SSTA-PPI: Single-cell Spatiotemporal Transcriptome Atlas of Potato-Phytophthora infestans Interaction(Dataset ID: STDS0000386)

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Summary
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Data
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Dataset information
Summary:
In this study, by employing the spatial enhanced resolution omics sequencing (Stereo-Seq), we have successfully generated a comprehensive atlas of single-cell spatial transcriptomes in potato leaves that were inoculated with P. infestans at four different time points during the early infection stages. Our findings collectively contribute to a comprehensive understanding of the spatial and cellular responsive atlas in plant-pathogen interactions, thereby offering valuable targets for the effective management of potato late blight.
Overall design:
We collected leaf samples from diploid potato A6-26 plants that were inoculated with P. infestans strain 88069td (expressing a cytosolic tandem RFP protein) at 3 hours post-infection (hpi), 6 hpi, 12 hpi and 24 hpi. The potato leaves were inoculated with water (mock) at each time point and served as the control group. Cryo-sectioned potato leaves from each time point were placed on four separate chips. To capture the transcripts at a single-cell level, we conducted fluorescent brightener (FB) staining of the plant cell walls and oligonucleotide staining of nucleus on the chip to visualize cell-cell boundary. Subsequently, performed single-cell segmentations. The transcripts were assigned to individual cellular regions based on the coordinate information of the cell wall boundary to obtain a spatial transcriptome atlas with single-cell resolution.
Platform:
DNBSEQ-T1
Species:
Solanum tuberosum
Tissues:
Leaf
Organ parts:
Leaf
Development stage:
mature leaf (25day)
Disease:
Late blight
Update date: 2025-06-10
Sample number: 8Section number: 8
DOI: To be continue
Contributors
Yuying Li; Jichen Dai
Accessions
No results.
How to cite
  • Cite database of STOmicsDB:
    [1] Xu, Zhicheng et al. "STOmicsDB: a comprehensive database for spatial transcriptomics data sharing, analysis and visualization." Nucleic acids research vol. 52,D1 (2024): D1053-D1061. doi: 10.1093/nar/gkad933'
  • Cite visualization dataset:
    [2] Yuying Li. SSTA-PPI: Single-cell Spatiotemporal Transcriptome Atlas of Potato-Phytophthora infestans Interaction[DS/OL]. STOmicsDB, . https://db.cngb.org/stomics/datasets/STDS0000386/. doi: xxxxxx
    #Format: {contributors}. {title}[DS/OL]. STOmicsDB, {the year of submission data}[{submission data}]. {dataset link}. doi: {doi ID}
  • Cite original data article:
    No results.