Cholesterol biosynthesis modulates differentiation in murine cranial neural crest cells

Scientific Reports volume 13, Article number: 7073 (2023) Cite this article

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Cranial neural crest cells (cNCC) are a multipotent embryonic cell population that give rise to a diverse set of cell types. These cells are particularly vulnerable to external metabolic stressors, as exemplified by the association between maternal hyperglycemia and congenital malformations. We were interested in studying the effect of various concentrations of glucose and pyruvate on cNCC metabolism, migration, and differentiation using an established murine neural crest cell model (O9-1). We unexpectedly observed a pattern of gene expression suggestive of cholesterol biosynthesis induction under glucose depletion conditions in O9-1 cells. We further showed that treatment with two different cholesterol synthesis inhibitors interfered with cell migration and differentiation, inhibiting chondrogenesis while enhancing smooth muscle cell differentiation. As congenital arhinia (absent external nose), a malformation caused by mutations in SMCHD1, appears to represent, in part, a defect in cNCC, we were also interested in investigating the effects of glucose and cholesterol availability on Smchd1 expression in O9-1 cells. Smchd1 expression was induced under high glucose conditions whereas cholesterol synthesis inhibitors decreased Smchd1 expression during chondrogenesis. These data highlight a novel role for cholesterol biosynthesis in cNCC physiology and demonstrate that human phenotypic variability in SMCHD1 mutation carriers may be related, in part, to SMCHD1's sensitivity to glucose or cholesterol dosage during development.

Neural crest cells (NCCs) are a transient embryonic cell population derived from the ectoderm that give rise to a diverse set of cell types. During embryonic development, migrating NCCs traverse diverse environments with unique nutrients and localized activation of enzymes that can impact their genetic programming and physiology1. Studies examining the effect of substrate availability perturbations show that the spatiotemporal regulation of development is in part driven by changes in metabolism2. Metabolic changes in NCC are temporally associated with, and may in fact stimulate, critical steps in NCC ontogeny such as proliferation, migration, and differentiation3. In addition, NCC appear to be particularly vulnerable to external metabolic stressors, hyperglycemia being a prime example. Gestational diabetes is associated with a higher risk of congenital malformations affecting tissues and organs derived from NCC (e.g., cardiovascular, skeletal, and central nervous systems), suggesting that maternal hyperglycemia is highly toxic to NCC4,5,6,7. Indeed, early in vitro studies demonstrated that high glucose culture conditions inhibit rat cNCC proliferation and migration due to reactive oxygen species overproduction8. More recent work in the chick has further shown that exposure to high glucose upregulates apoptosis and ERK-mediated autophagy in developing cNCC9 and suppresses embryonic stem cell differentiation into a neuronal lineage10. There have been no studies, however, to determine how nutrient availability affects NCC physiology using the O9-1 cell line, a multipotent line derived from mouse embryonic NCCs11.

Defects in the ontogeny, migration, and/or differentiation of NCC give rise to a set of conditions called neurocristopathies. Bosma arhinia microphthalmia syndrome (BAMS) is an extremely rare, severe congenital malformation that appears to reflect a primary defect of the cranial NCC12, cranial placode cells13 or their interaction. BAMS consists of the clinical triad of arhinia (absent nose), eye defects, and hypogonadism14 and is caused by mutations in the gene Structural Maintenance of Chromosomes Flexible Hinge Domain-containing 1 (SMCHD1)15,16. However, the presence of incomplete penetrance and variable expressivity in multiplex families suggests that other in utero factors may influence SMCHD1 expression or function. We hypothesized that nutrient availability could be one such factor. Gestational diabetes has not been reported in BAMS pregnancies, however, BAMS is likely to be underreported (< 100 cases reported in the past century15), guidelines for diagnosing gestational diabetes vary from country to country and have become stricter over time, and it has recently been recognized that maternal hyperglycemia is linearly associated with perinatal risk without an obvious threshold17. Thus, using the O9-1 model system, we also investigated the effect of nutrient availability on Smchd1 expression.

We hypothesized that different metabolic conditions would impact cNCC physiology. We studied the effect of 4 culture conditions: high glucose (HG = 25 mM glucose, 1 mM pyruvate), control glucose (CG = 5.55 mM glucose, 1 mM pyruvate), no glucose (NG = 0 mM glucose, 1 mM pyruvate), and no glucose with 2 × pyruvate (NG2P = 0 mM glucose, 2 mM pyruvate). While cell culture protocols frequently utilize HG conditions to maximize proliferation, the CG condition was selected to best represent the physiology of the developing embryo18. The NG condition was chosen to determine if cNCC could use alternative metabolic substrates such as pyruvate; pyruvate was of particular interest given its position at the crossroads of multiple pathways in carbon metabolism and demonstrated roles in embryonic genome activation19 and NCC physiology3,20,21.

To determine how different glucose conditions (HG, CG, NG, NG2P) affect gene expression in mouse cNCC, a weighted gene correlation network analysis (WGCNA) was employed to interpret RNA-Seq data. WGCNA constructs gene co-expression networks by taking into account correlation patterns among genes across samples22. Hierarchical clustering is then used to identify modules, or networks of genes with highly correlated gene expression. These modules can then be related to other traits (here, glucose concentration) and interrogated for functional enrichment. Modules of interest are selected based on either mean gene significance, module membership (gene connectivity within a module), relationship to a trait, or biological pathways. To select modules of interest, we first considered the strength of module membership (connectivity > 0.6). Given that our experimental design included a gradient of glucose concentrations, we then chose to explore the two modules where there was also a linear gradient in expression change from HG to CG to NG to NG2P. Sixteen modules of co-expressed genes under different glucose conditions were identified. In the turquoise module, gene expression decreased across conditions, whereas in the blue module, gene expression increased across conditions (Fig. 1A, B, Supplementary Table S1). Overenrichment analysis of the turquoise model revealed pathways associated with cell cycle and DNA repair (Supplementary Fig. S1), whereas analysis of the blue module unexpectedly revealed cholesterol biosynthesis, sphingolipid, and glycosphingolipid metabolism (Fig. 1C, Supplementary Fig. S1). Glucose and glucose-derived metabolites provide raw materials for cholesterol synthesis and regulate cholesterol biosynthetic enzymes and uptake23. Glucose depletion would therefore be expected to downregulate cholesterol biosynthesis; however, members of the cholesterol biosynthesis pathway including Hmgcr, the rate-limiting enzyme in cholesterol synthesis, and Hmgcs1, which catalyzes the production of 3-hydroxy-3-methylglutaryl-CoA (HMG-CoA)24,25, showed increased expression under NG and NG2P conditions compared to HG (Fig. 1D). Emopamil binding protein (Ebp), which plays a key role in the final stage of cholesterol biosynthesis, was also upregulated in CG vs. HG conditions (Fig. 1D). We next directly measured free cholesterol, esterified cholesterol, and total (i.e., the sum of free plus esterified) cholesterol levels under the various glucose culture conditions. No significant differences were seen in free or total cholesterol, whereas there was lower esterified cholesterol in HG compared with CG, NG, and NG2P conditions (Fig. 2A–C).

Glucose availability impacts the cNCC transcriptome. (A) Pearson correlation values between module gene expression level and substrate availability; high glucose (HG = 25 mM glucose, 1 mM pyruvate), control glucose (CG = 5.55 mM glucose, 1 mM pyruvate), no glucose (NG = 0 mM glucose, 1 mM pyruvate), and no glucose with 2 × pyruvate (NG2P = 0 mM glucose, 2 mM pyruvate) with adjusted p-values (in parentheses) are shown in each bin; correlation of 1 or -1 indicates a strong positive or negative relationship, respectively. (B) Heatmaps and bar plots display scaled gene expression and eigengene values for the turquoise and blue modules. (C) Pathway analysis of blue module genes filtered for module membership > 0.6. (D) Heatmap of genes involved in cholesterol biosynthesis.

Glucose availability regulates esterified cholesterol levels in cNCC. Total, esterified, and free cholesterol levels normalized to protein in cNCC cultured in HG, CG, NG, and NG2P conditions. n = 3 per group. Values are shown as the mean ± SD. *p < 0.05, **p < 0.01.

