Abstract
Several circular RNAs (circRNAs) may have role important roles in biological processes, however, there is limited knowledge of circRNAs and their potential functions in RAW264.7 macrophages. The present study aimed to examine the expression of circRNAs and explore their effects on interleukin-6 (IL-6) expression induced by calcitonin gene-related peptide (CGRP) in RAW264.7 macrophages. To identify circRNAs, the circRNA expression was measured in macrophages with or without CGRP stimulation. The interaction between circRNAs and microRNAs (miRs) were then identified using bioinformatic software and networks. In the current study, it was demonstrated that CGRP increased the expression of IL-6 mRNA in a dose- and time-dependent manner. Furthermore, mmu_circRNA_007893 was significantly increased in the CGRP-stimulated macrophages. Silencing of mmu_circRNA_007893, IL-6 mRNA expression was significantly decreased, whereas mmu-miR-485-5p expression was markedly increased. Furthermore, when overexpression of mmu-miR-485-5p, IL-6 mRNA was markedly decreased. The results demonstrated that CGRP-induced IL-6 mRNA expression was mediated by mmu_circRNA_007893, and mmu_circRNA_007893 functioned as an endogenous mmu-miR-485-5p sponge as part of induction of IL-6 mRNA expression.
Keywords: calcitonin gene-related peptide, circular RNA, interleukin-6, macrophages, microRNA
Introduction
Calcitonin gene-related peptide (CGRP) is a 37-amino acid peptide with a variety of biological effects, and is widely distributed in peripheral and central nervous system (1). Initially, it was reported that CGRP is produced by sensory nerve cells and has effect on sympathetic nervous pathways (2). With the development of research, it has been confirmed that CGRP has an important role in the cardiovascular system, respiratory system and skeletal system (3). Furthermore, there is growing concern about the association between CGRP and the immune system. As one of the most important neurotransmitters of the neuroimmune axis, CGRP works as a bridge connecting the nervous system and immune system (4–6). Furthermore, the research on CGRP and macrophages has become a hot topic in the past decades. CGRP can induce macrophages to produce cytokines through interaction with CGRP receptors. The calcitonin receptor-like receptor and receptor activity-modifying protein 1 are present on the surface of bone marrow-derived macrophages (7). Additionally, α-CGRP receptors are present on alveolar macrophages (8). CGRP has an important role on the inflammatory response mediated by lipopolysaccharide (LPS) in macrophages (9,10) and CGRP is also be secreted by macrophages (11). It has been proved that certain classical pathways are involved in biological processes, including inflammatory response, the cyclic adenosine monophosphate pathway and nuclear factor-κB pathway (9–12).
Circular RNA (circRNA) is a special type of non-coding RNA that was first identified 20 years ago; however, it was not until recent years that the study of circRNA function and structure became common (13,14). CircRNA is characterized by the presence of a covalent bond linking the 3′ and 5′ends generated by back splicing (15). Although circRNA can be derived from introns, untranslated regions and gene fragments, it is predominantly produced from exonic DNA encodes protein (15,16). The function of circRNA remains unclear; however, research has provided some information. CircRNA is widely expressed in human cells and the abundance of it exists in cytoplasm (17,18). The sequences of the majority of circRNAs are highly conserved, and have the ability to mediate gene expression at the transcriptional level or post-transcriptional level by altering their downstream miRNAs expression (15,18). Furthermore, circRNA is more stable than linear RNA in cells, as its unique structure is resistant to degradation by exonucleases (16). Recently, it was reported that circRNA can act as a ‘sponge’ for microRNAs (miRNAs) (19). The previous study demonstrated that cerebellar degeneration-related protein 1 transcript antisense RNA (CDR1as) acts as a circular miRNA-7 (miR-7) inhibitor, which harbors more than 70 conventional miR-7 binding sites. When CDR1 as is overexpressed, miR-7 will associate with it and the expression of miR-7 target genes increases (20); this is termed the ‘sponge effect’ or competing endogenous RNA mechanism, and this effect has been validated in multiple studies (21–23).
