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Series GSE141188 Query DataSets for GSE141188
Status Public on May 31, 2020
Title Gene expression profile of Arabidopsis thaliana wild type and siz1-2 mutant during in vitro shoot regeneration on callus inducing media (CIM) and shoot inducing media (SIM)
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary Plants form callus and regenerate new organs when incubated on phytohormone-containing media. While accumulating evidence suggests that these regenerative processes are governed by transcriptional networks orchestrating stress responses and developmental transitions, it remains unknown if post-translational regulatory mechanisms are involved in this process. Here, we find that SIZ1, which encodes an E3 ligase catalyzing attachment of the SMALL UBIQUITIN-LIKE MODIFIER (SUMO) to proteins, regulates wound-induced signal transduction and organ regeneration. We show that loss-of-function mutants for SIZ1 exhibit over-production of shoot meristems under in vitro tissue culture conditions, while this defect is rescued in a complementation line expressing pSIZ1::SIZ1. RNA-sequencing analysis revealed that siz1-2 mutant exhibits enhanced transcriptional responses to wound stress, resulting in the hyper-induction of over 500 genes immediately after wounding. Among them, we show that elevated level of WOUND INDUCED DEDIFFERENTIATION 1 (WIND1) and WIND2 contribute to enhanced shoot regeneration observed in siz1 mutants, as the dominant-negative WIND1-SRDX partly rescues this phenotype in siz1-3. Although compromised SIZ1 function does not modify transcription of genes implicated in auxin-induced callus formation and/or pluripotency acquisition, it does lead to enhanced induction of cytokinin-induced shoot meristem regulators like WUSCHEL (WUS), promoting the formation of WUS-expressing foci in explants. This study thus suggests that SIZ1 negatively regulates shoot regeneration in part by repressing wound-induced cellular reprogramming.
Overall design Hypocotyls from 7 day old dark grown seedlings were excised and sampled immediately after cutting, after incubation on CIM for 4 days and after incubation on CIM 4 days plus SIM for 4 and 6 days.
Contributor(s) Coleman D, Sugimoto K
Citation(s) 32611787
Submission date Nov 29, 2019
Last update date Aug 30, 2020
Contact name Duncan Peter Coleman
Organization name Riken
Department CSRS
Lab Cell Function Research
Street address 1-7-22 Suehiro-cho, Tsurumi-ku
City Yokohama
State/province Kanagawa
ZIP/Postal code 230-0045
Country Japan
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (24)
GSM4196683 WT_AfterCut_r1
GSM4196684 WT_AfterCut_r2
GSM4196685 WT_AfterCut_r3
BioProject PRJNA592549
SRA SRP234036

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Supplementary file Size Download File type/resource
GSE141188_RAW.tar 5.8 Mb (http)(custom) TAR (of CSV)
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Raw data are available in SRA
Processed data provided as supplementary file

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