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Single-cell RNA-seq analysis of rat molars reveals cell-identity and driver genes associated with dental mesenchymal cell differentiation

ABSTRACT: Single-cell RNA-seq analysis of rat molars reveals cell-identity and driver genes associated with dental mesenchymal cell differentiation

PROVIDER: PRJNA899061 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22217604.fastq.gz	Fastqsanger.gz
	SRR22217605.fastq.gz	Fastqsanger.gz
	SRR22217606.fastq.gz	Fastqsanger.gz
	SRR22217607.fastq.gz	Fastqsanger.gz
	SRR22217608.fastq.gz	Fastqsanger.gz

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Single-cell RNA-seq analysis of rat molars reveals cell-identity and driver genes associated with dental mesenchymal cell differentiation

Project description:To explore the cell-identity and driver genes related to dental mesenchymal cell differentiation during the late bell hard tissue formation stage, the first and second mandibular molars (M1 and M2) of rat at postnatal days 5 were dissected for enzymatic digestion and subjected to single-cell RNA sequencing (scRNA-seq).

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2022-02-02 | GSE190582 | GEO

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Project description:The crowns of the right maxillary molars were removed in 28 days old male Wistar rats (experimental). Gene expression patterns were examined in the periodontal ligaments (PDLs) of the ipsilateral and contralateral mandibular molars, three and fifteen days later. Rats whith no dental interventions served as controls. We used microarrays to detail gene expression underlying post-emergent tooth eruption and identified distinct classes of up-regulated genes during this process.

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Single-cell RNA-seq analysis of rat molars reveals cell identity and driver genes associated with dental mesenchymal cell differentiation.

Project description:BackgroundThe molecular mechanisms and signaling pathways involved in tooth morphogenesis have been the research focus in the fields of tooth and bone development. However, the cell population in molars at the late bell stage and the mechanisms of hard tissue formation and mineralization remain limited knowledge.ResultsHere, we used the rat mandibular first and second molars as models to perform single-cell RNA sequencing (scRNA-seq) analysis to investigate cell identity and driver genes related to dental mesenchymal cell differentiation during the late bell hard tissue formation stage. We identified seven main cell types and investigated the heterogeneity of mesenchymal cells. Subsequently, we identified novel cell marker genes, including Pclo in dental follicle cells, Wnt10a in pre-odontoblasts, Fst and Igfbp2 in periodontal ligament cells, and validated the expression of Igfbp3 in the apical pulp. The dynamic model revealed three differentiation trajectories within mesenchymal cells, originating from two types of dental follicle cells and apical pulp cells. Apical pulp cell differentiation is associated with the genes Ptn and Satb2, while dental follicle cell differentiation is associated with the genes Tnc, Vim, Slc26a7, and Fgfr1. Cluster-specific regulons were analyzed by pySCENIC. In addition, the odontogenic function of driver gene TNC was verified in the odontoblastic differentiation of human dental pulp stem cells. The expression of osteoclast differentiation factors was found to be increased in macrophages of the mandibular first molar.ConclusionsOur results revealed the cell heterogeneity of molars in the late bell stage and identified driver genes associated with dental mesenchymal cell differentiation. These findings provide potential targets for diagnosing dental hard tissue diseases and tooth regeneration.

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Single-cell transcriptomic outlook of human dental pulp in health and disease

Project description:We present a collection of single-cell transcriptomic profiles of 6,810 pulpal cells isolated from a sound human maxillary third molars and carious teeth at different stages. We showed that the presence of deep, but not enamel caries, altered the immune cell compositions of the dental pulp. Differential expression analysis further revealed that the pro-inflammatory, anti-inflammatory and mineralization-related genes were upregulated in immune and stromal cells in deep dental caries. Cell-cell interaction prediction showed potential interactions between immune and stromal cells during homeostasis, and enhanced interactions between different cell types with macrophage during deep dental caries. Taken together, our study serves as a comprehensive survey of human pulpal cell heterogeneity, as well as provides novel molecular insights into dental pulps in health and disease.

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Bmi1 mutant vs. WT dental epithelia

Project description:Transcriptional profiling of Bmi1 mutant dental epithelia including the stem cell compartment to determine which genes are upregulated in response to loss of Bmi1. Two condition experiment: dental epithelia homozygous null for Bmi1 and WT dental epithelia. 4 replicates each

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