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Zhong S, Guo C, Su L, Jiang H, Wang XE, Shi L, Li X, Liao X, Xue J. Physiological and transcriptomic analyses provide preliminary insights into the autotoxicity of Lilium brownii. FRONTIERS IN PLANT SCIENCE 2024; 15:1330061. [PMID: 38807780 PMCID: PMC11130447 DOI: 10.3389/fpls.2024.1330061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/30/2023] [Accepted: 04/24/2024] [Indexed: 05/30/2024]
Abstract
Lilium brownii F. E. Brown ex Miellez var. viridulum Baker (Longya lily) is a variety of Lilium brownii F.E. Br. ex Miellez. We used HS-SPME and GC-MS to screened the tissues of L. brownii roots, stems, bulbs, and leaves and obtained 2,4-DTBP as an autotoxic substance for subsequent analysis. 2,4-DTBP was highly autotoxic in some treatment groups. Based on changes in physiological indicators, we carried out transcriptomic analysis to investigate the mechanisms of autotoxicity of substances on L. brownii and obtained 188,505 Unigenes. GO and KEGG enrichment analyses showed that L. brownii responded differently to different concentrations and treatment times of 2,4-DTBP. We observed significant changes in genes associated with ROS, phytohormones, and MAPK signaling cascades. 2,4-DTBP affects chloroplasts, the integrity of the respiratory electron transport chain, and ribosomes, causing L. brownii autotoxicity. Our findings provide a practical genomic resource for future research on L. brownii autotoxicity and evidence for the mechanism of action of autotoxic substances.
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Affiliation(s)
| | | | | | | | | | | | - Xiaogang Li
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, College of Plant Protection, Hunan Agricultural University, Changsha, China
| | - Xiaolan Liao
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, College of Plant Protection, Hunan Agricultural University, Changsha, China
| | - Jin Xue
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, College of Plant Protection, Hunan Agricultural University, Changsha, China
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2
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Nguyen DK, Nguyen TP, Li YR, Ohme-Takagi M, Liu ZH, Ly TT, Nguyen VA, Trinh NN, Huang HJ. Comparative study of two indoor microbial volatile pollutants, 2-Methyl-1-butanol and 3-Methyl-1-butanol, on growth and antioxidant system of rice (Oryza sativa) seedlings. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 272:116055. [PMID: 38340597 DOI: 10.1016/j.ecoenv.2024.116055] [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: 08/24/2023] [Revised: 01/24/2024] [Accepted: 01/28/2024] [Indexed: 02/12/2024]
Abstract
2-Methyl-1-butanol (2MB) and 3-Methyl-1-butanol (3MB) are microbial volatile organic compounds (VOCs) and found in indoor air. Here, we applied rice as a bioindicator to investigate the effects of these indoor microbial volatile pollutants. A remarkable decrease in germination percentage, shoot and root elongation, as well as lateral root numbers were observed in 3MB. Furthermore, ROS production increased by 2MB and 3MB, suggesting that pentanol isomers could induce cytotoxicity in rice seedlings. The enhancement of peroxidase (POD) and catalase (CAT) activity provided evidence that pentanol isomers activated the enzymatic antioxidant scavenging systems, with a more significant effect observed in 3MB. Furthermore, 3MB induced higher activity levels of glutathione (GSH), oxidized glutathione (GSSG), and the GSH/GSSG ratio in rice compared to the levels induced by 2MB. Additionally, qRT-PCR analysis showed more up-regulation in the expression of glutaredoxins (GRXs), peroxiredoxins (PRXs), thioredoxins (TRXs), and glutathione S-transferases (GSTUs) genes in 3MB. Taking the impacts of pentanol isomers together, the present study suggests that 3MB exhibits more cytotoxic than 2MB, as such has critical effects on germination and the early seedling stage of rice. Our results provide molecular insights into how isomeric indoor microbial volatile pollutants affect plant growth through airborne signals.
