Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactis
IntroductionLarimichthys polyactis is a promising marine fishery species, but visceral white-nodules disease (VWND) caused by Pseudomonas plecoglossicida causes significant losses. However, genetic resistance mechanisms to VWND remain elusive in this species.MethodsThis study combined genome-wide as...
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Frontiers Media S.A.
2025-04-01
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| Series: | Frontiers in Immunology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fimmu.2025.1562307/full |
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| author | Jiajie Zhu Feng Liu Ting Ye Qian Li Haowen Liu Sifang Liu Tianle Zhang Dandan Guo Junquan Zhu Bao Lou |
| author_facet | Jiajie Zhu Feng Liu Ting Ye Qian Li Haowen Liu Sifang Liu Tianle Zhang Dandan Guo Junquan Zhu Bao Lou |
| author_sort | Jiajie Zhu |
| collection | DOAJ |
| description | IntroductionLarimichthys polyactis is a promising marine fishery species, but visceral white-nodules disease (VWND) caused by Pseudomonas plecoglossicida causes significant losses. However, genetic resistance mechanisms to VWND remain elusive in this species.MethodsThis study combined genome-wide association study (GWAS) and transcriptome analysis to unravel resistance loci and transcriptional regulation in L. polyactis.ResultsAs a result, GWAS on 946 infected fish genotyped by 100 K lipid chips identified 22 suggestive significantly associated single-nucleotide polymorphisms (SNPs), annotated 60 candidate genes, where DNA-sensing pathway were enriched. RNA-seq on liver tissues of resistant, sensitive, and control groups found immune-related pathways enriched in the comparisons of RL vs CL and RL vs SL, and autophagy-related pathways enriched in the comparisons of SL vs CL and RL vs SL. Then, the integration of GWAS and transcriptome analysis identified seven key genes associated with resistance to VWND. Among the genes, the expression levels of mRNA for genes related to the cyclic GMP-AMP synthase-stimulator of interferon genes (STING) signaling pathway, as well as the protein levels of STING1, were significantly upregulated in RL. Collectively, integrating KEGG pathway analysis, gene and protein expression analysis revealed that the importance of STING1 for VWND resistance.DiscussionThese findings deepen the available knowledge on molecular mechanisms of host genetic resistance to VWND and provide an important foundation for the selection and breeding of VWND-resistant L. polyactis. |
| format | Article |
| id | doaj-art-bb628a279dd34847ae17e5b03ececece |
| institution | OA Journals |
| issn | 1664-3224 |
| language | English |
| publishDate | 2025-04-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Immunology |
| spelling | doaj-art-bb628a279dd34847ae17e5b03ececece2025-08-20T02:29:38ZengFrontiers Media S.A.Frontiers in Immunology1664-32242025-04-011610.3389/fimmu.2025.15623071562307Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactisJiajie Zhu0Feng Liu1Ting Ye2Qian Li3Haowen Liu4Sifang Liu5Tianle Zhang6Dandan Guo7Junquan Zhu8Bao Lou9Key Laboratory of Applied Marine Biotechnology by the Ministry of Education, School of Marine Sciences, Ningbo University, Ningbo, ChinaState Key Laboratory for Quality and Safety of Agro-Products / Institute of Hydrobiology, Zhejiang Academy of Agricultural Sciences, Hangzhou, ChinaState Key Laboratory for Quality and Safety of Agro-Products / Institute of Hydrobiology, Zhejiang Academy of Agricultural Sciences, Hangzhou, ChinaNational Engineering Research Center for Marine Aquaculture, Zhejiang Ocean University, Zhoushan, ChinaCollege of Life Sciences, China Jiliang University, Hangzhou, ChinaCollege of Life Sciences, China Jiliang University, Hangzhou, ChinaCollege of Life Sciences, China Jiliang University, Hangzhou, ChinaState Key Laboratory for Quality and Safety of Agro-Products / Institute of Hydrobiology, Zhejiang Academy of Agricultural Sciences, Hangzhou, ChinaKey Laboratory of Applied Marine Biotechnology by the Ministry of Education, School of Marine Sciences, Ningbo University, Ningbo, ChinaState Key Laboratory for Quality and Safety of Agro-Products / Institute of Hydrobiology, Zhejiang Academy of Agricultural Sciences, Hangzhou, ChinaIntroductionLarimichthys polyactis is a promising marine fishery species, but visceral white-nodules disease (VWND) caused by Pseudomonas plecoglossicida causes significant losses. However, genetic resistance mechanisms to VWND remain elusive in this species.MethodsThis study combined genome-wide association study (GWAS) and transcriptome analysis to unravel resistance loci and transcriptional regulation in L. polyactis.ResultsAs a result, GWAS on 946 infected fish genotyped by 100 K lipid chips identified 22 suggestive significantly associated single-nucleotide polymorphisms (SNPs), annotated 60 candidate genes, where DNA-sensing pathway were enriched. RNA-seq on liver tissues of resistant, sensitive, and control groups found immune-related pathways enriched in the comparisons of RL vs CL and RL vs SL, and autophagy-related pathways enriched in the comparisons of SL vs CL and RL vs SL. Then, the integration of GWAS and transcriptome analysis identified seven key genes associated with resistance to VWND. Among the genes, the expression levels of mRNA for genes related to the cyclic GMP-AMP synthase-stimulator of interferon genes (STING) signaling pathway, as well as the protein levels of STING1, were significantly upregulated in RL. Collectively, integrating KEGG pathway analysis, gene and protein expression analysis revealed that the importance of STING1 for VWND resistance.DiscussionThese findings deepen the available knowledge on molecular mechanisms of host genetic resistance to VWND and provide an important foundation for the selection and breeding of VWND-resistant L. polyactis.https://www.frontiersin.org/articles/10.3389/fimmu.2025.1562307/fullLarimichthys polyactisvisceral white-nodules diseaseGWAStranscriptomeSTING1 |
| spellingShingle | Jiajie Zhu Feng Liu Ting Ye Qian Li Haowen Liu Sifang Liu Tianle Zhang Dandan Guo Junquan Zhu Bao Lou Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactis Frontiers in Immunology Larimichthys polyactis visceral white-nodules disease GWAS transcriptome STING1 |
| title | Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactis |
| title_full | Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactis |
| title_fullStr | Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactis |
| title_full_unstemmed | Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactis |
| title_short | Genome-wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white-nodules disease in Larimichthys polyactis |
| title_sort | genome wide association study and transcriptomic analysis reveal the crucial role of sting1 in resistance to visceral white nodules disease in larimichthys polyactis |
| topic | Larimichthys polyactis visceral white-nodules disease GWAS transcriptome STING1 |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2025.1562307/full |
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