Single-base methylome profiling of the giant kelp Saccharina japonica reveals significant differences in DNA methylation to microalgae and plants
文献类型： 外文期刊
作者： Fan, Xiao 1 ; Han, Wentao 1 ; Teng, Linhong 1 ; Jiang, Peng 6 ; Zhang, Xiaowen 1 ; Xu, Dong 1 ; Li, Chang 7 ; Pellegrini, 1 ;
作者机构： 1.Chinese Acad Fishery Sci, Yellow Sea Fisheries Res Inst, Qingdao, Shandong, Peoples R China
2.Funct Lab Marine Fisheries Sci & Food Prod Proc, Qingdao, Shandong, Peoples R China
3.Shanghai Ocean Univ, Minist Educ, Key Lab Explorat & Utilizat Aquat Genet Resources, Shanghai 201306, Peoples R China
4.Dezhou Univ, Coll Life Sci, Dezhou 253023, Peoples R China
5.Dezhou Univ, Shandong Key Lab Biophys, Dezhou 253023, Peoples R China
6.Chinese Acad Sci, Inst Oceanol, Qingdao 266071, Shandong, Peoples R China
7.Univ Chinese Acad Sci, Shenzhen, Peoples R China
8.Univ Calif Los Angeles, Inst Genom & Prote, Dept Mol Cell & Dev Biol, Los Angeles, CA 90095 USA
9.Flinders Univ S Australia, Biol Sci, GPO Box 2100, Adelaide, SA 5001, Australia
10.Xiamen Univ, Coll Ocean & Earth Sci, State Key Lab Marine Environm Sci, Xiamen, Fujian, Peoples R China
11.Univ Nantes, Fac Sci & Tech, CNRS, UMR 6286, 2 Rue Houssiniere, F-44322 Nantes, France
12.Univ East Anglia, Sch Environm Sci, Norwich Res Pk, Norwich NR4 7TJ, Norfolk, England
关键词： brown algae; BS-PCR; DNA methylation; DNMT2; gene expression; life-cycle stages; MeDIP-seq; WGBS-seq
期刊名称：NEW PHYTOLOGIST （ 影响因子：10.151； 五年影响因子：10.475 ）
ISSN： 0028-646X
年卷期：
页码：
收录情况： SCI
摘要： Brown algae have convergently evolved plant-like body plans and reproductive cycles, which in plants are controlled by differential DNA methylation. This contribution provides the first single-base methylome profiles of haploid gametophytes and diploid sporophytes of a multicellular alga. Although only c. 1.4% of cytosines in Saccharina japonica were methylated mainly at CHH sites and characterized by 5-methylcytosine (5mC), there were significant differences between life-cycle stages. DNA methyltransferase 2 (DNMT2), known to efficiently catalyze tRNA methylation, is assumed to methylate the genome of S. japonica in the structural context of tRNAs as the genome does not encode any other DNA methyltransferases. Circular and long noncoding RNA genes were the most strongly methylated regulatory elements in S. japonica. Differential expression of genes was negatively correlated with DNA methylation with the highest methylation levels measured in both haploid gametophytes. Hypomethylated and highly expressed genes in diploid sporophytes included genes involved in morphogenesis and halogen metabolism. The data herein provide evidence that cytosine methylation, although occurring at a low level, is significantly contributing to the formation of different life-cycle stages, tissue differentiation and metabolism in brown algae.
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