Transcriptomics

Dataset Information

299

RNA-Seq of single cells from regenerating Arabidopsis root


ABSTRACT: 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. 215 single cells isolated from marked stele tissue (either using WOL or AHP6 promoters), before, at 3h, 16h and 46h post root tip decapitation

ORGANISM(S): Arabidopsis thaliana  

SUBMITTER: Alison Mello   Pui-Leng Ip  Tal Nawy  Ashley Powers  Nicholas DelRose  Rahul Satija  Idan Efroni  Kenneth D Birnbaum 

PROVIDER: E-GEOD-74488 | ArrayExpress | 2016-04-01

SECONDARY ACCESSION(S): GSE74488SRP065494PRJNA300543

REPOSITORIES: GEO, ArrayExpress, ENA

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