Integrated analysis and transcript abundance modelling of H3K4me3 and H3K27me3 in developing secondary xylem.
Integrated analysis and transcript abundance modelling of H3K4me3 and H3K27me3 in developing secondary xylem.
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DOI：
10.1038/s41598-017-03665-1
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发表时间：
2017-06-13
影响因子：
4.6
通讯作者：
Myburg AA
中科院分区：
文献类型：
--
作者：
Hussey SG;Loots MT;van der Merwe K;Mizrachi E;Myburg AA
尽管木质部发育（木质发生）对植物生物量积累做出了相当大的贡献，但其表观遗传调控却知之甚少。此外，组蛋白修饰对转录调控的相对贡献在植物中尚未得到充分研究。我们使用 ChIP-seq 研究了 H3K4me3 和 H3K27me3 在次生木质部发育中的生物学相关性，以及它们与木本和草本模型中其他组蛋白修饰中转录水平的关联。在木本模型巨桉的次生木质部发育过程中，H3K4me3 和 H3K27me3 基因组跨度与木质发生相关过程明显相关，（晚期）木质化途径富含假定的二价结构域，但与早期次生细胞壁多糖沉积无关。 H3K27me3 占据的基因，其中 753 个（~31%）是新靶标，富集用于转录调控和花发育，并且在根中具有显着的优先表达。 ChIP-seq 谱的线性回归模型预测了用链特异性 RNA-seq 测量的转录本丰度的约 50%，这在拟南芥的平行分析中得到证实，其中七个额外组蛋白修饰的整合每个为预测模型贡献了较小比例的独特信息。这项研究揭示了组蛋白修饰拮抗作用和基因组跨度在木质发生中的生物学重要性，并首次量化了植物中组蛋白修饰与转录本丰度的相对相关性。
Despite the considerable contribution of xylem development (xylogenesis) to plant biomass accumulation, its epigenetic regulation is poorly understood. Furthermore, the relative contributions of histone modifications to transcriptional regulation is not well studied in plants. We investigated the biological relevance of H3K4me3 and H3K27me3 in secondary xylem development using ChIP-seq and their association with transcript levels among other histone modifications in woody and herbaceous models. In developing secondary xylem of the woody model Eucalyptus grandis, H3K4me3 and H3K27me3 genomic spans were distinctly associated with xylogenesis-related processes, with (late) lignification pathways enriched for putative bivalent domains, but not early secondary cell wall polysaccharide deposition. H3K27me3-occupied genes, of which 753 (~31%) are novel targets, were enriched for transcriptional regulation and flower development and had significant preferential expression in roots. Linear regression models of the ChIP-seq profiles predicted ~50% of transcript abundance measured with strand-specific RNA-seq, confirmed in a parallel analysis in Arabidopsis where integration of seven additional histone modifications each contributed smaller proportions of unique information to the predictive models. This study uncovers the biological importance of histone modification antagonism and genomic span in xylogenesis and quantifies for the first time the relative correlations of histone modifications with transcript abundance in plants.
影响因子：
1.8
作者：
Hoang SA;Xu X;Bekiranov S
通讯作者：
Bekiranov S