NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE199203 Query DataSets for GSE199203
Status Public on Mar 23, 2022
Title Profiling of bulk and ribosome associated mRNA of Arabidopsis roots upon lateral root induction upon TOR activity inhibition with AZD8055 [dataset2]
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary We performed targeted purification of polysomal mRNA (TRAP-Seq, Vragović et al, 2015 - http://dx.doi.org/10.1073/pnas.1417947112) using a transgenic line ubiquitously expressing a GFP-tagged RPL18 (Mustroph et al, 2009 - https://doi.org/10.1073/pnas.0906131106) 6h after the synchronous induction of lateral root formation by auxin treatment (IAA) upon inhibition of TOR activity (AZD8055 treatment, AZD). To correct for abundance of mRNA, bulk RNA-Seq was performed on the same samples and used to normalise the reads purified with the ribosomes.
 
Overall design Samples were prepared as described in (Thellmann et al, 2020 - https://dx.doi.org/10.3791/60919). Samples ubiquitously expressing a GFP-tagged RPL18 ribosomal protein (p35S:HF-GFP-RPL18, N69096, (Mustroph et al, 2009 - https://www.pnas.org/doi/full/10.1073/pnas.0906131106)) were pretreated at 7 DAG for 16h either with 10 µM AZD8055 or DMSO control media before being transferred to DMSO, 10 µM IAA, 10 µM AZD8055 or 10 µM AZD8055 + 10 µM IAA. Root tissues were then dissected after 6h. All sampling were performed in triplicate.
 
Contributor(s) Maizel A
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Mar 23, 2022
Last update date Mar 26, 2022
Contact name Alexis Maizel
E-mail(s) alexis.maizel@cos.uni-heidelberg.de
Organization name Heidelberg University
Department Center for Organismal Studies
Street address Im Neuenheimer Feld 230
City Heidelberg
ZIP/Postal code 69120
Country Germany
 
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (18)
GSM5966649 BULK_DMSO_2
GSM5966650 BULK_IAA_2
GSM5966651 BULK_IAA_AZD_2
This SubSeries is part of SuperSeries:
GSE199211 TOR acts as metabolic gatekeeper for auxin-dependent lateral root initiation in Arabidopsis thaliana
Relations
BioProject PRJNA818878

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE199203_RAW.tar 3.2 Mb (http)(custom) TAR (of TAB)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap