Single-Cell Transcriptomics Analysis Reveals a Cell Atlas and Cell Communication in Yak Ovary
Abstract
:1. Introduction
2. Results
2.1. Data Quality Control and Principal Component Analysis
2.2. Cell Clustering and Marker Gene Selecting
2.3. Cell Type Identification
2.4. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes Enrichment for Distinct Cell Types
2.5. Cell Communication between Ovarian Cells
2.6. Potential Functional Heterogeneity of Theca Cells
2.7. Pseudotime Expression Patterns for Representative Genes in Theca Cells
2.8. Immunofluorescence Identification of a Marker Gene of Theca Cells
3. Discussion
4. Materials and Methods
4.1. Ovary Sample Collection
4.2. Ovary Sample Pretreatment for Single-Cell Dissociation
4.3. Single-Cell Dissociation of Ovary Sample
4.4. Single-Cell RNA Library Construction and Sequencing
4.5. Single-Cell Gene Expression Matrix Generation
4.6. Quality Control and Normalization for Single-Cell RNA-Sequencing Data
4.7. Dimensionality Reducing, Cell Clustering, and Marker Gene Finding
4.8. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes Enrichment and Cell Type Annotation
4.9. Cell Communication Analysis
4.10. Heterogeneity Analysis on Granulosa Cells and Oocytes
4.11. Construction of Developmental Trajectory for Granulosa Cells and Oocytes
4.12. Immunofluorescence Validation
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Pei, J.; Xiong, L.; Guo, S.; Wang, X.; La, Y.; Chu, M.; Liang, C.; Yan, P.; Guo, X. Single-Cell Transcriptomics Analysis Reveals a Cell Atlas and Cell Communication in Yak Ovary. Int. J. Mol. Sci. 2023, 24, 1839. https://doi.org/10.3390/ijms24031839
Pei J, Xiong L, Guo S, Wang X, La Y, Chu M, Liang C, Yan P, Guo X. Single-Cell Transcriptomics Analysis Reveals a Cell Atlas and Cell Communication in Yak Ovary. International Journal of Molecular Sciences. 2023; 24(3):1839. https://doi.org/10.3390/ijms24031839
Chicago/Turabian StylePei, Jie, Lin Xiong, Shaoke Guo, Xingdong Wang, Yongfu La, Min Chu, Chunnian Liang, Ping Yan, and Xian Guo. 2023. "Single-Cell Transcriptomics Analysis Reveals a Cell Atlas and Cell Communication in Yak Ovary" International Journal of Molecular Sciences 24, no. 3: 1839. https://doi.org/10.3390/ijms24031839