Abstract
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Effects of inorganic phosphate on stem cells isolated from human exfoliated deciduous teeth
Abstract
Calcium phosphate-based materials (CaP) are introduced as potential dental pulp capping materials for deciduous teeth. The present study investigated the influence of inorganic phosphate (Pi) on regulating stem cells isolated from human exfoliated deciduous teeth (SHED). SHEDs were treated with Pi. Cell cycle progression and apoptosis were examined using flow cytometry analysis. Osteo/odontogenic and adipogenic differentiation were analyzed using alizarin red S and oil red O staining, respectively. The mRNA expression profile was investigated using a high-throughput RNA sequencing technique. Pi increased the late apoptotic cell population while cell cycle progression was not altered. Pi upregulated osteo/odontoblastic gene expression and enhanced calcium deposition. Pi-induced mineralization was reversed by pretreatment of cells with Foscarnet, or p38 inhibitor. Pi treatment inhibited adipogenic differentiation as determined by decreased PPARγ expression and reduced intracellular lipid accumulation. Bioinformatic analysis of gene expression profiles demonstrated several involved pathways, including PI3K/AKT, MAPK, EGFR, and VEGF signaling. In conclusion, Pi enhanced osteo/odontogenic but inhibited adipogenic differentiation in SHED.
Supplementary Information
The online version contains supplementary material available at 10.1038/s41598-024-75303-6.
Introduction
In dental pulp tissues, stem and progenitor cells are essential regulators of pulpal tissues in response to pulpal inflammation, leading to healing/regeneration processes. When irritation or trauma occurs, stem cells in dental pulp tissues migrate to the injured site and differentiate into odontoblast-like cells, which form reparative dentin1,2. Applying pulp-capping materials during a restorative operation stimulates dental stem cell responses and provides an appropriate microenvironment to initiate pulp-dentin tissue regeneration and repair.
Various pulp capping materials have been developed for use in current dental practice, such as calcium hydroxide (CH), mineral tricalcium aggregate (MTA), and calcium silicate-based materials3,4. Recently, alternative materials like calcium phosphate-based materials (CaP) have been introduced as potential pulp-capping materials. CaP has also been proposed in several treatments, such as pulpotomy and dental pulp capping, as it can trigger reparative dentin formation5–7. The key active components of CaP are calcium ions (Ca2+) and inorganic phosphate (Pi); these ions are the building blocks of hydroxyapatite mineral and play essential roles in the formation, maturation, repair, and regeneration of hard tissues such as bone and dentin8–12.
Accumulating evidence over the last two decades supports Pi as more than an ionic component of hydroxyapatite in mineralized tissues. Pi acts as a signaling molecule for many types of mineralizing cells and their progenitors. Pi alters the expression of differentiation and mineralization-associated genes in mouse MC3T3-E1 pre-osteoblasts13, mesenchymal stem cells (MSC)14, dental pulp stem cells (DPSC)15,16, and stem cells isolated from human exfoliated deciduous teeth (SHED)17. Evidence that Pi can inhibit osteoclastogenesis further implies a role in bone remodeling18, and positive effects of Pi on M2 macrophage polarization suggest an inhibitory role in inflammation19. Inherited and acquired disorders that reduce circulating Pi levels, such as nutritional rickets, X-linked hypophosphatemia (XLH), and vitamin D metabolism disorders, cause profound defects in odontoblast function and dentin mineralization20. XLH predisposes to dentin hypomineralization, tooth fracture, pulp necrosis, and abscesses21.
Because of its cell signaling capabilities and pro-mineralization properties, Pi has been considered a potential bioactive agent to enhance pulp-dentin regeneration in regenerative endodontics15–17. However, the capability of Pi to regulate SHED cell functions remains unclear and further experiments are necessary to support translational and clinical studies on pulp-dentin regeneration. We investigated the effects of Pi on SHED cell behaviors, including cell proliferation, migration, and differentiation. Underlying regulatory mechanisms were interrogated by RNA sequencing analysis.
