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Series GSE61922 Query DataSets for GSE61922
Status Public on Oct 01, 2014
Title APR2 mapping
Organism Arabidopsis thaliana
Experiment type Genome variation profiling by SNP array
Summary ABSTRACT: Natural variation allows the investigation of both the fundamental functions of genes and their role in local adaptation. As one of the essential macronutrients, sulfur is vital for plant growth and development, and also for crop yield and quality. Selenium and sulfur are assimilated by the same process, and although plants do not require selenium, plant-based selenium is an important source of this essential element for animals. Here, we report the use of linkage mapping in synthetic F2 populations, and complementation to investigate the genetic architecture of variation in total leaf sulfur and selenium concentrations in a diverse set of Arabidopsis thaliana accessions. We identify in accessions collected from Sweden and the Czech Republic two variants of the enzyme adenosine 5-phosphosulfate reductase 2 (APR2) with strongly diminished catalytic capacity. APR2 is a key enzyme in both sulfate and selenate reduction and its reduced activity in the loss-of-function allele apr2-1 and the two A. thaliana accessions Hodon¨ªn (Hod) and Shahdara (Sha), leads to a lowering of sulfur flux from sulfate into the reduced sulfur compounds, cysteine and glutathione, and into proteins, concomitant with an increase in the accumulation of sulfate in leaves. We conclude from our observation, and the previously identified weak allele of APR2 from the Sha accession collected in Tadjikistan, that the catalytic capacity of APR2 varies by four orders of magnitude across the A. thaliana species range, driving significant differences in sulfur and selenium metabolism. The selective benefit, if any, of this large variation remains to be explored.
 
Overall design genomic hybridization bulked segregant analysis
Hybridizations from a set of Bulk Segregant analysis. We measured the elemental profile of 328 F2 plants from a cross between the high sulfur and selenium Arabidopsis thaliana accession Hod and the Col-0 accession, data available at www.ionomicshub.org <http://www.ionomicshub.org>). Leaves from the 57 highest and 61 lowest sulfur and selenium accumulating plants (calculated as a percentage of the Col-0 accumulation in the same growth tray) were pooled and the genomic DNA was extracted using Qiagen kits.
 
Citation(s) 25245030
Submission date Sep 30, 2014
Last update date Dec 03, 2014
Contact name Daiyin Chao
E-mail(s) dychao@sibs.ac.cn
Phone 086-21-54924337
Organization name Shanghai Institutes for Biological Sciences
Department Shanghai Institute of Plant Physiology and Ecology
Street address 300 Fenglin Road
City Shanghai
ZIP/Postal code 200032
Country China
 
Platforms (1)
GPL10855 Arabidopsis thaliana SNP-tiling array AtSNPtile ver. 2
Samples (2)
GSM1517335 Hod-low-Sulfur_Pool
GSM1517336 Hod_High_Sulfur_Pool
Relations
BioProject PRJNA262680

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
GSE61922_Hod_Smap_snpprobemapping.csv.gz 1.1 Mb (ftp)(http) CSV
GSE61922_RAW.tar 64.9 Mb (http)(custom) TAR (of CEL)
Processed data are available on Series record

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