Genome-Wide Analysis of Light-Regulated Alternative Splicing in Artemisia annua L.

Frontiers in Plant Science

Yanyan Su¹  Liang Leng¹  Yuhua Shi³  Gangqiang Dong⁴  Dong Zhang⁵  Jianhe Wei⁶  Zhichao Xu⁷  Tingyu Ma⁷  Shilin Chen⁸  Wei Sun⁸  Li Xiang⁸  Dandan Ding⁸  Ling Yuan⁸  Lan Wu⁸  Qinggang Yin⁸  Han Gao⁹  Tianyuan Zhang^1,10 

[1] Amway (China) Botanical R&College of Agriculture, South China Agricultural University, Guangzhou, China;D Center, Wuxi, China;Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY, United States;Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China;Hainan Provincial Key Laboratory of Resources Conservation and Development of Southern Medicine, Hainan Branch of the Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Haikou, China;Key Lab of Chinese Medicine Resources Conservation, State Administration of Traditional Chinese Medicine of the People’s Republic of China, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China;Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China;School of Life Sciences, Central China Normal University, Wuhan, China;State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, China;

关键词: Artemisia annua;    single molecule real-time (SMRT) sequencing;    alternative splicing;    intron retention;    light-regulated;    artemisinin;   

DOI  :  10.3389/fpls.2021.733505

来源: DOAJ

【 摘 要 】

Artemisinin is currently the most effective ingredient in the treatment of malaria, which is thus of great significance to study the genetic regulation of Artemisia annua. Alternative splicing (AS) is a regulatory process that increases the complexity of transcriptome and proteome. The most common mechanism of alternative splicing (AS) in plant is intron retention (IR). However, little is known about whether the IR isoforms produced by light play roles in regulating biosynthetic pathways. In this work we would explore how the level of AS in A. annua responds to light regulation. We obtained a new dataset of AS by analyzing full-length transcripts using both Illumina- and single molecule real-time (SMRT)-based RNA-seq as well as analyzing AS on various tissues. A total of 5,854 IR isoforms were identified, with IR accounting for the highest proportion (48.48%), affirming that IR is the most common mechanism of AS. We found that the number of up-regulated IR isoforms (1534/1378, blue and red light, respectively) was more than twice that of down-regulated (636/682) after treatment of blue or red light. In the artemisinin biosynthetic pathway, 10 genes produced 16 differentially expressed IR isoforms. This work demonstrated that the differential expression of IR isoforms induced by light has the potential to regulate sesquiterpenoid biosynthesis. This study also provides high accuracy full-length transcripts, which can be a valuable genetic resource for further research of A. annua, including areas of development, breeding, and biosynthesis of active compounds.

【 授权许可】

Unknown