We set out to examine the significance of cholesterol biosynthesis in cNCC physiology by using two drugs that are structurally dissimilar and that impact the cholesterol biosynthetic pathway at different points. Fatostatin is a small molecule cholesterol synthesis inhibitor that blocks the activation of SREBP-1 and -2, master regulators of cholesterol and fatty acid synthesis26. Fluvastatin directly inhibits HMG-CoA reductase, the rate-limiting enzyme in cholesterol biosynthesis27. Both drugs have also been used to inhibit cholesterol synthesis in neuroblastoma, a NCC-derived malignancy. To identify the ideal working concentration of fatostatin in O9-1 cells, we first measured changes in cholesterol synthesis gene expression and cell viability. We chose a range of concentrations (5 to 25 µM) based on previous experiments conducted in embryonic cells28. We identified concentrations of fatostatin and fluvastatin that were nontoxic to cNCC via the Incucyte live-cell viability assay based on cell confluency (Fig. 3A). Fatostatin significantly reduced O9-1 cNCC viability at 25 µM. Fatostatin dramatically reduced Srebf2, Hmgcr, Hmgcs1, Lss, and Mvd mRNA levels at 10 µM and 25 µM after 48 h of treatment (Fig. 3B). Based on these results, we selected 10 μM as the minimal concentration that would elicit cholesterol synthesis inhibition without impairing cell viability for further studies. To validate the observed suppression of cholesterol biosynthesis by fatostatin and fluvastatin, we directly measured cholesterol levels using the Amplex Red assay in O9-1 cells in HG, CG, NG, and NG2P conditions. In the presence 10 µM fatostatin, total and esterified cholesterol levels were significantly lowered in all glucose conditions and free cholesterol levels were decreased in NG and NG2P conditions (Fig. 3C). In the presence of 10 µM fluvastatin, total cholesterol levels were lower in CG and NG2P, esterified cholesterol levels were lower in only CG. Free cholesterol levels were decreased in HG, CG, and NG2P after fluvastatin treatment. Thus, fatostatin was more potent in suppressing total and esterified cholesterol levels than fluvastatin presumably because, by blocking SREBP-2, it has the potential to impact the entire cholesterol biosynthetic pathway.

Cholesterol synthesis inhibition in O9-1 cNCC. (A) Viability of O9-1 cNCC cultured for 48 h in the presence of fatostatin or fluvastatin at 5, 10, and 25 µM compared to vehicle ("0") conditions. n = 3 per group. (B) Gene expression levels of Srebf2, Hmgcr, Hmgcs, Lss, Mvd normalized to 18S levels in cells cultured in HG treated with 0 (vehicle), 5, 10, and 25 µM fatostatin. (C) Total, esterified, and free cholesterol levels normalized to protein in cNCC cultured in HG, CG, NG, and NG2P conditions in the absence (vehicle) or presence of 10 µM fatostatin of fluvastatin. n = 3 per group. Values are shown as the mean ± SD. *p < 0.05, **p < 0.01, ***p < 0.001, ****p < 0.0001.

Programmed cell death in cNCC is central to craniofacial patterning/shaping29. Glucose availability–specifically, high glucose-mediated increases in reactive oxygen species–has been shown to influence cNCC apoptosis9. Furthermore, studies have shown both fatostatin and fluvastatin, a direct inhibitor of HMG-CoA reductase, to possess apoptotic effects30,31,32,33. We were therefore interested in examining the effect of cholesterol inhibitors on cNCC susceptibility to apoptosis under varying glucose conditions. As expected, increased glucose led to a ~ 20-fold increase in apoptosis that reached statistical significance at the latest time point in the absence of cholesterol synthesis inhibitors (Fig. 4A). Examination of apoptosis in the presence of cholesterol synthesis inhibitors revealed that only fatostatin treatment resulted in increased apoptosis (no appreciable difference between fluvastatin and vehicle conditions), and its effect was independent of glucose (Fig. 4B).

Glucose-mediated regulation of cholesterol metabolism may play a role in cNCC programmed cell death. (A) Apoptosis in cNCC cultured in HG, CG, NG, and NG2P conditions plotted as a function of glucose availability to examine the effects of cholesterol synthesis inhibition, was measured via the Incucyte live-cell Casp3/7 apoptosis assay. n = 6 wells/condition; multiple images per well were collected for 3d. (B), Apoptosis in cNCC cultured in HG, CG, NG, and NG2P conditions in the absence (vehicle) or presence of 10 μM fatostatin or fluvastatin was measured via the Incucyte live-cell Casp3/7 apoptosis assay. Each bar represents means ± SD. ****p < 0.0001.

As migration from the neural tube is a critical part of cNCC ontogeny, we asked whether blockade of cholesterol synthesis affects cNCC migration (Fig. 5A, B). Migration was measured via a conventional scratch-wound assay in which cells are allowed to reach full confluency before a wound is introduced in the cell monolayer to induce cellular polarization and migration into the resulting space (Supplementary Fig. S2). Wound width was significantly higher in the presence of fatostatin in CG and NG conditions, consistent with decreased migratory ability. Fluvastatin treatment also resulted in increased wound width compared to vehicle treatment in CG and NG; however, this effect achieved statistical significance only in the CG condition. Glucose concentration alone did not affect O9-1 cNCC migration (Fig. 5B).

