Benjamin Judkewitz

Whole-body single-cell atlas of an adult vertebrate in homeostasis and regeneration

Region-stratified scRNA-seq of 607,370 cells plus 500-gene MERFISH maps adult Danionella cerebrum cell types body-wide, revealing fibroblast Hox and limb-identity programs and telencephalon regeneration dynamics.

Distributed hierarchical filters partition the Danionella vocal repertoire

The paper shows that vocal call categorization in Danionella is distributed across multiple brain regions rather than localized to a single area.

Multimodal reference brain atlas of adult Danionella cerebrum

The paper creates a multimodal reference brain atlas for adult Danionella cerebrum, integrating anatomical, molecular, and functional data to study brain structure and sexual dimorphism.

An algorithm underlying directional hearing in fish

The paper introduces a model that quantitatively predicts directional hearing in fish by analyzing phase differences in sound pulses and their effect on startle responses.

Imaging cellular activity simultaneously across all organs of a vertebrate reveals body-wide circuits

The paper introduces WHOLISTIC, a method to image cellular activity across all organs of a vertebrate, revealing body-wide circuits and responses to stimuli.

Binge Feeding Promotes Appetite via Modulating Olfactory Flavor Representation

This study shows binge feeding increases food intake by suppressing olfactory flavor representation in the anterior piriform cortex through specific neuronal activity patterns.

Fast and light efficient remote focusing for volumetric voltage imaging

The paper introduces FLIPR, a remote focusing technique that improves light efficiency and enables high-speed volumetric voltage imaging at 500 volumes per second.

High-speed three-dimensional random access scanning with SPARCLS

This paper introduces SPARCLS, a high-speed 3D random-access scanning method achieving 340 kHz point rate, and demonstrates its application in imaging synaptic events in mammalian and zebrafish models.

Brain-wide imaging of an adult vertebrate with image transfer oblique plane microscopy

This paper introduces a new imaging technique to achieve brain-wide neuronal activity recording in adult vertebrates.

Evolutionary divergence of locomotion in two related vertebrate species

This study compares swimming patterns and neuronal circuits in two closely related fish species to understand how environmental factors drive evolutionary divergence in locomotion.

Hybrid genome assembly and annotation of Danionella translucida

The paper presents the hybrid genome assembly and annotation of Danionella translucida, a small transparent vertebrate with a rich behavioral repertoire.