Next Article in Journal
Epigenome-Wide Histone Acetylation Changes in Peripheral Blood Mononuclear Cells in Patients with Type 2 Diabetes and Atherosclerotic Disease
Next Article in Special Issue
Ha-RasV12-Induced Multilayer Cellular Aggregates Is Mediated by Rac1 Activation Rather Than YAP Activation
Previous Article in Journal
Antithrombotic Therapy in the Prevention of Stroke
 
 
Font Type:
Arial Georgia Verdana
Font Size:
Aa Aa Aa
Line Spacing:
Column Width:
Background:
Article

8-Hydroxydaidzein Downregulates JAK/STAT, MMP, Oxidative Phosphorylation, and PI3K/AKT Pathways in K562 Cells

1
Department of Applied Life Science and Health, Chia Nan University of Pharmacy and Science, Tainan 717, Taiwan
2
Ph.D. Program for Cancer Molecular Biology and Drug Discovery, Taipei Medical University, Taipei 11031, Taiwan
3
Graduate Institute of Cancer Biology and Drug Discovery, Taipei Medical University, Taipei 11031, Taiwan
4
Department of Biotechnology, Chia Nan University of Pharmacy and Science, Tainan 717, Taiwan
5
Department of Molecular Biology and Human Genetics, Tzu Chi University, Hualien 970, Taiwan
6
Institute of Medical Sciences, Tzu Chi University, Hualien 970, Taiwan
*
Author to whom correspondence should be addressed.
Both authors contributed equally to this work.
Biomedicines 2021, 9(12), 1907; https://doi.org/10.3390/biomedicines9121907
Submission received: 8 November 2021 / Revised: 5 December 2021 / Accepted: 10 December 2021 / Published: 14 December 2021
(This article belongs to the Special Issue Signal Transduction in Cancer)

Abstract

:
A metabolite isolated from fermented soybean, 8-hydroxydaidzein (8-OHD, 7,8,4′-trihydroxyisoflavone, NSC-678112), is widely used in ethnopharmacological research due to its anti-proliferative and anti-inflammatory effects. We reported previously that 8-OHD provoked reactive oxygen species (ROS) overproduction, and induced autophagy, apoptosis, breakpoint cluster region-Abelson murine leukemia viral oncogene (BCR-ABL) degradation, and differentiation in K562 human chronic myeloid leukemia (CML) cells. However, how 8-OHD regulates metabolism, the extracellular matrix during invasion and metastasis, and survival signaling pathways in CML remains largely unexplored. High-throughput technologies have been widely used to discover the therapeutic targets and pathways of drugs. Bioinformatics analysis of 8-OHD-downregulated differentially expressed genes (DEGs) revealed that Janus kinase/signal transducer and activator of transcription (JAK/STAT), matrix metalloproteinases (MMPs), c-Myc, phosphoinositide 3-kinase (PI3K)/AKT, and oxidative phosphorylation (OXPHOS) metabolic pathways were significantly altered by 8-OHD treatment. Western blot analyses validated that 8-OHD significantly downregulated cytosolic JAK2 and the expression and phosphorylation of STAT3 dose- and time-dependently in K562 cells. Zymography and transwell assays also confirmed that K562-secreted MMP9 and invasion activities were dose-dependently inhibited by 8-OHD after 24 h of treatment. RT-qPCR analyses verified that 8-OHD repressed metastasis and OXPHOS-related genes. In combination with DisGeNET, it was found that 8-OHD’s downregulation of PI3K/AKT is crucial for controlling CML development. A STRING protein–protein interaction analysis further revealed that AKT and MYC are hub proteins for cancer progression. Western blotting revealed that AKT phosphorylation and nuclear MYC expression were significantly inhibited by 8-OHD. Collectively, this systematic investigation revealed that 8-OHD exerts anti-CML effects by downregulating JAK/STAT, PI3K/AKT, MMP, and OXPHOS pathways, and MYC expression. These results could shed new light on the development of 8-OHD for CML therapy.

1. Introduction

Leukemia is a hematologic disorder, which can be classified into four main types, including acute lymphocytic leukemia (ALL), chronic lymphocytic leukemia (CLL), acute myeloid leukemia (AML), and chronic myeloid leukemia (CML), according to the speed of progression and types of cells involved. Among these, CML is the most thoroughly studied. The cytogenetic hallmark of CML is the oncogenic fusion of BCR-ABL1 (breakpoint cluster region-Abelson murine leukemia viral oncogene 1) resulting from translocation between chromosomes 9 and 22 [1]. The BCR-ABL1 fusion protein exhibits aberrant tyrosine kinase activity, which activates Ras/Raf/mitogen-activated protein kinase (MAPK) signaling pathways and leads to uncontrolled cell proliferation and promotes the malignant expansion of pluripotent stem cells [2]. Small-molecule tyrosine kinase inhibitors (TKIs) that block the adenosine triphosphate (ATP)-binding site of ABL1 represent the first- and second-line treatments of choice for most CML patients [3]. However, approximately 15~20% of patients fail to obtain optimal responses because of drug resistance or medication intolerance; therefore, non-TKI therapy represents a feasible adjunct treatment strategy for CML [4,5].
Janus kinase/signal transducer and activator of transcription (JAK/STAT) pathway participates in the development of many cancers [6]. JAK is a non-receptor protein tyrosine kinase and regulates BCR-ABL stability and oncogenic signaling in hematopoietic cells [7]. JAK activates STATs by phosphorylation, dimerization, and translocation into the nuclei, where STATs serve as transcription factors for hematopoiesis and leukemogenesis [8]. Emerging evidence has demonstrated that hyper-activation of STAT3 and STAT5 appears in primary leukemia and is correlated with poor survival rates. Therefore, there is an urgent need to develop either direct or indirect inhibitors of STAT3 and STAT5 [8,9]. Currently, STAT inhibitors that target upstream tyrosine kinases have yielded promising results. A decrease in phosphorylated STAT3 and an undetectable BCR-AB1 transcript were observed after treatment with ruxolitinib (INCB18424), a JAK inhibitor, in combination with the TKI, nilotinib, in CML patients in a phase I trial (NCT01702064) [10]. The safety and efficacy of combining ruxolitinib with bosutinib, nilotinib, and dasatinib are being evaluated in a phase II trial (NCT03654768).
Matrix metalloproteinases (MMPs) are members of the protease superfamily of zinc-endopeptidases, which are responsible for degrading the extracellular matrix (ECM). They participate in multistep processes of invasion and metastasis and further promote tumor development [11]. Previous MMP inhibitors yielded unsatisfactory anti-tumor efficacies due to poor selectivity, specificity, or bioavailability. Recently, with advances in bioinformatics, proteomics, and drug delivery, small-molecule MMP-specific inhibitors and anti-MMP monoclonal antibodies are showing signs of resurrection in anti-cancer therapy [12].
The Warburg effect, that favors glycolysis over oxidative phosphorylation (OXPHOS) for energy production, was proposed as a universal metabolic alteration in carcinogenesis [13]. However, an increasing body of evidence suggests that both glycolysis and mitochondrial metabolism are upregulated in some cancers [14]. It was found that both glycolysis- and OXPHOS-related signaling pathways are activated in leukemia cells, such as THP-1, U937, KG-1, and K562, as well as cluster of differentiation 34 (CD34)-positive hematopoietic stem cells (HSCs), as a result of an enhanced need for energy metabolism [15]. It has become clear that TKI-resistant AML and CML, and leukemic stem cells (LSCs) are accompanied by increased OXPHOS, regardless of the presence or absence of genetic mutations; hence, interest has grown in developing clinically applicable OXPHOS inhibitors [16].
It is well-known that mitochondria play key roles in activating apoptosis in mammalian cells and B-cell lymphoma protein 2 (Bcl-2) family members are the key regulators thereof [17]. The Bcl-2 family consists of both anti-apoptotic, such as BCL2, BCL-xL and BCL-w, and pro-apoptotic members, such as BH3 Interacting Domain Death Agonist (BID) and BCL2 Associated X, Apoptosis Regulator (BAX) [17]. A selective BCL2 inhibitor, Venetoclax, can restore activation of apoptosis in leukemia [18,19]. Phase II clinical trials are ongoing to evaluate the efficacy of Venetoclax in combination with dasatinib (NCT02689440) and with cladribine, idarubicin, cytarabine (NCT02115295) in CML patients in the chronic or blast phase.
AKT, also known as protein kinase B (PKB), is a major downstream target of phosphoinositide 3-kinase (PI3K). AKT is activated via phosphorylation and translocation to nuclei and affects the activity of multiple transcriptional regulators which are involved in cell proliferation and survival [20]. The PI3K/AKT/mammalian target of rapamycin (mTOR) pathway plays a critical role in TKI-resistance in CML [21]. It was reported that NVP-BEZ235, a dual PI3K/mTOR inhibitor, effectively inhibited proliferation, and promoted apoptosis and autophagy in K562 cells [22].
MYC is a proto-oncogene and encodes a nuclear phosphoprotein that is involved in cell-cycle progression, apoptosis, and cellular transformation. It was proposed that ABL activates MYC through indirectly augmenting the acetylation of MYC and directly phosphorylating MYC [23]. Ubiquitination of MYC is considered an essential regulatory step in CML [24]. It was reported that a higher MYC expression level is associated with the progression of CML into a blastic crisis and poorer prognoses [25,26]. Recently, various types of potential direct and indirect MYC inhibitors have been developed to treat hematologic malignancies [25].
Isoflavones are dietary phytoestrogens mainly produced by the Fabaceae family [27]. They are used as chemical preventive agents in alternative therapy for cancers, metabolic syndrome, osteoporosis, and postmenopausal symptoms [28,29,30,31]. A hydroxylated derivative of daidzein, 8-hydroxydaidzein (8-OHD, 7,8,4′-trihydroxyisoflavone, NSC-678112), can be isolated from fermented soybean products. Recent research has also indicated the potential therapeutic effects of 8-OHD for inflammation, carcinogenesis, and melanogenesis [32,33,34,35,36,37]. Meanwhile, 8-OHD also had strong anti-proliferative activity in human promyelocytic leukemia HL-60 cells and K562 CML cells [38,39]. Similar to lots of natural compounds, 8-OHD exerts a hormetic effect in resistance to oxidative stress [40]. It scavenges free radicals at low doses; while produces reactive oxygen species (ROS) at high doses [32,33,37,39,41,42]. It may play dual roles, both antioxidant and pro-oxidant, in cancer prevention and treatment.
High-throughput technology uses an extensive holistic approach to detect differences in thousands of gene expressions from functional genomics and biological systems [41,42,43,44,45]. In this study, a microarray analysis was employed to investigate differentially expressed genes (DEGs) in 8-OHD-treated K562 cells, a model cell line derived from a female CML patient in blast crisis [46]. The gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were then analyzed [47,48,49]. In our previous study, we investigated the anti-CML effects of 8-OHD, focusing on cell-cycle regulation, cell apoptosis, autophagy, differentiation, and the altered level of BCR-ABL in K562 cells [39]. However, there are still many gaps in our knowledge of the roles of 8-OHD in CML, especially in terms of metabolism, the ECM during invasion and metastasis, and survival signaling pathways. Therefore, in the present study, we combined a bioinformatics analysis with experimental validation to investigate how 8-OHD regulates the JAK/STAT, MMP, and OXPHOS pathways. Furthermore, two hub genes, AKT and MYC, with high degrees of connectivity to biological process were found. These results shed new light on potential therapeutic targets for CML treatment.

