From calcium imaging to graph topology DOI Creative Commons

Ann S. Blevins,

Dani S. Bassett,

Ethan K. Scott

и другие.

Network Neuroscience, Год журнала: 2022, Номер 6(4), С. 1125 - 1147

Опубликована: Янв. 1, 2022

Abstract Systems neuroscience is facing an ever-growing mountain of data. Recent advances in protein engineering and microscopy have together led to a paradigm shift neuroscience; using fluorescence, we can now image the activity every neuron through whole brain behaving animals. Even larger organisms, number neurons that record simultaneously increasing exponentially with time. This increase dimensionality data being met explosion computational mathematical methods, each disparate terminology, distinct approaches, diverse concepts. Here collect, organize, explain multiple analysis techniques been, or could be, applied whole-brain imaging, larval zebrafish as example model. We begin methods such linear regression are designed detect relations between two variables. Next, progress network science topological which focus on patterns among many Finally, highlight potential generative models provide testable hypotheses wiring rules progression time, disease progression. While use examples imaging from zebrafish, these approaches suitable for any population-scale neural modeling, indeed, applications beyond systems neuroscience. Computational topology not limited even neuroscience, therefore conclude discussion how be problems across biological sciences.

Язык: Английский

Automated synapse-level reconstruction of neural circuits in the larval zebrafish brain DOI Creative Commons

Fabian Svara,

Dominique Förster, Fumi Kubo

и другие.

Nature Methods, Год журнала: 2022, Номер 19(11), С. 1357 - 1366

Опубликована: Окт. 24, 2022

Abstract Dense reconstruction of synaptic connectivity requires high-resolution electron microscopy images entire brains and tools to efficiently trace neuronal wires across the volume. To generate such a resource, we sectioned imaged larval zebrafish brain by serial block-face at voxel size 14 × 25 nm 3 . We segmented resulting dataset with flood-filling network algorithm, automated detection chemical synapses validated results comparisons transmission microscopic light-microscopic reconstructions. Neurons their connections are stored in form queryable expandable digital address book. reconstructed 208 neurons involved visual motion processing, most them located pretectum, which had been functionally characterized same specimen two-photon calcium imaging. Moreover, mapped all 407 presynaptic postsynaptic partners two superficial interneurons tectum. The resource developed here serves as foundation for synaptic-resolution circuit analyses nervous system.

Язык: Английский

Процитировано

79
Transcriptomic neuron types vary topographically in function and morphology DOI Creative Commons
Inbal Shainer, Johannes M. Kappel,

Eva Laurell

и другие.

Nature, Год журнала: 2025, Номер unknown

Опубликована: Фев. 12, 2025

Abstract Neuronal phenotypic traits such as morphology, connectivity and function are dictated, to a large extent, by specific combination of differentially expressed genes. Clusters neurons in transcriptomic space correspond distinct cell types some cases—for example, Caenorhabditis elegans 1 retinal ganglion cells 2–4 —have been shown share morphology function. The zebrafish optic tectum is composed spatial array that transforms visual inputs into motor outputs. Although the visuotopic map continuous, subregions functionally specialized 5,6 . Here, uncover cell-type architecture tectum, we transcriptionally profiled its neurons, revealing more than 60 organized anatomical layers. We measured responses thousands tectal two-photon calcium imaging matched them with their transcriptional profiles. Furthermore, characterized morphologies identified using transgenic lines. Notably, found similar can diverge shape, responses. Incorporating coordinates within volume revealed morphologically defined subclusters individual clusters. Our findings demonstrate extrinsic, position-dependent factors expand repertoire genetically neurons.

Язык: Английский

Процитировано

5
Norepinephrine changes behavioral state through astroglial purinergic signaling DOI
Alex Chen, Marc Duque,

Altyn Rymbek

и другие.

Science, Год журнала: 2025, Номер 388(6748), С. 769 - 775

Опубликована: Май 15, 2025

Both neurons and glia communicate through diffusible neuromodulators; however, how neuron-glial interactions in such neuromodulatory networks influence circuit computation behavior is unclear. During futility-induced behavioral transitions the larval zebrafish, neuromodulator norepinephrine (NE) drives fast excitation delayed inhibition of activity. We found that astroglial purinergic signaling implements inhibitory arm this motif. In NE triggers release adenosine triphosphate (ATP), extracellular conversion ATP into adenosine, suppression activation hindbrain neuronal receptors. Our results suggest a computational role for an evolutionarily conserved axis NE-mediated brain state position astroglia as important effectors signaling.

Язык: Английский

Процитировано

3
Visual recognition of social signals by a tectothalamic neural circuit DOI Creative Commons
Johannes M. Kappel, Dominique Förster, Katja Slangewal

и другие.

Nature, Год журнала: 2022, Номер 608(7921), С. 146 - 152

Опубликована: Июль 13, 2022

Abstract Social affiliation emerges from individual-level behavioural rules that are driven by conspecific signals 1–5 . Long-distance attraction and short-distance repulsion, for example, jointly set a preferred interanimal distance in swarms 6–8 However, little is known about their perceptual mechanisms executive neural circuits 3 Here we trace the neuronal response to self-like biological motion 9,10 , visual trigger developing zebrafish 2,11 Unbiased activity mapping targeted volumetric two-photon calcium imaging revealed 21 hotspots distributed throughout brain as well clustered biological-motion-tuned neurons multimodal, socially activated nucleus of dorsal thalamus. Individual thalamus encode local acceleration stimuli mimicking typical fish kinetics but insensitive global or continuous motion. Electron microscopic reconstruction synaptic input optic tectum projections into hypothalamic areas with conserved social function 12–14 Ablation selectively disrupted without affecting repulsion. This tectothalamic pathway thus serves recognition conspecifics, dissociates control repulsion during affiliation, revealing circuit underpinning collective behaviour.