Cholesterol biosynthesis plays a role in cNCC migration. (A) Cell migration of cNCC cultured in HG, CG, NG, and NG2P conditions in the absence (vehicle) or presence of 10 μM fatostatin or fluvastatin was examined in an Incucyte live-cell analyzer via a scratch-wound assay. n = 4 per group; multiple images per well were collected every hour for 36 h. Panel (B) demonstrates same data in the absence of cholesterol synthesis inhibitors to highlight the effect of glucose availability. Each data point represents means ± SD. *p < 0.05, **p < 0.01, ***p < 0.001, ****p < 0.0001.

cNCC are multipotent stem cells that give rise to a number of cell types during development, including cranial neurons, glia, smooth muscle cells, osteoblasts, and chondrocytes30,34,35. Furthermore, mutations in cholesterol synthesis pathway genes have been associated with facial dysmorphia that results from aberrant WNT signaling-mediated modulation of chondrocyte differentiation43,44.

To assess whether cholesterol levels affect the potential of cNCC to differentiate into chondrocytes36,37, we performed a chondrogenesis assay with O9-1 cells under HG and CG conditions as we were particularly interested in comparing supraphysiologic (akin to hyperglycemia) and physiologic (euglycemic) conditions (Fig. 6). O9-1 cells were cultured in osteogenic differentiation medium for 3 days prior to culture in chondrogenic differentiation medium for 7 days, as previously described35. Treatment with 10 µM cholesterol synthesis inhibitors throughout the 10-day differentiation process resulted in disparate cellular confluency across the different glucose conditions; all differentiation experiments were therefore conducted in the presence of 5 µM fatostatin and fluvastatin. Quantification of Alcian blue–used to specifically stain acidic polysaccharides present in cartilage– showed that fatostatin significantly reduced differentiation into chondrocytes in both HG and CG conditions, while fluvastatin reduced differentiation in the CG condition (Fig. 6B). Total cholesterol levels (measured at the end of chondrogenesis) reflected a similar trend: cholesterol was decreased by fatostatin treatment under both HG and CG conditions compared to vehicle, while fluvastatin treatment resulted in decreased cholesterol only under the CG condition, consistent with a role of cholesterol in chondrogenesis (Fig. 6C).

Decreased cholesterol synthesis shifts cNCC terminal fate away from chondrogenesis. (A) Alcian blue staining of cNCC cultured in chondrogenesis medium in HG and CG conditions in the presence of vehicle or 5 µM fatostatin and fluvastatin. Scale bars are 50 µM. (B) Spectrophotometric quantification of panel A images (4cm2 sample wells, n = 5 per group). (C) Total cholesterol levels normalized to protein in cNCC cultured in chondrogenesis medium under the specified conditions (n = 3 per group). Each bar represents mean ± SD. *p < 0.05, **p < 0.01, ***p < 0.001, ****p < 0.0001.

We also examined the capacity of cNCC to differentiate into smooth muscle cells in O9-1 cells cultured under HG and CG conditions in the absence or presence of 5 μM fatostatin and fluvastatin (Fig. 7A). Quantification of smooth muscle actin immunofluorescence showed that blocking cholesterol synthesis via treatment with either fatostatin or fluvastatin significantly increased differentiation into smooth muscle cells in both HG and CG conditions (Fig. 7B).

Cholesterol synthesis inhibition favors smooth muscle terminal fates. (A) Smooth muscle actin immunostaining of cNCC cultured in HG and CG conditions in the presence of vehicle, fatostatin, and fluvastatin (5 µM). Scale bars are 50 µM. (B) Quantification of fluorescence intensity density/area of cNCC stained with smooth muscle actin depicted in panel A. n = 5 frames per group. Each bar represents means ± SD. ***p < 0.001, ****p < 0.0001.

Turning our attention back to SMCHD1, we asked whether glucose concentration alone and cholesterol synthesis inhibition during chondrogenesis might affect Smchd1 expression (Fig. 8A). Treatment with fatostatin decreased Smchd1 mRNA expression in both CG and HG conditions, while fluvastatin treatment affected Smchd1 expression only in the CG condition. Glucose concentration during chondrogenesis did not affect Smchd1 expression (Fig. 8A). At baseline, however, Smchd1 mRNA expression was significantly increased in HG compared to CG, NG, and NG2P conditions (Fig. 8B) in O9-1 cells.

