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17 protocols using humidified incubator

1

Nasal Slice Culture and LPS/Cineol Treatment

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Specimens obtained during surgery were directly placed on ice in Dulbecco modified Eagle medium (PAA, Pasching, Austria) supplemented with penicillin and streptomycin. For tissue culture, specimens were sliced (200μm thickness) using McIlwain tissue chopper (Ted Pella, Inc., Redding, CA) before being transferred to culture plate inserts comprising a 0.4 μm nitrocellulose membrane (Millipore/Greiner, Billerica, MA, USA). Slice-containing membranes were placed at the interface of air and B-ALI differentiation medium (Lonza, Basel, Switzerland) within respective cell culture well-plates (TPP Techno Plastic Products, Trasadingen, Austria) and DMEM High Glucose (Biochrom, Berlin, Germany) followed by culture in a humidified incubator (Binder, Tuttlingen, Germany) at 37°C and 5% CO2. Nasal slices were cultured for up to 4 weeks and fed every two days by replacing the medium with fresh B-ALI differentiation medium.
Human nasal slices cultivated for 7 days were treated with LPS (100 ng/ml, rough strains from Salmonella enterica Re 595, cat. no. L9764, Sigma-Adrich St. Louis, MO, USA) or LPS and 1,8-Cineol (10−5 M, Klosterfrau Healthcare Group, Cassella-med GmbH & Co. KG, Cologne, Germany as described in [24 (link)] for 60 minutes followed by respective stainings or real time PCR.
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2

Routine Cell Culture of HEK293 and NIH3T3 Cells

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Human embryonic kidney (HEK293; female; RRID: CVCL_0045) and NIH3T3 (male; RRID: CRL-1658) cells were obtained from DSMZ (Braunschweig, Germany) and ATCC (American Type Culture Collection), respectively. HEK293 and NIH3T3 cells were cultivated in DMEM culture medium (DMEM supplemented with 10% Fetal Bovine Serum (FBS), 1% penicillin/streptomycin, 4 mM L-glutamine) in a humidified incubator (BINDER) at 37°C and 5% CO2. To maintain a confluency of 70–90%, cells were split at a 1:7 to 1:10 ratio every 2 to 3 days. For this, the cells were washed with PBS (without CaCl2 and MgCl2), followed by addition of trypsin-EDTA solution (Sigma) and incubation at 37°C until cells detached. Afterward, cells were resuspended using culture medium and split in the desired ratio. For storage, cells were harvested at 300 g for 5 min, resuspended in freezing medium (90% FBS, 10% DMSO) and gradually frozen to −80°C. Cells were routinely checked for mycoplasma contamination by PCR.53
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3

Culturing MCF-7 Breast Cancer Cells

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The human breast cancer cell line MCF-7 (NCBI code: C135) was obtained from the Iranian National Cell Bank and used in this study as a model of breast cancer. The cells were cultured in RPMI 1640 medium (Biowest, USA) supplemented with 10% heat-inactivated fetal bovine serum (Biowest, USA), 100 IU/mL penicillin (Biowest, USA), and 100 μg/mL streptomycin (Biowest, USA). The cells were incubated at 37°C in a humidified incubator containing 5% CO2 (Binder, Germany).
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4

Culturing Murine Myelocytic and Fibroblast Cells

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Murine myelocytic leukemia (WEHI-3B) and murine fibroblast (3T3) cell lines were purchased from the American Type Culture Collection (ATCC) (Manassas, VA, USA). Cells were maintained in complete RPMI-1640 medium supplemented with 10% FBS and 1% antibiotic-antimycotic in 75 cm2 culture flasks (TPP, Trasadingen, Switzerland) at 37°C and 5% CO2 in a humidified incubator (Binder, Tuttlingen, Germany).
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5

Culturing Murine Myelocytic Leukemia Cells

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The murine myelocytic leukemia cell line (WEHI-3B) was purchased from American Type Culture Collection (ATCC) (Manassas, VA, USA). The cells were maintained in a complete growing RPMI-1640 (Sigma-Aldrich, St Louis, MO, USA) medium, supplemented with 10% fetal bovine serum (FBS) (PAA, Linz, Austria), and 1% antibiotic-antimycotic (Thermo Fisher Scientific, Waltham, MA, USA) in 75 cm2 culture flasks (TPP, Trasadingen, Switzerland) at 37°C and 5% CO2 in a humidified incubator (Binder, Tuttingen, Germany).
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6

