2.1. Reagents, Chemicals and Kits
Sodium butyrate (purity > 98%) was purchased from Shanghai Aladdin Biochemical Technology Co., Ltd. (Shanghai, China). 100 mM stock solution of butyrate was prepared, filtered with a 0.22um filter membrane and stored at -20°C. The primary antibodies for glyceraldehyde-3-phosphate dehydrogenase (GAPDH, AB-P-R001) and caspase 3 (AC0301) were from Hangzhou Goodhere Biotechnology co., LTD and Beyotime Biotechnology (Shanghai, China), respectively. The primary antibodies for cleaved-caspase 3 (9661S), caspase 9 (#9508) and BCL-2 associated X (BAX, 2772) were all purchased from Cell Signaling Technology, Inc. (Shanghai, China). And that for Caspase 8 (ET1612-70), Caspase 12 (HA500144), CytC (R1510-41), apoptotic protease activating factor 1 (Apaf-1, R1312-20) and B-cell lymphoma 2 (BCL-2, ER1706-47) were obtained from Hangzhou HuaAn Biochemical Technology Co., Ltd. (Hangzhou, China). PARP /cleaved-PARP (WL01932) was from Wanlei Biotechnology Co., Ltd (Shenyang, China). The NAD+/NADH Assay Kit (S0175) was purchased from Beyotime Biotechnology Co., Ltd (Shanghai, China). These primary antibodies were diluted 1:1000 and stored at 4°C. The secondary antibodies were used at a concentration of 1:5000 and purchased from Proteintech Group, Inc. (Wuhan, China).
2.2. Cell Culture
Human CC cell line Hela and Caski were from the American Type Culture Collection (ATCC, Rockville, USA). Hela and Caski cell lines were cultured in Dulbecco's Modified Eagle’s Medium (DMEM) and Roswell Park Memorial Institute (RPMI) 1640, respectively, with 10% fetal bovine serum (FBS) and incubated at 37°C with 5% CO2.
2.3. CCK-8 Proliferation Assay
Cell proliferation was evaluated with a cell counting kit (CCK-8, CK04, Dojindo, Shanghai, China). 3000 cells were added in 96-well plates and cultured for 24h. Cells were then incubated with 5 mM butyrate for 12, 24, 48 and 72h. One hundred microliters of 10% CCK-8 solution were added to each microwell and the microplates were further incubated for 2h. The supernatant was harvested and the absorbance was measured at 450nm.
2.4. EdU Staining Test
Cell-Light EdU Apollo567 In Vitro Kit (C10310-1, Ribobio, Guangzhou, China) was obtained for DNA replication of cancer cells. Monolayers of Hela and Caski cells pre-grown in 12-well microplates were incubated for 24h and then treated with 5mM butyrate for 48h, followed by EdU labeling, cell immobilization, Apollo staining and DNA staining. The red fluorescence intensities were imaged using a fluorescence microscope (Leica Biosystems, Shanghai, China).
2.5. Flow Cytometry for Apoptosis and Cell Cycle Analysis
FITC Annexin V Apoptosis Detection Kit (556547, Becton Dickinson, Shanghai, China) was employed to detect the apoptosis and cell cycle of CC cells. Human CC cells were seeded into 6-well plates and treated with 5mM butyrate for 48h. Cells for apoptosis detection were collected after centrifugation and resuspended in 500µL binding buffer with 5µL of Annexin V and 5µL of propidium iodide (PI), and incubated in dark for 15 min under room temperature. But for cell cycle assay, collected cells were fixed with 75% ethanol overnight and then stained with PI. Flow cytometer (Becton Dickinson, Shanghai, China) was used for apoptosis and cell cycle analysis.
2.6. Wound Healing Assay
Hela and Caski cells were seeded into 6-well plates and grown to ~ 100%. A scratch perpendicular to the same place of each well was made by a pipette tip. 2% FBS culture medium containing 5mM butyrate or not were added, incubated at 37°C, 5% CO2 and imaged at 0, 12, 24, 48h using a light microscope.
2.7. Transwell Assay
200µL of basement membrane (Corning Life Science, Shanghai, China) diluted with phosphate buffer saline (PBS) were added in the upper chambers and incubated at 37°C, 5% CO2 for 2h to throw unnecessary PBS out. Upper chambers for migration did not need any treatment. Hela and Caski cells were collected and resuspended with serum-free medium, and then inoculated in the upper chambers. The lower chambers were filled with culture medium with 10% FBS. The chambers of Hela and Caski cells were incubated at 37°C, 5% CO2 for 8h and 17h, respectively, then fixed with 4% formalin for 30 min, 0.1% crystal violet stained for 15 min and finally observed under a light microscope.
2.8. Western Blot Analysis
CC cells were seeded in 6-well plates and collected after butyrate treatment for 48h. RIPA lysis buffer (Beyotime Biotechnology, Shanghai, China) and protease inhibitor PMSF (ThermoFisher, Shanghai, China) were used for protein extraction. Concentrations of extracted proteins were determined by BCA assay kits (Beyotime Biotechnology, Shanghai, China). Equal amounts of Protein were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred to polyvinylidene fluoride (PVDF) membranes (Bio-Rad Laboratories, Inc. Shanghai, China). The membrane was blocked with 5% skim milk at room temperature for 1.5h and then incubated with primary antibodies overnight at 4°C on a shaker. The membranes were washed three times with Tris buffered saline with Tween (TBST), and incubated with the secondary antibody for 2h at room temperature. The band was scanned using an Amersham Image 680 imaging system and quantified by densitometry using Image J software (National Institutes of Health, Bethesda, MD, USA). The relative expressions of proteins were calculated by using GAPDH as an internal control.