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Affiliation(s)
- Diem-Kieu Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Tri-Phuong Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Yi-Rong Li
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Masaru Ohme-Takagi
- Institute of Tropical Plant Sciences and Microbiology, National Cheng Kung University, Tainan, Taiwan
| | - Zin-Huang Liu
- Graduate Program in Translational Agricultural Sciences, NCKU and Academia Sinica, Taiwan
| | - Thach-Thao Ly
- Graduate Program in Translational Agricultural Sciences, NCKU and Academia Sinica, Taiwan
| | - Van-Anh Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan; Intellectual Property Office of Vietnam, Thanh Xuan District, Ha Noi, Vietnam
| | - Ngoc-Nam Trinh
- Industrial University of Ho Chi Minh City, Go Vap District, Ho Chi Minh, Vietnam
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan; Institute of Tropical Plant Sciences and Microbiology, National Cheng Kung University, Tainan, Taiwan; Graduate Program in Translational Agricultural Sciences, NCKU and Academia Sinica, Taiwan.
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3
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Kadam SB, Barvkar VT. COI1 dependent jasmonic acid signalling positively modulates ROS scavenging system in transgenic hairy root culture of tomato. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 206:108229. [PMID: 38039582 DOI: 10.1016/j.plaphy.2023.108229] [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: 07/18/2023] [Revised: 11/08/2023] [Accepted: 11/21/2023] [Indexed: 12/03/2023]
Abstract
Reactive oxygen species (ROS) production is a routine event in plants. ROS function as signalling molecules in regulating plant development and defence. However, their accumulation beyond threshold leads to toxicity. Hence, plants are evolved with specialized ROS scavenging system involving phytohormones (synthesis and signalling), enzymes and metabolites. To understand the role of phytohormone jasmonic acid (JA) signalling in ROS scavenging, tomato coronatine insensitive 1 (SlCOI1), a key gene in JA signalling, was silenced and overexpressed in tomato transgenic hairy roots (HR) under the constitutive promoter. Targeted metabolomics of transgenic HR revealed accumulation of phenolic acids including ferulic acid, coumaric acid, vanillic acid, and flavonoid catechin in SlCOI1 overexpressed line. Moreover, osmolyte amino acids proline, asparagine, and glutamine showed a positive co-relation with transgenic overexpression of SlCOI1. Ascorbic acid-glutathione, a crucial antioxidant system was found to be influenced by COI1-mediated JA signalling. The expression of genes encoding enzymes superoxide dismutase 1, ascorbate peroxidase 1, and dehydroascorbate reductase 2 was found to be down and upregulated in SlCOI1 silenced and overexpressed lines, respectively. Methyl jasmonate and Fusarium oxysporum f.sp. lycopersici crude extract treatment further confirmed the regulatory role of COI1-mediated JA signalling in regulation of enzymatic components involved in ROS scavenging. The COI1-mediated JA signalling could also elevate the expression of RESPIRATORY BURST OXIDASE HOMOLOG-B gene which is involved in ROS wave signal generation. The present study underscores the role of COI1-mediated JA signalling in modulating enzymatic and non-enzymatic components of ROS scavenging system and pathogen associated molecular pattern triggered immunity.
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Affiliation(s)
- Swapnil B Kadam
- Department of Botany, Savitribai Phule Pune University, Pune, 411007, India
| | - Vitthal T Barvkar
- Department of Botany, Savitribai Phule Pune University, Pune, 411007, India.
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4
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Hameed A, Nguyen DH, Lin SY, Stothard P, Neelakandan P, Young LS, Young CC. Hormesis of glyphosate on ferulic acid metabolism and antifungal volatile production in rice root biocontrol endophyte Burkholderia cepacia LS-044. CHEMOSPHERE 2023; 345:140511. [PMID: 37871874 DOI: 10.1016/j.chemosphere.2023.140511] [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: 06/22/2023] [Revised: 10/04/2023] [Accepted: 10/20/2023] [Indexed: 10/25/2023]
Abstract
Glyphosate (GP, N-phosphonomethyl glycine) is one of the most popular organophosphate herbicides widely used in agricultural practices worldwide. There have been extensive reports on the biohazard attributes and hormetic impacts of GP on plant and animal systems. However, the effects of GP on plant growth-promoting microbes and its ecological relevance remain unknown. Here, we show that GP does exert a hormetic impact on Burkholderia cepacia LS-044, a rice (Oryza sativa ssp. japonica cv. Tainung 71) root endophytic isolate. We used increasing doses of ferulic acid (FA, 1-25 mM) and GP (0.5-5 mM) to test the growth and antifungal volatile production in LS-044 by electrochemical, liquid chromatographic, gas chromatographic and spectrophotometric means. GP treatment at a low dose (0.5 mM) increased FA utilization and significantly (P < 0.0001) enhanced antifungal volatile activity in LS-044. Although FA (1 mM) was rapidly utilized by LS-044, no chromatographically detectable utilization of GP was observed at tested doses (0.5-5 mM). LS-044 emitted predominant amounts of tropone in addition to moderate-to-minor amounts of diverse ketones and/or their derivatives (acetone, acetophenone, 2-butanone, 1-propanone, 1-(2-furanyl-ethanone, 1-phenyl-1-propanone and 1-(3-pyridinyl)-1-propanone), d-menthol, 2-methoxy-3-(1-methylethyl)-pyrazine, dimethyl disulfide, pyridine and ammonium carbamate when grown under GP supplement. GP hormesis on LS-044 induced phenotypic variations in O. sativa ssp. japonica cv. Tainan 11 as evident through seed germination assay. Genes involved in the transformation of FA, and a key gene encoding 5-enolpyruvylshikimate 3-phosphate synthase (EPSPS) with Gly-94 and Tyr-95 residues localized at active site most likely rendering EPSPS sensitivity to GP, were detected in LS-044. This is the first report on the GP hormesis influencing morphological and metabolic aspects including volatile emission in a biocontrol bacterium that could modulate rice plant phenotype.
