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Genes (Basel). 2018 Aug 6;9(8). pii: E398. doi: 10.3390/genes9080398.

Genome-Wide Characterization of DNA Demethylase Genes and Their Association with Salt Response in Pyrus.

Author information

1
Institute of Pomology, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China. chuntianxiaozi@163.com.
2
Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA. chuntianxiaozi@163.com.
3
Institute of Pomology, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China. lihui7904@163.com.
4
Institute of Pomology, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China. lj84390224@126.com.
5
Institute of Pomology, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China. 2016104047@njau.edu.cn.
6
Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China. intergoogle@126.com.
7
Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA. zcheng@utk.edu.
8
Institute of Pomology, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China. cyh@jaas.ac.cn.

Abstract

DNA methylation plays important roles in genome protection and the regulation of gene expression and it is associated with plants' responses to environments. DNA demethylases are very important proteins in DNA methylation regulation. In this study, we performed genome-wide and deep analysis of putative demethylases (DMEs) in pear. Seven DME genes were found in the pear genome and were defined as PbDME1⁻7 based on their domain organization. Results were supported by the gene structural characteristics and phylogenetic analysis. The gene structure of the DME genes were relatively complex and the DME7 proteins didn't contain the Perm_CXXC domain. The DME genes experienced a whole genome duplication event (WGD) that occurred in the ancestor genome of pear and apple before their divergence based on the Ks values. Expression results showed that high salinity stress could influence the expression level of DMEs and salt-responsive genes in Pyrus betulaefolia. Furthermore, the methylation levels of salt-responsive genes changed under salt stress treatment. Results suggested important roles of PbDME genes in response to salt stress and are useful for better understanding the complex functions of this DME genes, which will facilitate epigenetic studies in pear trees salt tolerance.

KEYWORDS:

Pyrus betulaefolia; demethylase genes; genome-wide; salt response

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