ARHGAP15 was identified as a leading upregulated gene in the metastatic lymph nodes

To identify differentially expressed genes with significance between primary GC and lymph node metastasis, RNA sequencing of primary tumor (T), matched metastatic lymph node (LN) and adjacent non-tumor tissue (N) in 8 GC patients was performed. The sequencing data was subsequently analyzed case by case to search for the most frequently and significantly dysregulated genes in the metastatic site. Briefly, metastasis associated up-regulated genes were selected according to the following criteria: gene expression level in metastatic LN was at least 2 folds higher than that of both T and N tissue, meanwhile, gene expression was also higher in the T than in the N. For the metastasis associated down-regulated genes, the selection criteria were listed as follows: gene expression in N should be greater than that in the T and the gene expression in the LN should be decreased at least 0.5 and 0.8-fold when compared to the N and T tissue, respectively. According to the criteria mentioned above, we obtained a gene list for each case and drew a Venn diagram for all 8 cases. The metastasis associated genes which appeared in at least 4 out of 8 cases were identified, including 283 up-regulated and 89 down-regulated genes (Fig 1A). Further analysis revealed 3 most frequently and significantly upregulated and 2 downregulated genes in 6/8 LN metastatic cases (Fig 1A and 1B). In addition, Rho GTPase signaling pathway was significantly enriched in GO analysis of the dysregulated genes (Fig 1C). Meanwhile, ARHGAP15, a Rho signaling regulator, was identified as one of the leading genes that was significantly upregulated in the LN metastases (Fig 1B). Considering Rho GTPase signaling pathway was enriched in the GO analysis, we focused on this gene to uncover its significance in gastric cancer metastasis.

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Fig 1. ARHGAP15 was identified as a leading upregulated gene in the metastatic lymph nodes.

(A): Differentially expressed genes in metastatic lymph nodes (LN) were identified. The frequently LN metastatic-dysregulated genes which appeared in at least 6 out of 8 cases were shown. (B): Heatmap showed the 3 leading up-regulated and 2 down-regulated genes in LN Met. (C): GO analysis indicated that dysregulated genes in LN metastasis were enriched in Rho GTPase signaling pathway. (D): Based on TCGA data, ARHGAP15 expression was associated with unfavorable overall survival and disease-free survival. (E): Based on TCGA data, ARHGAP15 expression was up-regulated in LN metastasis positive group than the negative group. (F): Comparison of ARHGAP15 expression between the group without LN metastasis, the group whose metastatic LNs was less than and over 30% of total. (G-J): TMA analysis suggested ARHGAP15 level was upregulated in metastatic lymph nodes. G: The ARHGAP15 negative staining (score 0), weak positive staining (score 0.5–2.5) and strong positive staining (score 3–4) were shown in primary tumor and LN metastasis respectively. H: The histogram showed the proportion of cases with negative staining, weak positive staining and strong positive staining in the primary tumor and LN metastasis respectively. I: ARHGAP15 was significantly up-regulated in the LN metastasis than primary tumor tissue. J: ARHGAP15 was up-regulated in the primary tumor of the cases with LN metastasis. ns: no significance; *, P<0.05; **, P<0.01; ***, P<0.001.

https://doi.org/10.1371/journal.pgen.1010640.g001

Association of ARHGAP15 expression with outcomes of GC patients

To further study the association of ARHGAP15 expression and GC patients’ outcomes, the human GC ARHGAP15 gene expression and clinical data from the TCGA database were analyzed. High expression of ARHGAP15 was found to be significantly related with a reduced overall survival and disease-free survival (Fig 1D). Furthermore, the GC patients were divided into LN metastasis positive and negative groups. As expected, LN metastasis was found to be significantly associated with the outcomes of GC patients (S1A Fig). Next, the ARHGAP15 expression was assessed in these two groups and it was revealed that ARHGAP15 was highly expressed in the primary site of GC patients with LN metastases (Fig 1E). According to the ratio of the positive metastatic lymph nodes to all the lymph nodes examined, the LN metastasis positive group was further subdivided into groups with more than 30% and less than 30% positive lymph nodes. Similarly, higher proportion of metastatic lymph nodes predicted shorter survival, while there was no significant difference in survival between the group without lymph node metastasis and the group with less than 30% metastatic lymph nodes (S1B Fig). In addition, the higher proportion of metastatic lymph nodes, the higher expression of ARHGAP15 in the primary site of GC patients (Fig 1F).

