Multi-omics analysis reveals the epitranscriptomic and proteomic regulation network of tomato in low-temperature stress response  

作　　者：Na Wang Yanting Li Tianli Guo Libo Jiang 

机构地区：[1]College of Life Sciences and Medicine,Shandong University of Technology,Zibo,Shandong 255000,China [2]State Key Laboratory of Crop Stress Biology for Arid Areas,College of Horticulture,Northwest A&F University,Yangling,Shaanxi 712100,China [3]Shaanxi Key Laboratory of Apple,College of Horticulture,Northwest A&F University,Yangling,Shaanxi 712100,China

出　　处：《Horticultural Plant Journal》2025年第2期758-773,共16页园艺学报(英文版)

基　　金：financially supported by the National Natural Science Foundation of China(Grant Nos.32202518 and 32070601);Shandong University of Technology PhD Start-up Fund(418097)。

摘　　要：Tomato(Solanum lycopersicum)is an extensively cultivated vegetable,and its growth and fruit quality can be significantly impaired by low temperatures.The widespread presence of N^(6)-methyladenosine(m^(6)A)modification on RNA is involved in a diverse range of stress response processes.There is a significant knowledge gap regarding the precise roles of m^(6)A modification in tomato,particularly for cold stress response.Here,we assessed the m^(6)A modification landscape of S.lycopersicum'Micro-Tom'leaves in response to low-temperature stress.Furthermore,we investigated the potential relationship among m^(6)A modification,transcriptional regulation,alternative polyadenylation events,and protein translation via MeRIP-seq,RNA-seq,and protein mass spectrometry.After omic date analysis,11378 and 10735 significant m^(6)A peak associated genes were identified in the control and cold treatment tomato leaves,respectively.Additionally,we observed a UGUACAK(K=G/U)motif under both conditions.Differential m^(6)A site associated genes most likely play roles in protein translation regulatory pathway.Besides directly altering gene expression levels,m^(6)A also leads to differential poly(A)site usage under low-temperature.Finally,24 important candidate genes associated with cold stress were identified by system-level multi-omic analysis.Among them,m^(6)A modification levels were increased in SBPase(Sedoheptulose-1,7-bisphosphatase,Solyc05g052600.4)mRNA,causing distal poly(A)site usage,downregulation of mRNA expression level,and increased protein abundance.Through these,tomato leaves try to maintain normal photo synthetic carbon assimilation and nitro gen metabolism under low-temperature condition.The comprehensive investigation of the m^(6)A modification landscape and multi-omics analysis provide valuable insights into the epigenetic regulatory mechanisms in tomato cold stress response.

关 键 词：Epitranscriptome m^(6)A methylation PROTEOME Alternative polyadenylation Low temperature TOMATO 

分 类 号：S641.2[农业科学—蔬菜学]