Culturing Human Umbilical Endothelial Cells

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Normal Human Umbilical Endothelial Cells (HUV-EC) (ATCC, USA) were seeded in DMEM medium (UFC, KSA), supplemented with 10% and 1% of fetal bovine serum (Gibco, USA) and Antibiotic-Antimycotic solution (UFC, KSA), respectively. Plates were incubated at 37˚C with 5% CO2 in a humidified incubator (BINDER, Germany).
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7

Colorectal Cancer Cell Line Panel

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All cell lines were purchased from the American Type Culture Collection (ATCC). A panel of human CRC cell lines was used, where each cell line represented a different CRC stage, as well as a normal colon epithelial cell line. CCD-841CoN (cat. no. CRL-1790) was used as the normal colon epithelial cell line, and SW480 (cat. no. CCL-228; Dukes' B), HCT15 (cat. no. CCL-225; Dukes' C) and HCT116 (cat. no. CCL-247; Dukes' D) were used as the CRC cell lines. These CRC stages were classified according to the tumor stage following Dukes' classification criteria by the ATCC and previous studies (22 (link),23 (link)). All cells were cultured in Dulbecco's modified Eagle's medium (high glucose; Nacalai Tesque, Inc.) supplemented with 10% fetal bovine serum (FBS; Gibco; Thermo Fisher Scientific, Inc.) and 1% penicillin-streptomycin (MilliporeSigma). The cells were incubated at 37˚C in a humidified incubator (BINDER GmbH) with 5% CO2.
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8

Transient Transfection of Human Cells

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Human cells were seeded onto a two-well chamber slide (Sanbio, Uden, The Netherlands) at a density of 5.0 × 104 cells/ml. The next day, cells were transiently transfected with plasmid DNA using X-tremeGENE DNA Transfection Reagent (Roche Applied Science, Woerden, The Netherlands), according to the manufacturer’s protocols. After incubating at 37°C and 5% CO2 in a humidified incubator (Binder, Tuttlingen, Germany), the human cells were washed with prewarmed HBSS (TFS, Bleiswijk, The Netherlands) and fixed with 4% paraformaldehyde (Sigma-Aldrich, Zwijndrecht, The Netherlands) for immunocytochemistry and microscopy, as described previously (44 (link)).
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9

Immunocytochemistry of DNA Damage

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Cells were seeded onto two-well chamber slides (Greiner Bio-One, Alphen aan den Rijn) at a density of 1.5 × 105 cells per well and incubated overnight at 37°C with 5% CO2 in a humidified incubator (Binder, Tuttlingen, Germany). Cells were exposed to NCTC11168, GB11, their derived genetic variants, or C. jejuni bacteria lacking CDT (cdt-). After overnight incubation at 37°C with 5% CO2 in a humidified air incubator (Binder, Tuttlingen, Germany), human cells were washed three times with prewarmed HBSS (TFS) at 37°C and fixed with 4% paraformaldehyde (Sigma-Aldrich, Zwijndrecht, The Netherlands). Fixed cells were prepared for γ-H2AX or 53BP1 immunocytochemistry (see below) and/or (fluorescence) microscopy analyses, as described earlier (44 (link)).
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10

Ex Ovo Culture of Japanese Quail Embryos

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Fertilized Japanese quail (Coturnix japonica) eggs (n = 200) were incubated in a forced draught incubator without egg rotation at 37 °C and humidity 50–60%. To prepare ex ovo culture, on embryonic day (ED) 3 the surface of the egg was disinfected with 70% ethanol, carefully opened under sterile conditions and the total volume of the egg was transferred into a six-well tissue culture plate (TPP, Switzerland). The embryos were kept in a humidified incubator (Binder, USA) at 37 °C and 90% humidity until ED7. Out of 170 transferred embryos, 135 survived and were used for treatment.
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