In the present study, it was demonstrated that interleukin-6 (IL-6) mRNA expression in RAW264.7 macrophages is enhanced by CGRP in a dose- and time-dependent manner. Furthermore, the expression of certain circRNAs, including mmu_circRNA_007893, was demonstrated to be changed when macrophages were stimulated by CGRP. Subsequently, the function and mechanism of mmu_circRNA_007893 was investigated. The results of the current study demonstrated that mmu_circRNA_007893 is involved in IL-6 mRNA induction by CGRP in RAW264.7 macrophages.
Materials and methods
Cell culture
The RAW264.7 macrophages (Infrastructure of Cell Line Resources, Beijing, China) were plated on 6-well plate culture dishes at density of 2×105 cells per well in 2 ml of Dulbecco's modified Eagle's medium (Gibco; Thermo Fisher Scientific, Inc., Waltham, MA, USA) containing 10% fetal bovine serum (Gibco; Thermo Fisher Scientific, Inc.). The 6-well plates were placed at 37°C in a humidified atmosphere of 95% air and 5% CO2. Media were replaced 1 h before the experiments.
Verification of optimum concentration and time point of CGRP on RAW264.7 cell lines
In the concentration experiments, the cells were divided into 6 groups: 0.01, 0.1, 1, 10, 100 nM CGRP and the control group. Then cells were treated with CGRP (Sigma-Aldrich; Merck KGaA, Darmstadt, Germany) at the corresponding concentration. After stimulation for 2 h, the total RNA was collected and the expression of IL-6 in each group was detected by reverse transcription-quantitative polymerase chain reaction (RT-qPCR). Similarly, in the time point experiments, the cells were divided into 5 groups: 4, 3, 2, 1 h and the control group (0 h). Then, cells were treated with 1 nM CGRP for the corresponding time. The total RNA was collected and the expression of IL-6 in each group was detected by RT-qPCR.
Preparation and analysis of the circRNA microarrays
The cells were divided into 2 groups: Control group and subject group. In the subject group, the cells were treated with 1 nM CGRP for 2 h. In the control, the cells were untreated. The total RNA of the 2 groups was isolated using TRIpure (Aidalb Biotechnologies Co., Ltd., Beijing, China) and RNA in each group was quantified using NanoDrop 2000 (Thermo Fisher Scientific, Inc., Wilmington, DE, USA). The samples were prepared and hybridized based on the Arraystar standard protocols (Arraystar, Inc., Rockville, MD, USA). In brief, according to the Arraystar Super RNA Labeling protocol (Arraystar, Inc.), total RNA of samples was amplified and transcribed into fluorescent cRNA utilizing random primers. The labeled cRNAs were hybridized onto the Arraystar Human circRNA Array (8×15K, Arraystar, Inc.). After washing the slides, the arrays were scanned with an Agilent G2505C Scanner. Then, Agilent Feature Extraction software (version 11.0.1.1) was used to analyze the acquired array images. Quantile normalization and subsequent data processing were performed with the R software package. After the circRNA microarray was completed, all the circRNAs that had changed above 2 folds were displayed in the circRNA profiling data (The data was provided by the Arraystar, Inc.). Then, the circRNAs were selected with reference to the networks using circBase (http://www.circbase.org), mirBase (http://www.mirbase.org) and miRDB (http://www.mirdb.org); the selected circRNA were confirmed by RT-PCR and their PCR products were sequenced (Nuclea Bio-tech Inc., Guangzhou, China).
Fluorescence in situ hybridization (FISH)
The probe used to detect mmu_circRNA_007893 was synthesized by BersinBio (Guangzhou, China) and its sequence was CTCCAGCTTGCCTTCATCCAGTCCAA. The FISH experiment was performed with the BersinBio™ circRNA FISH kit. The cells were fixed by 4% paraformaldehyde at room temperature for 20 min and washed with diethyl pyrocarbonate twice. Prior to permeabilization, the cells were washed by 1X PBS and fixed by 4% paraformaldehyde at room temperature for 10 min. Then the samples were washed by 1X PBS three times and permeabilized at 4°C for 5 min. The probe labeled with fluorescein isothiocyanate (100 ng/µl; BersinBio) and hybridization solution (BersinBio) were mixed at the ratio of 1:19 and denaturated at 73°C for 8 min. Then, the mixture was added to the samples and the samples were incubated overnight at 42°C. In the present study, DAPI (5 µg/ml; Beyotime Institute of Biotechnology, Shanghai, China) was used to stain the nucleus at room temperature for 10 min. The images were observed with a confocal microscope (Leica Microsystems GmbH, Wetzlar, Germany).