As the above TCGA data only described the expression profile of the primary tumor, analysis based on tissue microarray (TMA) was performed with immunohistochemistry (IHC) staining to assess the level of ARHGAP15 in metastatic LN. The tissues were scored from 0–4 and were divided into strongly positive (score 3–4), weak positive (score 0.5–2.5) and negative (score 0) expression groups (Fig 1G). The cohort of the TMA database included 179 primary GC tissues and 56 metastatic LNs (Fig 1H). Being consistent with the TCGA data, ARHGAP15 expression was upregulated in the metastatic LN when compared with that in the primary site (Fig 1H and 1I). Furthermore, it was also demonstrated that ARHGAP15 expression in the primary tumor tissue was significantly upregulated in the GC patients with LN metastasis compared with those without LN metastasis (Fig 1J). These findings indicated that ARHGAP15 was significantly associated with a more advanced disease.

ARHGAP15 enhances metastatic colonization in vivo

To determine whether ARHGAP15 is a functional regulator of metastatic colonization ability, it was stably overexpressed in GC cell lines SGC7901, NUGC4 and knocked down in GC cell line NCI-N87. The overexpression and knock down was confirmed by Western Blot (Fig 2A). Then we examined metastatic potential of ARHGAP15 expressing GC cells in lymph nodes by foot pad injection model. The results indicated that ARHGAP15 promoted GC cell aggressiveness as larger lymph nodes filled with metastatic cells was observed (Fig 2B, 2C and 2D). Furthermore, we found that GC cells with ectopic expression of ARHGAP15 were enriched in metastatic lymph nodes, which might explain the higher abundance of ARHGAP15 in metastatic lymph nodes than the primary tumor (Fig 2E and 2F). In the tail-vein injection model, the GC cells were labelled by luciferase before injection, which would allow us to monitor the metastasis by bioluminescent imaging. The results of in vivo imaging suggested that ARHGAP15 overexpression significantly increased metastatic colonization in murine lungs after intravenous injection of SGC-7901 and NUGC4 cells (Fig 2G and S2 Fig). Meanwhile, pulmonary metastasis was histologically confirmed by H&E staining (Fig 2H) and the number of metastatic nodules in murine lungs from different groups was also compared (Fig 2I). In addition, ARHGAP15 was silenced in NCI-N87 cells by two distinct shRNAs, which significantly retarded metastatic colonization at lungs (Fig 2J) and extended the lung metastatic-free survival of the mice (Fig 2K).

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Fig 2. ARHGAP15 enhanced lung metastatic colonization in vivo.

(A): ARHGAP15 expression level was determined by western blot. (B-D): Spontaneous lymph node metastasis model was established by injection of GC cells into the footpad of mice. 30days after injection, mice were sacrificed to isolate lymph nodes for gross picture taking (B); H&E staining (C) and comparison of lymph node volume (D). (E): Schematic of experiment design for analyzing cell proportion to explain the mechanism of ARHGAP15 upregulation in metastatic lymph nodes. (F): The proportion of GFP+ and GFP+/mCherry+ GC cells was determined by flow cytometry with cells collected before footpad injection or isolated from lymph nodes. (G): SGC7901 cells with or without ARHGAP15 overexpression were injected into the tail vein of mice for lung metastatic colonization analysis (n = 10 per group). Bioluminescent imaging quantification and images were taken at 2 hours and day 60 post injection. (H-I): Pulmonary metastasis was shown by H&E staining (H) and the number of which was counted for comparison (I). (J): NCI-N87 cells with or without ARHGAP15 silencing were intravenously injected for lung colonization analysis. Shown were bioluminescent imaging for the annotated time points post injection. (K): The metastatic status was weekly monitored by in vivo imaging and the time points that signal was detected for the first time after the disappearance of initial signal were documented for lung metastasis free survival analysis. Data was shown as mean±SD. ns: no significance, ** P<0.01. *** P<0.001.

https://doi.org/10.1371/journal.pgen.1010640.g002

ARHGAP15 promotes ECM-detached tumor cell survival in vivo and in vitro

Metastatic colonization is a very inefficient event and quite few metastatic tumor cells can successfully colonize at distant sites. In this study, the metastatic colonization capability of GC cells was evaluated with the above-mentioned lung-metastatic mouse model by intravenous injection with one million cells. The results indicated that the injected cells stayed in the lungs at 30 minutes after injection (S3A Fig). The bioluminescent signal of tumor cells peaked at 6 hours, began to decrease at 16 hours, and finally disappeared at 72 hours after cell injection (S3B Fig). The serial observation of surviving tumor cells in lungs demonstrated that quite limited GC cells could survive in the lungs.