High glucose levels increase Smchd1 expression in cNCC. (A), Smchd1 gene expression levels normalized to β-actin levels in cNCC cultured in chondrogenesis medium under the specified conditions (n = 3 per group). (B), Smchd1 normalized gene expression levels (obtained from RNA-seq study) in cNCC cultured in HG, CG, NG, and NG2P (n = 3 per group). Each bar represents means ± SD. *p < 0.05, **p < 0.01.

NCCs are a population of early embryonic, multipotent progenitor cells unique to vertebrates38. They arise from the embryonic ectoderm and undergo an epithelial to mesenchymal transition as they delaminate and migrate throughout the body39, contributing to a wide variety of structures including, but not limited to, craniofacial cartilage and bone, smooth muscle, melanocytes, myofibroblasts, peripheral/enteric neurons, and glial cells40. The extensive migratory capacity and multipotency of NCC is coupled with–and may depend on– a rewiring of metabolism, which not only serves to meet these cells’ unique energy demands but may also provide metabolites that modulate gene transcription and thereby influence differentiation. Building on prior studies pointing to a central role for glycolysis in this process3,8,9,10,20,41,42,43,44, we set out to elucidate how perturbations in glucose availability affect cNCC physiology. Our RNA-seq WGCNA and cholesterol data suggest that under elevated glucose conditions–such as during gestational diabetes, for instance– cholesterol esterification is suppressed.

We further investigated the biological relevance of cholesterol synthesis in processes central to cNCC function. We achieved significant downregulation of cholesterol biosynthetic genes and cellular levels of cholesterol via pharmacological inhibition of cholesterol biosynthesis without compromising cell viability. We observed decreased cell migration (increased wound width) with both fatostatin (CG and NG condition) and fluvastatin (CG and trend with NG condition). Interestingly, cholesterol synthesis inhibition did not significantly alter migration of O9-1 cells cultured under glucose depletion conditions when supplemented with 2 × pyruvate. Although high glycolytic flux has been previously shown to be required for proper NCC migration45, our results are also suggestive of an interplay between pyruvate and the cholesterol-mediated regulation of cNCC migration that warrants further investigation. Finally, in the presence of fatostatin (CG and HG condition) and fluvastatin (CG condition only), we observed a diminished ability of cNCC to differentiate into chondrocytes and a shift towards the formation of smooth muscle cells. Disruption of cholesterol biosynthesis results in defective Sonic-Hedgehog signaling, which has critical roles in cNCC proliferation and survival46,47. Moreover, cholesterol-rich lipid rafts are known to regulate canonical Wnt signaling, which is involved in cell proliferation and cell fate determination during embryonic development48. Indeed, Castro et al. showed that cholesterol synthesis inhibition in zebrafish led to facial defects that could be rescued by a Wnt agonist37. Wnt signaling is important in both chondrogenesis49 and smooth muscle development50. Thus, it is possible that a change in Wnt signaling favors differentiation toward a smooth muscle fate at the expense of chondrocytes. Taken together, our results complement previous studies36,37, and provide further evidence that intracellular cholesterol may be an important endogenous signal that helps dictate cNCC fate51.

There have been no studies in human NCC to demonstrate that they are capable of cholesterol biosynthesis, however, transcriptional profiling of aggressive mouse and human neuroblastoma cells, a NCC-derived malignancy, have demonstrated increased cholesterol biosynthesis driven by the transcription factor sterol regulatory-element binding protein-2 (SREBP-2)26. Lipid droplets have also been identified in migratory and post-migratory trunk NCC in E8.5–9.5 mouse embryos52, indicative of a potential cholesterol reservoir. In addition, Smith-Lemli-Opitz syndrome, a rare human condition caused by a defect in 7-dehydrocholesterol reductase, is associated with dysmorphic features affecting the head (eg, microcephaly), face (eg, cleft palate), and extremities (eg, poly- or syndactyly) as well as cardiac and intestinal (aganglionosis) defects that may in part reflect impaired NCC function53. Lastly, previous studies in zebrafish carrying mutant HMGCS and HMGCR, critical enzymes in the cholesterol biosynthesis pathway, identified malformations in cranial cartilage due to deficient NCC differentiation36,54, consistent with our data using cholesterol inhibitors during chondrogenesis in O9-1 cNCC.

