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Level and pattern of DNA methylation changes in rice cold tolerance introgression lines derived from Oryza rufipogon Griff.

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Abstract

Cold stress is a significant factor influencing global rice production and quality. In the present study, two strong rice cold tolerance introgression lines (ILs) (IL5335 and IL5243) derived from Oryza sativa L. mating with O. rufipogon Griff. were used to evaluate the relationship between the alteration of DNA methylation and phenotypic stability using methylation sensitive amplification polymorphism. Compared to the recurrent parent, the level of total methylation in IL5243 was slightly increased (30.94 %) and that of IL5335 was significantly decreased (24.17 %). There were 109 (10.35 %) and 56 (5.52 %) loci showed demethylation in IL5335 and IL5243, respectively. And meanwhile, there were 28 loci (2.66 %) in IL5335 and 30 (2.96 %) loci in IL5243 showed hyper-methylation. Analysis of 17 differentially methylated sequences indicated that nine sequences had high similarity to some functional genes (e.g. CHY1, MAPK et al.), and some others were similar to retrotransposon or rice genome sequence. Further analysis indicated that CHY1 and MAPK in IL5335 and IL5243 underwent demethylation process and their expression level tested by RT-qPCR was higher than that of their parents, which suggested that the alteration of methylation modification might influence some genes expression. These results provide useful information for efficiently exploiting and using interesting wild genes for rice enhancement.

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Acknowledgments

This research was partially supported by the National Natural Science Foundation of China (30900781 and 31260255), the Development Program for Young Scientists of Jiangxi Province, China (20112BCB23007), the Technology Research and Development Program of Jiangxi Province (20122BBF60064); and the Scientific Planning Project of Jiangxi Provincial Education Department (GJJ12184 and KJLD12059).

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    Authors and Affiliations

    1. College of Life Science, Jiangxi Normal University, Nanchang, 330022, China

      Liang-Fang Dai, Ya-Ling Chen, Xiang-Dong Luo, Xiu-Fang Wen, Feng-Lei Cui, Fan-Tao Zhang, Yi Zhou & Jian-Kun Xie

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    1. Liang-Fang Dai
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    2. Ya-Ling Chen
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    3. Xiang-Dong Luo
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    Correspondence to Xiang-Dong Luo or Jian-Kun Xie.

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    Liang-Fang Dai and Ya-Ling Chen have contributed equally to this paper.

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    Dai, LF., Chen, YL., Luo, XD. et al. Level and pattern of DNA methylation changes in rice cold tolerance introgression lines derived from Oryza rufipogon Griff.. Euphytica 205, 73–83 (2015). https://doi.org/10.1007/s10681-015-1389-0

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