Transcriptome Analysis Reveals the Immunosuppression in Tiger Pufferfish (Takifugu rubripes) under Cryptocaryon irritans Infection Article Swipe
Yong Chi
,
Robert Mukiibi
,
Hongxiang Zhang
,
Haien Zhang
,
Weidong Li
,
Diego Robledo
,
Songlin Chen
,
Yangzhen Li
·
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.3390/ani14142058
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.3390/ani14142058
The tiger pufferfish (Takifugu rubripes), also known as fugu, has recently suffered from severe C. irritans infections under aquaculture environment, yet the underlying immune mechanisms against the parasite remain poorly understood. In this study, we conducted a comprehensive transcriptome analysis of the gill tissue from infected and uninfected fish using PacBio long-read (one pooled sample each for seriously infected and healthy individuals, respectively) and Illumina short-read (three pools for mildly infected, seriously infected, and healthy individuals, respectively) RNA sequencing technologies. After aligning sequence data to fugu’s reference genome, 47,307 and 34,413 known full-length transcripts were identified and profiled in healthy and infected fish, respectively. Similarly, we identified and profiled 1126 and 803 novel genes that were obtained from healthy and infected fish, respectively. Interestingly, we found a decrease in the number of alternative splicing (AS) events and long non-coding RNAs (lncRNAs) after infection with C. irritans, suggesting that they may be involved in the regulation of the immune response in fugu. There were 687 and 1535 differentially expressed genes (DEGs) in moderately and heavily infected fish, respectively, compared to uninfected fish. Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses showed that immune-related DEGs in the two comparison groups were mainly enriched in cytokine-cytokine receptor interactions, ECM-receptor interactions, T-cell receptor signaling pathways, Th1 and Th2 cell differentiation, and Th17 cell differentiation pathways. Further analysis revealed that a large number of immune-related genes were downregulated in infected fish relative to uninfected ones, such as CCR7, IL7R, TNFRSF21, CD4, COL2A1, FOXP3B, and ITGA8. Our study suggests that C. irritans is potentially a highly efficient parasite that may disrupt the defense mechanisms of fugu against it. In addition, in combination of short-read RNA sequencing and previous genome-wide association analyses, we identified five key genes (NDUFB6, PRELID1, SMOX, SLC25A4, and DENND1B) that might be closely associated with C. irritans resistance. This study not only provides valuable resources of novel genic transcripts for further research, but also provides new insights into the immune mechanisms underlying C. irritans infection response in farmed fugu.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.3390/ani14142058
- https://www.mdpi.com/2076-2615/14/14/2058/pdf?version=1721287153
- OA Status
- gold
- Cited By
- 3
- References
- 61
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4400652934
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4400652934Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.3390/ani14142058Digital Object Identifier
- Title
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Transcriptome Analysis Reveals the Immunosuppression in Tiger Pufferfish (Takifugu rubripes) under Cryptocaryon irritans InfectionWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2024Year of publication
- Publication date
-
2024-07-13Full publication date if available
- Authors
-
Yong Chi, Robert Mukiibi, Hongxiang Zhang, Haien Zhang, Weidong Li, Diego Robledo, Songlin Chen, Yangzhen LiList of authors in order
- Landing page
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https://doi.org/10.3390/ani14142058Publisher landing page
- PDF URL
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https://www.mdpi.com/2076-2615/14/14/2058/pdf?version=1721287153Direct link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://www.mdpi.com/2076-2615/14/14/2058/pdf?version=1721287153Direct OA link when available
- Concepts
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Takifugu rubripes, Transcriptome, Biology, Tiger, Immunosuppression, Computational biology, Gene, Genetics, Immunology, Computer science, Gene expression, Computer securityTop concepts (fields/topics) attached by OpenAlex
- Cited by
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3Total citation count in OpenAlex
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2025: 3Per-year citation counts (last 5 years)
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61Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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| corresponding_institution_ids | https://openalex.org/I133960621, https://openalex.org/I154341788, https://openalex.org/I46529539, https://openalex.org/I98677209 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/14 |
| sustainable_development_goals[0].score | 0.49000000953674316 |
| sustainable_development_goals[0].display_name | Life below water |
| citation_normalized_percentile.value | 0.75387741 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |