ArticleNucleic acids research2019
Single-cell transcriptome analysis of Physcomitrella leaf cells during reprogramming using microcapillary manipulation.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 51 citations in OpenAlex.
- Functional characterisation of Target of Rapamycin (TOR) signalling in Physcomitrella.Plant cell reports · 2026Article
- Gut microbiota induces immune-related alterations in gene expression, RNA methylation, and metabolism in glioblastoma revealed by single-cell and spatial multi-omics.Frontiers in immunology · 2026Article
- Physcomitrium patens: an emerging model for autophagy study.Protoplasma · 2025Review
- STEMIN transcription factor drives selective chromatin remodeling for gene activation within a relaxed chromatin during reprogramming in the moss Physcomitrium patens.The Plant journal : for cell and molecular biology · 2025Article
- Plant biotechnology research with single-cell transcriptome: recent advancements and prospects.Plant cell reports · 2024Review
- Exploring the identity of individual plant cells in space and time.The New phytologist · 2023Review
- Application of single-cell multi-omics approaches in horticulture research.Molecular horticulture · 2023Review
- Single-cell and spatial multi-omics in the plant sciences: Technical advances, applications, and perspectives.Plant communications · 2023Review
- The Application of Single-Cell RNA Sequencing in the Inflammatory Tumor Microenvironment.Biomolecules · 2023Review
- Single-cell technologies: From research to application.Innovation (Cambridge (Mass.)) · 2022Review
- Deep origin and gradual evolution of transporting tissues: Perspectives from across the land plants.Plant physiology · 2022Article
- Single-Cell RNA Sequencing for Plant Research: Insights and Possible Benefits.International journal of molecular sciences · 2022Review
- Advancing root developmental research through single-cell technologies.Current opinion in plant biology · 2022Review
- Autopolyploidization affects transcript patterns and gene targeting frequencies in Physcomitrella.Plant cell reports · 2022Article
- Quantitative cell biology of tip growth in moss.Plant molecular biology · 2021Review
- High-throughput single-cell transcriptomics reveals the female germline differentiation trajectory in Arabidopsis thaliana.Communications biology · 2021Article
- Plant single-cell solutions for energy and the environment.Communications biology · 2021Review
- Advances and Opportunities in Single-Cell Transcriptomics for Plant Research.Annual review of plant biology · 2021Review
- Unraveling Root Development Through Single-Cell Omics and Reconstruction of Gene Regulatory Networks.Frontiers in plant science · 2021Review
- The promise of single-cell genomics in plants.Current opinion in plant biology · 2020Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors at 5 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Next-generation sequencing technologies have made it possible to carry out transcriptome analysis at the single-cell level. Single-cell RNA-sequencing (scRNA-seq) data provide insights into cellular dynamics, including intercellular heterogeneity as well as inter- and intra-cellular fluctuations in gene expression that cannot be studied using populations of cells. The utilization of scRNA-seq is, however, restricted to cell types that can be isolated from their original tissues, and it can be difficult to obtain precise positional information for these cells in situ. Here, we established single cell-digital gene expression (1cell-DGE), a method of scRNA-seq that uses micromanipulation to extract the contents of individual living cells in intact tissue while recording their positional information. With 1cell-DGE, we could detect differentially expressed genes (DEGs) during the reprogramming of leaf cells of the moss Physcomitrella patens, identifying 6382 DEGs between cells at 0 and 24 h after excision. Furthermore, we identified a subpopulation of reprogramming cells based on their pseudotimes, which were calculated using transcriptome profiles at 24 h. 1cell-DGE with microcapillary manipulation can be used to analyze the gene expression of individual cells without detaching them from their tightly associated tissues, enabling us to retain positional information and investigate cell-cell interactions.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.