Results
Isolation and confirmation of SHED cells
Isolated human dental pulp cells were characterized for mesenchymal stem cell characteristics. Cells expressed CD73, CD90, and CD105, while CD45 was not expressed (Fig. 1A). Under appropriate conditions, cells were able to differentiate into osteoblast-like cells and adipocyte-like cells (Fig. 1B and C). Increased calcium deposition occurred under osteogenic induction conditions (Fig. 1B). Furthermore, adipogenic induction medium promoted lipid droplet formation in the cytoplasm (Fig. 1C). These findings confirm that the isolated cells exhibited dental mesenchymal stem cell characteristics consistent with those reported for SHED cells22,23.
Effects of inorganic phosphate on SHED cell proliferation and cell death
Based on criteria established in previous studies, Pi levels used in the investigation were in a range of 1–8 mM17,24. Exogenous Pi was required at concentrations higher than 2mM, up to 10mM, to modulate cellular behaviors14,25,26. However, a report indicated that at least 4 to 6 mM Pi was required for optimal regulation of osteogenic potential in mesenchymal stem cells (MSC)14. Our previous report indicated that 5mM Pi was responsible for enhancing the osteogenic potential of SHED compared to controls receiving no additional Pi17. Here, the minimal and optimal requirements of 2.5 and 5 mM Pi were chosen to elucidate the cellular behaviors of SHED. Cell viability/proliferation was assessed using an MTT assay. On days 1 and 3, there were no differences in the number of viable cells between the 2.5 and 5 mM Pi groups. However, by day 7, treatment with 5 mM Pi resulted in fewer viable cells (Fig. 1D). To assess whether Pi import was required for effects on proliferation, cells were incubated for 30 min with foscarnet (Fos), a sodium-phosphate cotransporter inhibitor. Foscarnet pretreatment reversed the inhibitory effect of Pi on cell proliferation at day 7 (Fig. 1E). Expression of Ki67, a marker for cell proliferation, was significantly downregulated by 5 mM Pi, compared with the control at 24 h after treatment (Fig. 1F). Foscarnet pretreatment rescued the Pi-attenuated Ki67 expression in SHED cells (Fig. 1G). The cell cycle analysis was performed on day 3. The results demonstrate no differences in cell number in the G0/G1 phase between the control and Pi treatment groups. The 5 mM Pi treatment group slightly decreased the S phase population. However, there was no significant difference compared with the control (Fig. 1H).
Apoptosis was next assessed in SHED cells by phosphatidylserine exposure, followed by an assessment of membrane permeabilization by flow cytometry27,28. Early and late apoptotic cell numbers were quantified (Fig. 1I). No differences in early apoptotic cell numbers were induced by either 2.5 or 5 mM Pi groups, compared to the control. However, both 2.5 and 5 mM Pi treated groups significantly increased numbers of late apoptotic cells compared to control.
Inorganic phosphate does not alter SHED cell migration ability
The in vitro scratch assay was performed to analyze cell migration. A linear gap was created through a confluent layer of SHED cells at the center of tissue culture wells. Cells were cultured in serum-free culture medium to restrain cell proliferation29. Cells were then treated with 2.5 or 5 mM Pi. At 24 h, the width of the scratch area decreased to 77.33% in the control condition, while 2.5 and 5 mM Pi treatments showed reduced gap areas of 82.01% and 73.44%, respectively. However, there were no statistically significant differences among groups (Fig. 1J and K).
Inorganic phosphate promotes osteo/odontoblastic differentiation in SHED cells
Previous studies revealed that Pi enhanced the osteogenic potential of MC3T3-E1 pre-osteoblasts13,18, DPSC16, and MSC14. SHED cells underwent an osteogenic induction in the presence of Pi to determine effects on in vitro mineralization capability. Addition of either 2.5 or 5 mM Pi increased mineral deposition compared to controls (Fig. 2A and C). Compared to controls, 5 mM Pi enhanced mRNA expression of DMP1 and DSPP, odontoblast-expressed genes encoding proteins essential for dentin mineralization (Fig. 2B). This phenomenon was attenuated by pre-treated cells with foscarnet (Fig. 2B).
To investigate the potential mechanisms for regulation of mineralization, cells were pretreated with foscarnet, p38 inhibitor, ERK inhibitor, or JNK inhibitor for 30 min prior to Pi exposure. Cells were then maintained in osteogenic induction for 14 days in the presence of Pi and inhibitors. Pi-induced mineralization was attenuated when cells were treated with foscarnet or p38 inhibitor, but not in the presence of ERK or JNK inhibitors (Fig. 2D). Interestingly, the ERK inhibitor promoted increased mineralization compared to the controls.