To explore the effect of ARHGAP15 on tumor cell survival and colonization in lungs, one million ARHGAP15-transfected or vector-transfected GC cells were injected through the murine tail vein. Then the mice were sacrificed after 24 hours or 7 days post injection. Survived tumor cells were detected by immunofluorescent (IF) staining or flow cytometry assay (Fig 3A). In IF staining, the tumor cells were recognized by human specific cytokeratin7 (CK7) antibody, the result of which showed that mice in ARHGAP15-transfected group had increased number of survived GC cells in lungs than that in control group at both 24hours and 7days post injection (Fig 3B, 3C and 3D), implying that ARHGAP15 played an important role in tumor metastatic colonization. In addition, the tumor cells were labelled with GFP prior to tail vein injection so that they could be quantified by flow cytometry, the result of which also suggested that ARHGAP15 overexpression enhanced early seeding and survival of GC cells in murine lungs (Fig 3E and 3F). Interestingly, we also noticed that the survived GC cells in the lungs dramatically decreased at day 7 when compared with those at 24 hours (Fig 3F). Finally, we attempted to mimic the harsh conditions under which the circulating tumor cells were by suspension culture in vitro. As shown by flow cytometry, tumor cell viability was not significantly affected by genetic upregulation or downregulation of ARHGAP15 under classical monolayer culture conditions, but the situation under suspension culture conditions was quite the opposite: ectopic expression of ARHGAP15 protected tumor cells from death whereas knockdown of it enhanced cellular death (Fig 3G). As accumulating evidence showed that the strikingly increased intracellular reactive oxygen species (ROS) caused by detachment from extracellular matrix (ECM) greatly contributed to the anoikis of metastatic cancer cell [18–20], we proceeded to determine the intracellular ROS level of GC cells with ARHGAP15 overexpression or knock-down under monolayer or suspension culture conditions by flow cytometry. As anticipated, overexpression or knock-down of ARHGAP15 attenuated or exacerbated the sharp increase of intracellular ROS for cells cultured in suspension respectively. Under monolayer culture conditions, a mild rise of intracellular ROS was also observed in cells with knock-down of ARHGAP15 but not in those with overexpression (Fig 3H). Collectively, these data implied the protective effect of ARHGAP15 on circulating tumor cells might be related with regulation of ROS.

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Fig 3. ARHGAP15 promotes ECM-detached tumor cell survival and colony formation under oxidative stress.

(A): Schematic representation of studying gastric tumor cell survival in vivo. 10⁶ cells were injected and then the number of the survived tumor cells in the lung was quantified at indicated time points. (B-D): The tumor cells were recognized by anti-CK7 antibody in immunofluorescent staining. Survived tumor cells in lungs were quantified at 24 hours (B and D) and 7 days (C and D) post injection. 3 mice per group and tumor cells from 30 field of views (FOV) for each group were counted. (E-F): The injected tumor cells were marked by GFP and isolated from murine lungs at 24h or 7days post injection, then they were quantified by flow cytometry. The number of the GFP⁺ cell out of 10⁶ lung cells was quantified. 6 mice per group at each time point. (G): GC cells with overexpressed or silenced ARHGAP15 were cultured in suspension or monolayer condition and the cell death rate of which was determined by flow cytometry with Annexin V/PI dual staining. (H): The level of intracellular ROS of GC cells under different culture conditions was determined by flow cytometry after DCFH-DA staining. (I-J): The colony formation assays were performed by seeding single cells in 6 well plates for 14 days under the indicated treatment. (I): Colony formation assay for SGC7901 cells with or without ARHGAP15 overexpression under the treatment H₂O₂. (J): Colony formation assay for NCI-N87 cells with or without ARHGAP15 knockdown under the treatment of H₂O₂. Data was shown as mean±SD. ns: no significance, *P<0.05, **P<0.01, ***P<0.001.

https://doi.org/10.1371/journal.pgen.1010640.g003

ARHGAP15 promotes GC cell colony formation under oxidative stress

Once the metastatic tumor cells successfully completed extravasation, the following colonization step is critical for a single cancer cell to develop metastasis. Therefore, a foci formation assay was performed to evaluate the in vitro colony formation capability of ARHGAP15 overexpressed or silenced cells treated with or without H₂O₂, respectively. After two weeks, no significant difference in the number of colonies was observed between ARHGAP15 overexpressing cells and control cells if cells were cultured without H₂O₂ (Fig 3I). However, under oxidative stress, colony formation capability of the control cells was impaired to a lager extent than ARHGAP15 overexpressing cells. (Fig 3I). As expected, the number of colonies was significantly decreased in ARHGAP15 silenced cells under culture conditions with H₂O₂, but not under traditional culture conditions. (Fig 3J).

