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Zhou T, Xing Q, Bu J, Han W, Shen Z. Integrated metabolomic and transcriptomic analysis reveals the regulatory mechanisms of flavonoid and alkaloid biosynthesis in the new and old leaves of Murraya tetramera Huang. BMC PLANT BIOLOGY 2024; 24:499. [PMID: 38840069 PMCID: PMC11151518 DOI: 10.1186/s12870-024-05066-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Accepted: 04/25/2024] [Indexed: 06/07/2024]
Abstract
BACKGROUND Murraya tetramera Huang is a traditional Chinese woody medicine. Its leaves contain flavonoids, alkaloids, and other active compounds, which have anti-inflammatory and analgesic effects, as well as hypoglycemic and lipid-lowering effects, and anti-tumor effects. There are significant differences in the content of flavonoids and alkaloids in leaves during different growth cycles, but the synthesis mechanism is still unclear. RESULTS In April 2021, new leaves (one month old) and old leaves (one and a half years old) of M. tetramera were used as experimental materials to systematically analyze the changes in differentially expressed genes (DEGs) and differentially accumulated metabolites (DAMs) with transcriptomics and metabolomics technology. This was done to identify the signaling pathways of flavonoid and alkaloid synthesis. The results showed that the contents of total alkaloids and flavonoids in old leaves were significantly higher than those in new leaves. Thirteen flavonoid compounds, three isoflavone compounds, and nineteen alkaloid compounds were identified, and 125 and 48 DEGs related to flavonoid and alkaloid synthesis were found, respectively. By constructing the KEGG (Kyoto Encyclopedia of Genes and Genomes) network of DEGs and DAMs, it was shown that the molecular mechanism of flavonoid biosynthesis in M. tetramera mainly focuses on the "flavonoid biosynthetic pathway" and the "flavonoid and flavonol biosynthetic pathway". Among them, p-Coumaryl alcohol, Sinapyl alcohol, Phloretin, and Isoquercitrin were significantly accumulated in old leaves, the up-regulated expression of CCR (cinnamoyl-CoA reductase) might promote the accumulation of p-Coumaryl alcohol, upregulation of F5H (ferulate-5-hydroxylase) might promote Sinapyl alcohol accumulation. Alkaloids, including indole alkaloids, pyridine alkaloids, imidazole alkaloids, and quinoline alkaloids, were significantly accumulated in old leaves, and a total of 29 genes were associated with these substances. CONCLUSIONS These data are helpful to better understand the biosynthesis of flavonoids and alkaloids in M. tetramera and provide a scientific basis for the development of medicinal components in M. tetramera.
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Affiliation(s)
- Tao Zhou
- College of Life Science and Technology, Central South University of Forestry and Technology, No.498, South Shaoshan Road, Changsha, 410004, Hunan Province, China
| | - Qinqin Xing
- College of Life Science and Technology, Central South University of Forestry and Technology, No.498, South Shaoshan Road, Changsha, 410004, Hunan Province, China
| | - Jiahao Bu
- College of Life Science and Technology, Central South University of Forestry and Technology, No.498, South Shaoshan Road, Changsha, 410004, Hunan Province, China
| | - Wenjun Han
- College of Life Science and Technology, Central South University of Forestry and Technology, No.498, South Shaoshan Road, Changsha, 410004, Hunan Province, China.
| | - Zhiguo Shen
- Henan Academy of Forestry, Zhengzhou, 450008, Henan Province, China.
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Dong Q, Wu Y, Li B, Chen X, Peng L, Sahito ZA, Li H, Chen Y, Tao Q, Xu Q, Huang R, Luo Y, Tang X, Li Q, Wang C. Multiple insights into lignin-mediated cadmium detoxification in rice (Oryza sativa). JOURNAL OF HAZARDOUS MATERIALS 2023; 458:131931. [PMID: 37379605 DOI: 10.1016/j.jhazmat.2023.131931] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2023] [Revised: 06/06/2023] [Accepted: 06/23/2023] [Indexed: 06/30/2023]
Abstract
Cadmium (Cd) is readily absorbed by rice and enters the food chain, posing a health risk to humans. A better understanding of the mechanisms of Cd-induced responses in rice will help in developing solutions to reduce Cd uptake in rice. Therefore, this research attempted to reveal the detoxification mechanisms of rice in response to Cd through physiological, transcriptomic and molecular approaches. The results showed that Cd stress restricted rice growth, led to Cd accumulation and H2O2 production, and resulted cell death. Transcriptomic sequencing revealed glutathione and phenylpropanoid were the major metabolic pathways under Cd stress. Physiological studies showed that antioxidant enzyme activities, glutathione and lignin contents were significantly increased under Cd stress. In response to Cd stress, q-PCR results showed that genes related to lignin and glutathione biosynthesis were upregulated, whereas metal transporter genes were downregulated. Further pot experiment with rice cultivars with increased and decreased lignin content confirmed the causal relationship between increased lignin and reduced Cd in rice. This study provides a comprehensive understanding of lignin-mediated detoxification mechanism in rice under Cd stress and explains the function of lignin in production of low-Cd rice to ensure human health and food safety.
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Affiliation(s)
- Qin Dong
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Yingjie Wu
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China.
| | - Bing Li
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Xi Chen
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Lu Peng
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Zulfiqar Ali Sahito
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Huanxiu Li
- College of Horticulture, Sichuan Agricultural University, Chengdu 611130, China
| | - Yulan Chen
- Sichuan tobacco company, Liangshanzhou company, Xichang 615000, China
| | - Qi Tao
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Qiang Xu
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Rong Huang
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Youlin Luo
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiaoyan Tang
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Qiquan Li
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Changquan Wang
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China.
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Guo M, Yang G, Meng X, Zhang T, Li C, Bai S, Zhao X. Illuminating plant-microbe interaction: How photoperiod affects rhizosphere and pollutant removal in constructed wetland? ENVIRONMENT INTERNATIONAL 2023; 179:108144. [PMID: 37586276 DOI: 10.1016/j.envint.2023.108144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2023] [Revised: 07/18/2023] [Accepted: 08/11/2023] [Indexed: 08/18/2023]
Abstract
Rhizosphere is a crucial area in comprehending the interaction between plants and microorganisms in constructed wetlands (CWs). However, influence of photoperiod, a key factor that regulates photosynthesis and rhizosphere microbial activity, remains largely unknown. This study investigated the effect of photoperiod (9, 12, 15 h/day) on pollutant removal and underlying mechanisms. Results showed that 15-hour photoperiod treatment exhibited the highest removal efficiencies for COD (87.26%), TN (63.32%), and NO3--N (97.79%). This treatment enhanced photosynthetic pigmentation and root activity, which increased transport of oxygen and soluble organic carbon to rhizosphere, thus promoting microbial nitrification and denitrification. Microbial community analysis revealed a more stable co-occurrence network due to increased complexity and aggregation in the 15-hour photoperiod treatment. Phaselicystis was identified as a key connector, which was responsible for transferring necessary carbon sources, ATP, and electron donors that supported and optimized nitrogen metabolism in the CWs. Structural equation model analysis emphasized the importance of plant-microbe interactions in pollutant removal through increased substance, information, and energy exchange. These findings offer valuable insights for CWs design and operation in various latitudes and rural areas for small-scale decentralized systems.
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Affiliation(s)
- Mengran Guo
- College of Resource and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Genji Yang
- College of Resource and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Xiangwei Meng
- College of Resource and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Tuoshi Zhang
- College of Resource and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Chunyan Li
- College of Resource and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Shunwen Bai
- School of Environment, State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, China
| | - Xinyue Zhao
- College of Resource and Environment, Northeast Agricultural University, Harbin 150030, China.
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Dong Y, Xiao W, Guo W, Liu Y, Nie W, Huang R, Tan C, Jia Z, Liu J, Jiang Z, Chang E. Effects of Donor Ages and Propagation Methods on Seedling Growth of Platycladus orientalis (L.) Franco in Winter. Int J Mol Sci 2023; 24:ijms24087170. [PMID: 37108331 PMCID: PMC10138323 DOI: 10.3390/ijms24087170] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2023] [Revised: 04/08/2023] [Accepted: 04/10/2023] [Indexed: 04/29/2023] Open
Abstract
To evaluate the effects of donor ages on growth and stress resistance of 6-year-old seedlings propagated from 5-, 2000-, and 3000-year-old Platycladus orientalis donors with grafting, cutting, and seed sowing, growth indicators and physiological and transcriptomic analyses were performed in 6-year-old seedlings in winter. Results showed that basal stem diameters and plant heights of seedlings of the three propagation methods decreased with the age of the donors, and the sown seedlings were the thickest and tallest. The contents of soluble sugar, chlorophyll, and free fatty acid in apical leaves of the three propagation methods were negatively correlated with donor ages in winter, while the opposite was true for flavonoid and total phenolic. The contents of flavonoid, total phenolic, and free fatty acid in cutting seedlings were highest in the seedlings propagated in the three methods in winter. KEGG (Kyoto Encyclopedia of Genes and Genomes) enrichment analysis of differentially expressed genes showed phenylpropanoid biosynthesis and fatty acid metabolism pathways, and their expression levels were up-regulated in apical leaves from 6-year-old seedlings propagated from 3000-year-old P. orientalis donors. In addition, hub genes analysis presented that C4H, OMT1, CCR2, PAL, PRX52, ACP1, AtPDAT2, and FAD3 were up-regulated in cutting seedlings, and the gene expression levels decreased in seedlings propagated from 2000- and 3000-year-old donors. These findings demonstrate the resistance stability of cuttings of P. orientalis and provide insights into the regulatory mechanisms of seedlings of P. orientalis propagated from donors at different ages in different propagation methods against low-temperature stress.
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Affiliation(s)
- Yao Dong
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grass-Land Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Wenfa Xiao
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grass-Land Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Wei Guo
- Taishan Academy of Forestry Sciences, Taian 271000, China
| | - Yifu Liu
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grass-Land Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Wen Nie
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grass-Land Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Ruizhi Huang
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grass-Land Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Cancan Tan
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grass-Land Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Zirui Jia
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
| | - Jianfeng Liu
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
| | - Zeping Jiang
- Key Laboratory of Forest Ecology and Environment of National Forestry and Grass-Land Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
| | - Ermei Chang
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
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Radušienė J, Karpavičienė B, Raudone L, Vilkickyte G, Çırak C, Seyis F, Yayla F, Marksa M, Rimkienė L, Ivanauskas L. Trends in Phenolic Profiles of Achillea millefolium from Different Geographical Gradients. PLANTS (BASEL, SWITZERLAND) 2023; 12:746. [PMID: 36840094 PMCID: PMC9964219 DOI: 10.3390/plants12040746] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Revised: 02/03/2023] [Accepted: 02/05/2023] [Indexed: 06/18/2023]
Abstract
The traditional widely used raw material of Achillea millefolium is currently mainly derived from wild populations, leading to diversification and uncertainty in its quality. The aim of the study was to determine the accumulation differences of phenolic compounds between geographically distant populations of Achillea millefolium from northern and southern gradients. Plant material was collected from Gaziantep and Nevşehir provinces in Turkey and from wild populations in Lithuania. A complex of nine hydroxycinnamic acids and eleven flavonoids was identified and quantified in the methanolic extracts of inflorescences, leaves, and stems using the HPLC-PDA method. Caffeoylquinic acids predominated in leaves, while inflorescences tended to prevail in flavonoids. The PCA score plot model represented the quantitative distribution pattern of phenolic compounds along a geographical gradient of populations. The content of phenolic compounds in plant materials from northern latitudes was more than twice that of plants from southern latitudes. A significant correlation of individual phenolic compounds with latitude/longitude corresponded to their differences between two countries. Differences in accumulation of caffeoylquinic acids and flavonoids revealed several intraspecific groups within A. millefolium. Our findings suggest that spatial geographical data on the distribution of phenolic compounds in A. millefolium populations could be used as a tool to find potential collection sites for high-quality raw materials.