Язык: Английский

Процитировано

63
The Visual Systems of Zebrafish DOI
Herwig Baier, Ethan K. Scott

Annual Review of Neuroscience, Год журнала: 2024, Номер 47(1), С. 255 - 276

Опубликована: Апрель 25, 2024

The zebrafish visual system has become a paradigmatic preparation for behavioral and systems neuroscience. Around 40 types of retinal ganglion cells (RGCs) serve as matched filters stimulus features, including light, optic flow, prey, objects on collision course. RGCs distribute their signals via axon collaterals to 12 retinorecipient areas in forebrain midbrain. major visuomotor hub, the tectum, harbors nine RGC input layers that combine information multiple features. retinotopic map tectum is locally adapted scene statistics subfield–specific demands. Tectal projections premotor centers are topographically organized according commands. known connectivity more than 20 processing streams allows us dissect cellular basis elementary perceptual cognitive functions. Visually evoked responses, such prey capture or loom avoidance, controlled by dedicated multistation pathways that—at least larva—resemble labeled lines. This architecture serves neuronal code's purpose driving adaptive behavior.

Язык: Английский

Процитировано

10
Development, circuitry, and function of the zebrafish cerebellum DOI Creative Commons
Sol Pose‐Méndez, Paul J. Schramm,

Komali Valishetti

и другие.

Cellular and Molecular Life Sciences, Год журнала: 2023, Номер 80(8)

Опубликована: Июль 25, 2023

Abstract The cerebellum represents a brain compartment that first appeared in gnathostomes (jawed vertebrates). Besides the addition of cell numbers, its development, cytoarchitecture, circuitry, physiology, and function have been highly conserved throughout avian mammalian species. While cerebellar research mammals is extensive, systematic investigations on this zebrafish as teleostian model organism started only about two decades ago, but has provided considerable insight into since then. Zebrafish are genetically tractable with nearly transparent small-sized embryos, which development occurs within few days. Therefore, genetic accompanied non-invasive high-resolution vivo time-lapse imaging powerful combination for interrogating behavior cells their complex native environment.

Язык: Английский

Процитировано

19
High-resolution tracking of unconfined zebrafish behavior reveals stimulatory and anxiolytic effects of psilocybin DOI Creative Commons

Dotan Braun,

Ayelet M Rosenberg,

Elad Rabaniam

и другие.

Molecular Psychiatry, Год журнала: 2024, Номер 29(4), С. 1046 - 1062

Опубликована: Янв. 17, 2024

Abstract Serotonergic psychedelics are emerging therapeutics for psychiatric disorders, yet their underlying mechanisms of action in the brain remain largely elusive. Here, we developed a wide-field behavioral tracking system larval zebrafish and investigated effects psilocybin, psychedelic serotonin receptor agonist. Machine learning analyses precise body kinematics identified latent states reflecting spontaneous exploration, visually-driven rapid swimming, irregular swim patterns following stress exposure. Using this method, found that acute psilocybin treatment has two effects: [i] facilitation exploration (“stimulatory”) [ii] prevention exposure (“anxiolytic”). These differed from effect SSRI were rather similar to ketamine treatment. Neural activity imaging dorsal raphe nucleus suggested inhibits serotonergic neurons by activating local GABAergic neurons, consistent with psychedelic-induced suppression mammals. findings pave way using elucidate neural psychedelics.

Язык: Английский

Процитировано

8
Norepinephrine changes behavioral state via astroglial purinergic signaling DOI Creative Commons
Alex Chen, Marc Duque, Vickie M. Wang

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Май 23, 2024

Both neurons and glia communicate via diffusible neuromodulatory substances, but the substrates of computation in such networks are unclear. During behavioral transitions larval zebrafish, neuromodulator norepinephrine drives fast excitation delayed inhibition behavior circuit activity. We find that inhibitory arm this feedforward motif is implemented by astroglial purinergic signaling. Neuromodulator imaging, pharmacology, perturbations astroglia reveal triggers release adenosine triphosphate, extracellular conversion into adenosine, suppression through activation hindbrain neuronal receptors. This work, along with a companion piece Lefton colleagues demonstrating an analogous pathway mediating effect on synaptic connectivity mice, identifies computational role for evolutionarily conserved signaling axis norepinephrine-mediated brain state transitions.

Язык: Английский

Процитировано

8
Designing a Hybrid Chain Reaction Probe for Multiplex Transcripts Assay with High-Level Imaging DOI
Dongjian Cao,

Xinxin Qin,

Wenjing Wang

и другие.

ACS Nano, Год журнала: 2023, Номер 18(1), С. 618 - 629

Опубликована: Дек. 28, 2023

The hybrid chain reaction (HCR), an isothermal and enzyme-free amplification strategy, has found extensive use in fluorescent

Язык: Английский

Процитировано

11
Thalamic regulation of a visual critical period and motor behavior DOI Creative Commons

John Hageter,

Jacob Starkey,

Eric J. Horstick

и другие.

Cell Reports, Год журнала: 2023, Номер 42(4), С. 112287 - 112287

Опубликована: Март 22, 2023

During the visual critical period (CP), sensory experience refines structure and function of circuits. The basis this plasticity was long thought to be limited cortical circuits, but recently described thalamic challenges dogma demonstrates greater complexity underlying plasticity. Yet how modulates neurons or thalamus CP timing is incompletely understood. Using a larval zebrafish, thalamus-centric ocular dominance model, we show functional changes in role inhibitory signaling establish using combination imaging, optogenetics, pharmacology. Hemisphere-specific genetically defined correlate with visuomotor behavior, establishing modulating motor performance. Our work that broadly conserved leads neuron-level require timing.

Язык: Английский

Процитировано

9