2. Experimental Section

2.1. Preparation of 8-OHD (8-Hydroxydaidzein, 7,8,4′-Trihydoxyisoflavone, NSC-678112)

The isolation of 8-OHD from soybeans fermented with Aspergillus oryzae was conducted, from which the nuclear magnetic resonance (NMR) spectral data and purification were reported previously [33,34,37]. The chemical structure of 8-OHD is presented in Figure 1a.

2.2. Cell Culture

K562 cells were purchased from the Bioresource Collection and Research Center (Hsinchu, Taiwan) and cultured in RPMI-1640 medium supplemented with 10% fetal bovine serum (FBS), 1% nonessential amino acids (NEAAs), 100 units/mL of penicillin, and 100 µg/mL of streptomycin (Thermo Fisher Scientific, Rockford, IL, USA) in a 5% CO2 incubator at 37 °C.

2.3. Microarray Analysis

Cells were treated with vehicle (0.1% DMSO) or 8-OHD (50 and 100 μM) for 48 h. RNA was extracted from K562 cells with a Illustra RNA Spin Mini RNA Isolation Kit (GE Healthcare, Wauwatosa, WI, USA). A microarray analysis was performed as previously described [50,51]. All raw data were processed using the CLC Genomics Workbench v10.1 according to our previously established pipeline [52,53,54,55,56,57]. DEGs related to the treatment with 8-OHD were screened, and those with multiples of change values of >1.5 or <−1.5 and p < 0.05 were selected.
DAVID (v6.8) is a well-known web-based database with dominant gene functional classification, and various embedded biological process and pathway annotations. Gene ontology (GO) and KEGG analyses cluster targeted genes into different subgroups according to biological functions, signaling pathways, or diseases by an agglomeration algorithm method [52,53,54,55,56,57], and p < 0.05 was used as the cut-off criterion [58].

2.4. Pathway Enrichment Analysis

Molecular functions and the pathway database from the MetaCore platform (GeneGo, St. Joseph, MI, USA) were further used to explore potential signaling pathways and process networks modulated by 8-OHD. GO terms and a heatmap were used to summarize downregulated DEGs and pathways as we previously described [59,60,61].
DisGeNET (v6.0) is an integrating and standardizing knowledge management platform about disease associated genes and variants. It contains 628,685 gene-disease associations (GDAs), involving 17,549 genes and 24,166 diseases, and 210,498 variant-disease associations (VDAs), including 117,337 variants and 10,358 diseases [62].
The Search Tool for the Retrieval of Interacting Proteins (STRING) database contains a huge number of protein–protein networks from 5090 organisms, 24.6 million proteins, and more than 2000 million interactions [63]. In the present study, we used the STRING database (v11.5) to analyze protein-protein interacting (PPI) networks [63]. A Markov clustering algorithm (MCL) with inflation factor = 2 was employed to find cluster structure in graphs by a mathematical bootstrapping procedure [64].

2.5. Western Blot Analysis

Whole-cell lysates and nuclear extracts were prepared from cultured K562 cells respectively using RIPA lysis buffer and nuclear extraction kit (Cayman Chemical, Ann Arbor, MI, USA). Protein concentrations were measured by the Bradford assay (Bio-Rad Laboratories, Hercules, CA, USA).
Equal amounts of protein were loaded into the wells of 5~12% sodium dodecyl-sulfate polyacrylamide gel electrophoresis (SDS-PAGE). Following electrophoretic separation, proteins were further transferred to polyvinylidene difluoride (PVDF) membranes, which were then blocked with freshly made buffer (5% skim milk in phosphate-buffered saline (PBS) with 0.05% Tween 20, pH 7.4) and incubated with specific primary antibodies (Table 1) overnight at 4 °C. After rinsing, membranes were incubated with properly diluted horseradish peroxidase (HRP)-conjugated secondary antibodies (Jackson ImmunoResearch, West Grove, PA, USA) for 1 h. The signal on the membrane was developed by enhanced chemiluminescence detection (GE Healthcare).

2.6. RNA Extraction and Reverse Transcription-Quantitative Polymerase Chain Reaction (RT-qPCR)

RNA was extracted from K562 cells using an Illustra RNA Spin Mini RNA Isolation Kit (GE Healthcare). A High-Capacity cDNA Archive kit (Thermo Fisher Scientific) was used for cDNA synthesis. A qPCR was performed with Power SYBR Green PCR Master Mix (Thermo Fisher Scientific) in a 20 μL total volume that contained 0.4 μM of each primer (Table 2). The PCR program consisted of pre-incubation for 2 min at 95 °C, followed by 40 cycles at 94 °C for 15 s and 60 °C for 60 s (ABI StepOne Real-Time PCR System). A melting curve was performed to verify the amplification specificity. The relative mRNA expression was normalized to GAPDH expression and then calculated by the comparative Ct method. The primer pairs used in real-time PCR are given in Table 2.

2.7. Gelatin Zymography

K562 cells were treated with vehicle (0.1% DMSO) or 8-OHD (25, 50, and 100 μM) for 24 h, and media were collected by centrifugation to eliminate cells. Conditioned media was concentrated 10-fold by ultracentrifugation (Amicon Ultra-0.5, 3 kDa), and then analyzed by gelatin zymography in 10% PAGE containing 0.1% gelatin. After electrophoresis, gels were washed with 2% Triton X-100 to remove SDS. Gels were incubated in developing buffer (2% Triton X-100, 0.2 M NaCl, 0.05 M Tris-HCl, and 0.005 M CaCl2) overnight at 37 °C to induce gelatin lysis and then stained with staining solution (0.3% Coomassie blue, 20% methanol, and 7% acetic acid) for 4 h. Finally, gels were destained with water until the bands could clearly be seen.

2.8. Transwell Cell Invasion Assay

The in-vitro invasiveness of K562 cells was assayed using Matrigel®-coated Falcon 24-well transwell cell culture chambers (Boyden chambers) with 8-μm-pore-size polyethylene terephthalate filter inserts (BD Biosciences, Bedford, MA, USA). The chamber filters were coated with 50 mg/mL of Matrigel® matrix overnight at 37 °C. K562 cells were treated with vehicle (0.1% DMSO) or 8-OHD (25 and 50 μM) for 24 h and collected by centrifugation to eliminate the medium. A 0.2-mL cell suspension containing 4 × 105 treated cells in serum-free medium was added to the Matrigel®-coated filter inserts. Next, 750 μL of serum-containing medium was placed as a chemoattractant in 24-well plates. A light microscope was used to count invasive cells that had migrated into the lower chamber after K562 cells were cultured at 37 °C for 4 and 24 h [65,66].

2.9. Statistical Analysis

All experiments were repeated at least three times, and the values were expressed as the mean ± standard deviation (SD). Results were analyzed using a one-way analysis of variance (ANOVA) with Dunnett’s post-hoc test, and p < 0.05 was considered statistically significant.

3. Results and Discussion

3.1. Analysis of Microarray Data and Determination of DEGs

K562 cells were treated with vehicle (0.1% DMSO) or 8-OHD (50 and 100 μM) for 48 h, and transcript expressions were analyzed using the Human OneArray system, which contains 25765 known genes. We first performed sample-level quality control using a principal component analysis (PCA) and hierarchical clustering [67]. Figure 1b shows that PC1 and PC2 accounted for more than 85% of the data variance, and two duplicates of each treatment were closely clustered, with each treatment cleanly separated.
Next, the intensity data were pooled and calculated to identify DEGs based on the threshold of multiples of change of >1.5 or <−1.5, and p < 0.05. Correlations of genetic signatures between control samples and 8-OHD treatment conditions were analyzed by unsupervised hierarchical clustering. Figure 1c shows hierarchical clustering of GO terms, associated with DEGs of 8-OHD-treated samples (H1 and H5), revealing that H1 and H5 could be clustered into a group. The regulated genes for each GO term are listed in Supplementary Table S1. We intended to investigate the pathways and networks associated with 8-OHD-downregulated genes in this study; therefore, 1910 commonly downregulated DEGs were selected for further investigation (Figure 1d).

