I thought I was a quirky little underdog fish with cool tricks, widening the model-organism spectrum. Suddenly, headlines: "Billion Dollar Fish Takes Over" Holy Mackerel! I guess there weren't any smaller fish to fry. Anyway, I'm still the same, still making the case for model diversity.

1/8. New preprint! Using fUSi in head-fixed mice🐭, we found that arousal events trigger a brain-wide wave of activity 🌊🧠. Surprisingly, this pattern was preserved during opto manipulations of the locus coeruleus, pointing to a minor role for noradrenergic tone. www.biorxiv.org/content/10.6...

How do fish localize sound without interaural cues? @johve.bsky.social et al. found a behavioral algorithm for directional hearing that predicts behavior from a pressure/motion phase comparison and accounts for how this relationship varies with distance. www.cell.com/current-biol...

An algorithm underlying directional hearing in fish

Veith et al. show how a fish—Danionella cerebrum—can reliably startle away from sound. It uses the relative phase between particle motion and pressure to infer the direction of sound. This sensorimoto...

cell.com

Very happy to see this out. 👏 @yinanwan.bsky.social Bogdan Bintu and team. Whole-embryo spatial transcriptomics at subcellular resolution from gastrulation to organogenesis | free link Science www.science.org/eprint/5MHTM...

Whole-embryo spatial transcriptomics at subcellular resolution from gastrulation to organogenesis

Gene expression patterns underlie development, but their systematic detection in whole embryos has remained elusive. We introduce a whole-embryo imaging platform using multiplexed error-robust fluores...

science.org

Tiny, transparent, and now charted! Our brain atlas of adult Danionella cerebrum includes >200 annotated regions, 29 whole-brain in situs, and male/female reference volumes – openly available, versioned and extendable. Work by @nkadobyansky.bsky.social and team. www.biorxiv.org/content/10.6...

New paper out: www.nature.com/articles/s41... 🥳 Congratulations to our PhD student Katja for her inspiring work just published in Nature Communications on how the larval zebrafish brain processes multiple visual features. Check out a short summary of the work here: tinyurl.com/yzv4ct9k

Bahl Lab @bahllab.bsky.social · 12mo ago

How do brains make decisions when faced with multiple, potentially conflicting cues? In our latest preprint, we show how #zebrafish use an additive strategy and process multiple visual features through anatomically distinct parallel pathways tinyurl.com/mvkn8em9 Thread 👇

First whole-brain recording of social sound processing in a vertebrate. Surprises start in the hindbrain; thalamus gates conspecific calls; male and female brains diverge downstream. Work by @joerghenninger.bsky.social, @mh123.bsky.social sky.social and team. www.biorxiv.org/content/10.6...

Whole-body Single-cell Spatial transcriptomic atlas of adult Danionella ~1 cm long scRNAseq MERFISH (500-gene) HCR Endothelial cell podxl+ (Fig S8) Vascular vs Visceral mural cell (Fig S10) Peter Reddien lab bioRxiv 2026 www.biorxiv.org/content/10.6...

Our updated @napari.org video plugin includes a small widget to play videos with sound. github.com/danionella/n...

Congratulations to Urs Lucas Bohm, junior leader a @ipnp.bsky.social, for his latest achievement: he is recipient of the ATIP-Avenir award for his work on spinal cord network contribution to motor behaviors, using voltage imaging techniques in zebrafish! Keep going, Urs! @inserm.fr #motordisease

This is great -- thanks for your efforts and the documentation. We've got it up and running for tERK stains. Some kinks for us work out but running registrations in a few seconds is so very satisfying!

Benjamin Judkewitz@benjulab.bsky.social · last yr.

Introducing warpfield, an open source Python library for GPU-accelerated non-rigid 3D registration. Warps and aligns gigavoxel volumes within seconds (not hours). For 3D microscopy, region-to-region and cell-to-cell matching. A collaboration with @mh123.bsky.social 🚀 github.com/danionella/w...

Introducing warpfield, an open source Python library for GPU-accelerated non-rigid 3D registration. Warps and aligns gigavoxel volumes within seconds (not hours). For 3D microscopy, region-to-region and cell-to-cell matching. A collaboration with @mh123.bsky.social 🚀 github.com/danionella/w...