circRNA interference
The small interfering RNAs (siRNAs) targeting mmu_circRNA_007893 were designed and synthesized by Guangzhou RiboBio Co., Ltd. (Guangzhou, China). The sequences of siRNA1-3 were showed as followed: siRNA1, 5′-GCCUUCAUCCAGUCCAAUGdTdT-3′ (sense) and 3′-dTdTCGGAAGUAGGUCAGGUUAC-5′ (antisense); siRNA2, 5′-CAGCUUGCCUUCAUCCAGUdTdT-3′ (sense), 3′-dTdTGUCGAACGGAAGUAGGUCA-5′ (antisense); and siRNA3, 5′-CCCUCCAGCUUGCCUUCAUdTdT-3′ (sense) and 3′-dTdTGGGAGGUCGAACGGAAGUA-5′ (antisense), respectively. Negative siRNA was used as a control. The RAW264.7 macrophages were transfected with siRNA using GenMute™ siRNA Transfection Kit and Transfection Buffer (SignaGen Laboratories, Rockville, MD, USA) according to the manufacturer's instructions. Then the cells were incubated for 48 h at 37°C prior to the sequential tests.
miRNA overexpression and inhibition
The mmu-miR-485-5p mimic and inhibitor were synthesized by Invitrogen (Thermo Fisher Scientific, Inc.). The sequences were as follows: Mimic, 5′-AGAGGCUGGCCGUGAUGAAUUC-3′ (sense) and 3′-UCUCCGACCGGCACUACUUAAG-5′ (antisense); inhibitor, 5′-UCUCCGACCGGCACUACUUAAG-3′. The culture media were replaced 1 h before transfection. Then the cells were transfected with mimics or inhibitor using Lipofectamine 3000 (Invitrogen; Thermo Fisher Scientific, Inc.) following the manufacturer's protocol and incubated for 24 h at 37°C prior to the subsequent experiments.
Detection of IL-6 mRNA, mmu_circRNA_007893, mmu-miR-485-5p by RT-qPCR
Total RNA from RAW264.7 cell line was extracted using TRIzol reagent (Thermo Fisher Scientific, Inc.). The mRNA samples were treated with DNase to eliminate contaminating genomic DNA and reverse transcribed using the First Strand cDNA Synthesis Kit (Takara Bio, Inc., Otsu, Japan). For circRNA analysis, total RNA was reverse transcribed using random primers (Invitrogen; Thermo Fisher Scientific, Inc.). miRNAs were extracted using small RNAiso (Takara Bio, Inc.) and reverse transcribed by MicroRNA First-Strand Synthesis Kits (Takara Bio, Inc.). GAPDH was chosen to be the internal standard for mRNA and circRNAs analysis and U6 was selected to the internal standard for miRNA analysis. The primers used in the experiment as follows: IL-6, 5′-CCACTTCACAAGTCGGAGGCTTA-3′ (forward) and 5′-CCAGTTTGGTAGCATCCATCATTTC-3′ (reverse); mmu_circRNA_007893, 5′-CAGTAAGGGAGGGCAAGAA-3′ (forward) and 5′-GCCATAAGGTGGAATCTGC-3′ (reverse); mmu-miR-485-5p, 5′-GCTGGCCGTGATGAATTCAAA-3′ (forward); and GAPDH, 5′-AAGAAGGTGGTGAAGCAGG-3′ (forward) and 5′-GAAGGTGGAAGAGTGGGAGT-3′ (reverse). The RT-qPCR was undertaken with the SYBR® Premix Ex Taq™ II kit (Takara Bio, Inc., Otsu, Japan). Briefly, the total reaction system was 25 µl and the RT-qPCR was performed using 40 cycles with a 10 min denaturation at 95°C, 15 sec annealing at 95°C and a 1 min extension at 60°C. The 2−ΔΔCq method was used to analyze the results (24).
Western blotting
Protein was extracted using radioimmunoprecipitation assay buffer (50 mM Tris HCl, pH 7.4, 150 mM NaCl, 1% Nonidet P40 and 0.1% sodium dodecyl sulfate) and phenylmethanesulfonyl fluoride at 4°C. Bicinchoninic acid protein assay kit (BestBio, Shanghai, China) was used to determine the concentration. The concentration of each sample was 500 ng/µl and all the samples were run on 10% sodium dodecyl sulfate-polyacrylamide gel and electro-transferred onto polyvinylidene fluoride membranes for 1 h at 4°C. After being electro-transferred, the polyvinylidene fluoride membranes were blocked by skimmed milk for 1 h at room temperature. Antibodies against GAPDH (97166; 1:4,000; Cell Signaling Technology, Inc., Danvers, MA, USA) and IL-6 (sc-57315; 1:200; Santa Cruz Biotechnology, Inc., Dallas, TX, USA) were incubated with blots overnight at 4°C. Then the blots were incubated with secondary antibody (anti-mouse IgG; ab6789; 1:5,000; Abcam, Cambridge, UK) at room temperature for 1 h. Proteins were detected by electrochemiluminescence (Beijing Dingguo Changsheng Biotechnology Co., Ltd., Beijing, China).
Statistical analysis
The SPSS version 20.0 program (IBM Corp., Armonk, NY, USA) was used for the statistical analysis. The data of two groups were analyzed by the Student's t test. The data of three or more groups were evaluated using analysis of variance and least significant difference post hoc tests when the variance was normal, otherwise Dunnett's T3 test was used. The results are reported as the mean ± standard error. P<0.05 was considered to indicate a statistically significant difference.
Results
CGRP induces IL-6 mRNA expression in RAW264.7 macrophages
To identify the effect of CGRP on IL-6 mRNA expression in RAW264.7 macrophages, cultured cells were treated for different times, with different concentrations of CGRP. IL-6 mRNA was measured by RT-qPCR. In the concentration experiments, macrophages were stimulated with CGRP (0.01 to 100 nM) for up to 2 h. As presented in Fig. 1A, the promotion effect of CGRP was observed at a concentration of 10 nM and peaked at the concentration of 1 nM. The transient increase effect was not different to the basal level at a concentration of 0.01 nM. Therefore, 1 nM CGRP was selected as the optimum concentration for the subsequent experiments. Similarly, CGRP caused a time-dependent change to IL-6 mRNA expression in RAW264.7 macrophages. The macrophages were treated with 1 nM CGRP for 1–4 h. As presented in Fig. 1B, the expression of IL-6 mRNA increased gradually from 1 to 2 h, and remained stable for 1 h. Then, the IL-6 mRNA expression decreased slightly. These results suggested that CGRP stimulates dose- and time-dependent increases in IL-6 mRNA.
CGRP affects the expression of circRNAs in RAW264.7 macrophages
In the circRNA microarray, 349 circRNAs were changed >2-fold between the control group and subject group (1 nm CGRP for 2 h). Among them, 173 circRNAs were significantly upregulated. The upregulated circRNAs were ranked according to the fold change and the top four are listed in Fig. 2A. CircRNAs can interact with their target miRNAs by base pairing and most have more than five miRNAs as potential targets. Furthermore, each miRNA can bind to several circRNAs. Thus, it is difficult to define which circRNA have the most important roles in biological processes. Therefore, it was assumed that the circRNAs that have more miRNA binding sites have more critical roles in the circRNA-miRNA network (23). According to this hypothesis, the upregulated circRNAs were ranked by the number of the predicted miRNA binding sites and the top four are listed in Fig. 2B. Furthermore, the target miRNAs of the former eight circRNAs were ranked according to mirSVR scores and the five highest ranking miRNAs for each circRNA are presented in Fig. 2C. Cytoscape was used to construct the circRNA-miRNA network.
