Cell culture and reagents
The NSCLC cells lines (A549, and H1299) and human normal lung epithelial cells BEAS-2B purchased from KeyGen BioTECH (Nanjing, China) were incubated in RPMI-1640 medium (KeyGEN BioTECH, NanJing, China) contains 10% fetal bovine serum (FBS; WISENT corporation, Wisent, Canada), as well as 1% penicillin (WISENT) and 1% streptomycin (WISENT). The cells were incubated in Heracell 150i Incubator (Thermo Fisher Scientific, Waltham, MA, USA) at 37°C in a 5% CO2 atmosphere. Trypin was purchased from WISENT. Neferine (Nef, C38H44N2O6, Molecular weight: 624.8, Purity> 95%), obtained from Nanjing University of Chinese Medicine (Nanjing, China), and the molecular structure were shown in Figure 1A. Nef were dissolved in dimethyl sulfoxide (DMSO) to produce 10 mM stock solution and stored at -80°C. The primary antibodies including B-cell lymphoma-2 (BCL2) (#48496), BCL2 associated X protein (BAX) (#29057), ROCK1 (#48890), GAPDH (#21612), E-cadherin (#40860), N-cadherin (#48495), Vimentin (#41531) were purchased from Signalway Antibody (MD, USA), and the HRP-conjugated Goat anti-Rabbit (#S0001) were purchased from Affinity Biosciences (Cincinnati, OH, USA). All antibodies were used in accordance with the instructions. Recombinant human transforming growth factor-β1 (TGF-β1) was purchased from STEMCELL Technologies (Vancouver, BC, Canada).
In vivo assay
The BALB/c mice (male, 6 weeks old, weighing 18~22 g) (Gempharmatech, Jiangsu, China) were engrafted in the right legs of the mice with A549 cellsor TGF-β1-treated A549 cells (5×106 cells) in PBS. The mice were divided into six groups as shown in Figures. The mice were received Nef intraperitoneally for everyday for three weeks. The tumor volumn (V=1/2×L×D2, mm3) and mice weight (g) were measured. Animal experiments were approved by the Review Board of Nanjing University of Chinese Medicine (Ethics number: 202011A002).
Cell transfection
Scrambled siRNA and ROCK1 siRNA were designed and synthesized by GenePharma (Shanghai, China). For cell transfection, the cells were transfected with 2.5 µg plasmid or 50 nM siRNA using Lipofectamine 2000 (Thermo Fisher Scientific) according to the manufacturer's protocol. After transfection for 48 h, the cells were collected and used for the subsequent experiments.The primers of ROCK1 siRNA were as follows: F:CCAGUUGUACCCGAUUUAATT; R:UUAAAUCGGGUACAACUGGTT
Cell apoptosis
The cells were collected and labeled with Annexin V and PI according to the protocols of Annexin V/PI Cell Apoptosis Detection Kit (Vazyme biotec, Nanjing, China). The fluorescence was detected by BectoneDickinson FACS Calibur flow cytometry (NJ, USA) and the data analysis was performed by Flowjo software (Tree Star, Ashland, OR, USA).
Reactive oxygen species (ROS) detection
The cells after drug treatment were harvested and stained with DCFH-DA (10 mM, diluted in serum-free medium; Beyotime Biotechnology, Shanghai, China) for 20 min at 37°C. Then cells were washed with phosphate-buffered saline (PBS) for 3 times. Finally, the cells were resuspended in PBS and detected by fluorescence microscope (Lecia, Wetzlar, Germany).
Cell viability
The cell viability was determined by CCK8 Cell Counting Kit (Vazyme biotec). The cells growth in 96-well plate were treated for 0, 4, 6, 10, 20, 40 and 80 μM of Nef for 24 or 48 h and then incubated with 100 μL of CCK8 solution for 30 min at 37°C in a 5% CO2 atmosphere. The optical density (OD) was detected by VICTOR Multilabel Plate Reader (PerkinElmer, Hopkinton, USA). The cell viability was calculated as follows: Cell viability (%) = (ODtest-ODblank)/(ODcontrol-ODblank)×100%.
Western blot
The total protein was extracted from the cells treated with Nef using RIPA Buffer (Beyotime Biotechnology) and the concentration of protein were determined by BCA Protein Assay Reagent (Thermo Fisher Scientific). Protein samples (40 μg each) were loaded, separated by SDS-PAGE gels and transferred to PVDF membrane (Bio-Rad Laboratories, Hercules, USA) followed by western blot analysis. Immunodetection was performed using a WesternBright ECL (Advansta, Bering Drive San Jose, CA, USA). Detection was performed with ChemiDoc XRS+ System (Bio-Rad) and captured by Image Lab software (Bio-Rad). The bands were quantified by Image J software (National Institutes of Health, Bethesda, MD, USA). The blots were representative of triple independent experiments.