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Affiliation(s)
- Jolita Radušienė
- Laboratory of Economic Botany, Nature Research Centre, Akademijos Str. 2, 08412 Vilnius, Lithuania
| | - Birutė Karpavičienė
- Laboratory of Economic Botany, Nature Research Centre, Akademijos Str. 2, 08412 Vilnius, Lithuania
| | - Lina Raudone
- Department of Pharmacognosy, Lithuanian University of Health Sciences, Sukileliu Av. 13, 50162 Kaunas, Lithuania
- Laboratory of Biopharmaceutical Research, Institute of Pharmaceutical Technologies, Lithuanian University of Health Sciences, Sukileliu Av. 13, 50162 Kaunas, Lithuania
| | - Gabriele Vilkickyte
- Laboratory of Biopharmaceutical Research, Institute of Pharmaceutical Technologies, Lithuanian University of Health Sciences, Sukileliu Av. 13, 50162 Kaunas, Lithuania
| | - Cüneyt Çırak
- Vocational High School of Bafra, Ondokuz Mayis University, Samsun 55200, Turkey
| | - Fatih Seyis
- Department of Field Crops, Faculty of Agriculture and Natural Sciences, Recep Tayyip Erdoğan University, Rize 53100, Turkey
| | - Fatih Yayla
- Department of Biology, Faculty of Arts and Sciences, Gaziantep University, Gaziantep 27310, Turkey
| | - Mindaugas Marksa
- Department of Analytical and Toxicological Chemistry, Lithuanian University of Health Sciences, Sukileliu Av. 13, 50162 Kaunas, Lithuania
| | - Laura Rimkienė
- Department of Analytical and Toxicological Chemistry, Lithuanian University of Health Sciences, Sukileliu Av. 13, 50162 Kaunas, Lithuania
| | - Liudas Ivanauskas
- Department of Analytical and Toxicological Chemistry, Lithuanian University of Health Sciences, Sukileliu Av. 13, 50162 Kaunas, Lithuania
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XING X, ZHAO M, WANG X, TANG Y. Hyperspectral image-based measurement of total flavonoid content of leaf-use Ginkgo biloba L. FOOD SCIENCE AND TECHNOLOGY 2023. [DOI: 10.1590/fst.100122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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7
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Yang X, Li Y, Yu R, Zhang L, Yang Y, Xiao D, Li A, Wang Y. Integrated transcriptomic and metabolomic profiles reveal adaptive responses of three poplar varieties against the bacterial pathogen Lonsdalea populi. PLANT, CELL & ENVIRONMENT 2023; 46:306-321. [PMID: 36217265 DOI: 10.1111/pce.14460] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/26/2021] [Accepted: 10/06/2022] [Indexed: 06/16/2023]
Abstract
Different poplar varieties vary in their tolerance to certain pathogens. However, knowledge about molecular regulation and critical responses of resistant poplars during pathogen infection remains scarce. To investigate adaptive responses to canker disease caused by the bacterium Lonsdalea populi, we screened three poplar varieties with contrasting tolerance, including Populus deltoides. 'Zhonglin 2025' (2025), Populus × Euramericana. '74/76' (107) and Populus tomentosa cv 'henan' (P. tomentosa). Transcriptomic analysis revealed significant changes in the expression levels of defence-related genes in different poplar varieties in response to infection, which reshaped the PTI and ETI processes. Intriguingly, photosynthesis-related genes were found to be highly expressed in the resistant variety, whereas the opposite was observed in the susceptible variety. Susceptible poplars maintained the activation of defence-related genes during early period of onset, which restricted the expression of photosynthesis-related and auxin signal-related genes. Furthermore, combined with metabolomic analysis, differences in the content of antibacterial substances and key differentially expressed genes in phenylpropane and flavonoid biosynthesis pathways were identified. Delayed induction of catechin in the susceptible variety and it's in vitro antibacterial activity were considered to be one of the important reasons for the differences in resistance to L. populi compared with the resistant variety, which is of practical interest for tree breeding. Moreover, the trade-off between growth and defence observed among the three poplar varieties during infection provides new insights into the multilevel regulatory circuits in tree-pathogen interactions.
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Affiliation(s)
- Xiaoqian Yang
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China
| | - Yiwen Li
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China
| | - Ruen Yu
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China
| | - Lichun Zhang
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China
| | - Yuzhang Yang
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China
| | - Dandan Xiao
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China
| | - Aining Li
- The Key Laboratory for Silviculture and Conservation of Ministry of Education, College of Forestry, Beijing Forestry University, Beijing, China
| | - Yanwei Wang
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China
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Dendrobium Multi-Omics Reveal Lipid Remodeling in Response to Freezing. Metabolites 2022; 12:metabo12121216. [PMID: 36557254 PMCID: PMC9784835 DOI: 10.3390/metabo12121216] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 11/30/2022] [Accepted: 12/01/2022] [Indexed: 12/11/2022] Open
Abstract
Freezing damage is a common phenomenon responsible for reduced yields of economic crops. Regulation of lipid metabolism plays an important role in plant growth and adaptation during freezing. We previously carried out transcriptome and untargeted metabolome analyses to determine the regulation of flavonol and anthocyanin biosynthesis during freezing treatment (FT) and post-freezing recovery (FR) in Dendrobium catenatum. However, changes in lipid levels are hard to confirm by untargeted metabolomics analysis alone. Regulation of lipid metabolism in response to freezing is largely unknown in Dendrobium. In this study, a multi-omics strategy was used to offer a better means of studying metabolic flow during FT and FR. To this end, 6976 proteins were identified by the 4D_label-free proteome, including 5343 quantified proteins. For each of the two conditions, we enriched differentially accumulated proteins (DAPs) into 15 gene ontology (GO) terms, including primary metabolism, lipid metabolism, and photosynthesis processes. We also identified 7 lipid categories and 3672 lipid species using lipidome assays. We found significant remodeling occurring in the phospholipid category during FT and FR. We also found that most sphingolipids were significantly upregulated. An integrated multi-omics analysis revealed significant changes in the expression levels of 141 mRNAs and encoding proteins under both FT and FR conditions. During FT, phospholipase A (PLA) and phospholipase D (PLD) were associated with phospholipid editing and galactolipid remodeling. These results provide valuable new insights into how the freezing tolerance of D. catenatum might be improved by genetic engineering.
