Multi-omics analysis in developmental bone biology
Single-cell omics and multi-omics have revolutionized our understanding of molecular and cellular biological processes at a single-cell level. In bone biology, the combination of single-cell RNA-sequencing analyses and in vivo lineage-tracing approaches has successfully identified multi-cellular div...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2023-12-01
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| Series: | Japanese Dental Science Review |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S1882761623000364 |
| _version_ | 1797387884662095872 |
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| author | Yuki Matsushita Azumi Noguchi Wanida Ono Noriaki Ono |
| author_facet | Yuki Matsushita Azumi Noguchi Wanida Ono Noriaki Ono |
| author_sort | Yuki Matsushita |
| collection | DOAJ |
| description | Single-cell omics and multi-omics have revolutionized our understanding of molecular and cellular biological processes at a single-cell level. In bone biology, the combination of single-cell RNA-sequencing analyses and in vivo lineage-tracing approaches has successfully identified multi-cellular diversity and dynamics of skeletal cells. This established a new concept that bone growth and regeneration are regulated by concerted actions of multiple types of skeletal stem cells, which reside in spatiotemporally distinct niches. One important subtype is endosteal stem cells that are particularly abundant in young bone marrow. The discovery of this new skeletal stem cell type has been facilitated by single-cell multi-omics, which simultaneously measures gene expression and chromatin accessibility. Using single-cell omics, it is now possible to computationally predict the immediate future state of individual cells and their differentiation potential. In vivo validation using histological approaches is the key to interpret the computational prediction. The emerging spatial omics, such as spatial transcriptomics and epigenomics, have major advantage in retaining the location of individual cells within highly complex tissue architecture. Spatial omics can be integrated with other omics to further obtain in-depth insights. Single-cell multi-omics are now becoming an essential tool to unravel intricate multicellular dynamics and intercellular interactions of skeletal cells. |
| first_indexed | 2024-03-08T22:31:36Z |
| format | Article |
| id | doaj.art-ae3f77331f7b4de9a348fac25350d6da |
| institution | Directory Open Access Journal |
| issn | 1882-7616 |
| language | English |
| last_indexed | 2024-03-08T22:31:36Z |
| publishDate | 2023-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Japanese Dental Science Review |
| spelling | doaj.art-ae3f77331f7b4de9a348fac25350d6da2023-12-18T04:24:10ZengElsevierJapanese Dental Science Review1882-76162023-12-0159412420Multi-omics analysis in developmental bone biologyYuki Matsushita0Azumi Noguchi1Wanida Ono2Noriaki Ono3Department of Cell Biology, Nagasaki University Graduate School of Biomedical Sciences, Nagasaki 852-8588, Japan; Corresponding authors.Department of Cell Biology, Nagasaki University Graduate School of Biomedical Sciences, Nagasaki 852-8588, JapanUniversity of Texas Health Science Center at Houston School of Dentistry, Houston, TX 77054, USAUniversity of Texas Health Science Center at Houston School of Dentistry, Houston, TX 77054, USA; Corresponding authors.Single-cell omics and multi-omics have revolutionized our understanding of molecular and cellular biological processes at a single-cell level. In bone biology, the combination of single-cell RNA-sequencing analyses and in vivo lineage-tracing approaches has successfully identified multi-cellular diversity and dynamics of skeletal cells. This established a new concept that bone growth and regeneration are regulated by concerted actions of multiple types of skeletal stem cells, which reside in spatiotemporally distinct niches. One important subtype is endosteal stem cells that are particularly abundant in young bone marrow. The discovery of this new skeletal stem cell type has been facilitated by single-cell multi-omics, which simultaneously measures gene expression and chromatin accessibility. Using single-cell omics, it is now possible to computationally predict the immediate future state of individual cells and their differentiation potential. In vivo validation using histological approaches is the key to interpret the computational prediction. The emerging spatial omics, such as spatial transcriptomics and epigenomics, have major advantage in retaining the location of individual cells within highly complex tissue architecture. Spatial omics can be integrated with other omics to further obtain in-depth insights. Single-cell multi-omics are now becoming an essential tool to unravel intricate multicellular dynamics and intercellular interactions of skeletal cells.http://www.sciencedirect.com/science/article/pii/S1882761623000364Single-cell RNA-sequencing (scRNA-seq)Single-nuclei ATAC-sequencing (snATAC-seq)Multi-omicsBone marrow stromal cells (BMSCs)Skeletal stem cells (SSCs)In vivo lineage-tracing |
| spellingShingle | Yuki Matsushita Azumi Noguchi Wanida Ono Noriaki Ono Multi-omics analysis in developmental bone biology Japanese Dental Science Review Single-cell RNA-sequencing (scRNA-seq) Single-nuclei ATAC-sequencing (snATAC-seq) Multi-omics Bone marrow stromal cells (BMSCs) Skeletal stem cells (SSCs) In vivo lineage-tracing |
| title | Multi-omics analysis in developmental bone biology |
| title_full | Multi-omics analysis in developmental bone biology |
| title_fullStr | Multi-omics analysis in developmental bone biology |
| title_full_unstemmed | Multi-omics analysis in developmental bone biology |
| title_short | Multi-omics analysis in developmental bone biology |
| title_sort | multi omics analysis in developmental bone biology |
| topic | Single-cell RNA-sequencing (scRNA-seq) Single-nuclei ATAC-sequencing (snATAC-seq) Multi-omics Bone marrow stromal cells (BMSCs) Skeletal stem cells (SSCs) In vivo lineage-tracing |
| url | http://www.sciencedirect.com/science/article/pii/S1882761623000364 |
| work_keys_str_mv | AT yukimatsushita multiomicsanalysisindevelopmentalbonebiology AT azuminoguchi multiomicsanalysisindevelopmentalbonebiology AT wanidaono multiomicsanalysisindevelopmentalbonebiology AT noriakiono multiomicsanalysisindevelopmentalbonebiology |