Becton Dickinson, Sparks, MD) supplemented with 5% heat-inactivated newborn calf serum (Invitrogen) and ABPNV (amphotericin B, 20 mg/liter; bacitracin, 200 mg/liter; polymyxin B, 3.3 mg/liter; nalidixic acid, 10.7 mg/liter; vancomycin, 100 mg/liter) antibiotics (Sigma-Aldrich, St. Louis, MO). H. pylori liquid cultures for mouse inoculation were grown in brucella broth with 5% NCS and antibiotic supplementation for approximately 24 h (optical density at 600 nm 0.35 to 0.45), pelleted by centrifugation, and suspended in brucella broth.
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4

Isolation of Human Umbilical Vein Endothelial Cells

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Human umbilical vein endothelial cells (HUVECs) were isolated from umbilical cords from healthy donors obtained from the Amstelland Ziekenhuis, Amstelveen. The use of human tissue for isolation of endothelial cells was approved by the Medical Ethical Committee of the VU University Medical Center. Patients gave informed consent for the use of tissue for research purposes. The study conforms with the Declaration of Helsinki. After isolation, cells were resuspended in M199 medium (Biowhittaker/Lonza), supplemented with penicillin 100 U/mL and streptomycin 100 μg/mL (Biowhittaker/Lonza), heat‐inactivated human serum 10% (Sanquin Blood Supply, Amsterdam, The Netherlands), heat‐inactivated newborn calf serum 10% (Gibco, Grand Island, NY), crude endothelial cell growth factor 150 μg/mL (prepared from bovine brains), L‐glutamine 2 mmol/L (Biowhittaker/Lonza), and heparin 5 U/mL (Leo Pharmaceutical Products, Weesp, The Netherlands). Cells were cultured at 37 ⁰C and 5% CO2, with a change of culture medium every 2 days. Cells were cultured up to passage 2; for experiments, passage 1 to 2 cells were used.
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5

Human Astrocyte and Endothelial Cell Cultures

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Primary human astrocytes (ScienCell Research Laboratories, Carlsbad, CA) were grown to confluence in Basal Medium Eagle (Thermo Fisher Scientific, Waltham, MA) buffered to pH ranging from 7.2–7.5 with 2.2 g/L sodium bicarbonate and 15 mM HEPES (Gibco, Grand Island, New York). Media was supplemented with 2% fetal bovine serum (FBS) (R&D Systems, Minneapolis, MN), 1% penicillin-streptomycin 10,000U/mL (Gibco), and 1% astrocyte growth supplement (ScienCell Research Laboratories). Astrocytes were used at passages 3–4 for all experiments.
Primary human brain microvascular endothelial cells (Cell Systems, Kirkland, WA) were grown to confluence on tissue culture plates coated with 0.2% gelatin (Thermo Fisher Scientific) in medium 199 (M199) (Gibco) buffered to pH ranging from 7.2–7.5 with 2.2 g/L sodium bicarbonate and 15 mM HEPES (Gibco). Complete M199 media (M199C) was comprised of 20% heat-inactivated newborn calf serum (Gibco), 1% penicillin-streptomycin 10,000U/mL (Gibco), 25 mg/L heparin (Sigma, St. Louis, MO), 5% heat-inactivated human serum AB (GeminiBio, Sacramento, CA), 50 mg/L ascorbic acid (Sigma), 7.5 mg/L endothelial cell growth supplement (Sigma), 2 mM L-glutamine (Gibco), and 5 mg/L bovine brain extract (Lonza, San Diego, CA). Endothelial cells were used at passages 9–16 for all experiments.
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6

Isolation and Culture of Primary HUVECs

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Primary Human Umbilical Vein Endothelial Cells (HUVECs) were isolated from umbilical cords of healthy donors. Umbilical cords were provided by the Amstelland Ziekenhuis, Amstelveen. Informed consents were obtained from all donors in accordance with the institutional guidelines and the Declaration of Helsinki. The cells were isolated and characterized as described by Jaffe et al.33 (link). The primary HUVECs were cultured in M199 medium supplemented with: penicillin 100 U/mL and streptomycin 100 μg/mL, L-glutamine 2 mMol/L (all from Bio Whittaker/Lonza), heat-inactivated human serum 10% (Sanquin, Amsterdam, The Netherlands), heat-inactivated new-born calf serum 10% (Gibco), crude endothelial cell growth factor 150 μg/mL (locally prepared from bovine brains) and heparin 5 U/mL (Leo pharmaceutical products, Weesp, The Netherlands). Cells were cultured at 37 °C and 5% CO2, and medium was refreshed every second day. For all experiments, pools of HUVECs of 3 donors in passages 1–2 were used.
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7

