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14 protocols using caki 1

1

Establishing Stable Cell Lines for Luciferase Imaging

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HK-2, ACHN, and 7860 cell lines were purchased from American Type Culture Collection (Manassas, VA, USA). Caki-1, RenCa, and 293T cell lines were purchased from Korean Cell Line Bank (Seoul, Korea). HK-2 cells were cultured in Keratinocyte SFM medium (GIBCO, Carlsbad, CA, USA). Caki-1, ACHN, 786O, and RenCa cells were cultured in MEM (WELGENE, Gyeongsan-si, Korea), and 293T cells for lentiviral packaging were cultured in DMEM (WELGENE, Gyeongsan-si, Korea) supplemented with 10% fetal bovine serum at 37 °C under 5% CO2. For gene silencing, control and PDLIM2 shRNA-expressing lentivirus infected and stable cell lines were established as previously described [15 (link)]. The oligonucleotide sequences for the PDLIM2 shRNA are listed in Supplementary Table S1. The FUGW-luc vector was obtained from the Molecular Imaging and Neurovascular Research Laboratory, Dongguk University Ilsan Hospital, Goyang, Republic of Korea; FUGW-luciferase-expressing cells were produced as follows. The FUGW-luc vector was cut using the XhoI enzyme and transfected into the RenCa cell line (RenCa-GFP). The cells incorporated with FUGW-luc were sorted with the GFP channel in BD FACSAria II (BD Biosciences, Franklin Lakes, NJ, USA).
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2

Culturing Human Renal Cell Carcinoma Lines

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The human RCC cell lines Caki-1, A498, and ACHN were purchased from the Korean Cell Line Bank (KCLB, Seoul, Korea). Each cell line was maintained in RPMI-1640 or DMEM (Sigma–Aldrich, St. Louis, MO, USA) containing 10% fetal bovine serum (FBS; Sigma–Aldrich) and 1% antibiotic–antimycotic (ThermoFisher Scientific, Waltham, MA, USA). All cells were cultured in an incubator designed to maintain a temperature of 37 °C and high humidity for the growth of tissue culture cells in a 5% CO2 atmosphere.
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3

Human Renal Cancer Cell Culture

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In this study, we used two human CCRCC cell lines. Caki-1 and Caki-2 cells were purchased from the Korean Cell Line Bank (KCLB, Seoul, Korea). The Caki-1 and Caki-2 cells were cultured in DMEM medium with 10% fetal bovine serum (Gibco BRL, Gaithersburg, MD) and streptomycin and penicillin (100 U/ml) in 5% CO2 and 37°C.
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4

Comprehensive Cell Line Characterization

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HUVEC-C, 143B, A-549, HeLa, U2OS, and 4T1 cell lines were purchased from the American Type Culture Collection (ATCC, Manassas, VA, USA). Caki-1, DU145, HT-29, HCT 116, MCF-7, NCI-H23, NCI-H522, NCI-H460, PC-3, SK-MEL-2, SK-MEL-5, SK-MEL-28, U-87MG, CT-26, and RenCa were obtained from the Korean Cell Line Bank (KCLB, Seoul, Korea). The cells were maintained with ATCC and KCLB recommended media, respectively, and supplemented with 10% fetal bovine serum (FBS). The Wyeth-calf adapted strain VACV (VR-1536, New York City Department of Health Laboratories) was purchased from the ATCC, amplified in HeLa cells, and quantified while using a VACV titration protocol [40 (link)]. In this study, all of the incubation and infection steps were performed at 37 °C in 5% CO2, and all chemicals were purchased from Sigma-Aldrich (Merck KGaA, Darmstadt, Germany), unless otherwise specified.
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5

Renal Cancer Cell Viability Assay

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Renal cancer cell lines (Caki-1, Caki-2, A498) were obtained from the Korean Cell Line Bank (Seoul, Korea) and American Type Culture Collection (Manassas, VA, USA), and cultured in McCoy’s 5A and RPMI1640 supplemented with 10% fetal bovine serum. VHL-null RCC4 cell lines were kind gift from Dr. Jong-Wan Park [38 (link)], and cultured in Dulbecco’s modified Eagle’s medium (DMEM) supplemented with 10% fetal bovine serum. Cells were incubated in a humidified atmosphere at 37 °C under normoxia (20% O2 and 5% CO2) or hypoxia (1% O2 and 5% CO2). Cell viability assay was performed using crystal violet staining [39 (link)]. Briefly, cells were cultured in 24-well tissue culture dishes with or without drug treatment. After incubation with drugs, washed cells were fixed using 4% paraformaldehyde, and then stained with 0.5% crystal violet solution for 20 min at room temperature. Optical density of crystal violet was analyzed using 1% SDS solution and measured by an absorbance reader (BioTek, Winooski, VT, USA) (OD570).
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6

