Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut
AbstractDNA methylation plays important roles in genome protection, regulation of gene expression and was associated with plants development. Plant DNA methylation pattern was mediated by cytosine-5 DNA methyltransferases and demethylase. Although the genomes of AA and BB wild peanuts have been full...
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Frontiers Media S.A.
2016-02-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00007/full |
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| author | Pengfei eWang Chao eGao Xiaotong eBian Shuzhen eZhao Chuanzhi eZhao Han eXia Hui eSong Hou eLei Shubo eWan Xingjun eWang |
| author_facet | Pengfei eWang Chao eGao Xiaotong eBian Shuzhen eZhao Chuanzhi eZhao Han eXia Hui eSong Hou eLei Shubo eWan Xingjun eWang |
| author_sort | Pengfei eWang |
| collection | DOAJ |
| description | AbstractDNA methylation plays important roles in genome protection, regulation of gene expression and was associated with plants development. Plant DNA methylation pattern was mediated by cytosine-5 DNA methyltransferases and demethylase. Although the genomes of AA and BB wild peanuts have been fully sequence, these two gene families have not been studied. In this study we report the identification and analysis of putative cytosine-5 DNA methyltransferases (C5-MTases) and demethylase in AA and BB wild peanuts. Cytosine-5 DNA methyltransferases in AA and BB wild peanuts could be classified in known MET, CMT and DRM2 groups based on their domain organization. This result was supported by the gene and protein structural characteristics and phylogenetic analysis. We found that some wild peanut DRM2 numbers didn’t contain UBA domain which was different from other plants such as Arabidopsis, maize, soybean. Five DNA demethylase were found in AA genome and five in BB genome. The selective pressure analysis showed that wild peanut C5-MTases gene mainly underwent purifying selection but many positive selection sites can be detected. Conversely, DNA demethylase genes mainly underwent positive selection during evolution. Additionally, the expression dynamic of cytosine-5 DNA methyltransferases and demethylase genes in different cultivated peanut tissues were analyzed. Expression result showed that cold, heat or drought stress could influence the expression level of C5-MTases and DNA demethylase genes in cultivated peanut. These results are useful for better understanding the complexity of these two gene families, and will facilitate epigenetic studies in peanut. |
| first_indexed | 2024-12-13T07:43:51Z |
| format | Article |
| id | doaj.art-13a3874d26534605b04e632cea479545 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-13T07:43:51Z |
| publishDate | 2016-02-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-13a3874d26534605b04e632cea4795452022-12-21T23:54:53ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2016-02-01710.3389/fpls.2016.00007173883Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanutPengfei eWang0Chao eGao1Xiaotong eBian2Shuzhen eZhao3Chuanzhi eZhao4Han eXia5Hui eSong6Hou eLei7Shubo eWan8Xingjun eWang9Shandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesShandong Academy of Agricultural SciencesAbstractDNA methylation plays important roles in genome protection, regulation of gene expression and was associated with plants development. Plant DNA methylation pattern was mediated by cytosine-5 DNA methyltransferases and demethylase. Although the genomes of AA and BB wild peanuts have been fully sequence, these two gene families have not been studied. In this study we report the identification and analysis of putative cytosine-5 DNA methyltransferases (C5-MTases) and demethylase in AA and BB wild peanuts. Cytosine-5 DNA methyltransferases in AA and BB wild peanuts could be classified in known MET, CMT and DRM2 groups based on their domain organization. This result was supported by the gene and protein structural characteristics and phylogenetic analysis. We found that some wild peanut DRM2 numbers didn’t contain UBA domain which was different from other plants such as Arabidopsis, maize, soybean. Five DNA demethylase were found in AA genome and five in BB genome. The selective pressure analysis showed that wild peanut C5-MTases gene mainly underwent purifying selection but many positive selection sites can be detected. Conversely, DNA demethylase genes mainly underwent positive selection during evolution. Additionally, the expression dynamic of cytosine-5 DNA methyltransferases and demethylase genes in different cultivated peanut tissues were analyzed. Expression result showed that cold, heat or drought stress could influence the expression level of C5-MTases and DNA demethylase genes in cultivated peanut. These results are useful for better understanding the complexity of these two gene families, and will facilitate epigenetic studies in peanut.http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00007/fullabiotic stresspeanutDNA demethylaseBAH domainDNA mehtylationC5-MTases |
| spellingShingle | Pengfei eWang Chao eGao Xiaotong eBian Shuzhen eZhao Chuanzhi eZhao Han eXia Hui eSong Hou eLei Shubo eWan Xingjun eWang Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut Frontiers in Plant Science abiotic stress peanut DNA demethylase BAH domain DNA mehtylation C5-MTases |
| title | Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut |
| title_full | Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut |
| title_fullStr | Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut |
| title_full_unstemmed | Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut |
| title_short | Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut |
| title_sort | genome wide identification and comparative analysis of cytosine 5 dna methyltransferases and demethylase families in wild and cultivated peanut |
| topic | abiotic stress peanut DNA demethylase BAH domain DNA mehtylation C5-MTases |
| url | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00007/full |
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