Tissue microarray and immunohistochemistry staining
The tissue microarray construction (TMA, #HStmA150CS02) containing 83 human CRC cancer specimens and 83 non-cancer specimens was bought from Shanghai Outdo Biotech, Shanghai, China and analyzed by two pathologists in a blinded manner. Detailed clinical information is included, for example, gender, age, tumor size, differentiation, T classification, N status, M status and stages. An anti-AVL9 antibody (ab175108; Abcam, Cambridge, MA, USA) at a dilution of 1:500 was used to detect the expression of AVL9. The classification of ICH staining (immunohistochemical staining) results was as mentioned [31]. The study was approved by the ethics committee of Shanghai East Hospital, Tongji University School of Medicine.
Cell lines and culture condition
Five kinds of human CRC lines (HCT116, DLD1, RKO, LOVO, SW620) obtained from the Shanghai Cell Bank of the Chinese Academy of Sciences (Shanghai, China) ,were cultured in Dulbecco's modified Eagle's medium (DMEM; Corning, Inc, Corning, NY, USA) supplemented with 10% FBS (fetal bovine serum) and 1% penicillin/streptomycin (M&C Gene Technology Ltd, Beijing, China). All the cells were incubated in a humidified environment at 37°C with 5% CO₂.
siRNA interference, plasmid construction and transfection.
The expression of AVL9 in CRC cells were downregulated by transient with two different siRNAs which were synthesized by GenePharma, Shanghai, China. The sense sequences of siRNA were designed as follow: siAVL9-1:5-GCCACAGUAUUUGGUAUCUdTdT-3,siAVL9-2:5-GGACUCUUCAUGGCAUCAAdTdT-3;siNC:5-UUCUCCGAACGUGUCACGUdTdT-3. Overexpressed plasmid, a full-length AVL9 cDNA was cloned into pcDNA 3.1 mammalian expression vector, was purchased from Vigene Biosciences, Shandong, China. Following the manufacturer’s instructions, siRNAs or plasmids were transfected using lipofectamine 3000 (Invitrogen, Thermo Fisher Scientific, US). In order to stably overexpressed or knockdown the expression of AVL9, Lentiviral particles (Lv6-AVL9 and Lv6-NC; Lv3-shAVL9 and Lv3-shNC based on siAVL9-1 and siNC sequence) was purchased from Gene Pharma, Shanghai, China. CRC cells stably infected cells were selected by puromycin (2mg/ml) after transducing cells with lentiviral particles.
CCK-8 assay
Proliferation assay, the cell counting kit-8(CCK-8) assay, was conducted in accordance with the manufacturer’s instructions. In brief, the appropriate density of CRC cells transfected with siRNA or plasmid were seeded into 96-well plate per cell culture condition above mentioned. Each well was treated with 10ul CCK-8 reagent (Dojindo, Japan) and continued to be cultured for 1.5h. Then, the absorbance value at 450nm was measured spectrophotometrically for five consecutive days. Each experiment was independently performed 3 times in triplicate.
Cell migration assay
Trans-well assay was performed to measure cell migration using a 24‐well trans-well chambers (pore size, 8μm; Costar; Corning, Inc). 5×104 cells counted were cultivated in the upper chamber containing 400μl DMEM free FBS while 800μl DMEM with 10% FBS were supplemented in the bottom chambers. After 24-28h incubation, migrated cells at the bottom of chamber were stained with 0.5% crystal violet and calculated with microscope. Three independent assays with triplicate was performed.
Wound healing assay
CRC cells stably overexpressing or knocking down AVL9 and corresponding control cells seeded in 6-well plate at 37°C with 5% CO2 were scratched by a sterile 200μL plastic tip (90% confluence). Firstly, rinse off the dead cells with 1x PBS. Then, the cells were cultivated in serum-free DMEM medium for up to 48 h culture. Pictures were taken by the light microscope (Nikon, Japan) with a microscope at 200× magnification. The experiments were performed at least three times.
Western blot assay
Western blot analysis was carried out as described previously [32]. The Primary antibodies used in this study are mainly: anti-AVL9 (ab175108, Abcam, 1:500), anti-E-cadherin (#3195, Cell Signaling Technology, 1:1000), anti-β-actin (sc-58673, Santa Cruz Biotechnology, 1:500), anti-p53 (#sc‐47698, Santa Cruz Biotechnology, 1:500), anti-PTEN (#559600, BD Biosciences, 1:500), anti-EGFR (#4267, Cell Signaling Technology, 1:500), anti-CDK4(#12790, Cell Signaling Technology, 1:800), anti-CDK6 (#14052-1-AP, ProteinTech,1:500), anti-FAK (#66258‐1‐Ig, Proteintech, 1:500). Secondary antibodies are as follows: anti-rabbit-DyLight 800 (#SA5–35571, 1:1000, Thermo Fisher Scientific) and anti-mouse-DyLight 800 (#SA5–35521, 1:1000, Thermo Fisher Scientific).
Datasets and Gene set enrichment analysis (GSEA)
The public data, gene expression at mRNA levels in tumor and corresponding non-tumor CRC tissue and, were obtained using GEPIA online tools based on TCGA database (http://gepia.ca ncer-pku.cn/). GSEA analysis was performed to explore biological signaling pathway between the AVL9 high expression group and the AVL9 low expression group. In detail, GSEA analysis was applied using GSEA 4.0.3 (https://www.gsea-msigdb.org/gsea/index.jsp).
Data accessibility
Gene analysis in TCGA dataset was performed by online tool GEPIA (http://gepia.cancer-pku.cn/).
Statistical analysis
Statistical analysis for three independent experiments was analyzed by GraphPad Prism 8. The quantitative data was represented as mean ±SD. Difference comparison were analyzed by Student t test or one-way ANOVA. Relationships between AVL9 expression and clinicopathological characteristics were analyzed using χ2 test. P < 0.05 was served to show statistical significance.