A telencephalon cell type atlas for goldfish reveals diversity in the evolution of spatial structure and cell types

Teleost fish form the largest group of vertebrates, making them critically important for the study on the mechanisms of brain evolution. In fact, teleosts show a tremendous variety of adaptive behaviors similar to birds and mammals, however, the neural basis mediating these behaviors remains elusive. We performed a systematic comparative survey of the goldfish telencephalon: the seat of plastic behavior, learning, and memory in vertebrates. We delineated and mapped goldfish telencephalon cell types using single-cell RNA-seq and spatial transcriptomics, resulting in de novo molecular neuroanatomy parcellation. Glial cells were highly conserved across 450 million years of evolution separating mouse and goldfish, while neurons showed diversity and modularity in gene expression. Specifically, somatostatin (SST) interneurons, famously interspersed in the mammalian isocortex for local inhibitory input, were curiously aggregated in a single goldfish telencephalon nucleus, but molecularly conse..., , , This repository contains the data and code associated with the scientific article titled \"A telencephalon cell type atlas for goldfish reveals diversity in the evolution of spatial structure and cell types\". The research employed various techniques, including single-cell RNA sequencing (scRNA-seq) and spatial transcriptomics, to elucidate the molecular neuroanatomy and evolutionary aspects of the goldfish telencephalon.

# Upload Files

The following dataset files are available

### Dryad (Data)

1. **GF\_TE\_sc\_data\_2023.zip** \- Single\-cell datasets for the goldfish telencephalon used in the article\. This archive includes the following files:
* `sc_data.csv` \- Single\-cell count matrix \(genes\- rows\, cells\- columns\)\.
* `genes.csv` \- Genes list\.
* `cell_type_name.csv` \- Cell type names list\.
* `sample_region.csv` \- Table of flags indicating single cell \(rows\) with sample number\, region \(columns\)\.
2. **GF\_TE\_st\_data\_2023.zip** \- Spatial transcri...