NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE90925 Query DataSets for GSE90925
Status Public on Dec 31, 2017
Title Mechanism of early light signaling by the carboxy-terminal output module of Arabidopsis phytochrome B
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary Phytochromes are evolutionarily conserved photoreceptors in bacteria, fungi, and plants. The prototypical phytochrome comprises an N-terminal photosensory module and a C-terminal histidine kinase signaling-output module. However, the plant phytochrome has been postulated to transduce light signals by interacting with a group of nodal Phytochrome-Interacting transcription Factors (PIFs) and triggering their degradation via the N-terminal photosensory module, while its C-terminal output module, including a Histidine Kinase-Related Domain (HKRD), is thought not to participate directly in signaling. Here, we show that the C-terminal module of Arabidopsis phytochrome B (PHYB) is unexpectedly sufficient to mediate the degradation of PIF3 and to induce a distinct set of PIF-regulated photosynthetic genes. These signaling functions require the HKRD and particularly its dimerization. A D1040V mutation, which disrupts the dimerization of HKRD and the interaction between the C-terminal module and PIF3, abrogates the early light signaling functions of PHYB in nuclear accumulation, photobody biogenesis, and PIF3 degradation. In contrast, disruption of the interaction between PIF3 and PHYB’s N-terminal photosensory module has little effect on PIF3 degradation. Together, this study provides novel insight into the central mechanism of early phytochrome signaling that the C-terminal signaling-output module of PHYB interacts with PIF3 in the nucleus to mediate PIF3 degradation by light.
 
Overall design Whole seedling mRNA profiles of 100h dark-grown phyB-9 mutant and BCY overexpression line were generated by deep sequencing, in triplicate, using Illumina NextSeq 500
 
Contributor(s) Qiu Y, Pasoreck EK, Long L, Reddy AK, Nagatani A, Ma W, Chory J, Chen M
Citation(s) 29199270
Submission date Dec 06, 2016
Last update date May 24, 2019
Contact name Meng Chen
E-mail(s) meng.chen@ucr.edu
Phone 951-827-5635
Organization name UC Riverside
Department Botany and Plant Sciences
Lab Chen
Street address 900 University Ave, 2150 Batchelor Hall
City Riverside
State/province CA
ZIP/Postal code 92521
Country USA
 
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (6)
GSM2417568 BCY.D100h.rep1
GSM2417569 BCY.D100h.rep2
GSM2417570 BCY.D100h.rep3
Relations
BioProject PRJNA356373
SRA SRP094618

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
GSE90925_gene_exp.diff.gz 1012.0 Kb (ftp)(http) DIFF
SRA Run SelectorHelp
Processed data are available on Series record
Raw data are available in SRA

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