3.2. Enrichment of Downregulated Signaling Pathways Using MetaCore

We used the MetaCore bioinformatics suite to analyze pathways enriched by the 1910 downregulated DEGs, and the top 15 pathways are shown in Figure 2a. Downregulated genes for the top 50 pathways are listed in Supplementary Table S2. The JAK/STAT pathway is crucial in transferring extracellular signals to cells and initiating gene expressions involved in cell proliferation, differentiation, survival, and developmental processes [68,69]. STAT3 and STAT5A/STAT5B are of particular interest because they are downstream effectors of tyrosine kinase oncogenes and contribute to the development of hematopoietic malignancies through both canonical and non-canonical pathways [6,69]. We found that STAT3 and STAT5 appeared in nine out of the top 15 enriched pathways. These included “Development_Transcription regulation of granulocyte development”, “Prolactin/JAK2 signaling in breast cancer”, “IL-6 signaling in colorectal cancer”, “Cell cycle progression in prostate cancer”, “Regulation of microRNAs in colorectal cancer”, “Immune response_IL-4-induced regulators of cell growth, survival, differentiation and metabolism”, “Immune response_M-CSF-receptor signaling pathway”, “c-Myc in multiple myeloma” and “Development_Thrombopoietin signaling via JAK-STAT pathway”.
The MetaCore pathway map, which presents “Prolactin/JAK2 signaling in breast cancer” in response to 8-OHD treatment, is shown in Figure 2b. It was reported that STAT3 and STAT5 are constitutively activated in hematopoietic cancers [69]. Activated STATs induce transcription of pro-proliferative targets such as cyclin D1, CISH, SK4/IK1 and stimulate cancer cell proliferation [70,71,72]. Figure 2b,c show that STAT3, STAT5A, STAT5B, c-Myb, PPIA (cyclophilin A), CCND1 (cyclin D1), CISH, and KCNN4 (SK4/IK1) were significantly downregulated by 8-OHD. These results are consistent with our previous findings that JAK/STAT-mediated apoptosis/anti-apoptosis networks were significantly regulated by 100 μM 8-OHD in K562 cells [39].
Rajabi et al., 2020 also reported that 8-OHD triggered apoptosis in breast cancer stem-like cells through inhibiting the interleukin (IL)-6-mediated JAK2/STAT3 pathway [73]. STAT3 activation was found to be correlated with TKI resistance in CML [74]. Recently, transcriptome and reverse-phase protein arrays with a STRING analysis of differentially active proteins within TKI-persistent K562 cells revealed that STAT3 and AKT1 are central nodes [75]. We therefore further verified the involvement of the JAK2/STAT3 pathway in 8-OHD-treated K562 cells by Western blotting. Figure 3a shows that cytosolic JAK2 expression was dose- and time-dependently downregulated. Cytosolic STAT3 expression had profoundly decreased after 48 h in a dose-dependent manner and was correlated with transcriptomic data (Figure 2c). Furthermore, STAT3 phosphorylation was accordingly reduced (Figure 3a).
Phosphorylated (p)-STAT3 is translocated into nuclei and serves as a transcription factor in various gene expressions. Figure 3b shows that nuclear pan- and p-STAT3 dose-dependently decreased. This indicates that STAT3-regulated pathways were downregulated by 8-OHD in K562 cells.

3.3. 8-OHD Repressed MMPs Expression and Activities

It was reported that BCR-ABL+ cells secrete angiogenic factors, such as MMPs and vascular endothelial growth factor (VEGF), and stimulate angiogenesis [76]. Figure 4a shows a MetaCore pathway map of “Role of metalloproteases and heparanase in progression of pancreatic cancer” in response to 48 h of 8-OHD treatment. The most significantly downregulated genes, including MMP14, MMP15, VEGFA, SOS1, and MMP11, in the microarray analysis are shown as a heatmap in Figure 4b, and were reconfirmed by RT-q-PCR as shown in Figure 4c–g.
MMP14 (MT1-MMP) and MMP15 (MT2-MMP) are membrane-type (MT)-MMPs. Independent of proteolytic activity, these types of membrane-anchored MMPs are important modulators of cell-cell communication and intracellular signaling [77]. It was reported that MMP14 is the target of BCR-ABL/ABL interactor 1 (Abi 1) signaling, and induces increased motility and invasiveness leukemic cells [78]. MMP15 is highly expressed in AML patients and was correlated with poor overall survival [79]. Downregulation of MMP14 and MMP15 by 8-OHD may indicate that it possesses anti-metastatic activity (Figure 4c,d).
VEGFA promotes angiogenesis and is overexpressed in various tumors, including CML [80]. Drugs that target BCR-ABL, including imatinib, were reported to reduce VEGFA expression [81,82]. We found that 8-OHD, which could reduce BCR-ABL protein levels, also significantly downregulated VEGFA mRNA expression (Figure 4b,e).
Son of Sevenless 1 (SOS1), a guanine nucleotide exchange factor (GEF), is a dual activator of the small GTPases RAC and RAS. RAS activates MEK/ERK and PI3K/AKT pathways, which are essential for cell survival and proliferation [83]. The SOS1-RAC axis is critical for CML transformation and the leukemogenic potential of BCR-ABL [84]. Recently, it was found that SOS1 is one of the essential genes which have higher expression and encode proteins that engage in PPIs in K562 cells [85]. Selective and potent small-molecule inhibitors of SOS1 were developed to block RAS activity in tumor cell lines [86]. We found herein that 8-OHD could dose-dependently downregulate SOS1 transcription (Figure 4f).
Most MMPs are secreted as inactive forms and activated by cleavage of extracellular proteinases. On the other hand, MMP11 is processed intracellularly and secreted in its active form. MMP11 plays a vital role in the progression of epithelial malignancies, such as colon cancer, breast carcinoma, esophageal cancer, basal cell carcinoma, and others; but there are no reports of its role in CML progression [87]. We found that 8-OHD dose-dependently repressed MMP11 expression. However, the detailed underlying mechanism by which 8-OHD downregulates the above gene expressions needs further study.
Most studies of myeloproliferative malignancies focused on expressions or activities of MMP9 and MMP2, which are secreted gelatinases [76,88,89,90]. Neither of these two MMPs was downregulated in the microarray assay; we therefore analyzed MMP activity in cultured medium by gelatin zymography. We found that K562-secreted MMP9 activity (96 kDa) could be dose-dependently inhibited by 8-OHD (Figure 5a).
We previously reported that 100 μM 8-OHD exerted about a 30% inhibitory effect on K562 proliferation after 24 h of treatment, while 25 and 50 μM, 8-OHD respectively, showed less than 10% and 20% inhibition [39]. To explore the effects of 8-OHD on cellular invasion, K562 cells were treated with the vehicle, or 25 or 50 μM 8-OHD for 24 h. Then treated cells were collected by centrifugation, washed and resuspended in serum-free medium. Equal amounts of cells were seeded in the Matrigel®-coated inserts while the lower chambers were filled with medium containing serum as a chemoattractant. Figure 5b shows that the invasive ability of 8-OHD-treated K562 cells through an ECM-coated membrane was significantly lower than that of the vehicle-treated cells, in a dose-dependent manner, in both the 4- and 24-h assays (p < 0.01). In conclusion, 8-OHD represses MMP gene expression and activity, and inhibits K562 cell invasion.

3.4. 8-OHD Repressed OXPHOS

It is known that enrichment of DEGs by the multiple of change may discard many useful genes. We thus re-selected target genes commonly dose-dependently downregulated by 50 and 100 μM of 8-OHD using normalized data. An entire set of 5042 downregulated genes was selected and subjected to functional annotation and clusterization using the DAVID bioinformatics tools. The top KEGG pathways are shown in Figure 6a. It was found that “metabolic pathways” were the most significantly associated, followed by “oxidative phosphorylation” and three neurodegenerative diseases: Parkinson’s, Huntington’s, and Alzheimer’s diseases. These results agree with our finding in Figure 1c that “mitochondria” was the top GO term enriched by 8-OHD-downregulated DEGs (p = 1.81 × 10−33) (Supplementary Table S1).
Using a global mRNA microarray analysis combined with an Ingenuity Pathway Analysis, Flis et al. found that CML stem cells display enhanced expression of OXPHOS genes [91]. Furthermore, disrupting the abnormal increase in OXPHOS in TKI-resistant CML stem cells can prevent disease relapse [92]. We previously reported that OXPHOS (GO:0006119) was significantly associated with 100 μM 8-OHD-downregulated DEGs [39]. Here, we further demonstrated the effects of 8-OHD on KEGG “oxidative phosphorylation” pathway as shown in Figure 6b. Expressions of most genes in complex I (NADH dehydrogenase) were repressed in response to 8-OHD. Expression patterns of some significantly downregulated genes are further shown in a heatmap in Figure 6c.
We further verified expressions of some genes by RT-qPCR. It was found that 8-OHD dose-dependently repressed four complex I genes, NDUFB10 (NADH: ubiquinone oxidoreductase subunit B10), NDUFV1 (NADH: ubiquinone oxidoreductase core subunit V1), NDUFS7 (NADH: ubiquinone oxidoreductase core subunit S7), and NDUFB8 (NADH: ubiquinone oxidoreductase subunit B8) after 48 h treatment (Figure 7a–d). Four others, SDHB (succinate dehydrogenase complex iron-sulfur subunit B, Complex II), CYC1 (cytochrome C1, complex III), COX5A (cytochrome C oxidase subunit 5A, complex IV), and ATP5D (also known as ATP5F1D, ATP synthase F1 subunit δ, complex V), were also significantly downregulated by 8-OHD in a dose-dependent manner (Figure 7e–h). In conclusion, our result demonstrates that 8-OHD acts as an OXPHOS repressor, alters energy metabolism, and inhibits K562 proliferation.
We previously reported that 8-OHD causes caspase-7-dependent apoptosis, and mitochondrial integrity is under the control of Bcl-2 family members [39,93]. We thus further investigated how 8-OHD affects expressions of Bcl-2 family. Microarray data revealed that only pro-apoptotic BID, but not anti-apoptotic BCL2, was downregulated by 8-OHD (Supplementary Table S1). Western blotting analysis showed that pro-apoptotic BAX protein was not altered by 8-OHD treatment (Supplementary Figure S1). These results indicate that 8-OHD induces apoptosis through a Bcl-2-independent pathway in K562 cells.

3.5. PI3K/AKT Pathway Is Resposible for K562 Cell Cycle Arrest

Genes associated with ML were collected from the DisGeNET database (http://www.disgenet.org/; accessed on 1 November 2021), which led to a collection of 385 pathological targets of ML (C0023470). Subsequently, the intersection of ML-associated genes and 8-OHD-downregulated 5042 genes was regarded as putative targets of 8-OHD against ML. As shown in Figure 8a, 112 genes were obtained in this manner. The top 15 KEGG pathways associated with these 112 targeted genes are shown in Figure 8b. Detailed information and downregulated genes involved in the top 25 KEGG pathways are shown in Supplementary Table S3. “Chronic myeloid leukemia” (hsa05220) and “PI3K-Akt signaling” (hsa04151) are the top 2 and 4 on the list and the 8-OHD-downregulated genes involved in these two pathways are indicated by red marks in Figure 8c,d. It was found that PI3K/AKT signaling and BCR-ABL-induced gene expressions of the SOS-RAC axis, STAT5, and MYC were downregulated by 8-OHD in the CML pathway (hsa05220) (Figure 8c). We previously reported that 8-OHD caused K562 cell-cycle arrest at the S phase by inhibiting p21Cip1 expression and upregulating CDK6 and cyclin D2 expressions [39]. The current data further demonstrated that the PI3K/AKT pathway is responsible for the upstream signaling of 8-OHD-induced cell cycle arrest (Figure 8d).

3.6. AKT and MYC Are Hub Proteins Downregulated by 8-OHD

We then used the STRING database to analyze potential PPI networks for the 112 gene targets. Markov clustering algorithm (MCL) was selected to classify proteins into different clusters; the resulting network was divided into six clusters that contained most of the genes associated with cancer progression and metastasis (Figure 9a). The proteins enriched in AML and CML are respectively shown in blue and red. There were nine common proteins, including AKT1, MYC, NRAS, KRAS, PIK3CB, SOS1, MAPK3, STAT5A, and STAT5B. It clearly showed that AKT1 and MYC are two hub proteins, with 45 and 46 edges, respectively. A Western blot analysis of AKT activation and MYC expression was employed to reconfirm the bioinformatics data. Figure 9b shows that phosphorylation of AKT was pronouncedly inhibited by 8-OHD in a time- and dose-dependent manner. It was reported that inhibitors of PI3K/AKT/mTOR pathway can enhance CML apoptosis and autophagy and increase CML sensitivity to TKIs [22]. In combination with our previous finding that 8-OHD can induce apoptosis and autophagy [39], the current study further demonstrated that these effects are related to downregulation of the PI3K/AKT/mTOR pathway.
Figure 9c shows that the nuclear c-Myc level was decreased by 8-OHD. The inhibition profile was less effective than that of AKT and was completely correlated with that of BCR-ABL in our previous report [39]. This result supports 8-OHD being able to repress both ABL and MYC oncogene expressions and inhibit uncontrolled CML proliferation.

4. Conclusions

The bioinformatics data revealed that 8-OHD downregulated JAK/STAT, PI3K/AKT, MMP, and OXPHOS pathways in K562 cells. Validated data from Western blotting revealed that cytosolic JAK2 expression and phosphorylation of STAT3 decreased in dose-dependent manners in 8-OHD-treated K562 cells. Meanwhile, the repression of MMP14, MMP15, VEGFA, SOS1, and MMP11 by 8-OHD may indicate that it possesses anti-metastatic activity. Gelatin zymography and the transwell assay further confirmed that K562-secreted MMP-9 and invasive activities were inhibited by 8-OHD. In addition, RT-qPCR data revealed that 8-OHD dose-dependently repressed OXPHOS- and energy metabolism-related genes, including NDUFB10, NDUFV1, NDUFS7, NDUFB8, SDHB, CYC1, COX5A, and ATP5D. In combination with DisGeNET, we found that 8-OHD-downregulated PI3K/AKT is a key pathway for CML development. The PPI network also indicated that AKT1 and MYC are two hub proteins for cancer progression and metastasis, and the Western blot analysis of AKT activation and MYC expression was employed to reconfirm these prediction data. Collectively, the combination of bioinformatics analyses and experimental validation has shed new light on the development of 8-OHD for CML therapy.

Supplementary Materials

The following are available online at www.mdpi.com/article/10.3390/biomedicines9121907/s1, Table S1: Biological processes in the Gene Ontology (GO) analysis of up- and down-regulated genes, associated with differentially expressed genes (DEGs) of 8-OHD-treated samples (H1 and H5); Table S2: Pathway and network associated with downregulated DEGs of 8-OHD-treated samples (H1 and H5) via the MetaCore platform; Table S3: Top KEGG pathways associated with putative targets of 8-OHD against myeloid leukemia (ML); Figure S1: Western blotting analysis of BAX expression in response to 8-OHD treatment.

Author Contributions

Conceptualization, M.-J.W.; data curation, P.-S.W. and C.-Y.W.; formal analysis, P.-S.W. and C.-Y.W.; funding acquisition, M.-J.W. and C.-Y.W.; investigation, M.-J.W.; methodology, P.-S.W., C.-Y.W., P.-S.C. and J.-H.H.; project administration, M.-J.W.; resources, J.-.H., P.-S.C. and J.-H.Y.; supervision, M.-J.W.; validation, M.-J.W.; visualization, C.-Y.W. and M.-J.W.; writing—original draft, P.-S.W.; writing—review and editing, C.-Y.W. and M.-J.W. All authors have read and agreed to the published version of the manuscript.

Funding

This research was supported by research grants MOST 106-2320-B-041-006-MY3 (MJW), MOST 110-2320-B-041-002-MY3 (MJW), and MOST 109-2320-B-038-009-MY2 (CYW) from the Ministry of Science and Technology, Taiwan.

Acknowledgments

We thank Shiou-Yu Ding for supplying purified 8-OHD. The authors also acknowledge the (statistical/computational/technical) support of the Clinical Data Center, Office of Data Science, Taipei Medical University, Taiwan. The authors also give special thanks to Daniel P. Chamberlin for his professional English editing from the Office of Research and Development at Taipei Medical University.

Conflicts of Interest

The authors declare no conflict of interest.

