Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei

The innate immune system is the first line of defense in multicellular organisms. Danio rerio is widely considered a promising model for IIS-related research, with the most amount of scRNAseq data available among Teleostei . We summarized the scRNAseq and spatial transcriptomics experiments related...

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Bibliographic Details
Published in:Biology
Main Authors: Aleksandr V. Bobrovskikh, Ulyana S. Zubairova, Alexey V. Doroshkov
Format: Article in Journal/Newspaper
Language:English
Published: MDPI AG 2023
Subjects:
aquaculture
drug development
gene networks
immunity
meta-analysis
model organisms
Biology (General)
QH301-705.5
Turbot
Online Access:https://doi.org/10.3390/biology12121516
https://doaj.org/article/a414431911634e6caaf143d017bd2b70
Description
Summary:The innate immune system is the first line of defense in multicellular organisms. Danio rerio is widely considered a promising model for IIS-related research, with the most amount of scRNAseq data available among Teleostei . We summarized the scRNAseq and spatial transcriptomics experiments related to the IIS for zebrafish and other Teleostei from the GEO NCBI and the Single-Cell Expression Atlas. We found a considerable number of scRNAseq experiments at different stages of zebrafish development in organs such as the kidney, liver, stomach, heart, and brain. These datasets could be further used to conduct large-scale meta-analyses and to compare the IIS of zebrafish with the mammalian one. However, only a small number of scRNAseq datasets are available for other fish (turbot, salmon, cavefish, and dark sleeper). Since fish biology is very diverse, it would be a major mistake to use zebrafish alone in fish immunology studies. In particular, there is a special need for new scRNAseq experiments involving nonmodel Teleostei , e.g., long-lived species, cancer-resistant fish, and various fish ecotypes.

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