CGRP promotes mmu_circRNA_007893 expression in RAW264.7 macrophages
To confirm the validity of the data microarray, all the circRNAs identified were also analyzed by RT-qPCR. However, several circRNAs exhibited unchanged expression or the opposite trend compared with the microarray results. As presented in Fig. 3A, it demonstrated that mmu_circRNA_007893 expression increased stably by ~2 fold relative to the control group. The data was in accordance with the results in the circRNAs microarray. The result indicated that CGRP promotes mmu_circRNA_007893 expression in RAW264.7 macrophages. Furthermore, according to the circRNA microarray, mmu_circRNA_007893 were located mainly in the cytoplasm. To confirm the result, the fluorescent probes complementary to the junction sequences was attached to the circRNAs and fluorescence in situ hybridization (FISH) was used. As shown in Fig. 3B, the location of the circRNA was mostly in the cytoplasm.
CGRP promotes IL-6 expression by mediated mmu_circRNA_007893 expression
Referring to the aforementioned results, CGRP induced mmu_circRNA_007893 and IL-6 mRNA expression in RAW264.7 macrophages. It was then explored whether IL-6 is a downstream mediator of mmu_circRNA_007893. Three different siRNAs were used to reduce the circRNA expression. As demonstrated in Fig. 4A, all the siRNAs were effective and siRNA3 was selected as the optimum siRNA for the subsequent experiments. The IL-6 mRNA expression was detected following circRNA inhibition using the siRNA. In the CGRP + siRNA group, the cells were treated with siRNA3 for 48 h before CGRP stimulation. In Fig. 4B, IL-6 mRNA expression level declined correspondingly with the decrease of the circRNA. IL-6 proteins were also detected using western blotting. The result of western blot was consistent with that of RT-qPCR (Fig. 4C). Overall, the data indicates that CGRP promotes IL-6 expression and mmu_circRNA_007893 is involved in this effect.
Role of mmu-miR-485-5p in mmu_circRNA_007893-mediated IL-6 release
It is reported that circRNAs may act as a ‘sponge’ for miRNAs, and to thus influence mRNA expression. Therefore, target miRNAs that may associate with circRNAs were identified using bioinformatic networks and the circRNA microarray. According to the circRNA microarrays, mmu-miR-485-5p was one of the predicated target miRNAs of mmu_circRNA_007893. As demonstrated in Fig. 5A, this mmu-miR-485-5p was predicted to match five regions of the complete sequence of mmu_circRNA_007893. To identify whether mmu-miR-485-5p took part in the biological processes in thus study, the mmu-miR-485-5p expression was determined in CGRP group and CGRP + siRNA group cells. Referring to Fig. 5B, the expression of miR-485-5p in the CGRP groups was significantly lower than that in the negative control groups. However, with mmu_circRNA_007893 expression knocked down by siRNA, the expression of miR-485-5p was rescued. This result suggests that mmu_circRNA_007893 reduces the expression level of mmu-miR-485-5p. Subsequently, whether IL-6 mRNA is downstream of mmu-miR-485-5p was investigated. miRNA mimics and inhibitor were transfected into cells and termed the CGRP + mimics and CGRP + inhibitor groups, respectively, for 24 h prior to CGRP stimulation. Transfection with mimics resulted in the enforced expression of mmu-miR-485-5p compared with the negative control, while the cells transfected inhibitors had decreased miR-485-5p levels, as analyzed by RT-qPCR (data not shown). As presented in Fig. 5C, IL-6 mRNA expression in the CGRP + mimics group was significantly decreased compared with the CGRP treated group, whereas, the IL-6 mRNA expression level was increased in the CGRP + inhibitors group relative to that in the CGRP group indicating that mmu-miR-485-5p attenuated the effect of CGRP on IL-6 induction. IL-6 proteins were also evaluated (Fig. 5D). The results of western blotting were in accordance with that of RT-qPCR. Taken together, these results suggest that mmu_circRNA_007893 regulates IL-6 mRNA expression by mediating the level of mmu-miR-485-5p.
Discussion
Previous studies on CGRP and macrophages have focused on the potential pathways and kinases involved; however, the importance of circRNAs and their functions remain largely unclear. In the current study, mmu_circRNA_007893 was identified to be was involved in IL-6 induction mediated by CGRP. Furthermore, the data indicated that mmu-miR-485-5p, regulated by mmu_circRNA_007893, is a negative regulator of IL-6 expression. Overexpression of the miRNA attenuates the effect of CGRP on IL-6 expression. Therefore, the results of the present study expand the previous understanding of the role of CGRP in macrophages and provide novel insights into the endogenous mechanism of cytokine induction.
