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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2023
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ftdoajarticles:oai:doaj.org/article:a414431911634e6caaf143d017bd2b70 2024-01-21T10:11:00+01:00 Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei Aleksandr V. Bobrovskikh Ulyana S. Zubairova Alexey V. Doroshkov 2023-12-01T00:00:00Z https://doi.org/10.3390/biology12121516 https://doaj.org/article/a414431911634e6caaf143d017bd2b70 EN eng MDPI AG https://www.mdpi.com/2079-7737/12/12/1516 https://doaj.org/toc/2079-7737 doi:10.3390/biology12121516 2079-7737 https://doaj.org/article/a414431911634e6caaf143d017bd2b70 Biology, Vol 12, Iss 12, p 1516 (2023) aquaculture drug development gene networks immunity meta-analysis model organisms Biology (General) QH301-705.5 article 2023 ftdoajarticles https://doi.org/10.3390/biology12121516 2023-12-24T01:37:54Z 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. Article in Journal/Newspaper Turbot Directory of Open Access Journals: DOAJ Articles Biology 12 12 1516 |
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Directory of Open Access Journals: DOAJ Articles |
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ftdoajarticles |
language |
English |
topic |
aquaculture drug development gene networks immunity meta-analysis model organisms Biology (General) QH301-705.5 |
spellingShingle |
aquaculture drug development gene networks immunity meta-analysis model organisms Biology (General) QH301-705.5 Aleksandr V. Bobrovskikh Ulyana S. Zubairova Alexey V. Doroshkov Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei |
topic_facet |
aquaculture drug development gene networks immunity meta-analysis model organisms Biology (General) QH301-705.5 |
description |
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. |
format |
Article in Journal/Newspaper |
author |
Aleksandr V. Bobrovskikh Ulyana S. Zubairova Alexey V. Doroshkov |
author_facet |
Aleksandr V. Bobrovskikh Ulyana S. Zubairova Alexey V. Doroshkov |
author_sort |
Aleksandr V. Bobrovskikh |
title |
Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei |
title_short |
Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei |
title_full |
Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei |
title_fullStr |
Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei |
title_full_unstemmed |
Fishing Innate Immune System Properties through the Transcriptomic Single-Cell Data of Teleostei |
title_sort |
fishing innate immune system properties through the transcriptomic single-cell data of teleostei |
publisher |
MDPI AG |
publishDate |
2023 |
url |
https://doi.org/10.3390/biology12121516 https://doaj.org/article/a414431911634e6caaf143d017bd2b70 |
genre |
Turbot |
genre_facet |
Turbot |
op_source |
Biology, Vol 12, Iss 12, p 1516 (2023) |
op_relation |
https://www.mdpi.com/2079-7737/12/12/1516 https://doaj.org/toc/2079-7737 doi:10.3390/biology12121516 2079-7737 https://doaj.org/article/a414431911634e6caaf143d017bd2b70 |
op_doi |
https://doi.org/10.3390/biology12121516 |
container_title |
Biology |
container_volume |
12 |
container_issue |
12 |
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1516 |
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1788702484768751616 |