Topic: zebrafish

Biological agents continually reconcile the internal states of their brain circuits with incoming sensory and environmental evidence to evaluate when and how to act. The brains of biological agents, including animals and humans, exploit many evolutionary innovations, chiefly modularity—observable at the level of anatomically-defined brain regions, cortical layers, and cell types among others—that can be repurposed in a compositional manner to endow the animal with a highly flexible behavioral repertoire. Accordingly, their behaviors show their own modularity, yet such behavioral modules seldom

There is growing recognition that host-associated microbiotas modulate intrinsic neurodevelopmental programs including those underlying human social behavior. Despite this awareness, the fundamental processes are generally not understood. We discovered that the zebrafish microbiota is necessary for normal social behavior. By examining neuronal correlates of behavior, we found that the microbiota restrains neurite complexity and targeting of key forebrain neurons within the social behavior circuitry. The microbiota is also necessary for both localization and molecular functions of forebrain mic

The retina is probably the most accessible part of the vertebrate central nervous system. Its computational logic can be interrogated in a dish, from patterns of lights as the natural input, to spike trains on the optic nerve as the natural output. Consequently, retinal circuits include some of the best understood computational networks in neuroscience. The retina is also ancient, and central to the emergence of neurally complex life on our planet. Alongside new locomotor strategies, the parallel evolution of image forming vision in vertebrate and invertebrate lineages is thought to have drive

Due to high homology to the human genome and rapid development, zebrafish have been successfully used to model diseases of the neuromuscular system. In this seminar, I will present current advances in modeling genetic causes of Amyotrophic Lateral Sclerosis (ALS), the most common motor neuron degeneration and show how epistatic interaction studies in zebrafish have helped elucidate synergistic effects of major ALS genes and their cellular targets.

The vertebrate retina is an important outpost of the central nervous system, responsible for the perception and transmission of visual information. It consists of five different types of neurons that reproducibly laminate into three layers, a process of crucial importance for the organ’s function. Unsurprisingly, impaired fate decisions as well as impaired neuronal migrations and lamination lead to impaired retinal function. However, how processes are coordinated at the cellular and tissue level and how variable or robust retinal formation is, is currently still underexplored. In my lab, we a

We use the olfactory system and forebrain of (adult) zebrafish as a model to analyze how relevant information is extracted from sensory inputs, how information is stored in memory circuits, and how sensory inputs inform behavior. A series of recent findings provides evidence that inhibition has not only homeostatic functions in neuronal circuits but makes highly specific, instructive contributions to behaviorally relevant computations in different brain regions. These observations imply that the connectivity among excitatory and inhibitory neurons exhibits essential higher-order structure that

Choosing among spatially distributed options is a central challenge for animals, from deciding among alternative potential food sources or refuges, to choosing with whom to associate. Here, using an integrated theoretical and experimental approach (employing immersive Virtual Reality), with both invertebrate and vertebrate models—the fruit fly, desert locust and zebrafish—we consider the recursive interplay between movement and collective vectorial integration in the brain during decision-making regarding options (potential ‘targets’) in space. We reveal that the brain repeatedly breaks multi-

John DowlingJohn E. Dowling received his AB and PhD from Harvard University. He taught in the Biology Department at Harvard from 1961 to 1964, first as an Instructor, then as assistant professor. In 1964 he moved to Johns Hopkins University, where he held an appointment as associate professor of Ophthalmology and Biophysics. He returned to Harvard as professor of Biology in 1971, was the Maria Moors Cabot Professor of Natural Sciences from 1971-2001, Harvard College professor from 1999-2004 and is presently the Gordon and Llura Gund Professor of Neurosciences. Dowling was chairman of the Biolo

All sensory perception and every coordinated movement, as well as feelings, memories and motivation, arise from the bustling activity of many millions of interconnected cells in the brain. The ultimate function of this elaborate network is to generate behavior. We use zebrafish as our experimental model, employing a diverse array of molecular, genetic, optical, connectomic, behavioral and computational approaches. The goal of our research is to understand how neuronal circuits integrate sensory inputs and internal state and convert this information into behavioral responses.

