Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai)
Phenotypic plasticity is an adaptive mechanism used by organisms to cope with environmental fluctuations. Pacific abalone (Haliotis discus hannai) are large-scale farmed in the temperate area of northern China and in the warmer waters of southern China. RNA-seq and comparative transcriptomic analysi...
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| Format: | Article |
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Frontiers Media S.A.
2021-06-01
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| Series: | Frontiers in Physiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fphys.2021.683499/full |
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| author | Zekun Huang Zekun Huang Zekun Huang Qizhen Xiao Qizhen Xiao Qizhen Xiao Feng Yu Feng Yu Feng Yu Yang Gan Yang Gan Yang Gan Chengkuan Lu Chengkuan Lu Chengkuan Lu Wenzhu Peng Wenzhu Peng Wenzhu Peng Yifang Zhang Yifang Zhang Yifang Zhang Xuan Luo Xuan Luo Nan Chen Weiwei You Weiwei You Weiwei You Caihuan Ke Caihuan Ke Caihuan Ke |
| author_facet | Zekun Huang Zekun Huang Zekun Huang Qizhen Xiao Qizhen Xiao Qizhen Xiao Feng Yu Feng Yu Feng Yu Yang Gan Yang Gan Yang Gan Chengkuan Lu Chengkuan Lu Chengkuan Lu Wenzhu Peng Wenzhu Peng Wenzhu Peng Yifang Zhang Yifang Zhang Yifang Zhang Xuan Luo Xuan Luo Nan Chen Weiwei You Weiwei You Weiwei You Caihuan Ke Caihuan Ke Caihuan Ke |
| author_sort | Zekun Huang |
| collection | DOAJ |
| description | Phenotypic plasticity is an adaptive mechanism used by organisms to cope with environmental fluctuations. Pacific abalone (Haliotis discus hannai) are large-scale farmed in the temperate area of northern China and in the warmer waters of southern China. RNA-seq and comparative transcriptomic analysis here were performed to determine if the northern and southern populations have evolved divergent plasticity and if functional differences are associated with protein synthesis and growth-related biological progress. The DNA methylation (5mC) landscape of H. discus hannai from the two populations using whole genomic bisulfite sequencing (WGBS), exhibited different epigenetic patterns. The southern population had significant genomic hypo-methylation that may have resulted from long-term acclimation to heat stress. Combining 790 differentially expressed genes (DEGs) and 7635 differentially methylated genes (DMGs), we found that methylation within the gene body might be important in predicting abalone gene expression. Genes related to growth, development, transduction, and apoptosis may be regulated by methylation and could explain the phenotypic divergence of H. discus hannai. Our findings not only emphasize the significant roles of adaptive plasticity in the acclimation of H. discus hannai to high temperatures but also provide a new understanding of the epigenetic mechanism underlying the phenotypic plasticity in adaptation to climate change for marine organisms. |
| first_indexed | 2024-12-20T05:48:31Z |
| format | Article |
| id | doaj.art-25bc1c5f65ad45df95ffd5ab4f9efd9b |
| institution | Directory Open Access Journal |
| issn | 1664-042X |
| language | English |
| last_indexed | 2024-12-20T05:48:31Z |
| publishDate | 2021-06-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Physiology |
| spelling | doaj.art-25bc1c5f65ad45df95ffd5ab4f9efd9b2022-12-21T19:51:14ZengFrontiers Media S.A.Frontiers in Physiology1664-042X2021-06-011210.3389/fphys.2021.683499683499Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai)Zekun Huang0Zekun Huang1Zekun Huang2Qizhen Xiao3Qizhen Xiao4Qizhen Xiao5Feng Yu6Feng Yu7Feng Yu8Yang Gan9Yang Gan10Yang Gan11Chengkuan Lu12Chengkuan Lu13Chengkuan Lu14Wenzhu Peng15Wenzhu Peng16Wenzhu Peng17Yifang Zhang18Yifang Zhang19Yifang Zhang20Xuan Luo21Xuan Luo22Nan Chen23Weiwei You24Weiwei You25Weiwei You26Caihuan Ke27Caihuan Ke28Caihuan Ke29State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaCollege of Fisheries, Jimei University, Xiamen, ChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaState Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, ChinaCollege of Ocean and Earth Sciences, Xiamen University, Xiamen, ChinaFujian Key Laboratory of Genetics and Breeding of Marine Organisms, Xiamen University, XiamenChinaPhenotypic plasticity is an adaptive mechanism used by organisms to cope with environmental fluctuations. Pacific abalone (Haliotis discus hannai) are large-scale farmed in the temperate area of northern China and in the warmer waters of southern China. RNA-seq and comparative transcriptomic analysis here were performed to determine if the northern and southern populations have evolved divergent plasticity and if functional differences are associated with protein synthesis and growth-related biological progress. The DNA methylation (5mC) landscape of H. discus hannai from the two populations using whole genomic bisulfite sequencing (WGBS), exhibited different epigenetic patterns. The southern population had significant genomic hypo-methylation that may have resulted from long-term acclimation to heat stress. Combining 790 differentially expressed genes (DEGs) and 7635 differentially methylated genes (DMGs), we found that methylation within the gene body might be important in predicting abalone gene expression. Genes related to growth, development, transduction, and apoptosis may be regulated by methylation and could explain the phenotypic divergence of H. discus hannai. Our findings not only emphasize the significant roles of adaptive plasticity in the acclimation of H. discus hannai to high temperatures but also provide a new understanding of the epigenetic mechanism underlying the phenotypic plasticity in adaptation to climate change for marine organisms.https://www.frontiersin.org/articles/10.3389/fphys.2021.683499/fulltranscriptomeDNA methylationphenotypic plasticityHaliotis discus hannaiclimate changehigh temperatures |
| spellingShingle | Zekun Huang Zekun Huang Zekun Huang Qizhen Xiao Qizhen Xiao Qizhen Xiao Feng Yu Feng Yu Feng Yu Yang Gan Yang Gan Yang Gan Chengkuan Lu Chengkuan Lu Chengkuan Lu Wenzhu Peng Wenzhu Peng Wenzhu Peng Yifang Zhang Yifang Zhang Yifang Zhang Xuan Luo Xuan Luo Nan Chen Weiwei You Weiwei You Weiwei You Caihuan Ke Caihuan Ke Caihuan Ke Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai) Frontiers in Physiology transcriptome DNA methylation phenotypic plasticity Haliotis discus hannai climate change high temperatures |
| title | Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai) |
| title_full | Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai) |
| title_fullStr | Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai) |
| title_full_unstemmed | Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai) |
| title_short | Comparative Transcriptome and DNA Methylation Analysis of Phenotypic Plasticity in the Pacific Abalone (Haliotis discus hannai) |
| title_sort | comparative transcriptome and dna methylation analysis of phenotypic plasticity in the pacific abalone haliotis discus hannai |
| topic | transcriptome DNA methylation phenotypic plasticity Haliotis discus hannai climate change high temperatures |
| url | https://www.frontiersin.org/articles/10.3389/fphys.2021.683499/full |
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