References

  1. Rowley, J.D. Letter: A new consistent chromosomal abnormality in chronic myelogenous leukaemia identified by quinacrine fluorescence and Giemsa staining. Nature 1973, 243, 290–293. [Google Scholar] [CrossRef] [PubMed]
  2. Jabbour, E.; Cortes, J.E.; Giles, F.J.; O’Brien, S.; Kantarjian, H.M. Current and emerging treatment options in chronic myeloid leukemia. Cancer 2007, 109, 2171–2181. [Google Scholar] [CrossRef] [PubMed]
  3. Ali, M.A. Chronic Myeloid Leukemia in the Era of Tyrosine Kinase Inhibitors: An Evolving Paradigm of Molecularly Targeted Therapy. Mol. Diagn. Ther. 2016, 20, 315–333. [Google Scholar] [CrossRef] [PubMed]
  4. Massimino, M.; Stella, S.; Tirro, E.; Romano, C.; Pennisi, M.S.; Puma, A.; Manzella, L.; Zanghi, A.; Stagno, F.; Di Raimondo, F.; et al. Non ABL-directed inhibitors as alternative treatment strategies for chronic myeloid leukemia. Mol. Cancer 2018, 17, 56. [Google Scholar] [CrossRef] [Green Version]
  5. Cortes, J.; Lang, F. Third-line therapy for chronic myeloid leukemia: Current status and future directions. J. Hematol. Oncol. 2021, 14, 44. [Google Scholar] [CrossRef]
  6. Wingelhofer, B.; Neubauer, H.A.; Valent, P.; Han, X.; Constantinescu, S.N.; Gunning, P.T.; Muller, M.; Moriggl, R. Implications of STAT3 and STAT5 signaling on gene regulation and chromatin remodeling in hematopoietic cancer. Leukemia 2018, 32, 1713–1726. [Google Scholar] [CrossRef] [Green Version]
  7. Samanta, A.; Perazzona, B.; Chakraborty, S.; Sun, X.; Modi, H.; Bhatia, R.; Priebe, W.; Arlinghaus, R. Janus kinase 2 regulates Bcr-Abl signaling in chronic myeloid leukemia. Leukemia 2011, 25, 463–472. [Google Scholar] [CrossRef] [Green Version]
  8. Dorritie, K.A.; McCubrey, J.A.; Johnson, D.E. STAT transcription factors in hematopoiesis and leukemogenesis: Opportunities for therapeutic intervention. Leukemia 2014, 28, 248–257. [Google Scholar] [CrossRef]
  9. Zou, S.; Tong, Q.; Liu, B.; Huang, W.; Tian, Y.; Fu, X. Targeting STAT3 in Cancer Immunotherapy. Mol. Cancer 2020, 19, 145. [Google Scholar] [CrossRef]
  10. Sweet, K.; Hazlehurst, L.; Sahakian, E.; Powers, J.; Nodzon, L.; Kayali, F.; Hyland, K.; Nelson, A.; Pinilla-Ibarz, J. A phase I clinical trial of ruxolitinib in combination with nilotinib in chronic myeloid leukemia patients with molecular evidence of disease. Leuk. Res. 2018, 74, 89–96. [Google Scholar] [CrossRef]
  11. Gialeli, C.; Theocharis, A.D.; Karamanos, N.K. Roles of matrix metalloproteinases in cancer progression and their pharmacological targeting. FEBS J. 2011, 278, 16–27. [Google Scholar] [CrossRef]
  12. Fields, G.B. The Rebirth of Matrix Metalloproteinase Inhibitors: Moving Beyond the Dogma. Cells 2019, 8, 984. [Google Scholar] [CrossRef] [Green Version]
  13. Warburg, O. On the origin of cancer cells. Science 1956, 123, 309–314. [Google Scholar] [CrossRef] [PubMed]
  14. Ashton, T.M.; McKenna, W.G.; Kunz-Schughart, L.A.; Higgins, G.S. Oxidative Phosphorylation as an Emerging Target in Cancer Therapy. Clin. Cancer Res. 2018, 24, 2482–2490. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  15. Song, B.H.; Son, S.Y.; Kim, H.K.; Ha, T.W.; Im, J.S.; Ryu, A.; Jeon, H.; Chung, H.Y.; Oh, J.S.; Lee, C.H.; et al. Profiling of Metabolic Differences between Hematopoietic Stem Cells and Acute/Chronic Myeloid Leukemia. Metabolites 2020, 10, 427. [Google Scholar] [CrossRef]
  16. De Beauchamp, L.; Himonas, E.; Helgason, G.V. Mitochondrial metabolism as a potential therapeutic target in myeloid leukaemia. Leukemia 2021. [Google Scholar] [CrossRef] [PubMed]
  17. Wang, C.; Youle, R.J. The role of mitochondria in apoptosis *. Ann. Rev. Genet. 2009, 43, 95–118. [Google Scholar] [CrossRef] [Green Version]
  18. Maiti, A.; Franquiz, M.J.; Ravandi, F.; Cortes, J.E.; Jabbour, E.J.; Sasaki, K.; Marx, K.; Daver, N.G.; Kadia, T.M.; Konopleva, M.Y.; et al. Venetoclax and BCR-ABL Tyrosine Kinase Inhibitor Combinations: Outcome in Patients with Philadelphia Chromosome-Positive Advanced Myeloid Leukemias. Acta Haematol. 2020, 143, 567–573. [Google Scholar] [CrossRef] [PubMed]
  19. Pollyea, D.A.; Amaya, M.; Strati, P.; Konopleva, M.Y. Venetoclax for AML: Changing the treatment paradigm. Blood Adv. 2019, 3, 4326–4335. [Google Scholar] [CrossRef] [Green Version]
  20. Martelli, A.M.; Evangelisti, C.; Chappell, W.; Abrams, S.L.; Basecke, J.; Stivala, F.; Donia, M.; Fagone, P.; Nicoletti, F.; Libra, M.; et al. Targeting the translational apparatus to improve leukemia therapy: Roles of the PI3K/PTEN/Akt/mTOR pathway. Leukemia 2011, 25, 1064–1079. [Google Scholar] [CrossRef] [Green Version]
  21. Bibi, S.; Arslanhan, M.D.; Langenfeld, F.; Jeanningros, S.; Cerny-Reiterer, S.; Hadzijusufovic, E.; Tchertanov, L.; Moriggl, R.; Valent, P.; Arock, M. Co-operating STAT5 and AKT signaling pathways in chronic myeloid leukemia and mastocytosis: Possible new targets of therapy. Haematologica 2014, 99, 417–429. [Google Scholar] [CrossRef] [Green Version]
  22. Xin, P.; Li, C.; Zheng, Y.; Peng, Q.; Xiao, H.; Huang, Y.; Zhu, X. Efficacy of the dual PI3K and mTOR inhibitor NVP-BEZ235 in combination with imatinib mesylate against chronic myelogenous leukemia cell lines. Drug Des. Dev. Ther. 2017, 11, 1115–1126. [Google Scholar] [CrossRef] [Green Version]
  23. Sanchez-Arevalo Lobo, V.J.; Doni, M.; Verrecchia, A.; Sanulli, S.; Faga, G.; Piontini, A.; Bianchi, M.; Conacci-Sorrell, M.; Mazzarol, G.; Peg, V.; et al. Dual regulation of Myc by Abl. Oncogene 2013, 32, 5261–5271. [Google Scholar] [CrossRef] [Green Version]
  24. Reavie, L.; Buckley, S.M.; Loizou, E.; Takeishi, S.; Aranda-Orgilles, B.; Ndiaye-Lobry, D.; Abdel-Wahab, O.; Ibrahim, S.; Nakayama, K.I.; Aifantis, I. Regulation of c-Myc ubiquitination controls chronic myelogenous leukemia initiation and progression. Cancer Cell 2013, 23, 362–375. [Google Scholar] [CrossRef] [Green Version]
  25. Ahmadi, S.E.; Rahimi, S.; Zarandi, B.; Chegeni, R.; Safa, M. MYC: A multipurpose oncogene with prognostic and therapeutic implications in blood malignancies. J. Hematol. Oncol. 2021, 14, 121. [Google Scholar] [CrossRef]
  26. Albajar, M.; Gomez-Casares, M.T.; Llorca, J.; Mauleon, I.; Vaque, J.P.; Acosta, J.C.; Bermudez, A.; Donato, N.; Delgado, M.D.; Leon, J. MYC in chronic myeloid leukemia: Induction of aberrant DNA synthesis and association with poor response to imatinib. Mol. Cancer Res. 2011, 9, 564–576. [Google Scholar] [CrossRef] [Green Version]
  27. Tsao, R. Chemistry and biochemistry of dietary polyphenols. Nutrients 2010, 2, 1231–1246. [Google Scholar] [CrossRef]
  28. Wang, Q.; Ge, X.; Tian, X.; Zhang, Y.; Zhang, J.; Zhang, P. Soy isoflavone: The multipurpose phytochemical (Review). Biomed. Rep. 2013, 1, 697–701. [Google Scholar] [CrossRef]
  29. Mann, G.E.; Bonacasa, B.; Ishii, T.; Siow, R.C. Targeting the redox sensitive Nrf2-Keap1 defense pathway in cardiovascular disease: Protection afforded by dietary isoflavones. Curr. Opin. Pharmacol. 2009, 9, 139–145. [Google Scholar] [CrossRef]
  30. Vitale, D.C.; Piazza, C.; Melilli, B.; Drago, F.; Salomone, S. Isoflavones: Estrogenic activity, biological effect and bioavailability. Eur. J. Drug Metab. Pharmacokinet. 2013, 38, 15–25. [Google Scholar] [CrossRef]
  31. Yamagata, K.; Yamori, Y. Potential Effects of Soy Isoflavones on the Prevention of Metabolic Syndrome. Molecules 2021, 26, 5863. [Google Scholar] [CrossRef]
  32. Chang, T.S. Isolation, bioactivity, and production of ortho-hydroxydaidzein and ortho-hydroxygenistein. Int. J. Mol. Sci. 2014, 15, 5699–5716. [Google Scholar] [CrossRef] [Green Version]
  33. Esaki, H.; Onozaki, H.; Morimitsu, Y.; Kawakishi, S.; Osawa, T. Potent Antioxidative Isoflavones Isolated from Soybeans Fermented with Aspergillus saitoi. Biosci. Biotechnol. Biochem. 1998, 62, 740–746. [Google Scholar] [CrossRef]
  34. Fujita, T.; Funako, T.; Hayashi, H. 8-Hydroxydaidzein, an aldose reductase inhibitor from okara fermented with Aspergillus sp. HK-388. Biosci. Biotechnol. Biochem. 2004, 68, 1588–1590. [Google Scholar] [CrossRef] [Green Version]
  35. Park, J.S.; Park, H.Y.; Kim, D.H.; Kim, D.H.; Kim, H.K. ortho-dihydroxyisoflavone derivatives from aged Doenjang (Korean fermented soypaste) and its radical scavenging activity. Bioorg. Med. Chem. Lett. 2008, 18, 5006–5009. [Google Scholar] [CrossRef]
  36. Park, J.S.; Kim, D.H.; Lee, J.K.; Lee, J.Y.; Kim, D.H.; Kim, H.K.; Lee, H.J.; Kim, H.C. Natural ortho-dihydroxyisoflavone derivatives from aged Korean fermented soybean paste as potent tyrosinase and melanin formation inhibitors. Bioorg. Med. Chem. Lett. 2010, 20, 1162–1164. [Google Scholar] [CrossRef]
  37. Wu, P.S.; Ding, H.Y.; Yen, J.H.; Chen, S.F.; Lee, K.H.; Wu, M.J. Anti-inflammatory Activity of 8-Hydroxydaidzein in LPS-Stimulated BV2 Microglial Cells via Activation of Nrf2-Antioxidant and Attenuation of Akt/NF-kappaB-Inflammatory Signaling Pathways, as Well As Inhibition of COX-2 Activity. J. Agric. Food Chem. 2018, 66, 5790–5801. [Google Scholar] [CrossRef]
  38. Hirota, A.; Taki, S.; Kawaii, S.; Yano, M.; Abe, N. 1,1-Diphenyl-2-picrylhydrazyl radical-scavenging compounds from soybean miso and antiproliferative activity of isoflavones from soybean miso toward the cancer cell lines. Biosci. Biotechnol. Biochem. 2000, 64, 1038–1040. [Google Scholar] [CrossRef] [Green Version]
  39. Wu, P.-S.; Yen, J.-H.; Wang, C.-Y.; Chen, P.-Y.; Hung, J.-H.; Wu, M.-J. 8-Hydroxydaidzein, an Isoflavone from Fermented Soybean, Induces Autophagy, Apoptosis, Differentiation, and Degradation of Oncoprotein BCR-ABL in K562 Cells. Biomedicines 2020, 8, 506. [Google Scholar] [CrossRef]
  40. Calabrese, E.J.; Mattson, M.P. How does hormesis impact biology, toxicology, and medicine? NPJ Aging Mech. Dis. 2017, 3, 13. [Google Scholar] [CrossRef] [Green Version]
  41. Thorat, M.A.; Balasubramanian, R. Breast cancer prevention in high-risk women. Best Pract. Res. Clin. Obstet. Gynaecol. 2020, 65, 18–31. [Google Scholar] [CrossRef]
  42. Lin, C.Y.; Lee, C.H.; Chuang, Y.H.; Lee, J.Y.; Chiu, Y.Y.; Wu Lee, Y.H.; Jong, Y.J.; Hwang, J.K.; Huang, S.H.; Chen, L.C.; et al. Membrane protein-regulated networks across human cancers. Nat. Commun. 2019, 10, 3131. [Google Scholar] [CrossRef] [Green Version]
  43. Tsai, H.T.; Huang, C.S.; Tu, C.C.; Liu, C.Y.; Huang, C.J.; Ho, Y.S.; Tu, S.H.; Tseng, L.M.; Huang, C.C. Multi-gene signature of microcalcification and risk prediction among Taiwanese breast cancer. Sci. Rep. 2020, 10, 18276. [Google Scholar] [CrossRef]
  44. Nguyen, H.D.; Liao, Y.C.; Ho, Y.S.; Chen, L.C.; Chang, H.W.; Cheng, T.C.; Liu, D.; Lee, W.R.; Shen, S.C.; Wu, C.H.; et al. The α9 Nicotinic Acetylcholine Receptor Mediates Nicotine-Induced PD-L1 Expression and Regulates Melanoma Cell Proliferation and Migration. Cancers 2019, 11, 1991. [Google Scholar] [CrossRef] [Green Version]
  45. Lee, K.L.; Kuo, Y.C.; Ho, Y.S.; Huang, Y.H. Triple-Negative Breast Cancer: Current Understanding and Future Therapeutic Breakthrough Targeting Cancer Stemness. Cancers 2019, 11, 1334. [Google Scholar] [CrossRef] [Green Version]
  46. Lozzio, C.B.; Lozzio, B.B. Human chronic myelogenous leukemia cell-line with positive Philadelphia chromosome. Blood 1975, 45, 321–334. [Google Scholar] [CrossRef] [Green Version]
  47. The Gene Ontology Consortium. The Gene Ontology Resource: 20 years and still GOing strong. Nucleic Acids Res. 2019, 47, D330–D338. [Google Scholar] [CrossRef] [Green Version]
  48. Nishimura, D. BioCarta. Biotech Softw. Internet Rep. 2001, 2, 117–120. [Google Scholar] [CrossRef]
  49. Kanehisa, M.; Goto, S. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000, 28, 27–30. [Google Scholar] [CrossRef]
  50. Chen, P.Y.; Chen, Y.T.; Gao, W.Y.; Wu, M.J.; Yen, J.H. Nobiletin Down-Regulates c-KIT Gene Expression and Exerts Antileukemic Effects on Human Acute Myeloid Leukemia Cells. J. Agric. Food Chem. 2018, 66, 13423–13434. [Google Scholar] [CrossRef]
