Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions.

摘要: Charting a temporal path in gene networks requires linking early transcription factor (TF)-triggered events to downstream effects. We scale-up cell-based TF-perturbation assay identify direct regulated targets of 33 nitrogen (N)-early response TFs encompassing 88% N-responsive Arabidopsis genes. uncover duality where each TF is an inducer and repressor, vitro cis-motifs are typically specific regulation directionality. Validated TF-targets (71,836) used refine precision time-inferred root network, connecting 145 311 targets. These data chart network paths from TF1-regulated identified cells indirect responding only planta via Network Walking. TGA1 CRF4 TF2 targets, which turn regulate 76% 87% TF1 planta, respectively. results have implications for N-use the approach can reveal any biological system. Temporal control transcriptional enables organisms adapt changing environment. Here, authors use scaled-up nitrogen-early responsive factors validate a mediating dynamic signaling Arabidopsis.