GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE180818 Query DataSets for GSE180818
Status Public on Jul 31, 2022
Title Redundancies in low K signaling of neo-tetraploids leads in increased shoot K [RNA-seq_2]
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary Whole Genome Duplication (WGD) events occurred frequently during land plant evolution and their long term benefits to neo-functionalization of genes and speciation is well known (Baduel et al., 2018). However short term benefits, important for the establishment of a new population, are more difficult to observe until Chao et al., 2013 described a fitness advantage under high salinity. Additionally shoot K levels were higher in neo-tetraploids, an important feature since K uptake becomes increasingly more difficult on highly saline soil. The molecular basis for these phenotypes was not known. Here we analyze neo-tetraploid Arabidopsis thaliana plants using RNAseq and ICP-MS to evaluate the effect of mutations and ploidy on the gene expression and shoot ionome. We are able to show that neo-tetraploid plants induce low-potassium (K) signaling to increase their shoot K content. However, we also show that this low-K signaling is distinct form previously studied, externally applied low-K signaling. In this way, we are able to identify new components of the K homeostasis network, which are required to regulate K demand. Additionally we are able to show that while individual components of the K uptake system are not sufficient to increase shoot K, a loss of root hairs abolished the ploidy K phenotype (PPP) as does a defective Casparian strip. Root hairs are the site of entry of K into the root and neo-tetraploids increase their root hair length and density (RHI) to facilitate their higher K demand. The Casparian strip on the other hand enables higher K concentration in the stele of the root, which is required for the increased K content in neo-tetraploids.
Overall design RNAseq of Arabidopsis thaliana wild type Col-0 and mutants esb1-1, sos3-2 and rhd6-3/rsl1-1 after whole genome duplication, grown on soil and plates. Roots and shoots of soil grown plants and roots of plate grown plants were assessed for gene expression differences between diploids and neo-tetraploids. Three replicates were analyed.
Web link
Contributor(s) Fischer S, Flis P, Zhao F, Salt DE
Citation(s) 35929797
Submission date Jul 26, 2021
Last update date Oct 31, 2022
Contact name Sina Fischer
Organization name University of Nottingham
Department School of Biosciences
Street address Sutton Bonington Campus
City Loughborough
State/province Leicestershire
ZIP/Postal code LE12 5RD
Country United Kingdom
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (88)
GSM5471370 plate.root.Col.02x.brep1
GSM5471371 plate.root.Col.02x.brep2
GSM5471372 plate.root.Col.02x.brep3
This SubSeries is part of SuperSeries:
GSE180819 Redundancies in low K signaling of neo-tetraploids leads in increased shoot K
BioProject PRJNA749717
SRA SRP329878

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
GSE180818_Gene_TPM.csv.gz 8.0 Mb (ftp)(http) CSV
GSE180818_RAW.tar 73.7 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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