2013
DOI: 10.1093/mp/sst018
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Genome-Wide Analysis of Histone Modifications: H3K4me2, H3K4me3, H3K9ac, and H3K27ac in Oryza sativa L. Japonica

Abstract: While previous studies have shown that histone modifications could influence plant growth and development by regulating gene transcription, knowledge about the relationships between these modifications and gene expression is still limited. This study used chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-Seq), to investigate the genome-wide distribution of four histone modifications: di and trimethylation of H3K4 (H3K4me2 and H3K4me3) and acylation of H3K9 and H3K27 (H3K9ac and H3K27ac… Show more

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Cited by 107 publications
(100 citation statements)
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“…The highest number of these upstream acetylation peaks was found around position 21,000 bp relative to the TIS. Whereas H3K9ac and H3K4me3 peaks in the TIS region and downstream region were already described in different species (Wang et al, 2009;Roudier et al, 2011;Du et al, 2013;He et al, 2013;Hussey et al, 2015), our observation of regulated upstream H3K9ac peaks on an genome-wide basis was, to our knowledge, unique. We first wanted to test whether regulated upstream acetylation was simply caused by false annotations of TIS.…”
Section: A Dynamic Analysis Of Histone Modifications Revealed a Uniqusupporting
confidence: 51%
“…The highest number of these upstream acetylation peaks was found around position 21,000 bp relative to the TIS. Whereas H3K9ac and H3K4me3 peaks in the TIS region and downstream region were already described in different species (Wang et al, 2009;Roudier et al, 2011;Du et al, 2013;He et al, 2013;Hussey et al, 2015), our observation of regulated upstream H3K9ac peaks on an genome-wide basis was, to our knowledge, unique. We first wanted to test whether regulated upstream acetylation was simply caused by false annotations of TIS.…”
Section: A Dynamic Analysis Of Histone Modifications Revealed a Uniqusupporting
confidence: 51%
“…H3K4me2, as an activating mark, was significantly different in regions surrounding BSs of TFs from the bHLH and ETS families. The same histone mark, however, showed lesser importance in the three cell types, implying co-occurrence with other activating marks such as H3K4me3 or H3K27ac (Peach et al 2012;Du et al 2013). …”
mentioning
confidence: 90%
“…[8][9][10][11][12][13] In plants, recent advances in high throughput sequencing technology have enabled the large-scale profiling of histone acetylation marks and have greatly improved our understanding of the function of histone acetylation and its relationship with transcription. [14][15][16][17][18] Besides its role in gene expression, plant histone acetylation plays crucial roles in the crosstalk between genomes and the environment during plant responses to diverse stresses at the cellular and organismal levels. [19][20][21][22][23][24] Acetylation occurs at many histone lysine residues and regulates chromatin activity by at least 2 different mechanisms.…”
Section: Introductionmentioning
confidence: 99%