Ultra-low-cost, easily implemented and flexible two-photon scanning microscopy modification offering a several-fold expanded three-dimensional field of view that also maintains single-cell resolution. Application of our system for imaging neuronal activity has been demonstrated on mice, zebrafish and fruit flies. Website: https://github.com/BadenLab/nTCscope

Animals control motor actions at multiple timescales. We use larval zebrafish and advanced optical microscopy to understand the underlying neural mechanisms. First, we examined the mechanisms of short-term motor learning by using whole-brain neural activity imaging. We found that the 5-HT system integrates the sensory outcome of actions and determines future motor patterns. Second, we established a method for recording spiking activity and membrane potential from a population of neurons during behavior. We identified putative motor command signals and internal copy signals that encode millisec

Embryo morphogenesis is impacted by dynamic changes in tissue material properties, which have been proposed to occur via processes akin phase transitions (PTs). Here, we show that rigidity percolation provides a simple and robust theoretical framework to predict material/structural PTs of embryonic tissues from local cell connectivity. By using percolation theory, combined with directly monitoring dynamic changes in tissue rheology and cell contact mechanics, we demonstrate that the zebrafish blastoderm undergoes a genuine rigidity PT, brought about by a small reduction in adhesion-dependent c

Colour vision is based on circuit-level comparison of the signals from spectral distinct types of photoreceptors. In our own eyes, the presence of three types of cones enable trichromatic colour vision. However, many phylogenetically ‘older’ vertebrates have four or more cone types, and in almost all their cases the circuits that enable tetra- or possibly even pentachromatic colour vision are not known. This includes the majority of birds, reptiles, amphibians, and bony fish. In the lab we study neuronal circuits for colour vision in non-mammalian vertebrates, with a focus on zebrafish, a tetr

How can neural networks exhibit persistent activity on time scales much larger than allowed by cellular properties? We address this question in the context of larval zebrafish, a model vertebrate that is accessible to brain-scale neuronal recording and high-throughput behavioral studies. We study in particular the dynamics of a bilaterally distributed circuit, the so-called ARTR, including hundreds neurons. ARTR exhibits slow antiphasic alternations between its left and right subpopulations, which can be modulated by the water temperature, and drive the coordinated orientation of swim bouts, t

In this talk I will summarize some of our recent unpublished work on spectral coding in the larval zebrafish retina. Combining 2p imaging, hyperspectral stimulation, computational modeling and connectomics, we take a renewed look at the spectral tuning of cone photoreceptors in the live eye. We find that already cones optimally rotate natural colour space in a PCA-like fashion to disambiguate greyscale from "colour" information. We then follow this signal through the retinal layers and ultimately into the brain to explore the major spectral computations performed by the visual system at its co

Animals are able to perceive self-motion and navigate in their environment using optic flow information. They often perform visually guided stabilization behaviors like the optokinetic (OKR) or optomotor response (OMR) in order to maintain their eye and body position relative to the moving surround. But how does the animal manage to perform appropriate behavioral response and how are processing tasks divided between the various non-cortical visual brain areas? Experiments have shown that the zebrafish pretectum, which is homologous to the mammalian accessory optic system, is involved in the OK

Unlike even the most sophisticated current forms of artificial intelligence, developing biological organisms must build their neural hardware from scratch. Furthermore they must start to evade predators and find food before this construction process is complete. I will discuss an interdisciplinary program of mathematical and experimental work which addresses some of the computational principles underlying neural development. This includes (i) how growing axons navigate to their targets by detecting and responding to molecular cues in their environment, (ii) the formation of maps in the visual

Zebrafish and cichlids are popular models in visual neuroscience, due to their amenability to advanced research tools and their diverse set of visually guided behaviours. It is often asserted that animals’ neural systems are adapted to the statistical regularities in their natural environments, but relatively little is known about the visual spatiotemporal features in the underwater habitats that nurtured these fish. To address this gap, we have embarked on an examination of underwater habitats in northeastern India and Lake Tanganyika (Zambia), where zebrafish and cichlids are native. In this

Maintaining posture is a vital challenge for all freely-moving organisms. As animals grow, their relationship to destabilizing physical forces changes. How does the nervous system deal with this ongoing challenge? Vertebrates use highly conserved vestibular reflexes to stabilize the body. We established the larval zebrafish as a new model system to understand the development of the vestibular reflexes responsible for balance. In this talk, I will begin with the biophysical challenges facing baby fish as they learn to swim. I’ll briefly review published work by David Ehrlich, Ph.D., establishin

A head direction (HD) cell fires when an animal faces a particular azimuthal direction (Taube and Bassett 2003). Recurrent connections among HD cells create a ring-attractor network that continuously encodes HD (Ajabi et al. 2023). Indeed, in the Drosophila HD system, three rings interact to linearly integrate angular head velocity (AHV), with two of the rings receiving countervailing velocity-dependent inputs (Turner-Evans et al. 2017). In contrast, for the desert locust an alternative mechanism has been proposed (Zittrell et al. 2023; Pabst et al. 2024). There, velocity modulates synaptic