Global DNA 5-hydroxymethylcytosine level and its chromosomal distribution in four rye species
Global DNA 5-hydroxymethylcytosine level and its chromosomal distribution in four rye species
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DOI：
10.1093/jxb/erad102
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发表时间：
2023-03-16
影响因子：
6.9
通讯作者：
Achrem, Magdalena
中科院分区：
文献类型：
--
作者：
Kalinka, Anna;Starczak, Marta;Achrem, Magdalena
5-羟甲基胞嘧啶（5hmC）存在于黑麦物种的基因组DNA中。5hmC的数量和染色体分布表明5hmC可能是黑麦基因组的一个潜在调节因子，黑麦基因组具有较大的大小和高水平的胞嘧啶甲基化，这使得它特别便于研究潜在胞嘧啶去甲基化中间体的发生。通过酶联免疫吸附试验（ELISA）和质谱法分析了四种黑麦：黑麦、黑麦、黑麦和黑麦中5-羟甲基胞嘧啶（5hmC）的水平。5hmC的含量在种间和胚芽鞘、根、叶、茎、颖果等器官间存在差异。5-甲酰基胞嘧啶（5fC），5-羧基胞嘧啶（5caC）和5-羟甲基尿嘧啶（5hmU）也被发现存在于所有物种的DNA中;其全球水平因物种和器官而异。5hmC水平与5-甲基胞嘧啶（5mC）量明显相关。对5mC富集级分进行的质谱分析支持这种关系。高度甲基化的序列也含有较高量的5fC和大多数5hmU，但不含5caC。对5hmC在染色体上的分布分析表明，5mC和5hmC在同一染色体区域共定位。5hmC水平的降低和DNA中其他罕见的碱基修饰可能表明它们在黑麦基因组的调控中起作用。
5-Hydroxymethylcytosine (5hmC) is present in the genomic DNA of rye species. The regularities in quantity and chromosomal distribution may indicate that 5hmC is a potential regulator of the rye genome.The rye genome has a large size with a high level of cytosine methylation, which makes it particularly convenient for studying the occurrence of potential cytosine demethylation intermediates. Levels of global 5-hydroxymethylcytosine (5hmC) were analysed by enzyme-linked immunosorbent assay (ELISA) and mass spectrometry in four rye species: Secale cereale, Secale strictum, Secale sylvestre, and Secale vavilovii. The amount of 5hmC showed interspecific variation, and was also variable among organs, i.e. coleoptiles, roots, leaves, stems, and caryopses. 5-Formylcytosine (5fC), 5-carboxycytosine (5caC), and 5-hydroxymethyluracil (5hmU) were also found to be present in the DNA of all species; their global level varied among species and organs. The 5hmC level clearly correlated with the 5-methylcytosine (5mC) quantity. The mass spectrometry analysis carried out on the 5mC enriched fraction supported this relationship. Highly methylated sequences also contained higher amounts of 5fC and most of all 5hmU, but not 5caC. The analysis of the distribution of 5hmC in chromosomes distinctly indicated the co-localization of 5mC with 5hmC in the same chromosomal regions. The regularities in the levels of 5hmC and other rare modifications of bases in the DNA may indicate that they play a role in the regulation of the rye genome.