Isolation and Culture of HUVECs and hMVECs

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HUVECs were purchased from Lonza (#CC-2519) and cultured on fibronectin-coated plates with Endothelial Cell Medium (ScienCell Research Laboratories). The medium was refreshed every second day. The cells were cultured at 37 °C in 5% CO2 and used for experiments until passage 5.
Primary hMVECs were isolated from the foreskin of healthy donors. Informed consents were obtained from all donors in accordance with the institutional guidelines and the Declaration of Helsinki. The cells were isolated as described before (56 (link)). The primary hMVECs were cultured in M199 medium supplemented with 100 U/ml penicillin and 100 μg/ml streptomycin, 2 mM L-glutamine (all Bio Whittaker/Lonza), 10% heat-inactivated human serum (Invitrogen), 10% heat-inactivated new-born calf serum (Gibco), 150 μg/ml crude endothelial cell growth factor (prepared from bovine brains), and 5 U/ml heparin (Leo pharmaceutical products). The cells were cultured at 37 °C in 5% CO2, and medium was refreshed every second day. For experiments, cells from single donors or pools of three donors in passages 5 to 6 were used.
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8

Activation of PBMC from SHIV-Infected Macaques

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PBMC were isolated from SHIV89.6-infected and healthy macaques by Ficoll-hypaque centrifugation (GE Healthcare Life Sciences, Pittsburgh, PA, USA) and maintained in RPMI-1640 medium supplemented with 10% heat-inactivated newborn calf serum (Gibco, Shanghai, China). Prior to use, cells were activated by incubating PBMC in complete medium with 10 µg/mL concanavalin A (Con A) and 50 U/mL recombinant IL-2. Cells were kept at 37 °C for 72 h in a humidified incubator with 5% CO2 for activation.
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9

Cell Culture Conditions for PK-15 Cells

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The cell line PK-15 free of PCV1 contamination was used. The cells were cultured at 37 °C and 5% CO2 in Dulbecco’s minimal essential medium (HyClone, South Logan, UT, USA) supplemented with 10% (0.1 g/ml) heat-inactivated newborn calf serum (Gibco, Grand Island, NY, USA), 1% (0.01 g/ml) L-glutamine, 1% (0.01 g/ml) non-essential amino acids, 100 U/ml penicillin G, and 100 μg/ml streptomycin.
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10

Filamentation Assays for Fungal Strains

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For all liquid filamentation assays, saturated overnight cultures were diluted to an optical density at 600 nm (OD600) of 0.1 in the indicated media. Heat-inactivated newborn calf serum (catalog no. 26010074; Gibco) was used at 10% in RPMI 1640 medium with l-glutamine and sodium bicarbonate (catalog no. R8758; Sigma) with 5% CO2. For N-acetylglucosamine (GlcNAc), 5 mM was prepared in YNB medium (1× YNB, 2% Casamino Acids, 1× uridine, and 0.2% glucose). Spider medium and Lee’s medium were prepared as previously described (5 (link)). For all liquid media, strains were grown under shaking conditions. Filamentation was assessed at 5 h under all conditions. For solid cues, saturated overnight cultures were diluted 10-fold in water, and 5 μL was spotted onto the appropriate agar plates. Filamentation was assessed at 72 h. All strains were grown at 37°C except for the elevated temperature cue for which strains were grown in YPD medium at 39°C. Cell morphology for liquid conditions was captured using differential interference contrast (DIC) microscopy on a Zeiss Axio Imager.M1 (Carl Zeiss). Colony morphology for solid conditions was captured using a Bio-Rad ChemiDoc imaging system. Images are representative of two biological replicates.
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