Network theory inspired analysis of time-resolved expression data reveals key players guiding P. patens stem cell development
Contributors: Börries, Melanie 1971- Verfasser; Bao, Jie Verfasser; Hanke, Sebastian T. Verfasser; Hiss, Manuel Verfasser; Tiko, Theodor Verfasser; Rensing, Stefan A. 1967- Verfasser; Zentrum für Biosystemanalyse; FRISYS; Albert-Ludwigs-Universität Freiburg Freiburg Institute of Advanced Studies; Albert-Ludwigs-Universität Freiburg Institut für Molekulare Medizin und Zellforschung; DKTK German Cancer Consortium; Albert-Ludwigs-Universität Freiburg Fakultät für Biologie; Albert-Ludwigs-Universität Freiburg Centre for Biological Signalling Studies; Albert-Ludwigs-Universität Freiburg
Publisher: Universität
Published: 2013
Place of publication: Freiburg
Language: eng
Subjects: Physcomitrella patens; Stammzelle
Description: Abstract: Transcription factors (TFs) often trigger developmental decisions, yet, their transcripts are often only moderately regulated and thus not easily detected by conventional statistics on expression data. Here we present a method that allows to determine such genes based on trajectory analysis of time-resolved transcriptome data. As a proof of principle, we have analysed apical stem cells of filamentous moss (P. patens) protonemata that develop from leaflets upon their detachment from the plant. By our novel correlation analysis of the post detachment transcriptome kinetics we predict five out of 1,058 TFs to be involved in the signaling leading to the establishment of pluripotency. Among the predicted regulators is the basic helix loop helix TF PpRSL1, which we show to be involved in the establishment of apical stem cells in P. patens. Our methodology is expected to aid analysis of key players of developmental decisions in complex plant and animal systems
Notes: PLoS one. 8, 4 (2013), e60494, DOI 10.1371/journal.pone.0060494, issn: 1932-6203

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