Inorganic phosphate attenuates adipogenic differentiation of SHED cells
Increased Pi appeared to increase the expression of odontoblast markers and in vitro mineral deposition by SHED cells. We tested the effects of Pi on adipogenic differentiation to better understand the impact on cell fate. SHED cells were incubated in an adipogenic induction medium in the presence of 2.5 and 5 mM Pi. Adipocyte differentiation-related genes, including PPARγ, LPL, and C/EBP-α, were analyzed on day 8. PPARγ mRNA levels were significantly downregulated by 5 mM Pi treatment compared to controls (Fig. 3A), though Pi did not affect LPL and C/EBP-α mRNA expression (Fig. 3B and C). Intracellular lipid accumulation was observed using Oil Red O staining at day 20. Reduced lipid accumulation was noted under Pi treatment (Fig. 3D).
Differential transcriptomic profiling after induction of pi
Selective gene analyses revealed Pi regulates odontoblastic and adipogenic genes in SHED cells. In order to identify underlying regulatory mechanisms, SHED cells were treated with 5 mM Pi and total RNA was collected and subjected to RNA sequencing analysis for differential mRNA expression profiling. The top 50 differentially expressed genes identified from Pi treatment were illustrated as a heat map (Fig. 4A). Volcano plots demonstrated the distribution of expressed genes (Fig. 4C). Gene ontology analysis of the differentially expressed genes was enriched for biological process (red bar), cellular component (blue bar), and molecular function (green bar) (Fig. 4C).
From pathway enrichment analysis by KEGG, The significant genes were identified to be enriched in the VEGF signaling pathway and MAPK signaling pathway (Fig. 4D). For Reactome enrichment analysis, the upregulated genes were enriched in several pathways (Fig. 4E), including PTK6 promotes HIF1A stabilization, MET activates PI3K/AKT signaling, activated NTRK3 signals through PI3K, while the downregulated genes were organized in pathways, including ESR-mediated signaling, signaling by receptor tyrosine kinase (Fig. 4E).
Discussion
Pi is a free form of phosphorus complex existing in extracellular fluid9 and plays essential roles in bone and tooth development30,31. Pi concentrations are regulated at both the systemic and local levels. Systemically, the gut-kidney-bone axis controls circulating Pi levels through endocrine mechanisms employing vitamin D, parathyroid hormone (PTH), and fibroblast growth factor 23 (FGF23)20,32. The normal circulating range of Pi typically stays within 0.5–1.5 mM33. At the local cell and tissue levels, Pi levels are controlled by a host of enzymes and transporters that work cooperatively and antagonistically with one another. Tissue non-specific alkaline phosphatase (TNAP) is a cell membrane-bound enzyme that generates Pi ions from inorganic pyrophosphate and other phosphorylated substrates34. Orphan phosphatase 1 (PHOSPHO1) generates Pi within the confines of matrix vesicles, which promotes the initiation of mineralization in some calcified tissues35. Pi transporters regulate the import of Pi into cells and play roles in the sensing and signaling capabilities of Pi in mineralized tissue cells36. Dysregulation of either systemic or local Pi metabolism results in dramatic effects on cell function and tissue mineralization21,32,37.
Pi was shown in prior publications to induce signaling in a range of mineralized tissue cells13,25,38–40. In the present study, we investigated effects of Pi at concentrations of 2.5 and 5 mM, consistent with the range of previous publications14,16,17,26. While some cell populations were reported to have sensitivity to high Pi41,42, these concentrations were non-toxic to SHED cells. Similarly, a recent report demonstrates that mesenchymal stem cells survive in the presence of 10 mM Pi14.