Given the phenotypic variability in our arhinia cohort and our interest in potential environmental modifiers acting in utero, we were also interested in the effects of glucose and cholesterol availability on Smchd1 expression during chondrogenesis. We observed that Smchd1 mRNA expression was increased at higher glucose levels, and it was lower at the completion of chondrogenesis in the presence of fatostatin (HG and CG) and fluvastatin (CG). Thus, Smchd1 expression appears to be sensitive to both glucose availability and cellular cholesterol content (during chondrogenesis). If human SMCHD1 missense mutations do in fact act in a gain-of-function manner16, an increase in Smchd1 expression driven by higher glucose could conceivably exacerbate the phenotype, whereas a decrease in expression during chondrogenesis could create a milder phenotype (e.g., nasal hypoplasia or anosmia). It is also conceivable that a woman could unknowingly be exposed to statins of natural and fungal origin during pregnancy. Although statins have not been definitively linked to birth defects55,56, statin in utero exposure could alter the phenotypic effects of an existing SMCHD1 mutation, contributing to decreased SMCDH1-mediated repressive activity and variability in human phenotypes among SMCHD1 mutation carriers15.

Overall, our study demonstrates a crucial role for a novel, glucose-mediated modulation of cholesterogenesis that acts as "gatekeeper" of cNCC physiology and function, providing metabolic signals that influence cell proliferation, migration, and differentiation. Cholesterol plays an important role in mouse cNCC cell migration and differentiation toward a chondrogenic or myogenic lineage, an important modulation process that is dampened by supraphysiological concentrations of glucose such as those observed in gestational diabetes. We also demonstrate that the expression of the epigenetic repressor, Smchd1, is sensitive to glucose (in O9-1 media) and to cholesterol dosage during chondrogenesis, providing additional confirmation of the link between cholesterol, cNCC physiology, and craniofacial development. Further studies, including whether or not upregulation of cholesterol can rescue these cellular phenotypes, are needed to delineate the mechanistic underpinnings of this cholesterol-mediated regulation of cNCC behavior under conditions of varying glucose availability.

O9-1 cells were a gift from K. Shpargel (UNC-Chapel Hill). Cells were expanded on Matrigel-coated wells at 37 °C, 5% CO2 in mouse embryonic fibroblasts (MEF)-conditioned basal media supplemented with 25 ng/mL basic fibroblast growth factor (bFGF, R&D Systems) and 1000 U/mL leukemia inhibitory factor (LIF, Millipore) as previously described3. For RNAseq, and cholesterol analyses, cells were seeded at 10–15,000 cells/cm2 and harvested 48 h after reaching > 80% confluency.

RNA samples for qPCR and RNAseq were extracted from triplicate cultures of O9-1 cells grown in various substrate conditions and purified using the RNeasy Mini Kit (QIAGEN). RNA concentration was measured with the Qubit™ RNA HS Assay Kit and fluorometer (Invitrogen).

Libraries were generated using TruSeq RNA Library Prep Kit v2 (Illumina, RS-122–2001) according to manufacturer's instructions. Purified libraries were quantified on an Agilent Technologies 2100 Bioanalyzer with an Agilent High Sensitivity DNA Kit. Libraries were sequenced on an Illumina NovaSeq 6000 platform to generate 150 base pair single-end reads. The FastQC software57 was used to evaluate the quality of sequencing and reads with a phred-quality score < 20 were discarded. The remaining high-quality reads were aligned to the mouse (mm10) reference genome with the STAR aligner58. The featuresCounts utility from the Subread package was used to quantify reads aligning to Gencode v.32 mouse genes and differential expression analysis was performed using DeSeq259,60. Genes with log2 fold change > 1 and Bonferroni-adjusted p < 0.05 were considered differentially expressed.

Normalized expression values were obtained using the DeSeq2 median of ratios method60. Informative genes for Weighted Gene Co-expression Network Analysis (WGCNA) were selected based on high variability and with normalized expression values > 5 in half of the samples. WGCNA was performed using the blockwiseModule utility with with parameter: soft threshold = 22, networkType = "signed", TomType = "signed", deepSplit = 2, minClusterSize = 30, cutTreeDynamic = 0.2522. Modules with a similarity threshold greater than 0.25 were merged. Genes with module membership > 0.6 for the assigned module were selected for pathway analysis with the R gProfileR software package61.

The R software (v 4.1.2) WGCNA package (v 1.71; https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-9-559?ref=https://githubhelp.com )22 was used to panels in Fig. 1. The correlation between the module eigengene value, which is the first principal component of the gene expression matrix for a given module and represents the gene expression pattern for that module, and the glucose substrate is shown in Fig. 1. Pearson correlation values between module eigengene value and substrate availability; high glucose (HG = 25 mM glucose, 1 mM pyruvate), control glucose (CG = 5.55 mM glucose, 1 mM pyruvate), no glucose (NG = 0 mM glucose, 1 mM pyruvate), and no glucose with 2 × pyruvate (NG2P = 0 mM glucose, 2 mM pyruvate) with adjusted p-values (in parentheses) are shown in each bin; correlation of 1 or -1 indicates a strong positive or negative relationship, respectively. For example, the positive correlation for the blue module indicates that genes within that module have increased gene expression as the substrate changes from HG to NG2P experimental conditions. Conversely, genes assigned to the turquoise module have decreased expression as the substrate changes from HG to NG2P conditions.

Lipids were extracted using the lipid extraction kit (Abcam) per manufacturer's instructions. Briefly, frozen cell pellets were treated with extraction buffer, and they were centrifuged at 10,000 × g for 5 min, and the supernatants were transferred to a clean tube and dried at 37 °C overnight. Extracts were resuspended in 50 µL of resuspension buffer. Total cholesterol levels were measured using the Amplex Red Cholesterol Assay kit (Invitrogen) according to manufacturer's specifications. Sample fluorescence was measured by excitation at 550 nm and emission detection at 590 nm. Cholesterol levels were normalized to protein levels, and results expressed as percentage of cholesterol levels in HG vehicle conditions.

Real-time, automated Incucyte live-cell Casp3/7 apoptosis assays62 were performed on cultures that were ~ 30% confluent. The assays were conducted using an Incucyte live-cell analysis system (Sartorius) via direct treatment with Incucyte Caspase-3/7 dyes, monitoring by time-lapse imaging (every 2 h for 3d), and apoptosis quantification using the Incucyte Cell-by-Cell Analysis Software Module63 (Essen Bioscience).cNCC migration was examined using the Incucyte Scratch Wound Assay64. Briefly, O9-1 cells were seeded on Matrigel-coated Incucyte Imagelock plates and cultured in appropriate media until the cell monolayer reached 100% confluence. Wounds were created using the Woundmaker tool to create precise, uniform cell-free zones in the cell monolayer. Wells were imaged every hour for 36 h, and cell migration was quantified using the Incucyte Scratch Wound Analysis Software module64 (Essen Bioscience).

O9-1 cells were seeded on Matrigel-coated wells in basal medium. Monolayer cultures were initially treated with osteogenic medium (α-MEM, 10% FBS, 100 U/mL penicillin, 100 μg/mL streptomycin, 0.1 μM dexamethasone, 10 mM β-glycerophosphate, 50 µg/mL ascorbic acid, and 100 ng/mL BMP2 (vendor) for 3 days. After 3 days, cells were switched to chondrogenic medium (α-MEM, 5% fetal bovine serum (FBS), 1% ITS (vendor), 100 U/mL penicillin, 100 μg/mL streptomycin, 10 ng/mL TGF- β3 (vendor), 50 μg/mL ascorbic acid, 10 ng/mL BMP2 (vendor), 0.1 μM dexamethasone, and 1 mM sodium pyruvate) and cultured for 7 days.

Chondrogenic differentiation was assessed by Alcian blue staining65. Medium was removed and cells washed twice with DPBS. Cells were then fixed in 4% paraformaldehyde for 10 min at room temperature. Cells were washed and incubated in Alcian blue solution (Millipore) for 30 min; nuclei were stained with Nuclear Fast Red solution (Abcam). Alcian blue staining was measured by spectrophotometric quantification of cells in 4cm2/sample wells at 620 nm.

O9-1 cells were seeded on Matrigel-coated wells in basal medium. Monolayer cultures were maintained in smooth muscle differentiation medium (DMEM, 10% FBS, 100 U/mL penicillin, and 100 μg/mL streptomycin) for 7 days and fixed for downstream experiments.

To detect smooth muscle differentiation, cells were fixed in 4% paraformaldehyde for 10 min at room temperature, followed by permeabilization with 0.4% Triton X-100/DPBS for 10 min. Cells were blocked with 10% BSA/0.1% Tween 20, incubated with smooth muscle actin antibody (Santa Cruz Biotechnology), and fluorophore tagged secondary antibody (Invitrogen); nuclei were stained with Hoechst 33,342.

O9-1 cells were fixed in with 4% paraformaldehyde in PBS pH 7.4 for 10 min at RT. Cells were permeabilized with PBS 0.4% Triton X-100 for 10 min. Cells were blocked with 10% BSA PBS 0.1% Tween 20. Cells were incubated with smooth muscle actin antibody (Santa Cruz Biotechnology) in 3% BSA PBS 0.1% Tween 20. Cells were incubated with fluorophore tagged secondary antibody (Invitrogen) in 3% BSA PBS 0.1% Tween 20. Nuclei was stained with Hoechst.

