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Single-Cell Transcriptome Atlas of Human Mesenchymal Stem Cells

ABSTRACT: Single-Cell Transcriptome Atlas of Human Mesenchymal Stem Cells

PROVIDER: PRJNA755184 | ENA |

REPOSITORIES: ENA

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			Action	DRS
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	SRR15465862_1.fastq.gz	Fastqsanger.gz
	SRR15465862_2.fastq.gz	Fastqsanger.gz
	SRR15465863_1.fastq.gz	Fastqsanger.gz
	SRR15465863_2.fastq.gz	Fastqsanger.gz

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Single-Cell Transcriptome Atlas of Human Mesenchymal Stem Cells

Project description:The heterogeneity of mesenchymal stem cells (MSCs) remains incompletely inventoried, which often hampers reproducibility in clinical applications and basic research. Advanced single-cell RNA sequencing (scRNAseq) is a robust tool for dissecting cellular heterogeneity, while the comprehensive single-cell atlas still has not been achieved for human MSCs.Using massively parallel multiplexing scRNAseq, we constructed this atlas of >130,000 single-MSC transcriptomes across multiple tissues and donors to decipher their heterogeneity. The most widely clinical-utilized tissue-resources for MSCs were collected, including normal bone marrow (n=3), adipose (n=3), umbilical cord (n=2), and dermis (n=3).Based on this high-quality data, we identified the 7 tissue-specific and 5 conserved MSC subpopulations with distinct gene-expression signatures from multiple tissue origins, which has not been achieved previously. We noticed that extracellular matrix hugely contributes to MSC heterogeneity. Notably, tissue-specific MSC subpopulations exhibited hugely heterogeneous on ECM-associated immune regulation, antigen processing/presentation, and senescence, which also contributed to inter-donor and intra-tissue heterogeneity. The variable dynamics of ECM-associated genes depicted the discrete trajectory patterns across multiple tissues. Additionally, the conserved and tissue-specific transcriptomic-regulons and protein-protein interactions were identified, representing common or tissue-specific MSC potentially functional roles. Furthermore, we also discovered that the umbilical-cord-specific subpopulation possessed advantages in immunosuppressive properties.In summary, our work provides timely and exciting insights into MSC heterogeneity on multiple levels. In addition to resource value, this MSC atlas taxonomy provides a comprehensive understanding of cellular heterogeneity, revealing the potential improvements in MSC-based therapeutic efficacy.

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Single-Cell Transcriptome Atlas of Human Mesenchymal Stem Cells Derived from Umbilical Cords during Passaging

Project description:Single-Cell Transcriptome Atlas of Human Mesenchymal Stem Cells Derived from Umbilical Cords during Passaging

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Single-cell transcriptome atlas of human mesenchymal stem cells exploring cellular heterogeneity.

Project description:BackgroundThe heterogeneity of mesenchymal stem cells (MSCs) is poorly understood, thus limiting clinical application and basic research reproducibility. Advanced single-cell RNA sequencing (scRNA-seq) is a robust tool used to analyse for dissecting cellular heterogeneity. However, the comprehensive single-cell atlas for human MSCs has not been achieved.MethodsThis study used massive parallel multiplexing scRNA-seq to construct an atlas of > 130 000 single-MSC transcriptomes across multiple tissues and donors to assess their heterogeneity. The most widely clinically utilised tissue resources for MSCs were collected, including normal bone marrow (n = 3), adipose (n = 3), umbilical cord (n = 2), and dermis (n = 3).ResultsSeven tissue-specific and five conserved MSC subpopulations with distinct gene-expression signatures were identified from multiple tissue origins based on the high-quality data, which has not been achieved previously. This study showed that extracellular matrix (ECM) highly contributes to MSC heterogeneity. Notably, tissue-specific MSC subpopulations were substantially heterogeneous on ECM-associated immune regulation, antigen processing/presentation, and senescence, thus promoting inter-donor and intra-tissue heterogeneity. The variable dynamics of ECM-associated genes had discrete trajectory patterns across multiple tissues. Additionally, the conserved and tissue-specific transcriptomic-regulons and protein-protein interactions were identified, potentially representing common or tissue-specific MSC functional roles. Furthermore, the umbilical-cord-specific subpopulation possessed advantages in immunosuppressive properties.ConclusionIn summary, this work provides timely and great insights into MSC heterogeneity at multiple levels. This MSC atlas taxonomy also provides a comprehensive understanding of cellular heterogeneity, thus revealing the potential improvements in MSC-based therapeutic efficacy.

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Single-Cell Transcriptome Atlas of Human Mesenchymal Stem Cells Derived from Umbilical Cords during Passaging

Project description:The immunosuppressive properties of mesenchymal stromal cells (MSCs) derived from umbilical cords have been clinically used to treat many clinical diseases, such as graft-versus-host disease (GVHD). Due to batch-to-batch variability, the obtained results are frequently variable and may depend on the different MSC origin as well as harvesting and culture procedures. The quality control of MSC product to treat many clinical diseases is still ambiguous. The recent emergence of single-cell RNA sequencing (scRNA-seq) methods allows us to investigate cellular heterogeneity at single cell resolution and uncovers unknown mechanisms underlying diseases and tissue development. However, the cellular landscape of human umbilical cord-derived MSCs has barely been explored at single-cell resolution. .In summary, our work provides timely and exciting insights into MSC heterogeneity on multiple levels. In addition to resource value, this MSC atlas taxonomy provides a comprehensive understanding of cellular heterogeneity, revealing the potential improvements in MSC-based therapeutic efficacy.

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