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Sidharthan VK, Rajeswari V, Vanamala G, Baranwal VK. Revisiting the amalgaviral landscapes in plant transcriptomes expands the host range of plant amalgaviruses. Virology 2022; 577:65-73. [PMID: 36308887 DOI: 10.1016/j.virol.2022.10.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2022] [Revised: 10/09/2022] [Accepted: 10/16/2022] [Indexed: 11/19/2022]
Abstract
Plant amalgaviruses are monopartite, double-stranded RNA viruses, capable of vertical transmission through seeds. An attempt to revisit plant transcriptome-assembled contigs for amalgaviral sequences identified 40 putative novel amalgaviruses in 35 plant species, nearly doubling the number of plant amalgaviruses. Of the 35 plant species, 33 are reported to host amalgaviruses for the first time, including a pteridophytic and two gymnospermic species. Coding-complete genomes of all identified viruses were recovered and the putative +1 programmed ribosomal frameshift (PRF) sites were determined. Genomes of 35 identified amalgaviruses contained the conserved +1 PRF motif 'UUU_CGN', while variant versions were predicted in five genomes. Phylogenetic analysis grouped pteridophyte- and gymnosperm-infecting amalgaviruses together in divergent sub-clades while few of the related angiosperm-infecting amalgaviruses infect members of the same plant family, reiterating the co-evolution of plant amalgaviruses and their hosts. The current study paves way for further studies on understanding biological properties of identified viruses.
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Affiliation(s)
- V Kavi Sidharthan
- Division of Genetics and Tree Improvement, Institute of Forest Biodiversity (ICFRE), Hyderabad, India.
| | - V Rajeswari
- Department of Crop Physiology, Tamil Nadu Agricultural University, Coimbatore, India
| | - Gayatri Vanamala
- Division of Genetics and Tree Improvement, Institute of Forest Biodiversity (ICFRE), Hyderabad, India
| | - V K Baranwal
- Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, New Delhi, India.
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Wu X, Zou K, Liu X, Fu S, Zhang S, Duan Z, Zhou J, Liang Y. The novel distribution of intracellular and extracellular flavonoids produced by Aspergillus sp. Gbtc 2, an endophytic fungus from Ginkgo biloba root. Front Microbiol 2022; 13:972294. [PMID: 36386636 PMCID: PMC9643780 DOI: 10.3389/fmicb.2022.972294] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2022] [Accepted: 10/06/2022] [Indexed: 11/23/2022] Open
Abstract
Here, we reported a Ginkgo endophyte, Aspergillus sp. Gbtc 2, isolated from the root tissue. Its flavonoid biosynthesis pathway was reconstructed, the effect of phenylalanine on the production of flavonoids was explored, and the flavonoid metabolites were identified with the high-resolution Liquid chromatography–mass spectrometry (LC–MS). Some essential genes were annotated to form the upstream of the complete biosynthesis pathway, indicating that Aspergillus sp. Gbtc 2 has the ability to synthesize the C6–C3–C6 flavonoid monomers. HPLC results showed that adding an appropriate amount of phenylalanine could promote the production of flavonoids by Aspergillus Gbtc 2. LC–MS results depicted a significant difference in many flavonoids between intracellularly and extracellularly. Most of the flavonoids gathered in the cell contained glycosylation groups, while almost all components with multiple hydroxyls showed much higher concentrations extracellularly than intracellularly; they likely have different biological functions. A variety of these substances can be mapped back to the pathway pattern of flavonoid biosynthesis and prove the ability of flavonoid production once again. This study expanded the information on flavonoid biosynthesis in Aspergillus and provided a solid theoretical basis for developing the fungi into genetically engineered strains undertaking flavonoid industrialized production.
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Affiliation(s)
- Xinhong Wu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Changsha, Hunan, China
| | - Kai Zou
- College of Advanced Materials Engineering, Jiaxing Nanhu University, Jiaxing, Zhejiang, China
| | - Xueduan Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Changsha, Hunan, China
| | - Shaodong Fu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Changsha, Hunan, China
| | - Shuangfei Zhang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Changsha, Hunan, China
| | - Zhenchun Duan
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Changsha, Hunan, China
| | - Jin Zhou
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Changsha, Hunan, China
| | - Yili Liang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Changsha, Hunan, China
- *Correspondence: Yili Liang,
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Fu S, Deng Y, Zou K, Zhang S, Liu X, Liang Y. Flavonoids affect the endophytic bacterial community in Ginkgo biloba leaves with increasing altitude. FRONTIERS IN PLANT SCIENCE 2022; 13:982771. [PMID: 36035669 PMCID: PMC9410704 DOI: 10.3389/fpls.2022.982771] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2022] [Accepted: 07/19/2022] [Indexed: 05/14/2023]
Abstract
Altitude affects plant growth and metabolism, but the effect of altitude on plant endophytic microorganisms is still unclear. In this study, we selected 16 Ginkgo biloba trees to study the response of leaves' endophytes to flavonoids and altitude (from 530 m to 1,310 m). HPLC results showed that flavonoids in Ginkgo biloba leaves increased by more than 150% with attitude rising from 530 m to 1,310 m, which revealed a positive correlation with altitude. Ginkgo biloba might regulate the increased flavonoids in leaves to resist the increasing light intensity. 16S rDNA sequencing results showed that the endophytic bacterial communities of Ginkgo biloba at different altitudes significantly differed. Ginkgo leaf endophytes' alpha diversity decreased with increasing flavonoids content and altitude. The increased flavonoids might increase the environmental pressure on endophytes and affect the endophytic community in Ginkgo biloba leaves. The bacterial network in Ginkgo biloba leaves became more complex with increasing altitude, which might be one of the strategies of leaf endophytes to cope with increasing flavonoids. Metagenomes results predicted with PICRUSt showed that the abundance of flavonoid biosynthesis and photosynthesis genes were significantly decreased with the increase of flavonoid contents. High flavonoid content in leaves appeared to inhibit microbial flavonoid synthesis. Our findings indicate that altitude can modulate microbial community structure through regulating plant metabolites, which is important to uncovering the interaction of microbes, host and the environment.