In addition to being a regulator of mineralization, Pi is necessary for numerous cell functions, including cell growth and proliferation, through the phosphorylation of intracellular enzymes. In non-mineralizing cells, the increased extracellular Pi levels promoted Pi influx into the cell, resulting in increased cell proliferation43. Pi activates AKT phosphorylation and the ERK signaling cascade, leading to the enhancement of cell proliferation44. Some studies indicate that PiT1, a sodium-Pi co-transporter, participates in the enhancement of cell proliferation. PiT1 silencing decreased Pi influx, leading to decreased HeLa cell proliferation. However, cell proliferation inhibition of PiT1 silencing does not depend on the Pi transport function; the functional deletion of the Pi transporter activated the P38 signaling pathway45,46.
The present study demonstrated that SHED cell number was decreased in Pi-treated groups at day 7, compared with the control. Furthermore, reduction of Ki67 expression was also noted in the 5 mM Pi-treated cells. These effects were rescued when cells were pretreated with foscarnet, an inhibitor of Pi transport. However, there was no significant difference in the S or G2/M populations in those cells treated with Pi, compared with the control. Consistent with mineralizing cell, the impairment of proliferative activity in cells exposed to Pi has previously been reported in such as osteoblast and chondroblast24,41. Further, our present study found the influence of Pi on cell apoptosis. Pi-induced mineralizing cell apoptosis occurs during the resorptive activity of osteoclasts, leading to the release of Pi47. Mechanistically, Pi-induced bone cell apoptosis promotes Ca2+ influx, resulting in mitochondria dysfunction and increasing levels of reactive oxygen species (ROS)47–50.
Our results showed that Pi promoted mineral deposition and induced DSPP and DMP1 mRNA expression in SHED, similar to previous reports16,51. DMP1 and DSSP have been used as markers for odonto/osteogenic differentiation52,53. The increased mineralization seen in the present study may not be from the direct precipitation of the binding between phosphate ions and calcium ions available in the medium. Previous reports demonstrated that culture medium supplemented with inorganic phosphate did not show increased mineralization in the condition without cells. In this regard, adding up to 10 mM Pi in the culture medium did not mark an increase in alizarin red S staining in the condition without cells14. This evidence implies that the significant increase of mineralization upon treated cells with inorganic phosphate occurred via biological processes. This observation was noted in other publications on other cell types14,54. However, several biological hypotheses need further clarification, for example, the possible calcium depletion effects on cell responses and the change of cell behaviors due to the potential apoptotic effect of Pi.
This finding supports that Pi induces odonto/osteogenic differentiation in SHED. The mitogen-activated protein kinases (MAPKs) signaling is indeed one of remarkable pathway for growth factor-induced osteogenic differentiation55. A member family of MAPK, including extracellular signal-related kinases (ERKs), c-Jun N terminal kinases (JNKs), and P38 can be activated by MAP3K, upstream MAPK activator, phosphorylating MAPK family56.
As for Pi activation-regulated pathways, Pi induces the ERK1/2 signaling pathway in the upregulation of OPN, matrix Gal protein, and DMP1 by MC3T3-E1 pre-osteoblasts and dental pulp stem cells (DPSC)13,16. Our study demonstrated that P38 inhibition attenuated the effects of Pi-induced mineralization in SHEDs. P38 was shown to be part of osteogenic differentiation inductive pathways in mesenchymal stem cells57. ERK and JNK inhibitors did not reverse Pi-induced mineralization, whereas ERK inhibition enhanced Pi-induced mineralization in SHED, consistent with previous study58. Since ERKs and P38 pathways are a downstream of MAP3K, we speculate that the ERK inhibition may increase P38 activation, resulting in the enhancement of mineral deposition in SHEDs by an increase of P38 activation. Here, this finding demonstrated that Pi is responsible for promoting mineral deposition in SHEDs though P38 and ERK signalling pathway. However, the further study on targeting to P38 and ERK pathway to enhance osteogenic potential in SHEDs needed investigation.
During the adipogenic differentiation process, MSC expresses specific gene markers, including PPAR-γ, C/EBP-α, and LPL59. In our study, Pi treatment inhibited the expression of PPAR-γ and reduced intracellular lipid droplet formation. A previous study found that adipogenic potential was regulated by the MAPK family. ERK and JNK signaling have been demonstrated as activators, while P38 signaling has been shown to inhibit adipogenesis60. This finding implicates that, in the presence of elevated Pi, SHED cells are induced to commit toward osteogenic differentiation rather than adipogenic differentiation.
