Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch development
Cotton plant architecture, including fruit branch formation and flowering pattern, influences plant light exploitation, cotton yield and planting cost. DNA methylation has been widely observed at different developmental stages in both plants and animals and is associated with regulation of gene expr...
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PeerJ Inc.
2018-06-01
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| Online Access: | https://peerj.com/articles/4945.pdf |
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| author | Quan Sun Jing Qiao Sai Zhang Shibin He Yuzhen Shi Youlu Yuan Xiao Zhang Yingfan Cai |
| author_facet | Quan Sun Jing Qiao Sai Zhang Shibin He Yuzhen Shi Youlu Yuan Xiao Zhang Yingfan Cai |
| author_sort | Quan Sun |
| collection | DOAJ |
| description | Cotton plant architecture, including fruit branch formation and flowering pattern, influences plant light exploitation, cotton yield and planting cost. DNA methylation has been widely observed at different developmental stages in both plants and animals and is associated with regulation of gene expression, chromatin remodelling, genome protection and other functions. Here, we investigated the global epigenetic reprogramming during the development of fruiting branches and floral buds at three developmental stages: the seedling stage, the pre-squaring stage and the squaring stage. We first identified 22 cotton genes which potentially encode DNA methyltransferases and demethylases. Among them, the homologous genes of CMT, DRM2 and MET1 were upregulated at pre-squaring and squaring stages, suggesting that DNA methylation is involved in the development of floral buds and fruit branches. Although the global methylation at all of three developmental stages was not changed, the CHG-type methylation of non-expressed genes was higher than those of expressed genes. In addition, we found that the expression of the homologous genes of the key circadian rhythm regulators, including CRY, LHY and CO, was associated with changes of DNA methylation at three developmental stages. |
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| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T05:12:13Z |
| publishDate | 2018-06-01 |
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| spelling | doaj.art-af85d1b223c24eaba44f4f9fa48fc0202023-12-03T12:48:47ZengPeerJ Inc.PeerJ2167-83592018-06-016e494510.7717/peerj.4945Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch developmentQuan Sun0Jing Qiao1Sai Zhang2Shibin He3Yuzhen Shi4Youlu Yuan5Xiao Zhang6Yingfan Cai7Henan University, State Key Laboratory of Cotton Biology, Henan Key Laboratory of Plant Stress Biology, School of Life Sciences, School of Computer and Information Engineering, Kaifeng, Henan, ChinaHenan University, State Key Laboratory of Cotton Biology, Henan Key Laboratory of Plant Stress Biology, School of Life Sciences, School of Computer and Information Engineering, Kaifeng, Henan, ChinaHenan University, State Key Laboratory of Cotton Biology, Henan Key Laboratory of Plant Stress Biology, School of Life Sciences, School of Computer and Information Engineering, Kaifeng, Henan, ChinaHenan University, State Key Laboratory of Cotton Biology, Henan Key Laboratory of Plant Stress Biology, School of Life Sciences, School of Computer and Information Engineering, Kaifeng, Henan, ChinaCotton Institute, Chinese Academy of Agricultural Sciences, Anyang, Henan, ChinaCotton Institute, Chinese Academy of Agricultural Sciences, Anyang, Henan, ChinaHenan University, State Key Laboratory of Cotton Biology, Henan Key Laboratory of Plant Stress Biology, School of Life Sciences, School of Computer and Information Engineering, Kaifeng, Henan, ChinaHenan University, State Key Laboratory of Cotton Biology, Henan Key Laboratory of Plant Stress Biology, School of Life Sciences, School of Computer and Information Engineering, Kaifeng, Henan, ChinaCotton plant architecture, including fruit branch formation and flowering pattern, influences plant light exploitation, cotton yield and planting cost. DNA methylation has been widely observed at different developmental stages in both plants and animals and is associated with regulation of gene expression, chromatin remodelling, genome protection and other functions. Here, we investigated the global epigenetic reprogramming during the development of fruiting branches and floral buds at three developmental stages: the seedling stage, the pre-squaring stage and the squaring stage. We first identified 22 cotton genes which potentially encode DNA methyltransferases and demethylases. Among them, the homologous genes of CMT, DRM2 and MET1 were upregulated at pre-squaring and squaring stages, suggesting that DNA methylation is involved in the development of floral buds and fruit branches. Although the global methylation at all of three developmental stages was not changed, the CHG-type methylation of non-expressed genes was higher than those of expressed genes. In addition, we found that the expression of the homologous genes of the key circadian rhythm regulators, including CRY, LHY and CO, was associated with changes of DNA methylation at three developmental stages.https://peerj.com/articles/4945.pdfDNA methylationBisulfite sequencingFruiting branchDevelopment |
| spellingShingle | Quan Sun Jing Qiao Sai Zhang Shibin He Yuzhen Shi Youlu Yuan Xiao Zhang Yingfan Cai Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch development PeerJ DNA methylation Bisulfite sequencing Fruiting branch Development |
| title | Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch development |
| title_full | Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch development |
| title_fullStr | Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch development |
| title_full_unstemmed | Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch development |
| title_short | Changes in DNA methylation assessed by genomic bisulfite sequencing suggest a role for DNA methylation in cotton fruiting branch development |
| title_sort | changes in dna methylation assessed by genomic bisulfite sequencing suggest a role for dna methylation in cotton fruiting branch development |
| topic | DNA methylation Bisulfite sequencing Fruiting branch Development |
| url | https://peerj.com/articles/4945.pdf |
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