  51. Wang, C.-C.; Lin, Y.-C.; Cheng, Y.-H.; Tung, C.-W. Profiling transcriptomes of human SH-SY5Y neuroblastoma cells exposed to maleic acid. PeerJ 2017, 5, e3175. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  52. Barrett, T.; Wilhite, S.E.; Ledoux, P.; Evangelista, C.; Kim, I.F.; Tomashevsky, M.; Marshall, K.A.; Phillippy, K.H.; Sherman, P.M.; Holko, M.; et al. NCBI GEO: Archive for functional genomics data sets—Update. Nucleic Acids Res 2013, 41, D991–D995. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  53. Lin, J.C.; Liu, T.P.; Yang, P.M. CDKN2A-Inactivated Pancreatic Ductal Adenocarcinoma Exhibits Therapeutic Sensitivity to Paclitaxel: A Bioinformatics Study. J. Clin. Med. 2020, 9, 4019. [Google Scholar] [CrossRef] [PubMed]
  54. Lin, T.Y.; Wang, P.W.; Huang, C.H.; Yang, P.M.; Pan, T.L. Characterizing the Relapse Potential in Different Luminal Subtypes of Breast Cancers with Functional Proteomics. Int. J. Mol. Sci. 2020, 21, 6077. [Google Scholar] [CrossRef]
  55. Liu, L.W.; Hsieh, Y.Y.; Yang, P.M. Bioinformatics Data Mining Repurposes the JAK2 (Janus Kinase 2) Inhibitor Fedratinib for Treating Pancreatic Ductal Adenocarcinoma by Reversing the KRAS (Kirsten Rat Sarcoma 2 Viral Oncogene Homolog)-Driven Gene Signature. J. Pers. Med. 2020, 10, 130. [Google Scholar] [CrossRef]
  56. Yang, P.M.; Hsieh, Y.Y.; Du, J.L.; Yen, S.C.; Hung, C.F. Sequential Interferon β-Cisplatin Treatment Enhances the Surface Exposure of Calreticulin in Cancer Cells via an Interferon Regulatory Factor 1-Dependent Manner. Biomolecules 2020, 10, 643. [Google Scholar] [CrossRef] [Green Version]
  57. Yang, P.M.; Lin, L.S.; Liu, T.P. Sorafenib Inhibits Ribonucleotide Reductase Regulatory Subunit M2 (RRM2) in Hepatocellular Carcinoma Cells. Biomolecules 2020, 10, 117. [Google Scholar] [CrossRef] [Green Version]
  58. Huang, D.W.; Sherman, B.T.; Lempicki, R.A. Bioinformatics enrichment tools: Paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res. 2009, 37, 1–13. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  59. Kao, T.J.; Wu, C.C.; Phan, N.N.; Liu, Y.H.; Ta, H.D.K.; Anuraga, G.; Wu, Y.F.; Lee, K.H.; Chuang, J.Y.; Wang, C.Y. Prognoses and genomic analyses of proteasome 26S subunit, ATPase (PSMC) family genes in clinical breast cancer. Aging 2021, 13, 17970. [Google Scholar] [CrossRef]
  60. Anuraga, G.; Tang, W.C.; Phan, N.N.; Ta, H.D.K.; Liu, Y.H.; Wu, Y.F.; Lee, K.H.; Wang, C.Y. Comprehensive Analysis of Prognostic and Genetic Signatures for General Transcription Factor III (GTF3) in Clinical Colorectal Cancer Patients Using Bioinformatics Approaches. Curr. Issues Mol. Biol. 2021, 43. [Google Scholar] [CrossRef]
  61. Khoa Ta, H.D.; Tang, W.C.; Phan, N.N.; Anuraga, G.; Hou, S.Y.; Chiao, C.C.; Liu, Y.H.; Wu, Y.F.; Lee, K.H.; Wang, C.Y. Analysis of LAGEs Family Gene Signature and Prognostic Relevance in Breast Cancer. Diagnostics 2021, 11, 726. [Google Scholar] [CrossRef]
  62. Pinero, J.; Ramirez-Anguita, J.M.; Sauch-Pitarch, J.; Ronzano, F.; Centeno, E.; Sanz, F.; Furlong, L.I. The DisGeNET knowledge platform for disease genomics: 2019 update. Nucleic Acids Res. 2020, 48, D845–D855. [Google Scholar] [CrossRef] [Green Version]
  63. Szklarczyk, D.; Gable, A.L.; Lyon, D.; Junge, A.; Wyder, S.; Huerta-Cepas, J.; Simonovic, M.; Doncheva, N.T.; Morris, J.H.; Bork, P.; et al. STRING v11: Protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res. 2019, 47, D607–D613. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  64. Enright, A.J.; Van Dongen, S.; Ouzounis, C.A. An efficient algorithm for large-scale detection of protein families. Nucleic Acids Res. 2002, 30, 1575–1584. [Google Scholar] [CrossRef] [PubMed]
  65. Ovcharenko, A.; Granot, G.; Rokah, O.H.; Park, J.; Shpilberg, O.; Raanani, P. Enhanced adhesion/migration and induction of Pyk2 expression in K562 cells following imatinib exposure. Leuk. Res. 2013, 37, 1729–1736. [Google Scholar] [CrossRef] [PubMed]
  66. Liu, J.; Lu, H.; Huang, R.; Lin, D.; Wu, X.; Lin, Q.; Wu, X.; Zheng, J.; Pan, X.; Peng, J.; et al. Peroxisome proliferator activated receptor-gamma ligands induced cell growth inhibition and its influence on matrix metalloproteinase activity in human myeloid leukemia cells. Cancer Chemother. Pharmacol. 2005, 56, 400–408. [Google Scholar] [CrossRef]
  67. Lever, J.; Krzywinski, M.; Altman, N. Principal component analysis. Nat. Methods 2017, 14, 641–642. [Google Scholar] [CrossRef] [Green Version]
  68. Luo, N.; Balko, J.M. Role of JAK-STAT Pathway in Cancer Signaling. In Predictive Biomarkers in Oncology: Applications in Precision Medicine; Badve, S., Kumar, G.L., Eds.; Springer International Publishing: Cham, Switzerland, 2019; pp. 311–319. [Google Scholar] [CrossRef]
  69. Brachet-Botineau, M.; Polomski, M.; Neubauer, H.A.; Juen, L.; Hedou, D.; Viaud-Massuard, M.C.; Prie, G.; Gouilleux, F. Pharmacological Inhibition of Oncogenic STAT3 and STAT5 Signaling in Hematopoietic Cancers. Cancers 2020, 12, 240. [Google Scholar] [CrossRef] [Green Version]
  70. Chong, P.S.Y.; Chng, W.-J.; de Mel, S. STAT3: A Promising Therapeutic Target in Multiple Myeloma. Cancers 2019, 11, 731. [Google Scholar] [CrossRef] [Green Version]
  71. Humphreys, D.; ElGhazaly, M.; Frisan, T. Senescence and Host–Pathogen Interactions. Cells 2020, 9, 1747. [Google Scholar] [CrossRef]
  72. Caruso, A.; Barbarossa, A.; Carocci, A.; Salzano, G.; Sinicropi, M.S.; Saturnino, C. Carbazole Derivatives as STAT Inhibitors: An Overview. Appl. Sci. 2021, 11, 6192. [Google Scholar] [CrossRef]
  73. Rajabi, S.; Shojaee, M.; Malmir, A.; Rezaei Tavirani, M.; Noori, S. Anti-Breast Cancer Activities of 8-Hydroxydaidzein by Targeting Breast Cancer Stem-Like Cells. J. Pharm. Pharm. Sci. 2020, 23, 47–57. [Google Scholar] [CrossRef]
  74. Bewry, N.N.; Nair, R.R.; Emmons, M.F.; Boulware, D.; Pinilla-Ibarz, J.; Hazlehurst, L.A. Stat3 contributes to resistance toward BCR-ABL inhibitors in a bone marrow microenvironment model of drug resistance. Mol. Cancer Ther. 2008, 7, 3169–3175. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  75. Patel, S.B.; Nemkov, T.; Stefanoni, D.; Benavides, G.A.; Bassal, M.A.; Crown, B.L.; Matkins, V.R.; Camacho, V.; Kuznetsova, V.; Hoang, A.T.; et al. Metabolic alterations mediated by STAT3 promotes drug persistence in CML. Leukemia 2021, 35, 3371–3382. [Google Scholar] [CrossRef] [PubMed]
  76. Janowska-Wieczorek, A.; Majka, M.; Marquez-Curtis, L.; Wertheim, J.A.; Turner, A.R.; Ratajczak, M.Z. Bcr-abl-positive cells secrete angiogenic factors including matrix metalloproteinases and stimulate angiogenesis in vivo in Matrigel implants. Leukemia 2002, 16, 1160–1166. [Google Scholar] [CrossRef] [Green Version]
  77. Turunen, S.P.; Tatti-Bugaeva, O.; Lehti, K. Membrane-type matrix metalloproteases as diverse effectors of cancer progression. Biochim. Biophys. Acta Mol. Cell Res. 2017, 1864, 1974–1988. [Google Scholar] [CrossRef]
  78. Sun, X.; Li, Y.; Yu, W.; Wang, B.; Tao, Y.; Dai, Z. MT1-MMP as a downstream target of BCR-ABL/ABL interactor 1 signaling: Polarized distribution and involvement in BCR-ABL-stimulated leukemic cell migration. Leukemia 2008, 22, 1053–1056. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  79. Wu, Y.; Pan, S.; Leng, J.; Xie, T.; Jamal, M.; Yin, Q.; Li, J.; He, C.; Dong, X.; Shao, L.; et al. The prognostic value of matrix metalloproteinase-7 and matrix metalloproteinase-15 in acute myeloid leukemia. J. Cell. Biochem. 2019, 120, 10613–10624. [Google Scholar] [CrossRef] [PubMed]
  80. Lakkireddy, S.; Aula, S.; Kapley, A.; Swamy, A.V.; Digumarti, R.R.; Kutala, V.K.; Jamil, K. Association of Vascular Endothelial Growth Factor A (VEGFA) and its Receptor (VEGFR2) Gene Polymorphisms with Risk of Chronic Myeloid Leukemia and Influence on Clinical Outcome. Mol. Diagn. Ther. 2016, 20, 33–44. [Google Scholar] [CrossRef]
  81. Ebos, J.M.; Tran, J.; Master, Z.; Dumont, D.; Melo, J.V.; Buchdunger, E.; Kerbel, R.S. Imatinib mesylate (STI-571) reduces Bcr-Abl-mediated vascular endothelial growth factor secretion in chronic myelogenous leukemia. Mol. Cancer Res. 2002, 1, 89–95. [Google Scholar]
  82. Legros, L.; Bourcier, C.; Jacquel, A.; Mahon, F.X.; Cassuto, J.P.; Auberger, P.; Pages, G. Imatinib mesylate (STI571) decreases the vascular endothelial growth factor plasma concentration in patients with chronic myeloid leukemia. Blood 2004, 104, 495–501. [Google Scholar] [CrossRef] [Green Version]
  83. Downward, J. Targeting RAS signalling pathways in cancer therapy. Nat. Rev. Cancer 2003, 3, 11–22. [Google Scholar] [CrossRef] [PubMed]
  84. Gerboth, S.; Frittoli, E.; Palamidessi, A.; Baltanas, F.C.; Salek, M.; Rappsilber, J.; Giuliani, C.; Troglio, F.; Rolland, Y.; Pruneri, G.; et al. Phosphorylation of SOS1 on tyrosine 1196 promotes its RAC GEF activity and contributes to BCR-ABL leukemogenesis. Leukemia 2018, 32, 820–827. [Google Scholar] [CrossRef]
  85. Wang, T.; Birsoy, K.; Hughes, N.W.; Krupczak, K.M.; Post, Y.; Wei, J.J.; Lander, E.S.; Sabatini, D.M. Identification and characterization of essential genes in the human genome. Science 2015, 350, 1096–1101. [Google Scholar] [CrossRef] [Green Version]
  86. Hillig, R.C.; Sautier, B.; Schroeder, J.; Moosmayer, D.; Hilpmann, A.; Stegmann, C.M.; Werbeck, N.D.; Briem, H.; Boemer, U.; Weiske, J.; et al. Discovery of potent SOS1 inhibitors that block RAS activation via disruption of the RAS-SOS1 interaction. Proc. Natl. Acad. Sci. USA 2019, 116, 2551–2560. [Google Scholar] [CrossRef] [Green Version]
  87. Quintero-Fabian, S.; Arreola, R.; Becerril-Villanueva, E.; Torres-Romero, J.C.; Arana-Argaez, V.; Lara-Riegos, J.; Ramirez-Camacho, M.A.; Alvarez-Sanchez, M.E. Role of Matrix Metalloproteinases in Angiogenesis and Cancer. Front. Oncol. 2019, 9, 1370. [Google Scholar] [CrossRef] [Green Version]
  88. Ries, C.; Loher, F.; Zang, C.; Ismair, M.G.; Petrides, P.E. Matrix metalloproteinase production by bone marrow mononuclear cells from normal individuals and patients with acute and chronic myeloid leukemia or myelodysplastic syndromes. Clin. Cancer Res. 1999, 5, 1115–1124. [Google Scholar] [PubMed]
  89. Chaudhary, A.K.; Chaudhary, S.; Ghosh, K.; Shanmukaiah, C.; Nadkarni, A.H. Secretion and Expression of Matrix Metalloproteinase-2 and 9 from Bone Marrow Mononuclear Cells in Myelodysplastic Syndrome and Acute Myeloid Leukemia. Asian Pac. J. Cancer Prev. 2016, 17, 1519–1529. [Google Scholar] [CrossRef] [Green Version]
  90. Paupert, J.; Mansat-De Mas, V.; Demur, C.; Salles, B.; Muller, C. Cell-surface MMP-9 regulates the invasive capacity of leukemia blast cells with monocytic features. Cell Cycle 2008, 7, 1047–1053. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  91. Martinou, J.C.; Youle, R.J. Mitochondria in apoptosis: Bcl-2 family members and mitochondrial dynamics. Dev. Cell 2011, 21, 92–101. [Google Scholar] [CrossRef] [Green Version]
  92. Flis, K.; Irvine, D.; Copland, M.; Bhatia, R.; Skorski, T. Chronic myeloid leukemia stem cells display alterations in expression of genes involved in oxidative phosphorylation. Leuk. Lymphoma 2012, 53, 2474–2478. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  93. Kuntz, E.M.; Baquero, P.; Michie, A.M.; Dunn, K.; Tardito, S.; Holyoake, T.L.; Helgason, G.V.; Gottlieb, E. Targeting mitochondrial oxidative phosphorylation eradicates therapy-resistant chronic myeloid leukemia stem cells. Nat. Med. 2017, 23, 1234–1240. [Google Scholar] [CrossRef] [PubMed] [Green Version]
Figure 1. Microarray analysis of 8-OHD-treated K562 cells. (a) Chemical structure of 8-OHD. (b) Principal component analysis (PCA) of microarray data obtained from analyzing duplicate samples of vehicle (V) and 8-OHD treated at 50 μM (H5) and 100 μM (H1). (c) Heatmap of enriched gene ontology (GO) terms associated with 50 and 100 μM 8-OHD differentially expressed genes (DEGs). GO processes listed in the upper half are terms of upregulated DEGs. The lower processes are GO terms of downregulated DEGs. Only some of the representative GO terms are shown. (d) Venn diagrams demonstrating the numbers of common downregulated DEG between those treated with 50 μM 8-OHD (H5) and 100 μM 8-OHD (H1) compared to that of vehicle (V), based on the threshold of multiples of change of >1.5 or <−1.5, and p < 0.05. The '^' symbol represents the intersection of two sets.