ARHGAP15 protects GC cells from oxidative stress-induced cell death

To further explore the effect of oxidative stress on GC cell survival, XTT assay was performed to evaluate cell viability under different levels of oxidative stress for both ARHGAP15 overexpression and knockdown cells. The results showed that cells with overexpression of ARHGAP15 had better viability than the control cells (Fig 4A), while cells with knock-down of ARHGAP15 survived fewer than those transduced with scramble shRNA after H₂O₂ treatment (Fig 4B). Next, the H₂O₂-induced cell death was also quantified by Annexin V and PI staining, the result of which showed that ARHGAP15 significantly reduced H₂O₂-induced cell death (Fig 4C) and the cells tended to die if ARHGAP15 was silenced (Fig 4D).

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Fig 4. ARHGAP15 protects GC cells from oxidative stress-induced cell death.

The cell viability of GC cells with overexpressed ARHGAP15 (A) or silenced ARHGAP15 (B) under different concentration of H₂O₂ was determined by XTT assay. (C-D): The proportion of dead cells was determined by flow cytometry after dual staining of Annexin V and PI. (C): The cell death status of SGC7901 cells with or without ARHGAP15 overexpression under the treatment of indicated H₂O₂ concentration. (D): The cell death status of NCI-N87 cells with or without silenced ARHGAP15 under the treatment of indicated H₂O₂ concentration. (E-F): The GC cell viability after TRAIL treatment was evaluated by XTT assay. (E): The fraction of survived SGC7901 cells with or without ARHGAP15 overexpression upon treatment of TRAIL. (F): The fraction of survived NCI-N87 cells with or without silenced ARHGAP15 upon treatment of TRAIL. (G): The cell death status of SGC7901 cells with or without ARHGAP15 overexpression under treatment of TRAIL. H: The cell death status of NCI-N87 cells with or without ARHGAP15 knockdown under treatment of TRAIL. (I-J): The recovery effect of NAC treatment (500mM) on survival of NCI-N87 cells with ARHGAP15 knockdown was revealed by XTT (I) and flow cytometry assay (J). K: The cell death rate of SGC7901 with or without overexpression of ARHGAP15 under treatment of PAC-1, a procaspase-3 activator. Data was shown as mean±SD. ns: no significance, *P<0.05, **P<0.01, ***P<0.001.

https://doi.org/10.1371/journal.pgen.1010640.g004

TNF-related apoptosis-inducing ligand (TRAIL) is conditionally secreted by immune cells such as natural killer (NK) cells and serves as a pro-apoptotic effector in the immune surveillance of cancer through inducing tumor cell intracellular ROS generation [21,22]. Therefore, we investigated the GC cell survival under the TRAIL-induced oxidative stress by XTT assay. The results indicated that ARHGAP15 promoted cell viability under TRAIL treatment (Fig 4E). On the contrary, silencing ARHGAP15 decreased the cell viability significantly (Fig 4F). These phenotypes were later confirmed by flow cytometry analysis (Fig 4G and 4H). All these in vitro assays suggested the pivotal role of ARHGAP15 for cell survival under oxidative stress.

Next, we studied if the anti-oxidative stress function of ARHGAP15 was through ROS regulation. When intracellular ROS was eliminated by a ROS scavenger NAC (N-Acetyl Cysteine), the phenotype induced by downregulation of ARHGAP15 was rescued, as shown in XTT assay (Fig 4I) and flow cytometry assay (Fig 4J). To further exclude the possibility that the protective role of ARHGAP15 depended on preventing cells from apoptosis directly rather than oxidative stress induced death, we proceeded to determine whether other pro-apoptosis factors which did not produce ROS still worked upon ARHGAP15 overexpression. PAC-1, a potent procaspase-3 activator was used to initiate apoptosis directly here [23]. As shown in Fig 4K, ARHGAP15 overexpression could not prevent PAC-1 induced apoptosis, suggesting no direct effect of ARHGAP15 on cell apoptosis.

ARHGAP15 decreases intracellular ROS through inhibiting RAC1

To further explore the mechanism of ARHGAP15 in ROS regulation, we searched IntAct online database for its potential interactive partner [24]. Among the 6 proteins (RAC1, PRNP, DHPS, FGD2, KDM1A and LRRK2) reported to have possible interaction with ARHGAP15, RAC1 ranked 1^st in the MI score, which suggested it was most likely to be the molecular partner of ARHGAP15. To further investigate whether ARHGAP15 regulates the activity of RAC1 in GC cells, the RAC1 activation assay by pulling down the GTP-bound RAC1 was performed. Firstly, the reliability of RAC1 activation assay was tested by treating GC cells with a RAC1 inhibitor (NSC23766), and the result demonstrated that the RAC1 inhibitor could significantly reduce the GTP-bounding RAC1 (Fig 5A). The activity assay was then performed to compare the active RAC1 levels between ARHGAP15-transfected and vector-transfected GC cells. The result indicated that ARHGAP15 overexpression suppressed the RAC1 activity (Fig 5B). Consistently, knockdown of ARHGAP15 enhanced the activity of RAC1 in both shRNA isoforms (Fig 5C), indicating that ARHGAP15 negatively regulated RAC1 activity. To determine whether the abundance of RAC1 was associated with ARHGAP15, we continued to analyze the association on both transcriptional and protein levels. Based on TMA slides, no significant correlation between the protein level of RAC1 and ARHGAP15 was observed (Spearman ρ = -0.030, P value = 0.689). Consistently, quite weak correlation (Pearson’s r = -0.13, P<0.01) can be observed at transcriptional level, as shown by TCGA data downloaded from cBioportal [25] (S4 Fig). Taken together, it was the activity, rather than the abundance of RAC1 was regulated by ARHGAP15.

