Multimodal analysis reveals cellular diversity and divergent circuits of the zona incerta

The zona incerta (ZI) plays an important role in diverse behavioral functions and is an emerging clinical target for deep brain stimulation to treat neurological conditions. Despite their importance, the cell type composition of the ZI and the anatomical circuit organization linking specific ZI cell types to brain-wide circuits remain unclear. In this study, we used single-nucleus RNA-sequencing, spatial RNA profiling, ex vivo electrophysiology, and anatomical circuit mapping to generate a multimodal cellular atlas of the ZI and to characterize the brain-wide monosynaptic inputs to specific ZI cell types. We define four genetically distinct populations of ZI GABAergic neurons that display unique spatial distributions, specialized intrinsic electrophysiological properties, divergent efferent projections, and cell-type dependent synaptic input patterns. Finally, using fiber photometry we reveal response divergence between distinct ZI cell types in a novel behavioral assay that centers around approach-avoid conflict produced by innately appetitive and aversive stimuli. This study thus provides a foundational resource for the design and interpretation of future experiments aimed at understanding the organization and function of the ZI. The GEO dataset comprises single-nucleus RNA-sequencing data of neurons of the zona incerta (ZI) from three adult (8-12 weeks old) C57Bl/6J mice.