We are releasing a GPU-accelerated oblique interpolation library for oblique plane microscopy (OPM) volume reconstruction. It avoids aliasing and interpolation artifacts caused by rectilinear interpolation approaches. github.com/danionella/o...

Another study to share, led by my grad student Nicole Pranic! Before diving in, I'll add that Nicole (who is clever, tenacious, and interested in neural changes that underlie developmental changes in social behaviors) is looking for a post-doc position! Please RT! www.biorxiv.org/content/10.1...

Vocal ontogeny in Mus musculus

Infants of many species produce distress calls when in need of parental care. As they mature and gain independence from caregivers, juveniles stop producing infant calls and begin producing adult-like...

biorxiv.org

We’re seeking a postdoc/student excited about animal communication, brain-wide circuits, microscopy, singing fish (Danionella), wacky ideas and who likes to: get things done, experiment, analyze, ask, learn, help and cooperate. jlab.berlin

Interested in understanding how things work? In particular the tools you use to study the brain? Join us at TENSS 2025 where we brainstorm ideas, build and debug microscopes, electrophysiology and behavior rigs amidst the picturesque Transylvanian hills! tenss.ro Apply by: February 16th!

If you want to understand the brain, should you work as a neuroscientist in the lab? Or teach the subject for students? Or simply read textbooks and papers while having a normal job? In this blog post, I share some thoughts on this topic. gcamp6f.com/2025/01/08/a...

1/3 How does visual input affect the heading direction (HD) network? In our latest lab preprint, Ryosuke presents "visual landmarks" to larval zebrafish and shows that the HD network tethers to the visual environment. The experiments are again inspired by the beautiful recent work in Drosophila.

job offer! I am looking for a postdoc to join the nascent team. Come work with us to build microscopes and study spinal cord circuits. #ZebrafishCareers

Come join us! Please repost 🙏🏼

High-speed 3D random access two-photon imaging at ≥ 300 kHz – with SPARCLS: opg.optica.org/optica/fullt... By the outstanding @carolineberlage.bsky.social and team, including @urslucasboehm.bsky.social, @andrewplested.bsky.social et al.

Reintroducing the lab by featuring some recent papers on acoustic communication in the tiny glassfish Danionella cerebrum (@danionella.bsky.social). Antonia Groneberg carefully characterized the ontogeny of their singing in JEB: doi.org/10.1242/jeb.... 🧵

Development of sound production in Danionella cerebrum

Highlighted Article:Danionella cerebrum is one of the smallest vertebrates known to perform acoustic communication: juvenile fish develop their sexually dimorphic ability for sound production.

doi.org

by the one and only @urslucasboehm.bsky.social, who just joined bluesky

Benjamin Judkewitz@benjulab.bsky.social · 2y ago

Now published as www.nature.com/articles/s41...

It's woefully incomplete, but I've made the start of a starter pack for folks interested in microscopy. Suggestions for who else to include (including yourself!) are very welcome. go.bsky.app/SaYfAX3

Just put together the beginnings of a systems & behavior neuro starter pack (focus on rodent work) - obviously a lot of people missing, and most included are in my own little bubble, so if you want to be added do reply here! go.bsky.app/Hxpe53o

Switched waters to Bluesky. Still singing, still transparent, and back to having the smallest vertebrate brain around.

I think science twitter is finally moving here. Welcome everybody! 🧪

Now published as www.nature.com/articles/s41...

Fast and light-efficient remote focusing for volumetric voltage imaging - Nature Communications

The authors develop a high-speed remote focusing method for volumetric voltage imaging enabling imaging at 500 volumes/s. This is combined with light sheet microscopy to record data from >100 ...

nature.com

bioRxiv Neuroscience@biorxiv-neursci.bsky.social · 3y ago

Fast and light efficient remote focusing for volumetric voltage imaging https://www.biorxiv.org/content/10.1101/2023.11.28.568783v1

We’re seeking a postdoc/student excited about animal communication, brain-wide circuits, microscopy, singing fish (Danionella), wacky ideas and who likes to: get things done, experiment, analyze, ask, learn, help and cooperate. jlab.berlin