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| Status |
Public on May 03, 2022 |
| Title |
Machine learning accelerates the dissection of mitostasis as a cross-species central biological hub for leaf senescence |
| Organisms |
Arabidopsis thaliana; Solanum lycopersicum; Oryza sativa Japonica Group |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Leaf senescence is a tightly controlled and complex developmental process that shares many similarities across species, yet our understanding of the underlying conserved molecular mechanisms is still lacking. Here, we observed functional conservation of leaf senescence underlying pathways in A. thaliana, O. sativa, and S. lycopersicum. From machine learning-based integration of data from nearly 10 000 samples to obtain a universal regulatory network of leaf senescence, it was found that mitostasis is the cross-species central biological hub. We measure and compare changes in the transcriptome and metabolome of A. thaliana, O. sativa, and S. lycopersicum leaves under mitostress/natural senescence. In data from different species, mitostasis-related transcription factors binding site enrichment and amino acids expression changes converge on putative senescence modulators. Our study provides a cross-species, multi-omics perspective for understanding the leaf senescence conserved mechanisms.
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| Overall design |
Comparative gene expression profiling analysis of RNA-seq data of A. thaliana, O. sativa, and S. lycopersicum leaves when 10 μ g / mg doxycycline was applied to cultivated soil.
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| Contributor(s) |
Liu M, Wang X |
| Citation(s) |
36643763 |
| Submission date |
Apr 26, 2022 |
| Last update date |
Apr 02, 2023 |
| Contact name |
Moyang Liu |
| E-mail(s) |
cooljeep@sjtu.edu.cn
|
| Organization name |
Shanghai Jiao Tong University
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| Department |
School of Agriculture and Biology
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| Street address |
dongchuan road 800
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| City |
Shanghai |
| ZIP/Postal code |
200240 |
| Country |
China |
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| Platforms (3) |
| GPL26208 |
Illumina NovaSeq 6000 (Arabidopsis thaliana) |
| GPL27860 |
Illumina NovaSeq 6000 (Oryza sativa Japonica Group) |
| GPL27957 |
Illumina NovaSeq 6000 (Solanum lycopersicum) |
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| Samples (18)
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| Relations |
| BioProject |
PRJNA832295 |
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