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| Status |
Public on May 01, 2024 |
| Title |
High-throughput single-cell transcriptome profiling of tomato leaf |
| Organism |
Solanum lycopersicum |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The occurrence of Tomato chlorosis virus (ToCV) disease seriously damages tomato growth and yield, and there is no effective way to control ToCV transmission. So far, no studies have reported exploring the interaction between ToCV and tomato at the single cellular level. In this study, single cell RNA sequence was performed on a total of 26720 individual cells from healthy and ToCV-infected tomato leaves. We through identifying cell types, the first tomato leaf cell atlas was successfully constructed. In situ hybridization experiments identified specific marker genes that can be used to identify tomato cell types. Moreover, we have characterized transcription factors that may play a key role in tomato response to ToCV infection, and described the trichome differentiation trajectory during ToCV infection through pseudotime analysis. In conclusion, we proved the feasibility of single-cell sequencing to study the response of plants to biotic stress, and put forward new insights into the interaction between ToCV and tomato from the cellular level. Our data will lay the foundation for following studies between ToCV and plants, and will also provide a valuable reference for future research on non-model plant single cells.
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| Overall design |
sample from healthy tomato plants and ToCV-infected tomato plants
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| Contributor(s) |
Yue H, Shi X, Liu Y |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Apr 30, 2022 |
| Last update date |
May 01, 2024 |
| Contact name |
Hao Yue |
| Organization name |
Hunan university
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| Street address |
No. 892 Yuanda 2nd Road, Mapoling, Furong District, Changsha City, Hunan Province
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| City |
Changsha |
| ZIP/Postal code |
410125 |
| Country |
China |
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| Platforms (1) |
| GPL27957 |
Illumina NovaSeq 6000 (Solanum lycopersicum) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA833659 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE201931_V0_barcodes.tsv.gz |
223.2 Kb |
(ftp)(http) |
TSV |
| GSE201931_V0_features.tsv.gz |
236.1 Kb |
(ftp)(http) |
TSV |
| GSE201931_V0_matrix.mtx.gz |
173.8 Mb |
(ftp)(http) |
MTX |
| GSE201931_barcodes.tsv.gz |
223.2 Kb |
(ftp)(http) |
TSV |
| GSE201931_features.tsv.gz |
236.1 Kb |
(ftp)(http) |
TSV |
| GSE201931_matrix.mtx.gz |
173.8 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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