Cell-type specific metabolic profiling ofArabidopsis thalianaprotoplasts as a tool for plant systems biology.
Flow cytometry combined with cell sorting of protoplasts has previously been used successfully for transcript profiling of theArabidopsis thalianaroot. We have developed the technique further, and in this paper we present a robust and reliable method for metabolite profiling in specific cell types isolated fromArabidopsisroots. The method uses a combination of fluorescence-activated cell sorting and gas chromatography-time of flight-mass spectrometry analysis. Cortical and endodermal cells from the green fluorescent protein (GFP)-expressing enhancer trap line J0571 were analysed and compared with non-GFP-expressing cells and intact root tissue. Of the metabolites identified, several showed significant differences in concentration between cell types. Multivariate statistical analysis was used to compare metabolite patterns between cell and tissue types, showing that the patterns differed substantially. Isolation of specific cell populations combined with highly sensitive MS-analysis will be a powerful tool for future studies of plant metabolism, and can also be combined with transcript and protein profiling for in-depth analyses of cellular processes.
Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 83 Umeå, Sweden.|BioVis, Department for Immunology, Genetics, and Pathology, Uppsala University Rudbecklaboratoriet, 751 85 Uppsala, Sweden.
Sara V
SV
Petersson
Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 83 Umeå, Sweden.
Pernilla
P
Lindén
Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 83 Umeå, Sweden.
Thomas
T
Moritz
Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 83 Umeå, Sweden.
Karin
0000-0003-2901-189X
K
Ljung
Arabidopsis thaliana; Flow cytometry; Gas chromatography-mass spectrometry; Metabolite profiling; Multivariate statistical analysis; Untargeted metabolomics