We used transcriptomic analysis to further investigate signalling effects of Pi on SHED cell differentiation. The expression of RELB gene was downregulated in Pi treated group. A recent report has showed that abolished expression of RelB have promoted cell apoptosis61 and inhibited cell proliferation62, similar to our finding. Additionally, Reactome enrichment analysis showed that significantly upregulated genes were enriched in signaling by MAPK mutant, which is relevant to DUSP6. DUSP6 is well-recognized as MKP3, a specific phosphatase for ERK signaling in skeleton development63. Additionally, DUSP6 has played an essential role in maintaining phosphorylated P38 signaling64. A study has revealed that the DUSP6 depletion in mouse models caused dwarf-consisted skeleton abnormalities65. In this regard, inducible DUSP6 expression has been reported to inhibit cell proliferation in hair follicle stem cells64 and induce cell apoptosis66. These findings were consistent with the in vitro investigation demonstrating that Pi promoted mineralization via the P38 signaling pathway but induced apoptosis in SHED.
As for dental materials, Pi is based on most pulp capping materials, along with calcium. Less Pi release may not be enough to influence neighboring cells. Recently, calcium phosphate-based material, an alternative dental material, can provide persistently calcium and phosphate ions8–12. Both calcium and phosphate ions were reported to be key modulators for osteogenic differentiation. Consistent with our observation, Pi was shown to have influences in the induction of early-stage osteogenic inducer genes, for example, the DMP1 gene67. On the contrary, calcium ion has a role in promotion of late-stage osteogenic genes68,69. We speculate that the presence of both calcium and phosphate ions may function in different steps of tissue mineralization and also accelerate mineralized tissue repair.
Mesenchymal stem cells (MSC) possess the self-renewal and multipotential differentiation ability. Numerous surface markers have been proposed to identify the MSC population, including CD105, CD90, CD73, CD44, CD166, CD29, STRO-1, CD146, and CD27170. However, the International Society for Cellular Therapy set three minimum criteria to identify MSC22. First, MSC must be the adherent cells on tissue culture surfaces. Second, MSC must express CD105, CD73, and CD90, and lack expression of CD45, CD34, CD14 or CD11b, CD79α or CD19, and HLA-DR surface molecules. Third, MSC must possess multipotential differentiation. In the present study, we evaluated the expression of CD105, CD90, and CD73, which are considered the minimum and common MSC surface markers70. In addition, we demonstrated the mineral deposition and intracellular lipid accumulation ability after cultured in osteogenic and adipogenic induction medium, respectively. Together, our data illustrated the MSC characteristics of the cells isolated from the remaining dental pulp tissues of the exfoliated deciduous teeth.
In summary, our data derived from in vitro experiments and mRNA expression profiles demonstrated strong evidence that Pi regulates cell proliferation and differentiation via different mechanisms in SHEDs. The present study reveals the effects of Pi induced on the osteo/odontogenic ability of SHEDs via the P38 signaling (Fig. 5). Our finding contributes insight into the mechanism of Pi on SHED in regulating regenerative potentials. Additional experiments are needed to investigate translational implications and clinical potential for Pi to positively promote SHED cell differentiation and tertiary dentin formation after dental procedures.
Materials & methods
Cell isolation and culture
The remaining dental pulp tissues from the exfoliated primary teeth were collected from healthy donors scheduled for extraction according to the clinical treatment plan from the Department of Paediatric Dentistry, Faculty of Dentistry, Chulalongkorn University (Bangkok, Thailand). The protocol was approved by the Human Ethical Research Committee, Faculty of Dentistry, Chulalongkorn University (No. 131/2023). The written informed consent was obtained. Methods were carried out in accordance with the Declaration of Helsinki. Cell isolation was performed using explantation protocol17. The migrated cells were cultured in the high glucose Dulbecco’s Modified Eagle Medium (DMEM) supplemented with 10% fetal bovine serum (FBS), 1% L-glutamine (2 mM), 1% of penicillin (100 U/mL), streptomycin (100 mg/mL) and incubated at 37 °C in a humidified 5% CO2 atmosphere. DMEM contained sodium phosphate monobasic at the concentration of 0.9 mM and a sodium bicarbonate buffer system. The culture medium was changed every 48 h. When the cells reached confluence, they were subcultured at a 1:3 ratio using 0.25% trypsin/EDTA (Gibco). Cells in passages 3–7 were used in the experiments.
To prepare inorganic phosphate, the 500 mM sodium phosphate (Na2HPO4, Sigma-Aldrich) was prepared and produced to 500 mM inorganic phosphate. Cells were treated with 2.5 or 5 mM inorganic phosphate, according to our previous study17. The media was replaced with fresh media containing inorganic phosphate Pi every 2 days. For the inhibition experiment, cells were treated with 0.1 mM Foscarnet (CAS No. 34156-56-4, Sigma-Aldrich), 10 µM ERK inhibitor (CAS No. 1049738-54-6, Sigma-Aldrich), 10 µM JNK inhibitor (SP600125, CAS No. 129-56-6, Sigma-Aldrich), or 1 µM p38 inhibitor (SB239063, CAS No. 193551-21-2, Sigma-Aldrich) for 30 min before Pi treatment.
Alizarin red S staining
The cells were seeded in a 24-well plate at a density of 25,000 cells per well and cultured in an osteogenic medium containing 10% FBS-DMEM supplemented with 50 µg/mL L-ascorbic acid, 100 nM dexamethasone and 5 mM β-glycerophosphate. The medium was changed every two days. On day 14, cells were washed with deionized water and fixed with cold methanol. Mineral deposition was stained with an Alizarin Red S solution at room temperature with gentle agitation. Unbound dye was removed by washing with deionized water. Images of calcium nodules were captured with an inverted microscope. The staining samples were dissolved in 10% cetylpyridinium chloride monohydrate in 10 mM sodium phosphate under gentle agitation71. The solution was subjected to absorbance measurement at 570 nm using a microplate reader (Biotek ELX800, USA).
Oil red O staining
Cells were cultured for 20 days in an adipogenic medium consisting of 10% FBS-DMEM supplemented with 500 µM 3-Isobuty-1-methylxanthine (IBMX), 1 µg/mL insulin from bovine pancreas, and 100 µM indomethacin. The medium was changed every four days. Cells were fixed with 10% buffered formalin and then stained with Oil Red O solution. Lipid droplets were visualized under an inverted microscope.
MTT assay
The cells were seeded in a 24-well plate at a density of 12,500 cells per well and cultured in a normal growth medium for 1, 3, and 7 days. MTT solution was added to each well for 30 min to determine mitochondrial enzyme metabolism. The insoluble formazan was eluted by DMSO and subsequently subjected to measuring the absorbance at 460 nm using a microplate reader, according to the manufacturer’s protocol. The percentage of viable cells was calculated from these data.
Real-time RT-PCR
Total cellular RNA was extracted by using RiboExTM solution. RNA quality and concentration were measured using Nanodrop (Thermo Scientific, USA). RNA was converted into complementary DNA using an ImProm-IITM Reverse Transcription System. One microliter of complementary DNA was used for real-time polymerase chain reaction using a FastStart Essential DNA Green Master kit. The reaction was performed on a Bio-Rad PCR system. Relative gene expression was calculated using the 2−ΔΔCt method72. Expression values of target genes were normalized to the GAPDH expression values and the control. The oligonucleotide primers used for this study were as follow; GAPDH forward 5’-CACTGCCAACGTGTCAGTGGTG-3’, reverse 5’- GTAGCCCAGGATGCCCTTGAG −3’; Ki67 forward 5’-CGTTTGTTTCCCCAGTGTCT-3’, reverse 5’- CTCCCTGCCCCTTTCTATTC-3’; DMP1 forward 5’- CAGGAGCACAGGAAAAGGAG-3’, reverse 5’- CTGGTGGTATCTTGGGCACT-3’; DSPP forward 5’-CAACCATAGAGAAAGCAAACGCG-3’, reverse 5’-TTTCTGTTGCCACTGCTGCTGGAC −3’; PPAR-γ forward 5’-CCAGTGGTTGCAGATTACAAGTATG −3’, reverse 5’- TTGTAGAGCTGAGTCTTCTCAGAATAATAAG-3’; LPL forward 5’-GAGATTTCTCTGTATGGCACC-3’, reverse 5’-CTGCAAATGAGACACTTTCTC −3’; C/EBP-alpha forward 5’-CGGTGGACAAGAACAGCAAC-3’, reverse 5’-CGGAATCTCCTAGTCCTGGC-3’.
