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Single-cell RNA-seq analysis identifies meniscus progenitors and reveals the progression of meniscus degeneration

ABSTRACT: Single-cell RNA-seq analysis identifies meniscus progenitors and reveals the progression of meniscus degeneration

PROVIDER: PRJNA551470 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9608547_1.fastq.gz	Fastqsanger.gz
	SRR9608547_2.fastq.gz	Fastqsanger.gz
	SRR9608548_1.fastq.gz	Fastqsanger.gz
	SRR9608548_2.fastq.gz	Fastqsanger.gz

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Single-cell RNA-seq analysis identifies meniscus progenitors and reveals the progression of meniscus degeneration

Project description:We identified seven clusters in healthy human meniscus, including five empirically-defined populations and two novel populations. Pseudotime analysis showed EC and FCP existed at the pseudospace trajectory start. MCAM (CD146) was highly expressed in two clusters. CD146+ meniscus cells differentiated into osteoblasts and adipocytes and formed colonies. We identified changes in the proportions of degenerated meniscus cell clusters and found a cluster specific to degenerative meniscus with progenitor cell characteristics. The reconstruction of four progenitor cell clusters indicated that FCP differentiation into DegP was an aberrant process. Interleukin-1β stimulation in healthy human meniscus cells decreased CD146+ cells and increased CD318+ cells, while TGFβ1 attenuated the increase in CD318+ cells in degenerated meniscus cells.

2020-02-26 | GSE133449 | GEO

Single-cell RNA-seq analysis identifies meniscus progenitors and reveals the progression of meniscus degeneration.

Project description:OBJECTIVES:The heterogeneity of meniscus cells and the mechanism of meniscus degeneration is not well understood. Here, single-cell RNA sequencing (scRNA-seq) was used to identify various meniscus cell subsets and investigate the mechanism of meniscus degeneration. METHODS:scRNA-seq was used to identify cell subsets and their gene signatures in healthy human and degenerated meniscus cells to determine their differentiation relationships and characterise the diversity within specific cell types. Colony-forming, multi-differentiation assays and a mice meniscus injury model were used to identify meniscus progenitor cells. We investigated the role of degenerated meniscus progenitor (DegP) cell clusters during meniscus degeneration using computational analysis and experimental verification. RESULTS:We identified seven clusters in healthy human meniscus, including five empirically defined populations and two novel populations. Pseudotime analysis showed endothelial cells and fibrochondrocyte progenitors (FCP) existed at the pseudospace trajectory start. Melanoma cell adhesion molecule ((MCAM)/CD146) was highly expressed in two clusters. CD146+ meniscus cells differentiated into osteoblasts and adipocytes and formed colonies. We identified changes in the proportions of degenerated meniscus cell clusters and found a cluster specific to degenerative meniscus with progenitor cell characteristics. The reconstruction of four progenitor cell clusters indicated that FCP differentiation into DegP was an aberrant process. Interleukin 1? stimulation in healthy human meniscus cells increased CD318+ cells, while TGF?1 attenuated the increase in CD318+ cells in degenerated meniscus cells. CONCLUSIONS:The identification of meniscus progenitor cells provided new insights into cell-based meniscus tissue engineering, demonstrating a novel mechanism of meniscus degeneration, which contributes to the development of a novel therapeutic strategy.

| S-EPMC7034356 | biostudies-literature

proteomic profiling of human meniscus

Project description:There is a need to clarify the role of the meniscus in knee OA which may be aided by the identification of biomarkers that reflect the molecular events involved in the tissue degradation. This is of particular importance in the early stages of the degenerative processes, a crucial phase when it might still be possible to interfere with disease progression before tearing and critical loss of meniscal function occurs. One way to achieve this goal is exploratory proteomics by mass spectrometry (MS), which has the potential to analyse the proteome of complex samples. Thus, our aim was to gain new knowledge about the molecular processes within the human meniscus by comparing the proteomic profiles of both the lateral and medial meniscus from healthy controls, subjects with mild signs of joint degeneration, and patients with end-stage knee OA, using a non-targeted MS approach operating in data-independent acquisition (DIA) mode. For the research purpose six groups were established: medial and lateral menisci from control donors (n=12), medial and lateral menisci from donors with mild signs of joint degeneration (n=13) and medial and lateral menisci from end-stage knee OA patients (n=12).