Figure 1. Microarray analysis of 8-OHD-treated K562 cells. (a) Chemical structure of 8-OHD. (b) Principal component analysis (PCA) of microarray data obtained from analyzing duplicate samples of vehicle (V) and 8-OHD treated at 50 μM (H5) and 100 μM (H1). (c) Heatmap of enriched gene ontology (GO) terms associated with 50 and 100 μM 8-OHD differentially expressed genes (DEGs). GO processes listed in the upper half are terms of upregulated DEGs. The lower processes are GO terms of downregulated DEGs. Only some of the representative GO terms are shown. (d) Venn diagrams demonstrating the numbers of common downregulated DEG between those treated with 50 μM 8-OHD (H5) and 100 μM 8-OHD (H1) compared to that of vehicle (V), based on the threshold of multiples of change of >1.5 or <−1.5, and p < 0.05. The '^' symbol represents the intersection of two sets.
Biomedicines 09 01907 g001aBiomedicines 09 01907 g001b
Figure 2. MetaCore pathways downregulated by 8-OHD treatment in K562 cells. (a) The top 15 significantly enriched pathways according to the MetaCore bioinformatics suite in response to 8-OHD treatment. (b) The MetaCore pathway map “Prolacin JAK2 signaling in breast cancer” was obtained by functional analysis of 1910 downregulated differentially expressed genes (DEGs) in response to 8-OHD. The blue thermometer indicates downregulated genes, and the thermometer level represents the intensity of the log2(fold change). Image generated using MetaCore. (c) Heatmap of expression patterns of Prolacin JAK2 signaling-associated genes in response to 8-OHD. H5 and H1 represent 50 and 100 μM 8-OHD, respectively.
Figure 2. MetaCore pathways downregulated by 8-OHD treatment in K562 cells. (a) The top 15 significantly enriched pathways according to the MetaCore bioinformatics suite in response to 8-OHD treatment. (b) The MetaCore pathway map “Prolacin JAK2 signaling in breast cancer” was obtained by functional analysis of 1910 downregulated differentially expressed genes (DEGs) in response to 8-OHD. The blue thermometer indicates downregulated genes, and the thermometer level represents the intensity of the log2(fold change). Image generated using MetaCore. (c) Heatmap of expression patterns of Prolacin JAK2 signaling-associated genes in response to 8-OHD. H5 and H1 represent 50 and 100 μM 8-OHD, respectively.
Biomedicines 09 01907 g002aBiomedicines 09 01907 g002b
Figure 3. Western blot analysis of the Janus kinase (JAK)/signal transducer and activator of transcription 3 (STAT3) signaling pathway in 8-OHD-treated K562 cells. (a) Cell lysates were prepared after 24 and 48 h of treatment. Equal amounts of protein lysates were used to examine the expressions of JAK2, STAT3, and phosphorylated (p)-STAT3 by a Western blot analysis. α-Tubulin levels were used as a control to ensure that equal amounts of protein were present. (b) Nuclear extracts were prepared after 24 and 48 h treatment. Equal amounts of nuclear lysates were used to examine the nuclear levels of pan- and p-STAT3, and lamin A/C levels were used as a loading control.
Figure 3. Western blot analysis of the Janus kinase (JAK)/signal transducer and activator of transcription 3 (STAT3) signaling pathway in 8-OHD-treated K562 cells. (a) Cell lysates were prepared after 24 and 48 h of treatment. Equal amounts of protein lysates were used to examine the expressions of JAK2, STAT3, and phosphorylated (p)-STAT3 by a Western blot analysis. α-Tubulin levels were used as a control to ensure that equal amounts of protein were present. (b) Nuclear extracts were prepared after 24 and 48 h treatment. Equal amounts of nuclear lysates were used to examine the nuclear levels of pan- and p-STAT3, and lamin A/C levels were used as a loading control.
Biomedicines 09 01907 g003
Figure 4. 8-OHD repressed matrix metalloproteinase (MMP) expressions. (a) The MetaCore pathway map of the “Role of metalloproteases and heparanase in progression of pancreatic cancer” obtained by functional analysis of 1910 downregulated differentially expressed genes (DEGs) in response to 8-OHD. The blue thermometer indicates downregulated genes, and the thermometer level represents the intensity of the log2(fold change). The image was generated using MetaCore. (b) Heatmap of expression patterns of MMP-associated genes in response to 8-OHD. H5 and H1 represent 50 and 100 μM 8-OHD, respectively. (cg). Reconfirmation of MMP-associated genes by RT-qPCR. * p < 0.05 and ** p < 0.01 indicate significant differences compared to vehicle-treated cells.
Figure 4. 8-OHD repressed matrix metalloproteinase (MMP) expressions. (a) The MetaCore pathway map of the “Role of metalloproteases and heparanase in progression of pancreatic cancer” obtained by functional analysis of 1910 downregulated differentially expressed genes (DEGs) in response to 8-OHD. The blue thermometer indicates downregulated genes, and the thermometer level represents the intensity of the log2(fold change). The image was generated using MetaCore. (b) Heatmap of expression patterns of MMP-associated genes in response to 8-OHD. H5 and H1 represent 50 and 100 μM 8-OHD, respectively. (cg). Reconfirmation of MMP-associated genes by RT-qPCR. * p < 0.05 and ** p < 0.01 indicate significant differences compared to vehicle-treated cells.
Biomedicines 09 01907 g004aBiomedicines 09 01907 g004b
Figure 5. 8-OHD repressed K562 matrix metalloproteinase (MMP) activity and invasion ability. (a) Gelatin zymography for the determination of secreted MMP9 activity in K562 cells treated with 8-OHD for 24 h. (b) Cell invasion was tested using a modified Boyden chamber assay as described in Section 2. ** p < 0.01 indicates a significant difference compared to vehicle-treated cells.
Figure 5. 8-OHD repressed K562 matrix metalloproteinase (MMP) activity and invasion ability. (a) Gelatin zymography for the determination of secreted MMP9 activity in K562 cells treated with 8-OHD for 24 h. (b) Cell invasion was tested using a modified Boyden chamber assay as described in Section 2. ** p < 0.01 indicates a significant difference compared to vehicle-treated cells.
Biomedicines 09 01907 g005
Figure 6. 8-OHD-downregulated genes involved in oxidative phosphorylation. (a) The top 15 KEGG pathways associated with genes commonly downregulated by both 50 and 100 μM 8-OHD were analyzed with DAVID functional annotation cluster tool. Oxidative phosphorylation was the second most significantly enriched pathway. (b) KEGG “Oxidative Phosphorylation” pathway (hsa00190) associated with 8-OHD-downregulated genes. E: eukaryote; B: bacteria; A: archaea. Downregulated genes obtained from the microarray are marked in red. (c) Heatmap of expression patterns of some oxidative phosphorylation-associated genes in response to 8-OHD. H5 and H1 represent 50 and 100 μM 8-OHD, respectively.
Figure 6. 8-OHD-downregulated genes involved in oxidative phosphorylation. (a) The top 15 KEGG pathways associated with genes commonly downregulated by both 50 and 100 μM 8-OHD were analyzed with DAVID functional annotation cluster tool. Oxidative phosphorylation was the second most significantly enriched pathway. (b) KEGG “Oxidative Phosphorylation” pathway (hsa00190) associated with 8-OHD-downregulated genes. E: eukaryote; B: bacteria; A: archaea. Downregulated genes obtained from the microarray are marked in red. (c) Heatmap of expression patterns of some oxidative phosphorylation-associated genes in response to 8-OHD. H5 and H1 represent 50 and 100 μM 8-OHD, respectively.
Biomedicines 09 01907 g006aBiomedicines 09 01907 g006b
Figure 7. Reconfirmation of downregulation of oxidative phosphorylation genes by RT-qPCR. * p < 0.05 and ** p < 0.01 indicate significant differences compared to vehicle-treated cells.
Figure 7. Reconfirmation of downregulation of oxidative phosphorylation genes by RT-qPCR. * p < 0.05 and ** p < 0.01 indicate significant differences compared to vehicle-treated cells.
Biomedicines 09 01907 g007
Figure 8. KEGG pathways associated with both 8-OHD-downregulation and myeloid leukemia (ML). (a) Venn diagrams demonstrating 112 putative ML targets downregulated by 8-OHD. (b) Bubble chart indicates the top 15 enriched KEGG pathways by 112 targets. Gene counts are indicated by the bubble size and number inside. (c) KEGG “Chronic myeloid leukemia pathway” (hsa05220) associated with 8-OHD-downregulated and ML genes. (d) KEGG “PI3K-Akt signaling pathway” (hsa04151) associated with 8-OHD-downregulated and ML genes. Green box indicates that map objects exist and are linked to corresponding entries. Downregulated genes obtained from microarray are indicated by red star signs.
Figure 8. KEGG pathways associated with both 8-OHD-downregulation and myeloid leukemia (ML). (a) Venn diagrams demonstrating 112 putative ML targets downregulated by 8-OHD. (b) Bubble chart indicates the top 15 enriched KEGG pathways by 112 targets. Gene counts are indicated by the bubble size and number inside. (c) KEGG “Chronic myeloid leukemia pathway” (hsa05220) associated with 8-OHD-downregulated and ML genes. (d) KEGG “PI3K-Akt signaling pathway” (hsa04151) associated with 8-OHD-downregulated and ML genes. Green box indicates that map objects exist and are linked to corresponding entries. Downregulated genes obtained from microarray are indicated by red star signs.
Biomedicines 09 01907 g008aBiomedicines 09 01907 g008b
Figure 9. Predicted protein-protein interactions (PPIs) for 8-OHD-downregulated targets associated with myeloid leukemia (ML). (a) The PPI network of 112 targets. Corresponding genes were uploaded to query the STRING interaction database. Only the ‘‘Experiments’’, ‘‘Databases’’, and “Textmining” source options were selected, and the minimum interaction score was set to 0.4. The line thickness indicates the strength of data support. The solid and the dotted lines respectively indicate connections within the same and different clusters. Those proteins involved in the KEGG acute ML (AML) pathway and chronic ML (CML) pathway are respectively shown in blue and red. (b) Dose- and time-dependent inhibitory effects of 8-OHD on the phosphorylation of Akt (Ser473) in K562 cells. (c) Effects of 8-OHD on the nuclear c-Myc level. Lamin A/C was used as the loading control.
Figure 9. Predicted protein-protein interactions (PPIs) for 8-OHD-downregulated targets associated with myeloid leukemia (ML). (a) The PPI network of 112 targets. Corresponding genes were uploaded to query the STRING interaction database. Only the ‘‘Experiments’’, ‘‘Databases’’, and “Textmining” source options were selected, and the minimum interaction score was set to 0.4. The line thickness indicates the strength of data support. The solid and the dotted lines respectively indicate connections within the same and different clusters. Those proteins involved in the KEGG acute ML (AML) pathway and chronic ML (CML) pathway are respectively shown in blue and red. (b) Dose- and time-dependent inhibitory effects of 8-OHD on the phosphorylation of Akt (Ser473) in K562 cells. (c) Effects of 8-OHD on the nuclear c-Myc level. Lamin A/C was used as the loading control.
Biomedicines 09 01907 g009aBiomedicines 09 01907 g009b
Table 1. Primary antibodies used for Western blotting.
Table 1. Primary antibodies used for Western blotting.
AntibodyCompanyCatalog No.
α-TubulinSigma-AldrichT6199
JAK2Cell Signaling3230
STAT3Cell Signaling9132
p-STAT3Cell Signaling9134
AKTCell Signaling9272
p-AKTCell Signaling9271
c-MycCell Signaling5605
Lamin A/CGenetexGTX101127
Table 2. The primer pairs used in real-time PCR.
Table 2. The primer pairs used in real-time PCR.
Gene Primer SequenceAmplicon (bp)
GADPHFCATGAGAAGTATGACAACAGCCT113
RAGTCCTTCCACGATACCAAAGT
MMP11FCCGCAACCGACAGAAGAGG145
RATCGCTCCATACCTTTAGGGC
MMP14FGGCTACAGCAATATGGCTACC83
RGATGGCCGCTGAGAGTGAC
MMP15FAGGTCCATGCCGAGAACTG157
RGTCTCTTCGTCGAGCACACC
VEGFAFAGGGCAGAATCATCACGAAGT75
RAGGGTCTCGATTGGATGGCA
SOS1FGAGTGAATCTGCATGTCGGTT177
RCTCTCATGTTTGGCTCCTACAC
ATP5DFTCCCACGCAGGTGTTCTTC178
RGGAACCGCTGCTCACAAAGT
CYC1FCCAGGGAAGCTGTTCGACTAT80
RGGCAATGCTCCGTTGTTGG
NDUFB8FCCGCCAAGAAGTATAATATGCGT204
RTATCCACACGGTTCCTGTTGT
NDUFS7FCTTCGCAAGGTCTACGACCAG90
RGGAATAGTGGTAGTAGCCTCCTC
NDUFV1FAGGCCCAAGTATCTGGTGGT85
RTGTGAGGATCATGGCGTAAGA
COX5AFATCCAGTCAGTTCGCTGCTAT102
RCCAGGCATCTATATCTGGCTTG
NDUFB10FAAAGCGTTCGACCTCATCGT178
RTCTTCCACTGCATTTCGGCT
SDHBFGTGGCCCCATGGTATTGGAT142
RCGGGTGCAAGCTAGAGTGTT
Publisher’s Note: MDPI stays neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Share and Cite