Apoptosis assay
Cells were detached from the well using trypsin and centrifuged at 5,000 rpm for 5 min, and then the supernatant was discarded. Cells were suspended with 400 µL of PBS. 50 ng/mL of propidium iodide (PI) was added to each tube, followed by 5 µL of annexin V reagent. After dark incubation for 15 min, 100 µL of annexin V buffer was added and mixed gently. The stained cells were analyzed by flow cytometry. Viable cells gated cell size and granular content were used to determine the phenotype of cell apoptosis.
Cell cycle analysis
Cells were detached from the well using trypsin and centrifuged at 5,000 rpm for 5 min to collect cell palate. The palate was suspended with 400 µL of 70% ethanol for 15 min, then was washed with PBS and rinsed the supernatant. Cells were incubated with 500 µL PBS containing 40 µg/mL of RNase for 30 min. Finally, cells were stained with 50 ng/mL of PI prior to measuring by flow cytometry. The viable cells were only gated to determine cell cycle progression by determining cell size and granular content.
Cell migration
Cells were seeded to be confluent and maintained in a growth medium for 24 h. The scratch line was created with a sterile pipette tip. The image of cells was taken using an inverted microscope at 0, 24, and 48 h at the same reference area. The width of the scratch area was measured using ImageJ software.
RNA sequencing
The mRNA profile was determined using the NextSeq 5000 desktop sequencing system at the Omics Sciences and Bioinformatics Center (Faculty of Science, Chulalongkorn University). The cells were treated with 5 mM Pi for 24 h in normal growth medium. Subsequently, RNA was isolated using RNeasy kit (Cat. No. 74104, Qiagen, MD, USA). DNase treatment was performed in columns. Total RNA quantity and quality were examined using a Nanodrop and Aligent 2100 Bioanalyzer system. Library quality assurance was conducted using an Aligent 2100 Bioanalyzer system and Qubit 3.0 fluorometer. Sequencing was performed in a NextSeq 500 sequencing system. Read quality was checked, trimmed, and filtered with a FastQC and FastX toolkit73. Reads were mapped with Homo sapiens UCSC hg38 using TopHat274,75. FPKM estimation of reference genes and transcripts was performed using DeSeq2 analysis. The differentially expressed genes were further analyzed for pathway enrichment using network-based visual analytics for gene expression profiling, meta-analysis, and interpretation, NetworkAnalyst76. Sequencing data were submitted to the NCBI’s Gene Expression Omnibus (GSE266257).
Statistical analysis
Data are reported as mean±standard deviation. Statistical analyses were evaluated using the Man-Whitney U test or Kruakal-Wallis test, followed by pair-wise comparison. P<0.05 was considered statistically significant. The analysis was performed using statistical software (GraphPad Prism 10.2.2). The experiments were performed with at least four biological replicates (n=4). For RNA sequencing analysis, the samples were evaluated from 2 different donors (n=2).
Electronic supplementary material
Below is the link to the electronic supplementary material.
Acknowledgements
The study was supported by the Faculty Research Fund, Faculty of Dentistry, Chulalongkorn University (to T.O.). R.S. was supported by the Second Century Fund, Chulalongkorn University (C2F Ph.D. scholarship).
Author contributions
R.S. data acquisition, data analysis, data interpretation, drafted, and critically revised the manuscript; N.N. contributed to data acquisition, data analysis, data interpretation, and critically revised the manuscript; C.K. contributed to data analysis, data interpretation, drafted, and critically revised the manuscript; W.S. contributed to resources, data interpretation and critically revised the manuscript; B.L.F contributed to data interpretation and critically revised the manuscript; H.E. and T.O. contributed to the study conceptualization, experimental design, and data interpretation and critically revised the manuscript. All authors critically revised the paper and gave final approval for publication.
Data availability
The datasets generated during and/or analyzed during the current study are available in the NCBI’s Gene Expression Omnibus (GSE266257). All data generated during and/or analyzed during the current study are available from the corresponding author upon reasonable request.
Footnotes
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References
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