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首页> 外文期刊>Genetics and Molecular Research >Genome-wide analysis of salinity-stress induced DNA methylation alterations in cotton (Gossypium hirsutum L.) using the Me-DIP sequencing technology
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Genome-wide analysis of salinity-stress induced DNA methylation alterations in cotton (Gossypium hirsutum L.) using the Me-DIP sequencing technology

机译：利用Me-DIP测序技术对盐度胁迫下棉花（Gossypium hirsutum L.）的DNA甲基化变化进行全基因组分析

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Cytosine DNA methylation is a significant form of DNA modification closely associated with gene expression in eukaryotes, fungi, animals, and plants. Although the reference genomes of cotton (Gossypium hirsutum L.) have been publically available, the salinity-stress-induced DNA methylome alterations in cotton are not well understood. Here, we constructed a map of genome-wide DNA methylation characteristics of cotton leaves under salt stress using the methylated DNA immunoprecipitation sequencing method. The results showed that the methylation reads on chromosome 9 were most comparable with those on the other chromosomes, but the greatest changes occurred on chromosome 8 under salt stress. The DNA methylation pattern analysis indicated that a relatively higher methylation density was found in the upstream2k and downstream2k elements of the CDS region and CG-islands. Almost 94% of the reads belonged to LTR-gspsy and LTR-copia, and the number of methylation reads in LTR-gypsy was four times greater than that in LTR-copia in both control and stressed samples. The analysis of differentially methylated regions (DMRs) showed that the gene elements upstream2k, intron, and downstream2k were hypomethylated, but the CDS regions were hypermethylated. The GO (Gene Ontology) analysis suggested that the methylated genes were most enriched in cellular processes, metabolic processes, cell parts and catalytic activities, which might be closely correlated with response to NaCl stress. In this study, we completed a genomic DNA methylation profile and conducted a DMR analysis under salt stress, which provided valuable information for the better understanding of epigenetics in response to salt stress in cotton.
机译：胞嘧啶DNA甲基化是DNA修饰的一种重要形式，与真核生物，真菌，动物和植物中的基因表达密切相关。尽管棉花的参考基因组（Gossypium hirsutum L.）已经公开可用，但是对棉花中盐分胁迫诱导的DNA甲基化组改变的了解还很少。在这里，我们使用甲基化的DNA免疫沉淀测序方法构建了盐胁迫下棉花叶片全基因组DNA甲基化特征图。结果表明，第9号染色体上的甲基化读数与其他染色体上的甲基化读数最相似，但在盐胁迫下，第8号染色体上的变化最大。 DNA甲基化模式分析表明，在CDS区和CG岛的上游2k和下游2k元素中发现了相对较高的甲基化密度。在对照和压力样品中，几乎94％的读数属于LTR-gspsy和LTR-copia，LTR-吉普赛人的甲基化读数数量是LTR-copia的四倍。差异甲基化区域（DMRs）的分析表明，上游，内含子和下游2k的基因元件被低甲基化，而CDS区域被高甲基化。 GO（基因本体论）分析表明，甲基化的基因在细胞过程，代谢过程，细胞部分和催化活性中最丰富，这可能与对NaCl胁迫的反应密切相关。在这项研究中，我们完成了基因组DNA甲基化配置文件并在盐胁迫下进行了DMR分析，这为更好地了解棉花对盐胁迫的表观遗传学提供了有价值的信息。

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