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Rattus norvegicus

ABSTRACT: Single cell RNA sequencing analyis of periodontal ligament derived from Mkx deficient rat

PROVIDER: PRJDB12346 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR322297_1.fastq.gz	Fastqsanger.gz
	DRR322297_2.fastq.gz	Fastqsanger.gz
	DRR322298_1.fastq.gz	Fastqsanger.gz
	DRR322298_2.fastq.gz	Fastqsanger.gz
	DRR322299_1.fastq.gz	Fastqsanger.gz

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Rattus norvegicus

Project description:Mkx ChIP-seq data of tendon-derived cells from 3-week-old Mkx-/- rat

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Gene expression of mice PDL , WT and Mkx KO (10 weeks and 4 weeks)

Project description:The periodontal ligament (PDL), which connects the teeth to the alveolar bone, is essential for periodontal tissue homeostasis. Although the significance of the PDL is recognized, molecular mechanisms underlying PDL function are not well-known. We report that Mohawk homeobox (Mkx), a tendon-specific transcription factor, regulates PDL homeostasis by preventing its degeneration. Mkx is expressed in the mouse PDL at the age of 10 weeks and 12 months. In Mkx-/- mice, age-dependent expansion of the PDL at the maxillary 1st molar (M1) furcation area was observed. Transmission electron microscopy (TEM) revealed that Mkx-/- mice presented collagen fibril degeneration in PDL with age, while the collagen fibril diameter gradually increased in Mkx+/+ mice. PDL cells lost their shape in Mkx-/- mice, suggesting changes in PDL properties. Microarray and quantitative polymerase chain reaction (qPCR) analyses of Mkx-/- PDL revealed an increase in osteogenic gene expression and no change in PDL- and inflammatory-related gene expression. Additionally, COL1A1 and COL1A2 were upregulated in Mkx-overexpressing human PDL fibroblasts, whereas osteogenic genes were downregulated. Our results indicate that Mkx prevents PDL degeneration by regulating osteogenesis. Mohawk transcription factor is essential for homeostasis of the periodontal ligament by regulating osteogenic changes with age.

2017-01-17 | GSE92331 | GEO

Rattus norvegicus strain:Wistar

Project description:Single cell RNA sequencing analysis of orthodontic tooth movement in rat periodontal ligament

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Project description:Gene profiling of the early healing rat medial collateral ligament

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Rattus norvegicus

Project description:Expression Profiling of Severed Rat Medial Collateral Ligament Following Injury

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Mkx overexpression effect in C3H10T1/2 cells

Project description:Analysis of C3H10T1/2 cells overexpressing Mkx. This microarray results show that Mkx has the potential ability to promote differentiation to tendon, ligament and annulus fibrosus cells.

2016-05-11 | GSE81276 | GEO

Transcriptome Profiling of Rattus norvegicus Embryonic Stem Cells by RNA-Sequencing

Project description:In order to establish a rat embryonic stem cell transcriptome, mRNA from rESC cell line DAc8, the first male germline competent rat ESC line to be described and the first to be used to generate a knockout rat model was characterized using RNA sequencing (RNA-seq) analysis.

2016-09-02 | GSE44150 | GEO

Rattus norvegicus

Project description:Gene Expression in Iron-Deficient Rat Duodenum

| PRJNA90533 | ENA

Caloric restriction reprograms the single-cell transcriptional landscape of Rattus norvegicus aging

Project description:Aging causes a functional decline in tissues throughout the body that may be delayed by caloric restriction (CR). However, the cellular profiles and signatures of aging, as well as those ameliorated by CR, remain unclear. Here, we built comprehensive single-cell and single-nucleus transcriptomic atlases across various rat tissues undergoing aging and CR. CR attenuated aging-related changes in cell type composition, gene expression, and core transcriptional regulatory networks. Immune cells were increased during aging, and CR favorably reversed the aging-disturbed immune ecosystem. Computational prediction revealed that the abnormal cell-cell communication patterns observed during aging, including the excessive proinflammatory ligand-receptor interplay, were reversed by CR. Our work provides multi-tissue single-cell transcriptional landscapes associated with aging and CR in a mammal, enhances our understanding of the robustness of CR as a geroprotective intervention, and uncovers how metabolic intervention can act upon the immune system to modify the process of aging.

2020-02-21 | GSE137869 | GEO

Differentially expressed long noncoding RNA expression between periodontal ligament stem cells from healthy periodontal tissue and periodontal ligament stem cells from inflammatory periodontal tissue.

Project description:Periodontitis can impair the osteogenic differentiation of human periodontal mesenchymal stem cells, but the underlying molecular mechanisms are still poorly understood. Long noncoding RNAs (lncRNAs) have been demonstrated to play significant roles under both physiologic and pathological conditions. We performed comprehensive lncRNAs profiling by lncRNA microarray to identify differentially expressed long noncoding RNA expression between Periodontal ligament stem cells from healthy Periodontal tissue and periodontal ligament stem cells from inflammatory periodontal tissue. Our analysis identified 233 lncRNAs and 423 mRNAs that were differently expressed (fold change >2.0, p-value < 0.05) between the two groups of cells. The GO analysis revealed that the significantly down-regulated biological processes included multicellular organismal process, developmental process and multicellular organismal development and the significantly up-regulated biological processes included cellular process, biological regulation and response to stimulus in periodontal ligament stem cells from inflammatory periodontal tissue. The Pathway analysis revealed that the differentially expressed mRNAs may involved in Focal adhesion, ECM-receptor interaction, Bacterial invasion of epithelial cells, Long-term depression, Circadian entrainment and HIF-1 signaling pathway. Two-condition experiment, periodontal ligament stem cells from healthy periodontal tissue (hPDLSCs) vs. periodontal ligament stem cells from inflammatory periodontal tissue (pPDLSCs), Biological replicates: 3 control replicates (hPDLSCs), 3 testing replicates (pPDLSCs).

2016-02-19 | E-GEOD-78074 | biostudies-arrayexpress

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