Related Experiment Video
Updated: May 11, 2026

Isolation and Transcriptome Analysis of Plant Cell Types
Published on: April 7, 2023
Network theory inspired analysis of time-resolved expression data reveals key players guiding P. patens stem cell
Hauke Busch1, Melanie Boerries, Jie Bao
1ZBSA Center for Biological Systems Analysis, University of Freiburg, Freiburg, Germany. h.busch@dkfz.de
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.
Related Concept Videos
Stem Cell Niche
Zygotic Development And Stem Cell Formation
Multipotency and Niche of Bulge Stem Cell
Cells Coordinate Growth and Proliferation
Regulation of Hematopoietic Stem Cells