It is reported that CGRP has an important role in inflammatory cytokine secretion mediated by s in macrophage (9,10). The results of the study suggest that CGRP can stimulate RAW264.7 macrophages and induce IL-6 mRNA expression. Furthermore, CGRP acts in dose- and time-dependent manner. When the concentration of CGRP was 1 nM, the expression of IL-6 mRNA peaked, and at higher or lower CGRP concentrations, IL-6 mRNA expression declined gradually. Similarly, IL-6 expression reached the highest level after CGRP stimulation for 2 h, and extending or reducing the stimulation duration resulted in reduced expression of IL-6 compared with the level at 2 h. The results are similar to the previous finding (7). The previous study reported that CGRP can also increase the expression of IL-6 mRNA in bone marrow-derived macrophages. However, the optimum concentration and stimulation time as not entirely consistent with the results of the present study, which may be attributes to the difference in the cell type used (7).
Recent studies have demonstrated that circRNA microarrays are a reliable and convenient method to research circRNAs and their target miRNAs and genes (25–27). Therefore, a circRNA microarray to identify the related circRNAs in the current study. Initially, the circRNAs were sorted and classified using the fold changes. Because certain studies have reported that circRNA can act as miRNA sponges to suppress the miRNA expression and thus, regulated the expression of target mRNAs (16,20). Hence, it was assumed that the circRNAs that harbored more predicted miRNA binding sites had more important roles in altering the expression of their downstream miRNA (23). Subsequently, the circRNAs were sorted by the maximum number of predicted miRNA binding sites. Furthermore, a circRNA-miRNA interaction network was constructed. The miRNAs were selected according to their mirSVR scores. The network provides a pivotal reference for further investigation of the interaction of other differentially expressed circRNAs and their potential targets.
In the current study, RT-PCR, nucleic acid electrophoresis and PCR product sequencing were used to further confirm the selected circRNAs. However, the data demonstrated that not all the circRNA expression levels were in accordance with the microarray analysis, and certain circRNAs were changed in the opposite direction. Similarly, this phenomenon was also reported by another study (28). This may be due to sensitive detection method of circRNA microarrays, as even minor variation or error can cause a marked difference. Thus, the results obtained by the circRNA microarray can only be a reference method and should be confirmed by further experiments.
The change of mmu_circRNA_007893 detected by RT-PCR was consistent with that of the circRNA microarray. Furthermore, interference with the expression of mmu_circRNA_007893 confirmed the association between mmu_circRNA_007893 and IL-6 mRNA. Notably, when the mmu_circRNA_007893 expression level was knocked down using siRNA, the expression of IL-6 mRNA decreased. The result suggested that CGRP regulates IL-6 mRNA expression by affecting the level of mmu_circRNA_007893. However, other circRNAs identified in the microarray may also be involved in the IL-6 mRNA increase and should be examined further.
A previous study reported that circRNA ciRS-7 acts as miR-7 sponge to suppress miR-7 activity, leading to increased levels of miR-7 targets (20). Several studies indicate that miR-485-5p act as a negative regulator in gastric cancer (29,30). It is also reported that miR-485-5p regulates T-cell acute lymphocytic leukemia protein 1 expression in T-cell acute lymphoblastic leukemia (31). These findings demonstrated that other molecules may be mediated by miR-485-5p and need to be identified. Although the present study demonstrated that mmu-miR-485-5p can be regulated by mmu_circRNA_007893, the results do not exclude the involvement of other circRNAs or molecules that can regulate mmu-miR-485-5p directly or indirectly.
Overall, the results demonstrated that CGRP induces IL-6 mRNA expression, which is mediated by mmu_circRNA_007893, and that mmu_circRNA_007893 functions as an endogenous miRNA sponge of mmu-miR-485-5p. Various questions should be resolved in further study. The direct association between mmu_circRNA_007893 and mmu-miR-485-5p should be confirmed. Furthermore, the effect of CGRP should be tested and detected in vivo.
Acknowledgements
This study was supported by Science & Technology Bureau of Guangdong Province (grant no. 2013B021800278) and Research Foundation of Science & Technology Bureau of Liwan District of Guangzhou City (grant no. 2014126055).
References
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