Total RNA was reverse transcribed with iScript cDNA synthesis kit (Bio-Rad). Real-time quantitative PCR was performed using a CFX96 real-time system with a sso advanced universal SYBR green super mix (Bio-Rad). β-actin expression was used to normalize gene of interest in each sample. Real-time quantitative PCRs were set up using the oligonucleotide primers β-actin F 5-CGCATCCTCTTCCTCCCTGG-3’, β-actin R 5-GTGGTACCACCAGACAGCAC-3’, Hmgcs F 5-TGATCCCCTTTGGTGGCTGA-3’; Hmgcs R 5’-AGGGCAACGATTCCCACATC-3’, Hmgcr F 5-ATCCTGACGATAACGCGGTG-3’; Hmgcr R 5’-AAGAGGCCAGCAATACCCAG-3’, 18S F 5-AAACGGCTACCACATCCAAG-3’; 18S R 5’-CGCTCCCAAGATCCAACTAC-3’, Lss F 5-GGGCTGGTGATTATGGTGGT-3’; Lss R 5’-CTCGATGTGCAAGCCCCA-3’, Mvd F 5-ATGGCCTCAGAAAAGCCTCAG-3’; Mvd R 5’-TGGTCGTTTTTAGCTGGTCCT-3’, Smchd1 F 5’-GATGGCCTTGACAGCTCAAAC-3, Smchd1 5’-CGCCAAGTAAAACACAGATCCTT-3’, Srebf2 F 5-GACCGCTCTCGAATCCTCTTATGTG-3’; Srebf2 R 5’-GTTTGTAGGTTGGCAGCAGCA-3’. Fold change was obtained by calculating 2−ΔΔCt.

Data were analyzed using Prism 9 (GraphPad Software). Statistical significance was determined by one-way ANOVA with the Dunnett test for multiple comparisons and two-way ANOVA with Tukey test for multiple comparisons. All experiments were performed at least three times. Data are presented as means ± SD, and the level of significance was set at p < 0.05.

The datasets supporting the conclusions of this article are available in the Sequence Read Archive (SRA) repository (http://www.ncbi.nlm.nih.gov/sra/), accession number: PRJNA883392.

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This work was supported, in part, by the Intramural Research Program of the NIH, National Institute of Environmental Health Sciences [NIEHS] (1ZIAES103327-03 to N.D.S. and Z01 ES102005 to M.B.F.). N.D.S is also supported as a Lasker Clinical Research Scholar (1SI2ES025429–01). The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.

Open Access funding provided by the National Institutes of Health (NIH). This work was supported, in part, by the Intramural Research Program of the National Institutes of Health, National Institute of Environmental Health Sciences (1Z1AES103327-05 and Z01 ES102005). N.D.S. is also supported as a Lasker Clinical Research Scholar (1SI2ES025429-01).

These authors contributed equally: Florencia Pascual and Mert Icyuz.

Clinical Research Branch, National Institute of Environmental Health Sciences, 111 TW Alexander Drive, MD D3-02, Research Triangle Park, NC, 27709, USA

Florencia Pascual, Mert Icyuz, Elizabeth Van Gorder & Natalie D. Shaw

Immunity, Inflammation, and Disease Laboratory, National Institute of Environmental Health Sciences, 111 TW Alexander Drive, Research Triangle Park, NC, USA

Peer Karmaus & Michael B. Fessler

Biostatistics and Computational Biology Branch, National Institute of Environmental Health Sciences, 111 TW Alexander Drive, Research Triangle Park, NC, USA

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F.P.: conception, design and performance of experiments, data collection, data analysis and interpretation, writing of paper, M.I.: design and performance of experiments, data collection, data analysis and interpretation, writing of paper, P.K.: data analysis and interpretation, editing paper, A.B.: data analysis and interpretation, editing paper, E.V.: performance of experiments, M.B.F.: conception, editing paper, N.D.S.: conception, oversight of experiments, data analysis and interpretation, writing and editing paper. All authors read and approved the final manuscript.

Correspondence to Natalie D. Shaw.

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Pascual, F., Icyuz, M., Karmaus, P. et al. Cholesterol biosynthesis modulates differentiation in murine cranial neural crest cells. Sci Rep 13, 7073 (2023). https://doi.org/10.1038/s41598-023-32922-9

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Received: 05 January 2023

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Published: 01 May 2023

DOI: https://doi.org/10.1038/s41598-023-32922-9

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