Identification of DNA (de)methylation-related genes and their transcriptional response to environmental challenges in an invasive model ascidian.
Identification of DNA (de)methylation-related genes and their transcriptional response to environmental challenges in an invasive model ascidian.
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DOI：
10.1016/j.gene.2020.145331
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发表时间：
2020-12
期刊：
影响因子：
3.5
通讯作者：
Rui-ying Fu;Xuena Huang;Aibin Zhan
中科院分区：
文献类型：
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作者：
Rui-ying Fu;Xuena Huang;Aibin Zhan
海洋入侵物种在其活动范围扩大的过程中不断受到严重或反复出现的环境压力的挑战。DNA甲基化介导的应激记忆被认为可以有效地影响物种的反应，并提高它们在反复出现的环境挑战中的整体表现。为了进一步测试这一建议，在海洋入侵物种，我们确定了基因的DNA甲基化和去甲基化过程中的高度入侵的模式物种，玻璃海鞘，随后调查这些基因的表达模式下反复出现的盐度胁迫。经过全基因组的全面调查，我们共发现了6个基因，包括DNA甲基转移酶3a（DNMT 3a 1和DNMT 3a 2）2个基因，DNA甲基转移酶1（DNMT 1）、甲基CpG结合域蛋白2（MBD 2）、甲基CpG结合域蛋白4（MBD 4）和10 - 11-易位蛋白1（TET 1）1个基因。系统发育重建和结构域排列分析表明，所鉴定基因的蛋白质与其同源基因在进化上是保守的，且功能相似。所有基因在所有四种测试组织中组成型表达。有趣的是，我们发现了高盐和低盐胁迫下的时间依赖性和胁迫特异性基因表达模式。在重复性高盐胁迫下，DNMT 3a 1和TET 1符合记忆基因的定义，而在重复性低盐胁迫下，DNMT 3a 1和TET 1的两个同源基因被鉴定为记忆基因。这些结果表明，环境胁迫对去甲基化相关基因的转录模式有显著影响，其中一些去甲基化相关基因的转录记忆在生物入侵过程中DNA甲基化介导的胁迫记忆中起着重要作用。
Marine invasive species are constantly challenged by acute or recurring environmental stresses during their range expansions. DNA methylation-mediated stress memory has been proposed to effectively affect species’ response and enhance their overall performance in recurring environmental challenges. In order to further test this proposal in marine invasive species, we identified genes in the DNA methylation and demethylation processes in the highly invasive model species,Ciona robusta, and subsequently investigated the expression patterns of these genes under recurring salinity stresses. After a genome-wide comprehensive survey, we found a total of six genes, including two genes ofDNA methyltransferase 3a(DNMT3a1andDNMT3a2), and one gene ofDNA methyltransferase 1(DNMT1),methyl-CpG-binding domain protein 2(MBD2),methyl-CpG-binding domain protein 4(MBD4) andten-eleven-translocation protein 1(TET1). Phylogenetic reconstruction and domain arrangement analyses showed that the deduced proteins of the identified genes were evolutionarily conserved and functionally similar with their orthologs. All genes were constitutively expressed in all four tested tissues. Interestingly, we found time-dependent and stress-specific gene expression patterns under high and low salinity stresses. Under the recurring high salinity stresses,DNMT3a1andTET1conformed to the definition of memory genes, while under the recurring low salinity stresses, twoDNMT3aparalogues were identified as the memory genes. Altogether, our results clearly showed that the transcriptional patterns of (de)methylation-related genes were significantly influenced by environmental stresses, and the transcriptional memory of some (de)methylation-related genes should play crucial roles in DNA methylation-mediated stress memory during the process of biological invasions.