Relationships between genome methylation, levels of non-coding RNAs, mRNAs and metabolites in ripening tomato fruit
文献类型： 外文期刊
第一作者： Zuo, Jinhua
作者： Zuo, Jinhua;Gao, Lipu;Zhao, Xiaoyan;Wang, Qing;Zuo, Jinhua;Courtney, Lance T.;Giovannoni, James J.;Zuo, Jinhua;Courtney, Lance T.;Giovannoni, James J.;Grierson, Donald;Wang, Yunxiang;Zhu, Benzhong;Luo, Yunbo
作者机构：
关键词： ethylene response; carotenoid pathway; non-coding RNAs; genome methylation; tomato fruit
期刊名称：PLANT JOURNAL （ 影响因子：6.417； 五年影响因子：7.627 ）
ISSN： 0960-7412
年卷期： 2020 年 103 卷 3 期
页码：
收录情况： SCI
摘要： Ripening of tomato fruit is a complex tightly orchestrated developmental process that involves multiple physiological and metabolic changes that render fruit attractive, palatable and nutritious. Ripening requires initiation, activation and coordination of key pathways at the transcriptional and post-transcriptional levels that lead to ethylene synthesis and downstream ripening events determining quality. We studied wild-type, Gr and r mutant fruits at the coding and non-coding transcriptomic, metabolomic and genome methylation levels. Numerous differentially expressed non-coding RNAs were identified and quantified and potential competing endogenous RNA regulation models were constructed. Multiple changes in gene methylation were linked to the ethylene pathway and ripening processes. A combined analysis of changes in genome methylation, long non-coding RNAs, circular RNAs, micro-RNAs and fruit metabolites revealed many differentially expressed genes (DEGs) with differentially methylated regions encoding transcription factors and key enzymes related to ethylene or carotenoid pathways potentially targeted by differentially expressed non-coding RNAs. These included ACO2 (targeted by MSTRG.59396.1 and miR396b), CTR1 (targeted by MSTRG.43594.1 and miR171b), ERF2 (targeted by MSTRG.183681.1), ERF5 (targeted by miR9470-3p), PSY1 (targeted by MSTRG.95226.7), ZISO (targeted by 12:66127788|66128276) and NCED (targeted by MSTRG.181568.2). Understanding the functioning of this intricate genetic regulatory network provides new insights into the underlying integration and relationships between the multiple events that collectively determine the ripe phenotype.
分类号：
- 相关文献
作者其他论文 更多>>
-
Multiomics analyses of the effects of LED white light on the ripening of apricot fruits
作者：Bai, Chunmei;Ma, Lili;Jiang, Yuanye;Wu, Caie;Bai, Chunmei;Zheng, Yanyan;Ma, Lili;Jiang, Yuanye;Chen, Shaoqing;Wang, Hongwei;He, Xuelian;Han, Lichun;Zhou, Xinyuan;Wang, Qing;Zuo, Jinhua;Watkins, Christopher Brian
关键词：Light-emitting diodes; Transcriptomics; Metabolomics; ATAC-Seq
-
Storage temperature affects metabolism of sweet corn
作者：Liu, Shiyu;Zhou, Xinyuan;Wang, Yunxiang;Wang, Qing;Ma, Lili;Zuo, Jinhua;Zheng, Yanyan;Liu, Shiyu;Wu, Cai'e;Wang, Ronghuan;Shi, Yaxing;Watkins, Christopher B.
关键词：Transcriptome; Metabolome; Texture; Phytohormone; Quality
-
The endosomal-vacuolar transport system acts as a docking platform for the Pmk1 MAP kinase signaling pathway in Magnaporthe oryzae
作者：Wang, Qing;Huang, Zhicheng;Li, Yan;Li, Hui;Lin, Fu-Cheng;Lu, Jianping;Wang, Jing;Cai, Yingying;Wang, Jiaoyu;Lin, Fu-Cheng;Huang, Pengyun;Liu, Xiaohong;Lin, Fu-Cheng
关键词：appressorium; endosome; MAPK; Pmk1; rice blast fungus; signal; ubiquitination; vacuole
-
Cyprinid herpesvirus 3 replication is inhibited via decreased ORF3 promoter activity mediated by multiple cellular transcription factors
作者：Liu, Donghai;Wang, Yingying;Li, Yingying;Mo, Xubing;Yin, Jiyuan;Wang, Qing;Zheng, Shucheng;Liu, Donghai
关键词：Cyprinid herpesvirus 3; Koi herpesvirus; ORF3; Promoter; Transcription factors
-
Integrated transcriptomic and miRNA-seq analysis of Pak-choi provides insight into the molecular mechanisms involved in the preservation of postharvest quality by white LED light irradiation
作者：Yan, Zhicheng;Yan, Bangjin;Xu, Dongying;Yuan, Shuzhi;Xu, Xiaodi;Shi, Junyan;Zuo, Jinhua;Yue, Xiaozhen;Wang, Qing;Yan, Zhicheng;Wu, Caie;Shi, Junyan
关键词：Ascorbic acid; Cell wall metabolism; Glucosinolates; Photosynthesis; Transcription factor
-
Effects of temperature on the physicochemical properties and volatile profiles of 'Shine Muscat' grape during postharvest storage
作者：Jiang, Zhenghui;Li, Xujiao;Peng, Shuting;Li, Xiaobei;Zhou, Changyan;Zhao, Xiaoyan
关键词：'Shine Muscat' grape; Temperature; Physicochemical properties; Flavor characteristics
-
Multi-omic analysis provides new insights into the regulatory mechanism of the LED-induced delay of postharvest senescence and yellowing in broccoli
作者：Wang, Zhiqiang;Lv, Jieyu;Bin, Yuqi;Duan, Wenhui;Shi, Junyan;Gao, Hongdou;Yuan, Shuzhi;Yue, Xiaozhen;Zuo, Jinhua;Wang, Qing;Lv, Jieyu;Duan, Wenhui;Xu, Xiangbin;Wang, Zhiqiang;Li, Xiaojiao
关键词：Broccoli; Red LED light irradiation; Postharvest; Gene expression; Oxidative stress