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Affiliation(s)
- Shaodong Fu
- School of Resource Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Central South University, Changsha, China
| | - Yan Deng
- School of Resource Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Central South University, Changsha, China
| | - Kai Zou
- College of Advanced Materials Engineering, Jiaxing Nanhu University, Jiaxing, China
| | - Shuangfei Zhang
- School of Resource Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Central South University, Changsha, China
| | - Xueduan Liu
- School of Resource Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Central South University, Changsha, China
| | - Yili Liang
- School of Resource Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy, Ministry of Education, Central South University, Changsha, China
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Wang K, Yu H, Zhang X, Ye D, Huang H, Wang Y, Zheng Z, Li T. A transcriptomic view of cadmium retention in roots of cadmium-safe rice line (Oryza sativa L.). JOURNAL OF HAZARDOUS MATERIALS 2021; 418:126379. [PMID: 34329031 DOI: 10.1016/j.jhazmat.2021.126379] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Revised: 06/07/2021] [Accepted: 06/08/2021] [Indexed: 06/13/2023]
Abstract
A better understanding of the mechanisms controlling cadmium (Cd) accumulation in rice will benefit the development of strategies to minimize Cd accumulation in grains. A Cd-safe rice line designated D62B accumulated less than 0.2 mg Cd kg-1 in brown rice due to its strong capacity for Cd retention in roots. Here transcriptomic was used to clarify the underlying mechanisms of Cd response in roots of D62B compared with a high Cd-accumulating line (Wujin4B). There were 777, 1058 differentially expressed genes (DEGs) in D62B and Wujin4B, respectively, when exposed to Cd. The functions of DEGs were clearly line-specific. Cell wall biosynthesis responded more intensively to Cd stress in D62B, facilitating Cd restriction. Meanwhile, more glutathione (GSH) and phytochelatins synthesized in D62B with the upregulation of sulphur and GSH metabolism. Besides, membrane proteins played critical roles in Cd response in D62B, whereas 18 terms involved in regulation were enriched in Wujin4B. Exogenous GSH further induced the expression of genes related to GSH metabolism and cell wall biosynthesis, leading to the retention of more Cd. Great responsiveness of cell wall biosynthesis and GSH metabolism could be considered the most important specific mechanisms for Cd retention in the roots of Cd-safe rice line.
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Affiliation(s)
- Keji Wang
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China
| | - Haiying Yu
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China
| | - Xizhou Zhang
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China
| | - Daihua Ye
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China
| | - Huagang Huang
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China
| | - Yongdong Wang
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China
| | - Zicheng Zheng
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China
| | - Tingxuan Li
- College of Resource, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
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13
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Pan Y, Zhao X, Wang Y, Tan J, Chen DX. Metabolomics integrated with transcriptomics reveals the distribution of iridoid and crocin metabolic flux in Gardenia jasminoides Ellis. PLoS One 2021; 16:e0256802. [PMID: 34506519 PMCID: PMC8432746 DOI: 10.1371/journal.pone.0256802] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2021] [Accepted: 08/16/2021] [Indexed: 11/18/2022] Open
Abstract
Gardenia jasminoides Ellis (G. jasminoides) fruits are used as a resource for obtaining natural colorants and in traditional Chinese herbal medicine. However, G. jasminoides presents a relatively long flowering period and different ripening periods, so there are significant differences in the accumulation of metabolites in fruits of different colors. In addition, the complete metabolic pathways of iridoidsand crocins, which are used as medicinal composition of G. jasminoides, are poorly understood at present. In this research, we comprehensively compared the transcriptome and metabolites profiles of the developmental stages and locations of iridoid and crocin biosynthesis. A large number of differentially expressed genes (DEGs) and differentially accumulated metabolites (DAMs) were detected in four groups of samples, and clear variation in the pattern of metabolite abundance and gene expression were observed among different fruit colors and parts. Geniposide and gardenoside mainly accumulated in the sarcocarp of green fruit (GFS) and the sarcocarp of red fruit (FS), respectively. Crocin mainly accumulated in the peel and sarcocarp of red fruits. In the iridoid pathway, we hypothesized that there was a transport mechanism from the sarcocarp to the peel of G. jasminoides because of the inconsistent expression of G8O, 10-HGO and IS associated with differences in fruit ripening. UGTs play an important role in the biosynthesis of the active components of G. jasminoides. Combined transcriptome and metabonomics analysis showed a negative correlation between the biosynthesis of geniposide and crocin. The redirection of the metabolic flux and the regulation of key enzymes may be the main reasons for the changes in the biosynthesis of iridoid and crocin in G. jasminoides fruit. Our study expended valuable information for functional genomic library and provided new insights for metabolic engineering of secondary metabolite in G. Jasminoides.
