Temporal regulation of alternative splicing events in rice memory under drought stress

作     者：Hong Yang Ping Li Guihua Jin Daping Gui Li Liu Chengjun Zhang Hong Yang;Ping Li;Guihua Jin;Daping Gui;Li Liu;Chengjun Zhang

作者机构：Germplasm Bank of Wild SpeciesKunming Institute of BotanyChinese Academy of SciencesKunmingYunnan650201China State Key Laboratory of Biocatalysis and Enzyme EngineeringHubei Collaborative Innovation Center for Green Transformation of Bio-ResourcesHubei Key Laboratory of Industrial BiotechnologySchool of Life SciencesHubei UniversityWuhan430062China Haiyan Engineering&Technology CenterKunming Institute of BotanyChinese Academy of ScienceKunmingYunnan650201China University of Chinese Academy of SciencesBeijing100049China 

出 版 物：《Plant Diversity》 (植物多样性（英文版）)

年 卷 期：2022年第44卷第1期

页      面：116-125页

核心收录：

学科分类：0710[理学-生物学] 0830[工学-环境科学与工程（可授工学、理学、农学学位）] 09[农学] 0901[农学-作物学] 0902[农学-园艺学] 0713[理学-生态学] 

基　　金：This study was funded by National Natural Science Foundation of China(31571311 to CZ and 31971410 to LL) the CAS Pioneer Hundred Talents Program(CZ and LL). 

主　　题：Alternative splicing Drought memory Exon skipping 

摘      要：Plant adaptation to drought stress is essential for plant survival and crop yield.Recently,harnessing drought memory,which is induced by repeated stress and recovery cycles,was suggested as a means to improve drought resistance at the transcriptional level.However,the genetic mechanism underlying drought memory is unclear.Here,we carried out a quantitative analysis of alternative splicing(AS)events in rice memory under drought stress,generating 12 transcriptome datasets.Notably,we identified exon skipping(ES)as the predominant AS type(80%)in differential alternative splicing(DAS)in response to drought stress.Applying our analysis pipeline to investigate DAS events following drought stress in six other plant species revealed variable ES frequencies ranging from 9.94%to 60.70%depending on the species,suggesting that the relative frequency of DAS types in plants is likely to be speciesspecific.The dinucleotide sequence at AS splice sites in rice following drought stress was preferentially GC-AG and AT-AC.Since U12-type splicing uses the AFAC site,this suggests that drought stress may increase U12-type splicing,and thus increase ES frequency.We hypothesize that multiple isofbrms derived from exon skipping may be induced by drought stress in rice.We also identified 20 transcription factors and three highly connected hub genes with potential roles in drought memory that may be good targets for plant breeding.