MDPI and ACS Style

Wu, P.-S.; Wang, C.-Y.; Chen, P.-S.; Hung, J.-H.; Yen, J.-H.; Wu, M.-J. 8-Hydroxydaidzein Downregulates JAK/STAT, MMP, Oxidative Phosphorylation, and PI3K/AKT Pathways in K562 Cells. Biomedicines 2021, 9, 1907. https://doi.org/10.3390/biomedicines9121907

AMA Style

Wu P-S, Wang C-Y, Chen P-S, Hung J-H, Yen J-H, Wu M-J. 8-Hydroxydaidzein Downregulates JAK/STAT, MMP, Oxidative Phosphorylation, and PI3K/AKT Pathways in K562 Cells. Biomedicines. 2021; 9(12):1907. https://doi.org/10.3390/biomedicines9121907

Chicago/Turabian Style

Wu, Pei-Shan, Chih-Yang Wang, Pin-Shern Chen, Jui-Hsiang Hung, Jui-Hung Yen, and Ming-Jiuan Wu. 2021. "8-Hydroxydaidzein Downregulates JAK/STAT, MMP, Oxidative Phosphorylation, and PI3K/AKT Pathways in K562 Cells" Biomedicines 9, no. 12: 1907. https://doi.org/10.3390/biomedicines9121907

APA Style

Wu, P. -S., Wang, C. -Y., Chen, P. -S., Hung, J. -H., Yen, J. -H., & Wu, M. -J. (2021). 8-Hydroxydaidzein Downregulates JAK/STAT, MMP, Oxidative Phosphorylation, and PI3K/AKT Pathways in K562 Cells. Biomedicines, 9(12), 1907. https://doi.org/10.3390/biomedicines9121907

Note that from the first issue of 2016, this journal uses article numbers instead of page numbers. See further details here.

Article Metrics

Back to TopTop