GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE147200 Query DataSets for GSE147200
Status Public on Mar 20, 2020
Title Overexpression of OsbHLH044 transcription factor controls a negative regulatory module associated with plant cell death and stress inhibition in rice crown root development
Platform organism Oryza sativa
Sample organism Oryza sativa Japonica Group
Experiment type Expression profiling by array
Summary Crown roots constitute the main part of the rice root system. Several key genes involved in crown root initiation and development have been identified by genetics and functional genomics approaches. The CROWN ROOTLESS1 (CRL1) transcription factor is necessary for crown root initiation in rice. The basic helix-loop-helix 044 (OsbHLH044) transcription factor was identified as a CRL1-regulated gene. In this study, we aimed to determine OsbHLH044-regulated genes, with transcriptome analysis of OsbHLH44 overexpressing plants in crl1 mutant background. We analysed the transcriptional profile of overexpressing lines stem bases in comparison with corresponding null segregant sister control lines.
Affymetrix microarrays were processed in the Microarray Core Facility “Transcriptome“ of the Institute in Regenerative Medicine and Biotherapy, CHU de Montpellier-INSERM-UM Montpellier, .
Overall design Stem bases of six days old plantlets were used. The experiment was repeated independently three times with 2 pC5300.OE-OsbHLH044 overexpression lines and with their coresponding null segregant sister lines. For each biological replicate, ten to fifteen stem bases were collected and immediately frozen in liquid nitrogen. After grounding stem bases in liquid nitrogen, RNA were extracted and quantified at 260 nm with a ND-1000 spectrophotometer (Thermo-Fisher, Waltham, MA, USA).
Contributor(s) Gonin M, Lavarenne J, Gantet P
Citation(s) 35596715
Submission date Mar 19, 2020
Last update date Oct 27, 2022
Contact name Pascal Gantet
Organization name Université Montpellier 2
Department IRD
Street address Avenue Agropolis
City Montpellier
ZIP/Postal code 34000
Country France
Platforms (1)
GPL25932 [RJPGene-1_1-st] Affymetrix Rice (US) Gene 1.0 ST Array [transcript (gene) version]
Samples (12)
GSM4420246 N_OsbHLH044_crl1OE ; biological repetition 1 []
GSM4420247 N_OsbHLH044_crl1OE ; biological repetition 2 []
GSM4420248 N_OsbHLH044_crl1OE ; biological repetition 3 []
BioProject PRJNA613397

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
GSE147200_RAW.tar 72.9 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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