Histone modifications facilitate the coexpression of bidirectional promoters in rice
| Autor: | Yuan Fang, Qi You, Xiue Wang, Zhen Su, Wenli Zhang, Yufeng Wu, Jin Xiao, Xiucai Pan, Lei Wang, Ximeng Wang |
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| Jazyk: | angličtina |
| Předmět: |
Bidirectional promoters
regulation of gene expression 0301 basic medicine Nucleosome positioning Oryza sativa Genomics Genes Plant Genome Histones 03 medical and health sciences Gene Expression Regulation Plant Stress Physiological Genetics Coexpression Humans Nucleosome Epigenetics Nucleotide Motifs Promoter Regions Genetic biology histone marks Oryza Promoter Chromatin Nucleosomes 030104 developmental biology Histone biology.protein H3K4me3 Research Article Protein Binding Biotechnology |
| Zdroj: | BMC Genomics |
| ISSN: | 1471-2164 |
| DOI: | 10.1186/s12864-016-3125-0 |
| Popis: | Background Bidirectional gene pairs are highly abundant and mostly co-regulated in eukaryotic genomes. The structural features of bidirectional promoters (BDPs) have been well studied in yeast, humans and plants. However, the underlying mechanisms responsible for the coexpression of BDPs remain understudied, especially in plants. Results Here, we characterized chromatin features associated with rice BDPs. Several unique chromatin features were present in rice BDPs but were missing from unidirectional promoters (UDPs), including overrepresented active histone marks, canonical nucleosomes and underrepresented H3K27me3. In particular, overrepresented active marks (H3K4ac, H4K12ac, H4K16ac, H3K4me2 and H3K36me3) were truly overrepresented in type I BDPs but not in the other two BDPs, based on a Kolmogorov-Smirnov test. Conclusions Our analyses indicate that active marks (H3K4ac, H4K12ac, H4K16ac, H3K4me3, H3K9ac and H3K27ac) may coordinate with repressive marks (H3K27me3 and H3K9me1/3) to build a unique chromatin structure that favors the coregulation of bidirectional gene pairs. Thus, our findings help to enhance the understanding of unique epigenetic mechanisms that regulate bidirectional gene pairs and may improve the manipulation of gene pairs for crop bioengineering. Electronic supplementary material The online version of this article (doi:10.1186/s12864-016-3125-0) contains supplementary material, which is available to authorized users. |
| Databáze: | OpenAIRE |
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