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Fig 5. ARHGAP15 decreases intracellular ROS through inhibiting RAC1.

(A): Representative western blot images showed the activity of RAC1 was inhibited by NSC23766. GTP-RAC1 was the active form. (B): RAC1 activity was suppressed by ARHGAP15 overexpression. (C): ARHGAP15 knockdown enhanced RAC1 activity in NCI-N87 cell. (D-G): In vivo metastatic assay based on SGC-7901 cells (n = 6 for each group). Metastatic lesions were shown by gross photos (Left) or H&E slides (Middle). The number of metastatic nodules per field under microscope were counted for comparison (Right). (D): Mice injected with tumor cells through the tail vein were subsequently intraperitoneally injected with corn coil or indicated dosage of NSC23766 every day. (E): Tumor cells stably expressing wild type RAC1 or mutated RAC1 Q61L were injected to form metastasis. (F): Tumor cells with or without silencing p67^phox (core subunit of NOX2) were injected. (G): Mice upon tail veil injection of tumor cells were administered with corn oil or indicated dosage of GSK2795039 by intraperitoneal injection every day. (H-J): The intracellular level of ROS of SGC7901 cells (H) and NCI-N87 cells (I and J) under indicated conditions was shown by fluorescent microscope (Left) and determined by flow cytometry (Right) with DCFH-DA staining. AR15: ARHGAP15; NSC23766: RAC1 inhibitor, 20μM; RAC1 Q61L, constitutively active mutant of RAC1. (K): Schematic diagram of ARHGAP15-mediated cell survival under oxidative stress. Circulating tumor cells were confronted with oxidative stress, which meant the intracellular ROS rapidly accumulated and they would die if the ROS level reached the death threshold. To overcome the harsh conditions, they might take advantage of ARHGAP15 to suppress the activity of RAC1, as a result, the intracellular ROS level was decreased, thus protecting the cells from oxidative stress induced cell death. Data was shown as mean±SD. ns: no significance, ***P<0.001.

https://doi.org/10.1371/journal.pgen.1010640.g005

However, whether ARHGAP15 was responsible for the inhibition of RAC1 activity and consequently contributed to promote metastasis in vivo remained unknown. To explore this, RAC1 was inhibited by its specific inhibitor NSC23766 or activated by introduction of its constitutively active form, RAC1 Q61L. The data from tail vein injection model suggested that RAC1 suppression and activation respectively promoted (Fig 5D) or demoted (Fig 5E) metastatic colonization in murine lungs. RAC1, a small GTPase which was mainly involved in cytoskeleton reconstruction and cell motility, was also reported to indirectly regulate the production of ROS by integrating with p67^phox, a subunit of NADPH oxidases (NOX2) [26,27]. Additionally, NOX2 was also reported as the most abundant member of NOX family in gastric cancer [28]. To determine whether the metastatic phenotype mentioned above was NOX2 dependent, we injected SGC-7901 cells with knock down of p67^phox into the tail vein. The results showed that silencing p67^phox significantly promoted metastasis in vivo (Fig 5F). Similar phenotype was also observed when SGC-7901 wild type cells were injected and GSK2795039 [29], a specific inhibitor for NOX2, was administered via intraperitoneal injection every day at a dosage of 100mg/kg (Fig 5G). To further investigate whether ARHGAP15 decreased intracellular ROS through suppressing RAC1, we determined the intracellular level of ROS under different conditions by fluorescent microscope and flow cytometry with DCFH-DA dye. As expected, ectopic expression of ARHGAP15 diminished intracellular ROS under H₂O₂ induced oxidative stress but not traditional culture conditions and this phenotype could be phenocopied by treatment with NSC23766. Interestingly, the intracellular ROS sharply increased if the constitutively active form of RAC1 (RAC1 Q61L) was transfected into the cells, no matter whether ARHGAP15 was overexpressed or H₂O₂ was administered (Fig 5H). However, GC cells experienced a rapid accumulation of intracellular ROS if ARHGAP15 was silenced, even under environment without H₂O₂ induced oxidative stress. This phenotype could be phenocopied by transfection of RAC1 Q61L and rescued by NSC23766 treatment (Fig 5I). Additionally, the increased intracellular ROS induced by silencing ARHGAP15 was rescued by NSC23766 treatment (Fig 5J). Collectively, these findings demonstrated ARHGAP15 protected cells from excessive accumulation of ROS via inhibiting RAC1 activity.

