Single-Cell RNA Sequencing and Assay for Transposase-Accessible Chromatin Using Sequencing Reveals Cellular and Molecular Dynamics of Aortic Aging in Mice
Open accessAbstract
Objective: The impact of vascular aging on cardiovascular diseases has been extensively studied; however, little is known regarding the cellular and molecular mechanisms underlying age-related vascular aging in aortic cellular subpopulations. Approach and Results: Transcriptomes and transposase-accessible chromatin profiles from the aortas of 4-, 26-, and 86-week-old C57/BL6J mice were analyzed using single-cell RNA sequencing and assay for transposase-accessible chromatin sequencing. By integrating the heterogeneous transcriptome and chromatin accessibility data, we identified cell-specific TF (transcription factor) regulatory networks and open chromatin states. We also determined that aortic aging affects cell interactions, inflammation, cell type composition, dysregulation of transcriptional control, and chromatin accessibility. Endothelial cells 1 have higher gene set activity related to cellular senescence and aging than do endothelial cells 2. Moreover, construction of senescence trajectories shows that endothelial cell 1 and fibroblast senescence is associated with distinct TF open chromatin states and an mRNA expression model. Conclusions: Our data provide a system-wide model for transcriptional and epigenetic regulation during aortic aging at single-cell resolution.
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The transposase-accessible chromatin sequencing (ATAC-Seq) assay is a powerful tool for investigating genome-wide chromatin accessibility.
“The transposase-accessible chromatin sequencing (ATAC-Seq) assay is also a powerful tool for investigating genome-wide chromatin accessibility.416,417”
From Epigenetic regulation in major depression and other stress-related disorders: molecular mechanisms, clinical relevance and therapeutic potential (2023) · cites this paper as [416]
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“416,417 Recent MeRIP-Seq methods map the m 6 A-methylated RNA 418 , offering a new way to explore the transcriptome-wide location of m 6 A in MDD. Combined with the widely used next-generation RNA sequencing techniques, these techniques for exploring the epigenome may facilitate a more…”
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- Authors
- Xie, W., Ke, Y., You, Q., Li, J., Chen, L., Li, D., Fang, J., Chen, X., Zhou, Y., Chen, L., & Hong, H.
- Affiliations
- Fujian Medical University (CN)
- Union Hospital (CN)
- ORCID
- Venue
- Arteriosclerosis, Thrombosis, and Vascular Biology
- Published
- 2022-02
- Volume
- 42
- Issue
- 2
- Pages
- 156-171
- ISSN
- 1079-5642 (ISSN-L)
- 1524-4636
- OpenAlex
- W4200296738
- Cited by
- 46
- References
- 7
- Citations by year
- 2026: 11 · 2025: 14 · 2024: 10 · 2023: 7 · 2022: 4
- FWCI
- 1.65
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Arteriosclerosis Thrombosis and Vascular Biology (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Natural Science Foundation of China (81570448, 82071560, 81800422)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Life Sciences › Immunology and Microbiology › Immunology › Atherosclerosis and Cardiovascular Diseases
- Health Sciences › Medicine › Cardiology and Cardiovascular Medicine › Cardiovascular Health and Disease Prevention
- Keywords
- aortic aging, vascular aging, endothelial cells, cellular senescence, chromatin accessibility, transcriptional regulatory networks, single-cell transcriptomics, fibroblasts, inflammation, epigenetic regulation
- MeSH terms
- Chromatin Immunoprecipitation Sequencing, Aging, Animals, Aorta, Cardiovascular Diseases, Chromatin, Mice, Inbred C57BL, Transcription Factors, Sequence Analysis, RNA, Transposases, Mice, Gene Regulatory Networks, Molecular Dynamics Simulation, Transcriptome
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