Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus Fish
In recent years, Harpadon nehereus gradually become a dominant species with great potential for exploitation in the East China Sea, and it is worth investigating whether H. nehereus would tolerate cold stress to continue to expand into the colder northern waters. The molecular regulation level is fa...
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| Format: | Article |
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Frontiers Media S.A.
2022-06-01
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| Series: | Frontiers in Ecology and Evolution |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fevo.2022.912113/full |
| _version_ | 1811249612447547392 |
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| author | Zhicheng Sun Zhicheng Sun Liangliang Huang Yefu Kong Yefu Kong Linlong Wang Linlong Wang Bin Kang Bin Kang |
| author_facet | Zhicheng Sun Zhicheng Sun Liangliang Huang Yefu Kong Yefu Kong Linlong Wang Linlong Wang Bin Kang Bin Kang |
| author_sort | Zhicheng Sun |
| collection | DOAJ |
| description | In recent years, Harpadon nehereus gradually become a dominant species with great potential for exploitation in the East China Sea, and it is worth investigating whether H. nehereus would tolerate cold stress to continue to expand into the colder northern waters. The molecular regulation level is favorable evidence to explore the cold tolerance of H. nehereus, a total of 6,650, 1,936, and 2,772 differentially expressed genes (DEGs) in transcription regulation, and 4,409, 1,250, and 2,303 differential alternative splicing genes (DASGs) in alternative splicing regulation were identified in H. nehereus at 13, 15, and 17°C, respectively, importantly, 47 genes were identified as the key candidate genes for cold tolerance in H. nehereus. In transcription regulation, up-regulated DEGs were enriched in metabolic process terms and ribosome, spliceosome pathway, etc., while down-regulated DEGs were enriched in signal transduction terms, focal adhesion, proteoglycans in cancer pathway, etc., at 13, 15, and 17°C, respectively. In alternative splicing regulation, spliceosome, mRNA surveillance pathway, etc., were significantly enriched in DASGs. In a word, H. nehereus adapts to cold environments mainly through transcription and translation, transmembrane transport, protein modification, etc., while cold stress may also induce some diseases in H. nehereus. |
| first_indexed | 2024-04-12T15:49:38Z |
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| id | doaj.art-666f99cc913b48c2918dc21c7b7749bf |
| institution | Directory Open Access Journal |
| issn | 2296-701X |
| language | English |
| last_indexed | 2024-04-12T15:49:38Z |
| publishDate | 2022-06-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Ecology and Evolution |
| spelling | doaj.art-666f99cc913b48c2918dc21c7b7749bf2022-12-22T03:26:33ZengFrontiers Media S.A.Frontiers in Ecology and Evolution2296-701X2022-06-011010.3389/fevo.2022.912113912113Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus FishZhicheng Sun0Zhicheng Sun1Liangliang Huang2Yefu Kong3Yefu Kong4Linlong Wang5Linlong Wang6Bin Kang7Bin Kang8The Key Laboratory of Mariculture Ministry of Education, Ocean University of China, Qingdao, ChinaFisheries College, Ocean University of China, Qingdao, ChinaCollege of Environmental Science and Engineering, Guilin University of Technology, Guilin, ChinaThe Key Laboratory of Mariculture Ministry of Education, Ocean University of China, Qingdao, ChinaFisheries College, Ocean University of China, Qingdao, ChinaThe Key Laboratory of Mariculture Ministry of Education, Ocean University of China, Qingdao, ChinaFisheries College, Ocean University of China, Qingdao, ChinaThe Key Laboratory of Mariculture Ministry of Education, Ocean University of China, Qingdao, ChinaFisheries College, Ocean University of China, Qingdao, ChinaIn recent years, Harpadon nehereus gradually become a dominant species with great potential for exploitation in the East China Sea, and it is worth investigating whether H. nehereus would tolerate cold stress to continue to expand into the colder northern waters. The molecular regulation level is favorable evidence to explore the cold tolerance of H. nehereus, a total of 6,650, 1,936, and 2,772 differentially expressed genes (DEGs) in transcription regulation, and 4,409, 1,250, and 2,303 differential alternative splicing genes (DASGs) in alternative splicing regulation were identified in H. nehereus at 13, 15, and 17°C, respectively, importantly, 47 genes were identified as the key candidate genes for cold tolerance in H. nehereus. In transcription regulation, up-regulated DEGs were enriched in metabolic process terms and ribosome, spliceosome pathway, etc., while down-regulated DEGs were enriched in signal transduction terms, focal adhesion, proteoglycans in cancer pathway, etc., at 13, 15, and 17°C, respectively. In alternative splicing regulation, spliceosome, mRNA surveillance pathway, etc., were significantly enriched in DASGs. In a word, H. nehereus adapts to cold environments mainly through transcription and translation, transmembrane transport, protein modification, etc., while cold stress may also induce some diseases in H. nehereus.https://www.frontiersin.org/articles/10.3389/fevo.2022.912113/fulldifferentially expressed genesdifferential alternative splicinglow-temperature environmentsmarine fishRNA-seq |
| spellingShingle | Zhicheng Sun Zhicheng Sun Liangliang Huang Yefu Kong Yefu Kong Linlong Wang Linlong Wang Bin Kang Bin Kang Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus Fish Frontiers in Ecology and Evolution differentially expressed genes differential alternative splicing low-temperature environments marine fish RNA-seq |
| title | Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus Fish |
| title_full | Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus Fish |
| title_fullStr | Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus Fish |
| title_full_unstemmed | Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus Fish |
| title_short | Regulating Strategies of Transcription and Alternative Splicing for Cold Tolerance Harpadon nehereus Fish |
| title_sort | regulating strategies of transcription and alternative splicing for cold tolerance harpadon nehereus fish |
| topic | differentially expressed genes differential alternative splicing low-temperature environments marine fish RNA-seq |
| url | https://www.frontiersin.org/articles/10.3389/fevo.2022.912113/full |
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