Differential alternative polyadenylation of homoeologous genes of allohexaploid wheat ABD subgenomes during drought stress response

被引:5
|
作者
Ma, Hui [1 ,2 ]
Lin, Juncheng [1 ,4 ]
Mei, Fangming [3 ]
Mao, Hude [3 ]
Li, Qingshun Q. [1 ,2 ]
机构
[1] Xiamen Univ, Coll Environm & Ecol, Minist Educ Coastal & Wetland Ecosyst, Key Lab, Xiamen 361102, Fujian, Peoples R China
[2] Western Univ Hlth Sci, Coll Dent Med, Biomed Sci, Pomona, CA 91766 USA
[3] Northwest A&F Univ, Coll Agron, State Key Lab Crop Stress Biol Arid Areas, Yangling 712100, Shanxi, Peoples R China
[4] Fujian Agr & Forestry Univ, Haixia Inst Sci & Technol, Plant Synthet Biol Ctr, Fuzhou 350002, Peoples R China
来源
PLANT JOURNAL | 2023年 / 114卷 / 03期
基金
中国国家自然科学基金;
关键词
alternative polyadenylation; homoeologous genes; allohexaploid; wheat; Triticum aestivum; drought stress; MESSENGER-RNA POLYADENYLATION; SITE CHOICE; ARABIDOPSIS; GENOME; SIGNALS; TRANSCRIPTOME; TOLERANCE; INTERACTS; CLEAVAGE; HOMOLOG;
D O I
10.1111/tpj.16150
中图分类号
Q94 [植物学];
学科分类号
071001 ;
摘要
Because allohexaploid wheat genome contains ABD subgenomes, how the expression of homoeologous genes is coordinated remains largely unknown, particularly at the co-transcriptional level. Alternative polyadenylation (APA) is an important part of co-transcriptional regulation, which is crucial in developmental processes and stress responses. Drought stress is a major threat to the stable yield of wheat. Focusing on APA, we used poly(A) tag sequencing to track poly(A) site dynamics in wheat under drought stress. The results showed that drought stress led to extensive APA involving 37-47% of differentially expressed genes in wheat. Significant poly(A) site switching was found in stress-responsive genes. Interestingly, homoeologous genes exhibit unequal numbers of poly(A) sites, divergent APA patterns with tissue specificity and time-course dynamics, and distinct 3 & PRIME;-UTR length changes. Moreover, differentially expressed transcripts in leaves and roots used different poly(A) signals, the up- and downregulated isoforms had distinct preferences for non-canonical poly(A) sites. Genes that encode key polyadenylation factors showed differential expression patterns under drought stress. In summary, poly(A) signals and the changes in core poly(A) factors may widely affect the selection of poly(A) sites and gene expression levels during the response to drought stress, and divergent APA patterns among homoeologous genes add extensive plasticity to this responsive network. These results not only reveal the significant role of APA in drought stress response, but also provide a fresh perspective on how homoeologous genes contribute to adaptability through transcriptome diversity. In addition, this work provides information about the ends of transcripts for a better annotation of the wheat genome.
引用
收藏
页码:499 / 518
页数:20
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