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| Status |
Public on Apr 01, 2016 |
| Title |
RNA-Seq of single cells from regenerating Arabidopsis root |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Plant roots can regenerate after complete excision of their tip, including the stem cell niche, but it is not clear what developmental program mediates such repair. Here, we use a combination of lineage tracing, single-cell RNA-seq, and marker analysis to test different models of tissue reassembly. We show that rapid cell-identity transitions lead to the formation of a new stem cell niche from multiple remnant tissues. The transcriptome of regenerating cells prior to stem cell activation resembled that of the embryonic root progenitor, and regeneration defects were more severe in embryonic versus adult root mutants. Furthermore, the signaling domains of the hormones auxin and cytokinin mirrored their embryonic dynamics, and manipulation of both hormones altered the position of new tissues and stem cell niche markers. Our findings suggest that plant organ regeneration resembles the developmental stages of embryonic patterning and is guided by spatial information laid down by complementary hormone domains.
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| Overall design |
215 single cells isolated from marked stele tissue (either using WOL or AHP6 promoters), before, at 3h, 16h and 46h post root tip decapitation
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| Contributor(s) |
Efroni I, Mello A, Nawy T, Ip P, DelRose N, Powers A, Satija R, Birnbaum KD |
| Citation(s) |
27212234 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 GM078279 |
Cross-talk between stem cells and the post-injury signaling environment: A Global View of Regenerating Plant Cells: Mapping the Trajectory of Cell Fate Transitions |
NEW YORK UNIVERSITY |
BIRNBAUM |
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| |
| Submission date |
Oct 29, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Idan Efroni |
| E-mail(s) |
idan.efroni@mail.huji.ac.il
|
| Organization name |
Hebrew University
|
| Department |
Plant Sciences
|
| Street address |
POB 12
|
| City |
Rehovot |
| ZIP/Postal code |
76100 |
| Country |
Israel |
| |
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| Platforms (1) |
| GPL13222 |
Illumina HiSeq 2000 (Arabidopsis thaliana) |
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| Samples (215)
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| Relations |
| BioProject |
PRJNA300543 |
| SRA |
SRP065494 |
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