2.9. TUNEL Apoptosis Analysis
TUNEL apoptosis assay kit (40307ES20, Yeasen Biotechnology Co, Ltd. Shanghai, China) was used to examine apoptosis of human CC cells. Human CC cells were seeded in 12-well plates containing climbing sheets for 24 hours. The experimental group was exposed to 5mM butyrate for 48h and then washed three times with PBS. Treated cells were fixed with 4% paraformaldehyde for 30 min, resuspended in PBS with 0.3% Triton X-100 and incubated at room temperature for 5 min. TUNEL solution (50µL) was added to the sample, followed by incubation at 37°C for 60 min in the dark. Antifading mounting medium (with DAPI, Solarbio Science & Technology Co., LTD. Beijing, China) was used for sealing and the stained CC cells were examined with a fluorescence microscope (Leica Biosystems, Shanghai, China).
2.10. ROS Production Assay
Mitochondrial reactive oxygen species (ROS) were qualitatively determined by a superoxide fluorescent probe (40778ES50, Yeasen Biotechnology Co, Ltd. Shanghai, China). Hela cells were cultured in 12-well plates containing climbing sheets for 24h. The experimental group was treated with 5mM butyrate for 48h, followed by three times of washing with PBS. ROS working solution (5uM) was added and the plates were further incubated at 37°C in the dark for 10 min. The sealed samples were examined with the Leica Biosystems fluorescence microscope.
Flow cytometry was also employed for qualitative detection of ROS. Hela cells were seeded in 6-well plates and treated with 5mM butyrate for 48h. After treatment, 5uM ROS working solution was added and incubated in dark for 10 min at 37°C. The ROS expression were detected by Becton Dickinson Flow cytometer.
2.11. CytC Expression Assay
Hela cells were seeded in 12-well plates containing climbing sheets and exposed to 5mM butyrate for 48h. After PBS wash three times, the cells were fixed with 4% paraformaldehyde for 15 min, rewashed in PBS, treated with 0.1% Triton X-100 for 5 min, blocked with 1% bovine serum albumin for 30 min and incubated with CytC primary antibodies (1:500) overnight in the dark at 4°C. Treated cells were then washed with PBS and incubated with the secondary antibody (ThermoFisher, Shanghai, China) for 2h in the dark at room temperature. Fluorescence microscope were used for the sample detection.
2.12. Real-time q-PCR
Gene expression of mitochondrial complex Ι-related was determined by real-time q-PCR (RT-qPCR). Total RNA was extracted from Hela cells, GAPDH was used as an internal control. Fold-changes were calculated by the 2−∆∆Ct method (Primer information is shown in Supplementary table ).
2.13. Sample preparation of targeted metabolomics of energy
Hela cells were seeded in 10cm dishes and exposed to 5mM butyrate for 48h. Cells were grown to approximately 90% confluency and then harvested. After cold PBS and cold normal saline wash three times, cells were dissolved in 1ml cold 4/4/2 (v/v/v) methanol/acetonitrile/water. Then all cell samples were collected in 1.5ml centrifuge tubes stored in − 80°C refrigerator after liquid nitrogen quick freezing. Samples were separated by Agilent 1,290 Infinity UPLC system in Shanghai Applied Protein Technology Co.,Ltd. (Shanghai, China). Data were acquired using QTRAP5500 (ABSCIEX) mass spectrometry in negative ionization mode. Extraction of chromatographic peak area and retention time by Multiquanta software. Retention time corrected by energy metabolite standard.
2.14. Levels of mitochondrial NADH and NAD + Assay
NADH and NAD + concentrations were quantitatively determined by NAD+/NADH Assay Kit (Beyotime Biotechnology, Shanghai, China). Hela cells were seeded in 6-well plates and treated with butyrate or rotenone for 48h. Cells were washed two times with PBS, added to NADH and NAD + extract to lysis cell. Then centrifugated 1,2000g for 5min at 4°C to obtain cell suspension. Drew standard curve and measured the absorbance samples of at 450nm.
2.15. Flow Cytometry for Mitochondrial Membrane Potential Analysis
Mitochondrial membrane potential was detected by JC-1 fluorescent dye (Nanjing Jiancheng Bioengineering institute, Nanjing, China). Hela cells were seeded in 6-well plates and treated with butyrate for 48h. Collect cells in 1.5ml centrifuge tube and wash cells twice with PBS, prepare JC-1 working solution to suspend the cells. Then cells were incubated at 37°C, 5% CO2 for 20min, rewashed in 1X incubation Buffer, resuspended with 1×Incubation Buffer. Detection of apoptosis was by flow cytometry. Green fluorescence was detected through FITC channel, and red fluorescence was detected through PE channel.
2.16. Rotenone IC50 Assay
Detected the tolerance of Hela cells to rotenone concentration with a cell counting kit (CCK-8, CK04, Dojindo, Shanghai, China). 3000 cells were added in 96-well plates and cultured for 24h. Cells were then incubated with 0.1uM, 0.25uM, 0.5uM, 0.75uM, 1uM, 2uM rotenone for 48h. One hundred microliters of 10% CCK-8 solution were added to each microwell and the microplates were further incubated for 2h. The supernatant was harvested and the absorbance was measured at 450nm.
2.17. Statistical Analysis
Data were displayed as mean ± standard deviation (SD). Differences between two groups were evaluated using Two-sided unpaired Student’s t-test, with a P-value less than 0.05 considered statistically significant.