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Affiliation(s)
- Yuan Pan
- Chongqing Academy of Chinese Materia Medica, Chongqing, China
- Chongqing Engineering Research Center for Fine Variety Breeding Techniques of Chinese Materia Medica, Chongqing, China
- Chongqing Subcenter of National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Science, Chongqing, China
| | - Xiao Zhao
- Chongqing Academy of Chinese Materia Medica, Chongqing, China
- Chongqing Engineering Research Center for Fine Variety Breeding Techniques of Chinese Materia Medica, Chongqing, China
- Chongqing Subcenter of National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Science, Chongqing, China
| | - Yu Wang
- Chongqing Academy of Chinese Materia Medica, Chongqing, China
- Chongqing Engineering Research Center for Fine Variety Breeding Techniques of Chinese Materia Medica, Chongqing, China
- Chongqing Subcenter of National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Science, Chongqing, China
| | - Jun Tan
- Chongqing Academy of Chinese Materia Medica, Chongqing, China
- Chongqing Engineering Research Center for Fine Variety Breeding Techniques of Chinese Materia Medica, Chongqing, China
- Chongqing Subcenter of National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Science, Chongqing, China
| | - Da-xia Chen
- Chongqing Academy of Chinese Materia Medica, Chongqing, China
- Chongqing Engineering Research Center for Fine Variety Breeding Techniques of Chinese Materia Medica, Chongqing, China
- Chongqing Subcenter of National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Science, Chongqing, China
- * E-mail:
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14
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Zou K, Liu X, Hu Q, Zhang D, Fu S, Zhang S, Huang H, Lei F, Zhang G, Miao B, Meng D, Jiang L, Liu H, Yin H, Liang Y. Root Endophytes and Ginkgo biloba Are Likely to Share and Compensate Secondary Metabolic Processes, and Potentially Exchange Genetic Information by LTR-RTs. FRONTIERS IN PLANT SCIENCE 2021; 12:704985. [PMID: 34305992 PMCID: PMC8301071 DOI: 10.3389/fpls.2021.704985] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2021] [Accepted: 06/14/2021] [Indexed: 05/21/2023]
Abstract
Ginkgo biloba is a pharmaceutical resource for terpenes and flavonoids. However, few insights discussed endophytes' role in Ginkgo, and whether genetic exchange happens between Ginkgo and endophytes remains unclear. Herein, functional gene profiles and repetitive sequences were analyzed to focus on these issues. A total of 25 endophyte strains were isolated from the Ginkgo root and distributed in 16 genera of 6 phyla. Significant morphological diversities lead to the diversity in the COG functional classification. KEGG mapping revealed that endophytic bacteria and fungi potentially synthesize chalcone, while endophytic fungi might also promote flavonoid derivatization. Both bacteria and fungi may facilitate the lignin synthesis. Aspergillus sp. Gbtc_1 exhibited the feasibility of regulating alcohols to lignans. Although Ginkgo and the endophytes have not observed the critical levopimaradiene synthase in ginkgolides synthesis, the upstream pathways of terpenoid precursors are likely intact. The MVK genes in Ginkgo may have alternative non-homologous copies or be compensated by endophytes in long-term symbiosis. Cellulomonas sp. Gbtc_1 became the only bacteria to harbor both MEP and MVA pathways. Endophytes may perform the mutual transformation of IPP and DMAPP in the root. Ginkgo and bacteria may lead to the synthesis and derivatization of the carotenoid pathway. The isoquinoline alkaloid biosynthesis seemed lost in the Ginkgo root community, but L-dopa is more probably converted into dopamine as an essential signal-transduction substance. So, endophytes may participate in the secondary metabolism of the Ginkgo in a shared or complementary manner. Moreover, a few endophytic sequences predicted as Ty3/Gypsy and Ty1/Copia superfamilies exhibited extremely high similarity to those of Ginkgo. CDSs in such endophytic LTR-RT sequences were also highly homologous to one Ginkgo CDS. Therefore, LTR-RTs may be a rare unit flowing between the Ginkgo host and endophytes to exchange genetic information. Collectively, this research effectively expanded the insight on the symbiotic relationship between the Ginkgo host and the endophytes in the root.
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Affiliation(s)
- Kai Zou
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Xueduan Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Qi Hu
- NEOMICS Institute, Shenzhen, China
| | - Du Zhang
- Shenzhen Agricultural Genome Research Institute, Chinese Academy of Agricultural Sciences, Shenzhen, China
| | - Shaodong Fu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Shuangfei Zhang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Haonan Huang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Fangying Lei
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Guoqing Zhang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Bo Miao
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Delong Meng
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Luhua Jiang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Hongwei Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Huaqun Yin
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
| | - Yili Liang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Changsha, China
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15
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Sun HF, Song MF, Zhang Y, Zhang ZL. Transcriptome profiling reveals candidate flavonoid-related genes during formation of dragon's blood from Dracaena cochinchinensis (Lour.) S.C.Chen under conditions of wounding stress. JOURNAL OF ETHNOPHARMACOLOGY 2021; 273:113987. [PMID: 33667570 DOI: 10.1016/j.jep.2021.113987] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Revised: 02/25/2021] [Accepted: 02/26/2021] [Indexed: 06/12/2023]
Abstract
ETHNOPHARMACOLOGICAL RELEVANCE Dragon's Blood (Resina Draconis) is a red resin that has been used in traditional medicine to promote blood circulation, regenerate muscles, reduce swelling and pain, stop bleeding, etc., and its main chemical constituents are flavonoids. Dracaena cochinchinensis (Lour.) S.C.Chen is the only plant defined by the Pharmacopoeia of the People's Republic of China as a source of dragon's blood. AIM OF THE STUDY We aimed to reveal genes involved in the biosynthesis and accumulation of flavonoids of D. cochinchinensis which is under wounding stress by performing a de novo transcriptome analysis. MATERIALS AND METHODS D. cochinchinensis samples were collected for transcriptome sequencing and bioinformatics analysis at 0 days (0 d), 3 days (3 d), 6 days (6 d), and 10 days (10 d) after induction wounding stress, and tissues were microscopically observed after wounding stress. RESULTS A total of 63,244 unigenes were obtained through bioinformatics analysis, and genes associated with the biosynthesis of flavonoids were identified. Through the analysis of DEGs after wounding stress in D. cochinchinensis, based on gene expression consistent with flavonoid accumulation levels, 20 genes in connection with the flavonoid synthesis pathway and 56 genes that may be responsible for flavonoid modification and transport, and also revealed TFs (MYB, bHLH) that may be responsible for flavonoid biosynthesis. Analysis of DEGs between the four periods revealed that after wounding stress, the greatest number of significant DEGs were enriched during the first 3 days, while fewer DEGs were enriched after day 3, which corresponding to only about 1/10 (353/3883) the number of DEGs during the first 3 days. In addition, putative unigenes involved in lignin biosynthesis, such as CSE, HCT, CCR, F5H, and CAD, were significantly down-regulation after D. cochinchinensis wounding stress, but the putative unigenes responsible for flavonoid biosynthesis, such as CHS, CHI, DFR, F3'5'H, F3H, ANR, FLS, and ANS were significantly up-regulation. CONCLUSION We performed de novo transcriptome analysis of D.cochinchinensis under wounding stress, candidate genes and TFs involved in the biosynthesis and accumulation of flavonoids were identified, which is the first report on the transcript variants in flavonoid form accumulation in D. cochinchinensis under wounding stress. According to the results of DEGs analysis, wounding stress attenuated lignin biosynthesis meanwhile promoted flavonoid biosynthesis. In addition, we also compared the transcriptomics of the two different original plants (D.cochinchinensis and D.cambodiana) that form dragon's blood in order to provide further understanding of the formation of dragon's blood.