Ethics approval and consent to participate

This study involving human data and tissue was approved by the Committees for Ethical Review of Research of Xinyang Hospital and written informed consent in accordance with the Declaration of Helsinki was obtained from each patient. The animal experiments were approved from the Committee on the Use of Live Animals in Teaching and Research (CULATR) of the University of Hong Kong (HKU) with an accession number of 3962–16.

Cell culture

Three human gastric cancer cell lines were used in the study, SGC7901, NUGC4 and NCI-N87. SGC7901 and NUGC4 were derived from lymph node metastatic site, while NCI-N87 was derived from liver metastatic site. All the gastric cancer cell lines were obtained from cell bank, Chinese academy of Sciences, Shanghai. The cells were cultured in complete RPMI1640 medium (Gibco) with 10% fetal bovine serum (FBS) (Gibco) in a humidified 5% CO2 incubator at 37°C. For suspension culture, the conventional culture plate was replaced by 24-well ultralow attachment culture plate (Corning) and 3000 cells were seeded to each well for culture. The 293FT cell line for lentivirus production was purchased from Invitrogen. The 293FT cell was cultured in complete DMEM (high glucose) medium with 10% FBS, 1 mM MEM Sodium Pyruvate (Gibco), 0.1mM MEM Non-Essential Amino Acids (NEAA) (Gibco) and 500μg/ml Geneticin (Gibco) for cell growth and maintenance.

Human gastric cancer samples

All the clinical samples of gastric cancer patients were collected from Xinyang people’s hospital (Henan). Informed consent was obtained from all patients before the experiment started and the study had been approved by the Committees for Ethical Review of Research of Xinyang people’s hospital. The samples for RNA sequencing were snap-frozen in liquid nitrogen immediately after surgical resection. The samples to construct the tissue microarray (TMA) were fixed in 10% formalin for the following paraffin embedding.

Animal studies

All animals were used under the license to conduct experiments from Department of Health, Hong Kong. The animal experiments were performed at the Laboratory Animal Unit (LAU) with the approval from the Committee on the Use of Live Animals in Teaching and Research (CULATR No.3962-16) of the University of Hong Kong (HKU). The 4–6 weeks NOD SCID mice were used for tail vein injection model construction, the number of mice used was indicated in figure legends respectively. For the SGC7901 cell, 10⁶ cells were suspended in 200μL RPMI1640 and subsequently injected to each mouse. For the NUGC4 and NCI-N87 cells, 5*10⁵ cells suspended in 200μL RPMI1640 were injected. If needed, 2 hours post cell injection, the bioluminescent imaging was performed to localize the injected cells. Mice were injected with luciferin (150mg/kg) (Goldbio) by intraperitoneal injection and then anesthetized by Ketamine and Xylazine. The photon flux was monitored by the PE IVIS Spectrum in vivo imaging system. The photon signal from the lungs was monitored and quantified by the IVIS software. Compounds were administered by intraperitoneal injection with indicated dosage and frequency if needed. For spontaneous lymph node metastasis model construction, 10⁵ GC cells suspended in 20 μl serum free RPMI1640 medium were inoculated to the left hind footpad of the mouse to generate a primary tumor. 30 days after injection, the mice were sacrificed, and the popliteal lymph nodes from the left hind limbs were isolated for subsequent analysis.

Transcriptome sequencing (RNA sequencing)

In this study, RNA sequencing was performed with the matched tumor, adjacent non-tumor and metastatic lymph nodes from 8 gastric cancer patients (Annoroad Gene Technology, Beijing). The RNA was isolated by TRIzol (Invitrogen) and then the quality control was performed. Next, enrichment was performed by Oligo dT beads followed by RNA fragmentation, reverse transcription, adapter ligation and amplification. After the library prepared, the sequencing was performed on the Illumina HiSeq (2500). The data analysis consisted of removal of poor-quality reads and sequencing adapters, mapping reads, differential expression gene analysis and identification of related pathways.

