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Ren H, Yang W, Jing W, Shahid MO, Liu Y, Qiu X, Choisy P, Xu T, Ma N, Gao J, Zhou X. Multi-omics analysis reveals key regulatory defense pathways and genes involved in salt tolerance of rose plants. HORTICULTURE RESEARCH 2024; 11:uhae068. [PMID: 38725456 PMCID: PMC11079482 DOI: 10.1093/hr/uhae068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/26/2023] [Accepted: 02/21/2024] [Indexed: 05/12/2024]
Abstract
Salinity stress causes serious damage to crops worldwide, limiting plant production. However, the metabolic and molecular mechanisms underlying the response to salt stress in rose (Rosa spp.) remain poorly studied. We therefore performed a multi-omics investigation of Rosa hybrida cv. Jardin de Granville (JDG) and Rosa damascena Mill. (DMS) under salt stress to determine the mechanisms underlying rose adaptability to salinity stress. Salt treatment of both JDG and DMS led to the buildup of reactive oxygen species (H2O2). Palisade tissue was more severely damaged in DMS than in JDG, while the relative electrolyte permeability was lower and the soluble protein content was higher in JDG than in DMS. Metabolome profiling revealed significant alterations in phenolic acid, lipids, and flavonoid metabolite levels in JDG and DMS under salt stress. Proteome analysis identified enrichment of flavone and flavonol pathways in JDG under salt stress. RNA sequencing showed that salt stress influenced primary metabolism in DMS, whereas it substantially affected secondary metabolism in JDG. Integrating these datasets revealed that the phenylpropane pathway, especially the flavonoid pathway, is strongly enhanced in rose under salt stress. Consistent with this, weighted gene coexpression network analysis (WGCNA) identified the key regulatory gene chalcone synthase 1 (CHS1), which is important in the phenylpropane pathway. Moreover, luciferase assays indicated that the bHLH74 transcription factor binds to the CHS1 promoter to block its transcription. These results clarify the role of the phenylpropane pathway, especially flavonoid and flavonol metabolism, in the response to salt stress in rose.
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Affiliation(s)
- Haoran Ren
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
| | - Wenjing Yang
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
| | - Weikun Jing
- Flower Research Institute, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Muhammad Owais Shahid
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
| | - Yuming Liu
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
| | - Xianhan Qiu
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
| | - Patrick Choisy
- LVMH Recherche, 185 avenue de Verdun F-45800 St., Jean de Braye, France
| | - Tao Xu
- LVMH Recherche, 185 avenue de Verdun F-45800 St., Jean de Braye, France
| | - Nan Ma
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
| | - Junping Gao
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
| | - Xiaofeng Zhou
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing 100193, China
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Lyu X, Diao H, Li J, Meng Z, Li B, Zhou L, Guo S. Untargeted metabolomics in Anectocillus roxburghii with habitat heterogeneity and the key abiotic factors affecting its active ingredients. FRONTIERS IN PLANT SCIENCE 2024; 15:1368880. [PMID: 38533408 PMCID: PMC10964796 DOI: 10.3389/fpls.2024.1368880] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/11/2024] [Accepted: 02/26/2024] [Indexed: 03/28/2024]
Abstract
Introduction Anoectochilus roxburghii is a rare, endangered herb with diverse pharmacological properties. Understanding the main metabolite types and characteristics of wild A. roxburghii is important for efficiently utilizing resources and examining quality according to origin. Methods Samples were collected from the main production areas across five regions in Fujian Province, China. An untargeted metabolomics analysis was performed on the entire plants to explore their metabolic profiles. We utilized UPLC-MS/MS to specifically quantify eight targeted flavonoids in these samples. Subsequently, correlation analysis was conducted to investigate the relationships between the flavonoids content and both the biological characteristics and geographical features. Results A comprehensive analysis identified a total of 3,170 differential metabolites, with terpenoids and flavonoids being the most prevalent classes. A region-specific metabolite analysis revealed that the Yongchun (YC) region showed the highest diversity of unique metabolites, including tangeretin and oleanolic acid. Conversely, the Youxi (YX) region was found to have the smallest number of unique metabolites, with only one distinct compound identified. Further investigation through KEGG pathway enrichment analysis highlighted a significant enrichment in pathways related to flavonoid biosynthesis. Further examination of the flavonoid category showed that flavonols were the most differentially abundant. We quantified eight specific flavonoids, finding that, on average, the YX region exhibited higher levels of these compounds. Correlation analysis highlighted a significant association between flavonoids and habitat, especially temperature and humidity. Discussion Untargeted metabolomics via LC-MS was suitable for identifying region-specific metabolites and their influence via habitat heterogeneity. The results of this study serve as a new theoretical reference for unique markers exclusively present in a specific sample group.