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Affiliation(s)
- Hui-Fang Sun
- Yunnan Branch of Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Peking Union Medical College, Yunnan Key Laboratory of Southern Medicinal Utilization, Jinghong 666100, China
| | - Mei-Fang Song
- Yunnan Branch of Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Peking Union Medical College, Yunnan Key Laboratory of Southern Medicinal Utilization, Jinghong 666100, China
| | - Yue Zhang
- Yunnan Branch of Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Peking Union Medical College, Yunnan Key Laboratory of Southern Medicinal Utilization, Jinghong 666100, China
| | - Zhong-Lian Zhang
- Yunnan Branch of Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Peking Union Medical College, Yunnan Key Laboratory of Southern Medicinal Utilization, Jinghong 666100, China.
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16
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Rao S, Gou Y, Yu T, Cong X, Gui J, Zhu Z, Zhang W, Liao Y, Ye J, Cheng S, Xu F. Effects of selenate on Se, flavonoid, and glucosinolate in broccoli florets by combined transcriptome and metabolome analyses. Food Res Int 2021; 146:110463. [PMID: 34119247 DOI: 10.1016/j.foodres.2021.110463] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 05/13/2021] [Accepted: 05/27/2021] [Indexed: 11/17/2022]
Abstract
Broccoli is a nutritious vegetable popular all over the world. This study investigated the effects of different concentrations of selenate (0, 0.1, 0.2, 0.4, 0.8, and 1.6 mmol/L) on the selenium (Se), glucosinolate, and flavonoid contents of broccoli florets. Results showed that the total Se, selenomethionine, and methyl selenocysteine contents increased following selenate dosage. Interestingly, selenate treatment of 0.4 mmol/L decreased the flavonoid but increased the glucosinolate content. Metabolome analysis revealed changes in the individual contents of glucosinolates and flavonoids. Conjoint analysis of transcriptome and metabolome showed that the glucosinolate and flavonoid compounds were potentially regulated by two sulfate transporter genes (Sultr3;1 and Sultr4;2) and several cytochrome P450 genes (e.g., CYP71B21, CYP72C1, and CYP81F1). These new findings indicated that Se treatment may influence glucosinolate and flavonoid accumulation by regulating the expression of these genes. The results of this study provide some novel insights into the effects of Se on glucosinolates and flavonoids in broccoli florets and deepen our understanding of the regulatory network between some specific genes and these compounds.
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Affiliation(s)
- Shen Rao
- College of Horticulture and Gardening, Yangtze University, Jingzhou 434025, China.
| | - Yuanyuan Gou
- College of Horticulture and Gardening, Yangtze University, Jingzhou 434025, China.
| | - Tian Yu
- National R&D for Se-rich Agricultural Products Processing Technology, Wuhan Polytechnic University, Wuhan 430023, China; Enshi Se-Run Health Tech Development Co. Ltd., Enshi 445000, China.
| | - Xin Cong
- National R&D for Se-rich Agricultural Products Processing Technology, Wuhan Polytechnic University, Wuhan 430023, China; Enshi Se-Run Health Tech Development Co. Ltd., Enshi 445000, China.
| | - Jiaying Gui
- College of Horticulture and Gardening, Yangtze University, Jingzhou 434025, China.
| | - Zhenzhou Zhu
- National R&D for Se-rich Agricultural Products Processing Technology, Wuhan Polytechnic University, Wuhan 430023, China.
| | - Weiwei Zhang
- College of Horticulture and Gardening, Yangtze University, Jingzhou 434025, China.
| | - Yongling Liao
- College of Horticulture and Gardening, Yangtze University, Jingzhou 434025, China.
| | - Jiabao Ye
- College of Horticulture and Gardening, Yangtze University, Jingzhou 434025, China.
| | - Shuiyuan Cheng
- National R&D for Se-rich Agricultural Products Processing Technology, Wuhan Polytechnic University, Wuhan 430023, China; National Selenium Rich Product Quality Supervision and Inspection Center, Enshi 445000, Hubei, China.
| | - Feng Xu
- College of Horticulture and Gardening, Yangtze University, Jingzhou 434025, China.
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Filippi A, Braidot E, Petrussa E, Fabro M, Vuerich M, Boscutti F. Plant growth shapes the effects of elevation on the content and variability of flavonoids in subalpine bilberry stands. PLANT BIOLOGY (STUTTGART, GERMANY) 2021; 23:241-249. [PMID: 33037753 DOI: 10.1111/plb.13194] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Accepted: 09/24/2020] [Indexed: 06/11/2023]
Abstract
The study of morphological and physiological responses of shrubs to climate is crucial for the understanding of future scenarios regarding climate change. In this light, studying shrub growth and physiological acclimation along an elevation gradient might be insightful. The phenolic metabolic pathway represents a powerful tool to interpret such processes. In the South-Eastern Alps, we investigated the relationships between elevation, plant traits (i.e. age, xylem ring width, annual shoot length), plant-plant interaction (i.e. shrub cover) and flavonoids in Vaccinium myrtillus L. (leaves, berries) in stands above the treeline. The relationships were parsed within causal networks using a confirmatory path analysis. Elevation was the main driver of V. myrtillus growth, having both direct and indirect effects on the leaf flavonoid content, but this was less evident for berries. In particular, the content of foliar flavonoids showed a peak at mid-elevation and where the growth of xylem rings was intermediate, while it decreased in stands with higher shoot length. Flavonoid content variability of both leaves and berries was affected by elevation and shoot length. In berries, flavonoid variability was further related to all growth traits and shrub cover. These findings evidence that flavonoid content is influenced by both elevation and growth traits of V. myrtillus, often showing non-linear relationships. These results suggest a trait-mediated response of this plant to climate conditions as a result of trade-offs between plant growth, plant defence, environmental stress and nutrient/resource availability.