2024-04-03 | PXD042122 | Pride

Transcriptome Analysis of Human Injured Meniscus Reveals a Distinct Phenotype of Meniscus Degeneration with Aging

Project description:In this study, we have tested the variation in gene expression signatures in human injured meniscus with age and degree of chondrosis in the knee. We found several genes that were differentially regulated with each of these factors and they represent important biological pathways in osteoarthritis research. Total RNA obtained from isolated injured meniscus tissues from patients undergoing arthroscopic partial meniscectomy.

2013-03-18 | E-GEOD-45233 | biostudies-arrayexpress

Bioinformatics Analysis of Degenerative Meniscus Tissue in Knee Osteoarthritis of Wuzhishan Pig

Project description:Meniscus degeneration is one of the manifestations of knee osteoarthritis, but its specific molecular mechanism is still not very clear. We used Wuzhishan pig's anterior cruciate ligament resection to prepare meniscus degeneration models, and applied gene chip technology to detect the expression of differential genes in the degenerated meniscus tissue. The study detected a total of 893 differentially expressed genes, mainly related to hormones, apoptosis, inflammation and other mechanisms, and analyzed that TRP channels may play a key role. All in all, we have established a reliable animal model of meniscus degeneration and found that meniscus degeneration involves several possible molecular mechanisms, which provide molecular targets for future treatment of the disease.

2020-08-13 | GSE156132 | GEO

whole transcriptome map of osteoarthritic meniscus with or without interleukin-1β stimulation

Project description:We report the application of whole-transcriptome high throughput sequence on osteoarthritic degenerative meniscus with or without interleukin-1β stimulation. A total of 375 mRNAs, 15 miRNAs, 56 lncRNAs, and 90 circRNAs were significantly altered in the degenerative meniscus treated with IL-1β. qRT-PCR further revealed consistent expression pattern. More importantly, highly specific ceRNA networks regulated by lncRNA LOC107986251-miR-212-5p-SESN3 and hsa_circ_0018069-miR-147b-3p-TJP2 were identified during interleukin-induced meniscus degeneration.

2021-11-04 | GSE171652 | GEO

Transcriptome Analysis of Human Injured Meniscus Reveals a Distinct Phenotype of Meniscus Degeneration with Aging

2013-03-18 | GSE45233 | GEO

Integrated Analysis of lncRNA and mRNA Expression Profiles Indicates Age-related Changes in Meniscus

Project description:Little has been known about the role of long non-coding RNA (lncRNA) involves in meniscus degradation with aging.In order to investigate the molecular mechanisms of age-related meniscal degeneration and further explore potential biologic therapeutic targets, we performed microarray analysis of meniscus to determine lncRNAs and mRNAs expression profiles in young and aging adults. Then, we carried out bioinformatics analysis of differentially expressed molecules to identify key molecules and functional pathways in the aged meniscus tissues.

2022-04-06 | GSE191157 | GEO

Gene signature of the embryonic meniscus

Project description:Analysis of gene expression in E16 mouse meniscus, articular cartilage, and cruciate ligaments Limbs were dissected from E16 CD-1 mice. Samples were frozen in OCT and cryosectioned. Meniscus, articular carilage, and cruciate ligament were isolated using laser capture microdissection. Total RNA was isolated from these tissues, amplified, and gene expression was analyzed using microarrays. Three biological replicates were analyzed for each tissue type. Total RNA extracted from E16 mouse meniscus, articular cartilage, and cruciate ligaments

2013-10-01 | E-GEOD-47799 | biostudies-arrayexpress

Single cell-seq identify discoid lateral meniscus

Project description:Discoid lateral meniscus (DLM) is more prone to injury than a normally shaped meniscus. Our previous study successfully identified the different cell types and their corresponding marker genes in meniscus tissues, but there was no study comparing the gene expression and cell heterogenicity of discoid meniscus with normal meniscus.

2023-12-06 | GSE162767 | GEO

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