Decoding the chromatin accessibility in Andrographis paniculata genome, a case study of genome-wide investigation of the cis-regulatory elements in medicinal plants
| 论文作者 | Mingkun Huangab, Yufang Hua, Ling Zhanga, Hua Yanga, Chen Fenga, Chunhong Jiangf, Ning Xief, Difa Liuf, Shilin Chenbd, Jihua Wange, Wei Sunbc |
| 刊物 | Acta Pharaceutica Sinica B |
| 标识符 | 10.1016/j.apsb.2024.06.012 |
| 摘要 | Medicinal plants have the ability to synthesize a large number of pharmaceutical metabolites, the production and regulation of which are influenced by both intrinsic signals (e.g., the spatial and temporal stage) and extrinsic environmental conditions (e.g., temperature, light availability, and water availability)1. According to the Encyclopedia of DNA Elements (ENCODE) project Two ATAC-seq replicates were generated, yielding approximately 106–125 million (M) filtered reads . After mapping to the APA genome, a total of 30,532 enriched peaks were identified, and found to be enriched at transcription start sites (TSSs) . ATAC-seq signals were positively correlated with gene expression levels ). Genomic annotation revealed that these ACRs were mainly located in the exonic (35%), distal intergenic (34%) and promoter (14%) regions . |