Immunohistochemistry (IHC) staining of tissue microarray (TMA)

The cohort of TMA included 179 gastric cancer specimens and 56 metastatic lymph nodes with formalin fixing and paraffin embedding. Clinicopathological parameters were recorded. The TMA was constructed as described previously [51]. Briefly, the 1mm tissue cylinders in diameter were retrieved from microscopically selected representatives. Then they were transferred into a single recipient TMA block for assembly with a tissue arrayer. 5μm thick consecutive sections of microarray block were made with a microtome and mounted on microscope slides. The TMA slides were pre-warmed in 70°C incubator for 1 hour and followed by deparaffinization and rehydration. Next antigen retrieval was performed with Tris/EDTA pH 9.0 buffer under the 95°C water bath heat for 30 minutes to remove the cross link between formaldehyde and proteins. Then the immunohistochemical staining was completed with a biotin-streptavidin HRP detection kit (OriGene). The experiment followed the instructions: incubating the slides in 0.3% H₂O₂ for 15 minutes, washing the slide with TBST for 3 times, blocking in reagent 2 at room temperature for 2 hours, applying the primary antibody (ARHGAP15, 1:100, Thermofisher; RAC1, 1:200, Millipore) overnight at 4°C, rinsing in TBST for 3 times, incubating biotinylated secondary antibody for 1 hour at room temperature, and HRP-linked reagent 4 was applied for 20 minutes at room temperature. For the signaling development, the 3,3’-Diaminobenzidine (DAB) (DAKO) was used and rinsed in the tap water after development. The nucleus was stained with hematoxylin (DAKO). Then the slides were dehydrated, air dried and mounted.

Western blotting

Western blotting was performed according to the standard protocol. Total cell lysates were made in RIPA-buffer (Thermofisher) containing protease inhibitors cocktail. Protein was transferred to 0.45 μm polyvinylidene fluoride (PVDF) membranes (Millipore). Membranes were blocked with 5% Bovine serum albumin (BSA) (Cell Signaling Technology) for 1 h at room temperature, incubated at 4°C overnight with primary antibody and incubated for 1 h at room temperature with the HRP-conjugated second antibody. Chemiluminescence development and imaging was performed with the Bio Rad ECL reagent. Primary antibody used in this study: ARHGAP15 (1:1000, Thermofisher), RAC1 (1:1000, Millipore), GAPDH (1:2000, Santa Cruz).

RAC1 pull down assay

The active RAC1 pull down assay was performed with the RAC1 activity assay kit (Millipore) according to instructions. Briefly, the cells were lysed with 1mL cold Mg²⁺ Lysis/Wash buffer (MLB). The lysates were transferred to 1ml tubes on ice. 100μL glutathione agarose was added and the mixture was rocked for 10 minutes at 4°C to preclear the lysate. The agarose beads were collected by spinning for 5 seconds at 14,000g. The supernatant was removed and 500μL per sample was aliquoted on ice for the following steps. For the RAC1 pull down assay, 10 μL of PAK-1 PBD agarose was added per 500ul lysate. The reaction was gently rocked at 4°C for 1 hour. The agarose beads were then collected by spinning for 5 seconds at 14,000g. The supernatant was discarded, and the pellet was washed with MLB for 3 times. The agarose beads were resuspended in 20μL protein loading buffer and denatured at 100°C for 10 minutes. The level of activated RAC1 was then determined by the western blot with RAC1 antibody (Millipore).

ROS detection

2’,7’-dichlorofluorescin diacetate (DCFH-DA) is a cell-permeable non-fluorescent probe. After diffusion into the cell, DCFH-DA is de-esterified and oxidized by ROS into 2’,7’-dichlorofluorescein (DCF). DCF is highly fluorescent and can be detected by fluorescence spectroscopy (excitation/emission = 488/535). The ROS level in this study was determined by flow cytometry or confocal microscope. Generally, the cells were harvested and suspended as single cells in culture medium. Then the cells were treated with 25μM DCFH-DA (Sigma) for 30min at 37°C in the dark. After staining, the cells were analyzed on flow cytometer. To directly observe the ROS under confocal microscope, the cells were seeded at 5x10⁴ cells/well on 8 well chamber slide (Thermofisher). The cells grew to attach and then the cells were treated with 25μM DCFH-DA (Sigma) for 30min at 37°C in the dark. Then the cells were washed 2 times with PBS and nucleus was stained with DAPI. The signal was observed under the confocal microscope Carl Zeiss LSM 700 directly following 2 times of PBS washing.

XTT cell viability assay

In the XTT assay, we used the CellTiter AQueous One Solution Reagent (Promega). The experiments were performed according to the instructions. Briefly, 5,000 cells in 100μL medium were seeded into a 96 well flat bottom plate in triplicate. Three control wells containing 100μL of complete growth medium only were set for blank absorbance readings. It usually took 12 hours for the cells to adhere. The medium was changed to RPMI1640 medium without FBS but with different concentration of H₂O₂ or TRAIL and incubated for indicated time intervals. Then the medium was changed with fresh RPMI1640 medium and 20μL of CellTiter AQueous One Solution Reagent was added directly to the well. The mixture was incubated for 2 hours and then the absorbance at 490nm was read with a 96 well plate reader.