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Affiliation(s)
- Xinkai Lyu
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
- State Key Laboratory of Basis and New Drug Development of Natural and Nuclear Drugs, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Haixin Diao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Jiaxue Li
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Zhixia Meng
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Bing Li
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Lisi Zhou
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Shunxing Guo
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
- State Key Laboratory of Basis and New Drug Development of Natural and Nuclear Drugs, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
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Jiang L, Yang X, Gao X, Yang H, Ma S, Huang S, Zhu J, Zhou H, Li X, Gu X, Zhou H, Liang Z, Yang A, Huang Y, Xiao M. Multiomics Analyses Reveal the Dual Role of Flavonoids in Pigmentation and Abiotic Stress Tolerance of Soybean Seeds. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2024; 72:3231-3243. [PMID: 38303105 DOI: 10.1021/acs.jafc.3c08202] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/03/2024]
Abstract
The color of the seed coat has great diversity and is regarded as a biomarker of metabolic variations. Here we isolated a soybean variant (BLK) from a population of recombinant inbred lines with a black seed coat, while its sibling plants have yellow seed coats (YL). The BLK and YL plants showed no obvious differences in vegetative growth and seed weight. However, the BLK seeds had higher anthocyanins and flavonoids level and showed tolerance to various abiotic stresses including herbicide, oxidation, salt, and alkalinity during germination. Integrated metabolomic and transcriptomic analyses revealed that the upregulation of biosynthetic genes probably contributed to the overaccumulation of flavonoids in BLK seeds. The transient expression of those biosynthetic genes in soybean root hairs increased the levels of total flavonoids or anthocyanins. Our study revealed the molecular basis of flavonoid accumulation in soybean seeds, leveraging genetic engineering for both nutritious and stress-tolerant soybean germplasm.
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Affiliation(s)
- Ling Jiang
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
- Yuelushan Laboratory, Changsha 410128, People's Republic of China
| | - Xiaofeng Yang
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
| | - Xiewang Gao
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
- School of Life Sciences, Chinese University of Hong Kong, Hong Kong 999077, People's Republic of China
| | - Hui Yang
- College of Agronomy, Hunan Agricultural University, Changsha 410128, People's Republic of China
| | - Shumei Ma
- Hunan Key Laboratory of Economic Crops Genetic Improvement and Integrated Utilization, School of Life Science, Hunan University of Science and Technology, Xiangtan 411201, People's Republic of China
| | - Shan Huang
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
| | - Jianyu Zhu
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
| | - Hong Zhou
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
| | - Xiaohong Li
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
| | - Xiaoyan Gu
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, People's Republic of China
| | - Hongming Zhou
- College of Agronomy, Hunan Agricultural University, Changsha 410128, People's Republic of China
| | - Zeya Liang
- College of Agronomy, Hunan Agricultural University, Changsha 410128, People's Republic of China
| | - Antong Yang
- College of Agronomy, Hunan Agricultural University, Changsha 410128, People's Republic of China
| | - Yong Huang
- Yuelushan Laboratory, Changsha 410128, People's Republic of China
- Key Laboratory of Hunan Province on Crop Epigenetic Regulation and Development, Hunan Agricultural University, Changsha 410128, People's Republic of China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, Hunan 410128, China
| | - Mu Xiao
- Yuelushan Laboratory, Changsha 410128, People's Republic of China
- College of Agronomy, Hunan Agricultural University, Changsha 410128, People's Republic of China
- Key Laboratory of Hunan Province on Crop Epigenetic Regulation and Development, Hunan Agricultural University, Changsha 410128, People's Republic of China
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Zhao P, Sun L, Zhang S, Jiao B, Wang J, Ma C. Integrated Transcriptomics and Metabolomics Analysis of Two Maize Hybrids (ZD309 and XY335) under Heat Stress at the Flowering Stage. Genes (Basel) 2024; 15:189. [PMID: 38397179 PMCID: PMC10887930 DOI: 10.3390/genes15020189] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Revised: 01/15/2024] [Accepted: 01/25/2024] [Indexed: 02/25/2024] Open
Abstract
High temperature around flowering has a serious impact on the growth and development of maize. However, few maize genes related to flowering under heat stress have been confirmed, and the regulatory mechanism is unclear. To reveal the molecular mechanism of heat tolerance in maize, two maize hybrids, ZD309 and XY335, with different heat resistance, were selected to perform transcriptome and metabolomics analysis at the flowering stage under heat stress. In ZD309, 314 up-regulated and 463 down-regulated differentially expressed genes (DEGs) were detected, while 168 up-regulated and 119 down-regulated DEGs were identified in XY335. By comparing the differential gene expression patterns of ZD309 and XY335, we found the "frontloaded" genes which were less up-regulated in heat-tolerant maize during high temperature stress. They included heat tolerance genes, which may react faster at the protein level to provide resilience to instantaneous heat stress. A total of 1062 metabolites were identified via metabolomics analysis. Lipids, saccharides, and flavonoids were found to be differentially expressed under heat stress, indicating these metabolites' response to high temperature. Our study will contribute to the identification of heat tolerance genes in maize, therefore contributing to the breeding of heat-tolerant maize varieties.
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Affiliation(s)
- Pu Zhao
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Science/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (P.Z.); (L.S.); (S.Z.); (B.J.); (J.W.)
| | - Lei Sun
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Science/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (P.Z.); (L.S.); (S.Z.); (B.J.); (J.W.)
| | - Siqi Zhang
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Science/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (P.Z.); (L.S.); (S.Z.); (B.J.); (J.W.)
- College of Agronomy and Biotechnology, Hebei Normal University of Science and Technology, Qinhuangdao 066000, China
| | - Bo Jiao
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Science/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (P.Z.); (L.S.); (S.Z.); (B.J.); (J.W.)
| | - Jiao Wang
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Science/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (P.Z.); (L.S.); (S.Z.); (B.J.); (J.W.)
| | - Chunhong Ma
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Science/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (P.Z.); (L.S.); (S.Z.); (B.J.); (J.W.)
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