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Affiliation(s)
- A Filippi
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, Udine, Italy
| | - E Braidot
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, Udine, Italy
| | - E Petrussa
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, Udine, Italy
| | - M Fabro
- Servizio fitosanitario e chimico, ricerca, sperimentazione e assistenza tecnica, ERSA, Pozzuolo del Friuli, Italy
| | - M Vuerich
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, Udine, Italy
| | - F Boscutti
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, Udine, Italy
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18
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Chen Y, Yao L, Pan W, Guo B, Lin S, Wei Y. An integrated analysis of metabolomic and transcriptomic profiles reveals flavonoid metabolic differences between Anoectochilus roxburghii and Anoectochilus formosanus. Process Biochem 2021. [DOI: 10.1016/j.procbio.2020.07.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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19
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Sun K, Sun H, Qiu Z, Liu Q. Comparative Analyses of Phyllosphere Bacterial Communities and Metabolomes in Newly Developed Needles of Cunninghamia lanceolata (Lamb.) Hook. at Four Stages of Stand Growth. FRONTIERS IN PLANT SCIENCE 2021; 12:717643. [PMID: 34650578 PMCID: PMC8505725 DOI: 10.3389/fpls.2021.717643] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2021] [Accepted: 08/30/2021] [Indexed: 05/06/2023]
Abstract
Host-plant-associated bacteria affect the growth, vigor, and nutrient availability of the host plant. However, phyllosphere bacteria have received less research attention and their functions remain elusive, especially in forest ecosystems. In this study, we collected newly developed needles from sapling (age 5 years), juvenile (15 years), mature (25 years), and overmature (35 years) stands of Chinese fir [Cunninghamia lanceolata (Lamb.) Hook]. We analyzed changes in phyllosphere bacterial communities, their functional genes, and metabolic activity among different stand ages. The results showed that phyllosphere bacterial communities changed, both in relative abundance and in composition, with an increase in stand age. Community abundance predominantly changed in the orders Campylobacterales, Pseudonocardiales, Deinococcales, Gemmatimonadales, Betaproteobacteriales, Chthoniobacterales, and Propionibacteriales. Functional predictions indicated the genes of microbial communities for carbon metabolism, nitrogen metabolism, antibiotic biosynthesis, flavonoids biosynthesis, and steroid hormone biosynthesis varied; some bacteria were strongly correlated with some metabolites. A total of 112 differential metabolites, including lipids, benzenoids, and flavonoids, were identified. Trigonelline, proline, leucine, and phenylalanine concentrations increased with stand age. Flavonoids concentrations were higher in sapling stands than in other stands, but the transcript levels of genes associated with flavonoids biosynthesis in the newly developed needles of saplings were lower than those of other stands. The nutritional requirements and competition between individual trees at different growth stages shaped the phyllosphere bacterial community and host-bacteria interaction. Gene expression related to the secondary metabolism of shikimate, mevalonate, terpenoids, tocopherol, phenylpropanoids, phenols, alkaloids, carotenoids, betains, wax, and flavonoids pathways were clearly different in Chinese fir at different ages. This study provides an overview of phyllosphere bacteria, metabolism, and transcriptome in Chinese fir of different stand ages and highlights the value of an integrated approach to understand the molecular mechanisms associated with biosynthesis.
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Affiliation(s)
- Kun Sun
- Key Laboratory of Subtropical Siviculture of State Forestry and Grassland Administration, Research Institute of Subtropical Forestry of Chinese Academy of Forestry, Hangzhou, China
- Department of Tree Genetics, College of Forestry, Beihua University, Jilin, China
| | - Honggang Sun
- Key Laboratory of Subtropical Siviculture of State Forestry and Grassland Administration, Research Institute of Subtropical Forestry of Chinese Academy of Forestry, Hangzhou, China
- *Correspondence: Honggang Sun
| | - Zonghao Qiu
- Laboratory of Molecular Biology, Institute of Biochemistry and Molecular Biology, Albert-Ludwigs-Universität Freiburg, Freiburg im Breisgau, Germany
| | - Qiang Liu
- Department of Plant Sciences, School of Life Sciences, Jilin Normal University, Siping, China
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20
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Guo Y, Wang T, Fu FF, El-Kassaby YA, Wang G. Temporospatial Flavonoids Metabolism Variation in Ginkgo biloba Leaves. Front Genet 2020; 11:589326. [PMID: 33329734 PMCID: PMC7728922 DOI: 10.3389/fgene.2020.589326] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Accepted: 11/05/2020] [Indexed: 11/18/2022] Open
Abstract
Ginkgo (Ginkgo biloba L.) is a high-value medicinal tree species characterized by its flavonoids beneficial effects that are abundant in leaves. We performed a temporospatial comprehensive transcriptome and metabolome dynamics analyses of clonally propagated Ginkgo plants at four developmental stages (time: May to August) across three different environments (space) to unravel leaves flavonoids biosynthesis variation. Principal component analysis revealed clear gene expression separation across samples from different environments and leaf-developmental stages. We found that flavonoid-related metabolism was more active in the early stage of leaf development, and the content of total flavonoid glycosides and the expression of some genes in flavonoid biosynthesis pathway peaked in May. We also constructed a co-expression regulation network and identified eight GbMYBs and combining with other TF genes (3 GbERFs, 1 GbbHLH, and 1 GbTrihelix) positively regulated the expression of multiple structural genes in the flavonoid biosynthesis pathway. We found that part of these GbTFs (Gb_11316, Gb_32143, and Gb_00128) expressions was negatively correlated with mean minimum temperature and mean relative humidity, while positively correlated with sunshine duration. This study increased our understanding of the molecular mechanisms of flavonoids biosynthesis in Ginkgo leaves and provided insight into the proper production and management of Ginkgo commercial plantations.
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Affiliation(s)
- Ying Guo
- Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China.,Department of Forest & Conservation Sciences, Faculty of Forestry, The University of British Columbia, Vancouver, BC, Canada
| | - Tongli Wang
- Department of Forest & Conservation Sciences, Faculty of Forestry, The University of British Columbia, Vancouver, BC, Canada
| | - Fang-Fang Fu
- Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Yousry A El-Kassaby
- Department of Forest & Conservation Sciences, Faculty of Forestry, The University of British Columbia, Vancouver, BC, Canada
| | - Guibin Wang
- Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China
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