title: From milliseconds to lifetimes: tracking the dynamic behavior of transcription factors in gene networks.
abstract: Modeling dynamic gene regulatory networks (GRNs) is a new frontier in systems biology. It has special implications for plants, whose survival requires rapid deployment of GRNs in response to environmental changes. However, capturing and dissecting transient interactions of transcription factors (TFs) and their targets in GRNs remains a considerable experimental challenge. Here we review recent progress in understanding GRNs as a function of time and discuss the relevance of these findings in plants to studies in other eukaryotes. We cover progress in profiling and modeling time-course transcriptome changes across plant species and the insights they have provided into the regulatory mechanisms underlying these temporal transcriptional responses, with a focus on the dynamic behavior of TFs. Lastly, we review state-of-the-art techniques to monitor the single-molecule dynamics of TFs in vivo. Together, these advances have helped develop new models for dynamic transcriptional control with relevance across eukaryotes.
authors.affiliation: Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA.
authors.forename: Ying
authors.initials: Y
authors.lastname: Li
authors.affiliation: Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA.
authors.forename: Kranthi
authors.initials: K
authors.lastname: Varala
authors.affiliation: Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA. Electronic address: gloria.coruzzi@nyu.edu.
authors.forename: Gloria M
authors.initials: GM
authors.lastname: Coruzzi
mesh_terms: D000818:Animals; D019143:Evolution, Molecular; D053263:Gene Regulatory Networks; D006801:Humans; D013997:Time Factors; D014157:Transcription Factors / Q000502:physiology*; D014158:Transcription, Genetic
chemical_list: D014157:Transcription Factors
keywords: gene regulatory networks; transcription dynamics; transcription factors