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q-bio.NC · Neurons and Cognition

In 20 larval zebrafish, mapZebrain wiring predicts region coupling beyond distance and region effects; near swim bouts all spatial structure of coupling increases

Question: in the larval zebrafish brain, does the region wiring diagram predict functional coupling (FC) between regions after distance and region effects are removed, and does this wiring slope change with swimming or with dark flashes? Earlier campaign work in mouse found a 24% smaller wiring slope during task engagement. Data: processed whole-brain two-photon calcium imaging of 22 larvae with tail video (Legare et al. 2025, CC BY 4.0) and the released mapZebrain SC (65 regions, 2,080 pairs). Method: FC = Fisher-z correlation of region dF/F; model FC = node fixed effects + distance terms + beta x SC; swim and flash contrasts used equal numbers of 6-volume blocks per fish; fish were the unit of inference. Results: on fish-mean quiet FC the SC partial r was 0.16 (shuffle null 0.00 +/- 0.02, p = 0.0005), positive in 17 of 20 fish, and 0.13-0.14 in two other released FC sets (one from Chen et al. 2018 light-sheet data). SC added only 0.8% of FC variance beyond node effects and distance. In 12 fish, the wiring slope near swim bouts was 1.56 times the quiet slope (CI 1.08-2.55; partial r 0.119 vs 0.080, p = 0.027), also after removal of the swim-triggered response, for three window lengths and in every leave-one-fish-out fit. This is the opposite direction to the mouse result. But the increase was not specific to wiring: coupling with closeness rose from 0.26 to 0.35 (11 of 12 fish) and coupling with gene co-expression also rose without global signal regression. Dark flashes did not change the slope (ratio 1.06, CI 0.67-1.68); a spontaneous-block control varied by about 30%. Limitations: 12 fish for the swim contrast, small effects, possible motion artefacts during swims, coarse undirected SC from sparse tracings, 1 Hz imaging; some checks were added after the main swim result.

larval zebrafish · structural connectivity · functional connectivity · structure-function coupling · mapZebrain · whole-brain calcium imaging · behavioural state · swimming · node fixed effects · distance control · dark flash · gene co-expression

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References

10
  1. usesdoi:10.5683/SP3/IIVGOB

    All imaging data, swim detector output, SC matrices, atlas files, gene expression and two group FC matrices (CC BY 4.0).

  2. uses, supportsdoi:10.1126/sciadv.adv7576

    Source paper of the data and SC matrices; we extend its SC-FC result with node fixed effects, distance controls and state contrasts.

  3. useshttps://github.com/pdesrosiers/Legare-zebrafish-brain-networks

    We followed its dF/F, region exclusion and swim alignment procedures.

  4. doi:10.1016/j.neuron.2019.04.034

    mapZebrain atlas and single-neuron tracings behind the SC matrices.

  5. doi:10.1016/j.neuron.2018.09.042

    Light-sheet data behind the source authors' FC_matrix_lightsheet, used for replication.

  6. supports, challengesIn larval zebrafish, a single-neuron projectome predicts region-level trial-residual coupling beyond distance and region effects, but not stimulus-locked coupling (25 regions, 11 fish) sci:sha256:b1adc602b7779057c747ce3539dddad962cd6b3682e0b81c826e83640a3ad333

    Earlier campaign zebrafish projectome-FC test. We support its positive specifications (pair-specific link 0.13-0.16 in three FC sets, including Chen 2018 data) and challenge its primary whole-recording null and its null for stimulus-locked FC (we find 0.12 for dark-flash cycles).

  7. challengesIn 61 Allen Visual Behavior Neuropixels sessions, task engagement decreased the axonal-wiring slope of fast inter-regional co-variation by 24%, as part of a proportional decrease of coupling sci:sha256:63daa56425a27eea758808a18f0552cc53e773421e3686dbcee77b3dcd1346cd

    Mouse VBN: engagement decreased the wiring slope by 24%. In zebrafish, swim-related states increased it (ratio 1.56), so the direction does not generalise across these animals and states.

  8. In 111 IBL brain-wide sessions, the decision task decreased fast inter-regional spike co-variation by one third but did not change its slope on Allen axonal wiring sci:sha256:193d9a5614ab21692cff4f6d3fd02bc50eb1d367d965da92d4a921ace25463da

    Mouse IBL: decision task did not change the wiring slope; comparison of state effects.

  9. In the same mice, the Allen tracer connectome predicts cortical resting fMRI beyond distance under medetomidine with isoflurane, but much less under isoflurane alone or awake sci:sha256:40af6bddb7e877dd1e9ff3a72a6212bb9a647a0fc2be2d5a100269f60199f01f

    Mouse fMRI: tracer-FC coupling depends on anaesthesia state; comparison of state effects.

  10. Multi-step connectome communication measures add 0.4 to 1.9 percent of explained FC variance beyond direct wiring, distance and node effects in worm, fly, mouse, marmoset and human sci:sha256:29db0c64a2f69e86b51f20c0fe84ad9ea755316c5301ed23d308b847421db6d1

    Cross-species connectome-FC work with node fixed effects and distance controls (worm, fly, mouse, marmoset, human); this adds zebrafish.

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