Culturing Human Renal Cell Carcinoma Lines

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The human RCC cell lines used in this study, ACHN, A498, A704, Caki-1, Caki-2, SN12C, SNU-1272, and SNU4600, were purchased from the Korean Cell Line Bank (Seoul, Korea). ACHN, A498, A704, Caki-1, Caki-2, and SN12C cell lines were cultured in Dulbecco’s modified Eagle medium supplemented with 10% heat-inactivated fetal bovine serum (FBS; Gibco, Waltham, MA, USA) and 10 µg/ml gentamicin (Gibco). SNU-1272 and SNU-4600 cell lines were cultured in RPMI 1640 medium supplemented with 10% heat-inactivated FBS and 10 µg/ml gentamicin.
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7

Cultivation of Kidney Cancer Cell Lines

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The ACHN, SN12C, Caki-1, and Caki-2 cell lines were obtained from the Korean Cell Line Bank (Seoul, Korea) and American Type Culture Collection (ATCC, Manassas, VA, USA). All kidney cancer cells were grown in Dulbecco's modified Eagle's medium (DMEM) (Hyclone, Logan, UT, USA) supplemented with penicillin (100 U/mL), streptomycin (100 mg/mL), and 10% fetal bovine serum (FBS) and incubated at 37℃ in a humidified atmosphere containing 5% (v/v) CO2.
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8

Silencing MYOF in Caki-1 Metastatic Cells

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The CCRCC cell line Caki-1 (a metastatic cell line) was purchased from the Korean Cell Line Bank (Seoul, South Korea). Caki-1 cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM, Gibco, #11995-065) supplemented with 10% fetal bovine serum (FBS, Gibco, #26140-079) and 1% penicillin-streptomycin (Corning, #30-002-CI) and incubated at 37 °C in an atmosphere containing 5% CO2. Caki-1 cells were cultured to 70–80% confluence in 60-mm dishes. The cells were transfected using Lipofectamine 3000 (Invitrogen, #L3000015) with human MYOF siRNAs (siMYOF, Bioneer, #1052366) or negative control scrambled siRNAs (Bioneer, #SN-1002) at a final concentration of 50 nM. After 24 hours of incubation, the cells were retransfected using the same protocol as described above. The cells were incubated for 72 hours before harvesting.
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9

Culturing Diverse Renal Cell Carcinoma Lines

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The human RCC cell lines Caki-1, Caki-2, 786-O, A498, and ACHN were purchased from Korean Cell Line Bank (Seoul, Republic of Korea). The immortalized human chRCC cell line UOK-276 was kindly provided by Dr. W. Marston Linehan (National Cancer Institute, Bethesda, MD, USA). Cell lines were cultured in RPMI-1640 or DMEM (Sigma-Aldrich, St. Louis, MO, USA) containing 10% fetal bovine serum (FBS; Sigma-Aldrich) and 1% antibiotic-antimycotic (Thermo-Fisher Scientific, Waltham, MA, USA). All cells were maintained in an incubator designed to maintain a 5% CO2 atmosphere, constant temperature, and humidity suitable for cell growth.
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10

Investigating AMPK/SMAD2 Signaling in ccRCC

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A human ccRCC cell line, Caki-1, was obtained from the Korean Cell Line Bank (KCLB, Seoul, Republic of Korea) and was cultured in Dulbecco’s Modified Eagle’s Medium (DMEM) supplemented with 10% fetal bovine serum in a 5% CO2 humidified incubator. To evaluate the AMPK/SMAD2 signaling pathway, we used the AMPK activator, AICAR (Sigma, St. Louis, MO, USA). Caki-1 cells were treated with 1 mM AICAR for 6 hours, and then, the cells were harvested for Western blot analysis. Cell lysates were electrophoretically resolved on a 10% polyacrylamide gel in a sodium dodecyl sulfate buffer and then transferred onto nitrocellulose membranes. Afterward, the blots were incubated with antibodies against pAMPKT172 (Cat. #2535, Cell Signaling Technology) and pSMAD2S465/467 (Cat. #3108; Cell Signaling Technology). These experiments were conducted in triplicate and are presented as the mean ± standard deviation.
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