PUBLICATION
In toto analysis of embryonic organisation reduces tissue diversity to two archetypes requiring specific cadherins
- Authors
- Brambach, M., Wittmann, J., Albert, M., Julmi, J., Bill, R., Gilmour, D.
- ID
- ZDB-PUB-250728-16
- Date
- 2025
- Source
- Nature communications 16: 68726872 (Journal)
- Registered Authors
- Keywords
- none
- MeSH Terms
-
- Animals
- Cadherins*/genetics
- Cadherins*/metabolism
- Embryo, Nonmammalian*/cytology
- Embryo, Nonmammalian*/metabolism
- Gene Expression Regulation, Developmental
- Zebrafish*/embryology
- Zebrafish*/genetics
- Zebrafish*/metabolism
- Zebrafish Proteins*/genetics
- Zebrafish Proteins*/metabolism
- PubMed
- 40715062 Full text @ Nat. Commun.
Citation
Brambach, M., Wittmann, J., Albert, M., Julmi, J., Bill, R., Gilmour, D. (2025) In toto analysis of embryonic organisation reduces tissue diversity to two archetypes requiring specific cadherins. Nature communications. 16:68726872.
Abstract
Organisms are far greater than the sum of their differentiated cells, as the function of most cell types emerges from their organisation into three-dimensional tissues. Yet, the mechanisms underlying architectural diversity remain poorly understood, partly due to a lack of methods for directly comparing different tissue organisations. Here we establish nuQLOUD, an efficient imaging and computational framework that reduces complex tissues to clouds of nuclear positions, enabling the extraction of cell-type agnostic architectural features. Applying nuQLOUD to whole zebrafish embryos reveals that global tissue diversity can be efficiently reduced to two archetypes, termed 'amorphous' and 'crystalline'. We investigate the role of cadherin cell adhesion molecules in controlling organisational diversity and demonstrate that their expression segregates along tissue-archetypal lines. Targeted perturbations identify N-cadherin as a general driver of the amorphous archetype. This organisation-centric approach provides a way to conceptualise tissue diversification and investigate the underlying mechanisms within a standardised, quantitative framework.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping