Nanoclustering of a plant transcription factor enables strong yet specific DNA binding
- Kasper Arfman
- Bas P.J. Janssen
- Robin Romein
- Sophie van den Boom
- Maarten van der Woude
- Lucas Jansen
- Maartje Rademaker
- Jorge Hernández-García
- João Jacob Ramalho
- Melissa Dipp-Álvarez
- Martijn de Roij
- Jasper Lamers
- Johannes Hohlbein
- Jan Willem Borst
- Dolf Weijers
- Carlo P.M. van Mierlo
- Joris Sprakel
2026-07-24
Transcription factors (TFs) are traditionally depicted as mono- or oligomeric units that recognize and bind specific DNA sequences to regulate transcription. Emerging evidence suggests that many TFs can undergo liquid phase separation, resulting in condensates that bind DNA through a different mechanism. For the auxin response factors (ARFs), canonical plant TFs, evidence for both scenarios exists, but which of these scenarios is operational in the plant nucleus is unclear. Here, we demonstrate using MpARF2 of Marchantia polymorpha that a third scenario is operational: MpARF2 forms nanoscopic clusters under physiological conditions. Nanoclusters combine DNA binding features that cannot be accessed by the other two scenarios: high-affinity, switch-like, and sequence-specific. Our results suggest nanoclustering as a mechanism that equips TFs with the DNA binding properties necessary for transcriptional regulation.