Cell death assay by flow cytometry

Cell death rate was determined by flow cytometry with the FITC Annexin V Apoptosis Detection Kit I (BD). The assay was performed as follows: 2x10⁵ cells were seeded in a 6 well plate and cultured for 12 hours. Then the cells were treated with indicated concentration of H₂O₂, TRAIL for 24 hours or PAC-1 for 8 hours to induce cell death. All the cells, including those in supernatant, were harvested for further analysis. The cells were washed with cold PBS and resuspended in 100μl binding buffer. The solutions were transferred to a 5ml round bottom tube (Falcon) and the cells were stained with 5μl of FITC Annexin V and 5μl PI. The system was gently mixed and incubated for 15 min at room temperature in the dark. Before running on the flow cytometry, 200μl of PBS was added to each tube. The analysis on flow cytometry was finished within 1 hour.

Colony formation assay

The colony formation aimed at evaluating cell colony formation capability under oxidative stress. The experiments were performed as described before [52]. Specifically, 5,000 cells for NCI-N87, 4,000 cells for SGC7901 were plated in a 6 well flat bottom plate. The plate was placed in the cell culture incubator with 5% CO₂ at 37°C for colony formation. It usually took 10–20 days for the gastric cancer cells to form colonies consisting of 50 or more cells. The colonies were fixed with 75% ethanol for 1 hour and then stained with 1 mL 1% (w/v) crystal violet for 1 hour. The plate was scanned, and the number of colonies was counted by the ImageJ.

Immunofluorescent stain (IF)

The murine lungs with metastatic cells were cut into 5μm sections and mounted on the pre-coated glass slides. The sections were dried at 70°C oven for 1 hour followed by deparaffinization and rehydration. The slides were placed in a slide holder and were washed as follows: xylene 10 minutes for 2 times, 100% ethanol 10 minutes for 2 times, and then running tap water for 1 minute. Then the slides were washed with TBS for 3 times. The retrieval buffer (DAKO) was pre-heated to 95°C by placing the staining jar in a water bath at 95°C. The coverslips were heated at 95°C for 30 min for antigen retrieval. After retrieval, the slides were cooling down at room temperature followed by 3 times washing with TBS. The tissue was blocked with 5% BSA in TBST for 1 hour and incubated with the primary antibody (CK7) (dilution 1:100 in 5% BSA-TBST) in a humidified chamber overnight. The primary antibody was removed, and the slides were washed 3 times in TBS for 5 min each time. From this point onwards, all the steps were done in the dark. The tissue was incubated with the secondary fluorescent antibody (Alexia555-anti-Rabbit, 1:200) for 1 hour at room temperature in the dark. The second antibody was decanted, and the slides were washed 3 times with TBS for 5 min each time. The slides were incubated with DAPI for 5 min and rinsed with PBS. Coverslips were mounted with a drop of mounting (DAKO) and were sealed with nail polish to prevent drying and movement. The slides were stored in the dark at 4°C and the cells were observed on the confocal microscope Carl Zeiss LSM 700.

Tumor cell isolation from the lung

To isolate GC cells from metastatic organs, mice received tail vein or footpad injection were sacrificed at indicated time points and their lungs or lymph nodes were taken out, DMEM medium was poured on the surface to keep moist. The tissue was cut into pieces using a scalpel and scissor. Once finally chopped, the minced tissue was transferred to a 15mL tube. 1mL digestion buffer (100μl liberase from Roche in 900uL DMEM) was added and the mixture was kept in 37°C shaker water bath for 1 hours to produce single cell suspensions. After digestion, the cells were centrifuged and resuspended in 5mL trypsin for another 5min. Cells were then resuspended in culture medium and filtered using 70μm cell strainer for running on flow cytometry.

Statistical analysis

All in vitro experiments were performed in triplicate. Data was shown as mean±SD. The survival data was analyzed by Kaplan-Meier method and P value was calculated with log-rank analysis. Mann-Whitney test was used to compare the expression level of ARHGAP15 between different groups of human samples. The correlation between ARHGAP15 and RAC1 was analyzed with Spearman correlation (for TMA slides) or Pearson correlation (for transcriptional data from TCGA participants). For in vitro experiments, statistical P values were analyzed by a two tailed student t test or One-way ANOVA. All statistical analysis was performed by GraphPad 8.0 software. All the tests were two-sided and considered statistically significant if P<0.05.