Immunofluorescent assay
The cells after treatment were washed by PBS and then fixed by 4% paraformaldehyde for 30 min. The cells were permeabilized in 0.3% Triton X-100 for 30 min. After blocking with 3% BSA and incubating with primary antibodies, the cells were followed by incubation with a secondary antibody conjugated to Alexa Fluor (Bio-Rad) for 1 h and DAPI (Bio-Rad). The cell images were captured with a confocal laser scanning microscope (Leica).
Real-time quantitative polymerase chain reaction (qRT-qPCR) analysis
Total RNA was extracted from tissue samples and cells using RNA Easy Fast Tissue/Cell Kit (TIANGEN BIOTECH, Beijing, China) according to manufacturer's instructions. RNA was reversely-transcribed into cDNA using the FastKing gDNA Dispelling RT SuperMix Kit (TIANGEN BIOTECH). qPCR was performed using iTaq™ Universal SYBR® Green (Bio-chain, Shanghai, China) and CFX Connect™ Real-Time PCR Detection System (Bio-Rad). The thermocycling conditions were as follows: 40 cycles at 95°C for 30 sec (denaturation), 60°C for 10 s (annealing), and 72°C for 30 s (extension). GAPDH was served as an internal control. Relative gene expression was quantified using 2−ΔΔCt method. The primers were as follows:
GAPDH (5’-3’) F: GGAGCGAGATCCCTCCAAAAT; R: GGCTGTTGTCATACTTCTCATGG
ROCK1 (5’-3’) F: AACATGCTGCTGGATAAATCTGG; R: TGTATCACATCGTACCATGCCT
E-cadherin (5’-3’) F: ATTTTCCCTCGACACCCGAT; R: TCCCAGGCGTAGACCAAGA
N-cadherin (5’-3’) F: TCAGGCTGTGGACATAGAAACC; R: GCTGTAAACGACTCTGGCACT
Vimentin (5’-3’) F: AGTCCACTGAGTACCGGAGAC; R: CATTTCACGCATCTGGCGTTC
Transwell assay
For cell migration assay, after Nef treatment, the 200 µL cells were suspended by serum-free medium in 1×106/mL and loaded into the upper chamber of transwell, while 600 µL supplemented with 10% FBS was added to the lower chamber. Following incubation for 24 h, the cells in the upper chamber were removed by a cotton swab and the cells in the lower chamber were fixed by 4% paraformaldehyde and then stained with 0.1% crystal violet for 15 min at room temperature. For cell invasion assay, transwell chambers with 8-µm pore sizes (Millipore-Sigma, Boston, MA, USA) were coated with 50 µl Matrigel (BD Biosciences, Franklin Lakes, NJ, USA) and incubated at 37°C. Finally, the cells were counted and photographed under an inverted microscope (Leica). The migration and invasion ratio were calculated by Image J software.
Wound healing test
The cells were plated in 6-well plate and cultured until 90% confluence. A 10 μL pipette tip was utilized to scratch a line wound. The cells were washed by PBS for 2 times softly. The cells were treated with 0, 4, 6 and 10 μM Nef with serum-free medium for 24 h. The line wound was imaged at 0 and 24 h of culture under an inverted microscope. The line wound area was calculated by Image J software and as follows: Wound healing (%) = (Area0 h-Area24 h)/ Area0 h×100%.
Enzyme linked immunosorbent assay (ELISA)
Concentrations of matrix metalloproteinase (MMP) 2 and MMP9 in the media of cells with Nef treatment were determined by Human MMP-2/9 ELISA (Jin Yibai Biological Technology, Nanjing, China) according to the manufacturer’s instructions.
Molecular docking
The structural 3D model of ROCK1 -- Y27632 complex (Protein Data Bank ID, 2ETR) was used to determine the interactions of ROCK1 and Nef, and the results were analyzed using AutoDock Vina software (the Scripps Research Institute, USA). The structures of Y27632 and Nef were established by Chemdraw software (Perkinelmer, Hopkinton, USA). Grid Box (40 Å ×40 Å ×40 Å) centered at (51.530, 108.818, 28.061) Å, for AcROCK1 -- Y27632; grid box (40 Å ×40 Å ×40 Å) centered at (-0.088, 127.637, 22.682) Å, for Bc-ROCK -- Y27632. In this condition, the conformation of the complex formed by the docking of Y27632 drawn by Chemdraw and ROCK1 was consistent with that of the original ligand complex (Supplementary Figure 1A-D), indicating it was suitably used in the docking experiments by utilizing the AutoDock tools.
Statistical analysis
The data performed with three independent experiments and were analyzed by GraphPad Prism 9 software (San Diego, CA, USA). For comparisons of two groups, a two-tailed unpaired t-test was used. For comparisons of multiple groups, one-way analysis of variance (ANOVA) was used. All data were shown as mean ± SD, and P< 0.05 was considered to indicate a statistically significant difference.