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Affiliation(s)
- Asif Hameed
- Division of Microbiology and Biotechnology, Yenepoya Research Centre, Yenepoya (Deemed to be University), Deralakatte, Mangalore, 575018, India; Department of Soil & Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung, 402, Taiwan.
| | - Duc Hai Nguyen
- Department of Soil & Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung, 402, Taiwan
| | - Shih-Yao Lin
- Department of Soil & Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung, 402, Taiwan
| | - Paul Stothard
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, Alberta, T6G 2P5, Canada
| | - Poovarasan Neelakandan
- Department of Soil & Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung, 402, Taiwan
| | - Li-Sen Young
- Tetanti AgriBiotech Inc. No. 1, Gongyequ 10th Rd., Xitun Dist., Taichung, 40755, Taiwan
| | - Chiu-Chung Young
- Department of Soil & Environmental Sciences, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung, 402, Taiwan; Innovation and Development Center of Sustainable Agriculture, National Chung Hsing University, Taichung, 402, Taiwan.
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5
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Rajkumari N, Chowrasia S, Nishad J, Ganie SA, Mondal TK. Metabolomics-mediated elucidation of rice responses to salt stress. PLANTA 2023; 258:111. [PMID: 37919614 DOI: 10.1007/s00425-023-04258-1] [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: 07/03/2023] [Accepted: 10/01/2023] [Indexed: 11/04/2023]
Abstract
MAIN CONCLUSION Role of salinity responsive metabolites of rice and its wild species has been discussed. Salinity stress is one of the important environmental stresses that severely affects rice productivity. Although, several vital physio-biochemical and molecular responses have been activated in rice under salinity stress which were well described in literatures, the mechanistic role of salt stress and microbes-induced metabolites to overcome salt stress in rice are less studied. Nevertheless, over the years, metabolomic studies have allowed a comprehensive analyses of rice salt stress responses. Hence, we review the salt stress-triggered alterations of various metabolites in rice and discuss their significant roles toward salinity tolerance. Some of the metabolites such as serotonin, salicylic acid, ferulic acid and gentisic acid may act as signaling molecules to activate different downstream salt-tolerance mechanisms; whereas, the other compounds such as amino acids, sugars and organic acids directly act as protective agents to maintain osmotic balance and scavenger of reactive oxygen species during the salinity stress. The quantity, type, tissues specificity and time of accumulation of metabolites induced by salinity stress vary between salt-sensitive and tolerant rice genotypes and thus, contribute to their different degrees of salt tolerance. Moreover, few tolerance metabolites such as allantoin, serotonin and melatonin induce unique pathways for activation of defence mechanisms in salt-tolerant varieties of rice, suggesting their potential roles as the universal biomarkers for salt tolerance. Therefore, these metabolites can be applied exogenously to the sensitive genotypes of rice to enhance their performance under salt stress. Furthermore, the microbes of rhizosphere also participated in rice salt tolerance either directly or indirectly by regulating their metabolic pathways. Thus, this review for the first time offers valuable and comprehensive insights into salt-induced spatio-temporal and genotype-specific metabolites in different genotypes of rice which provide a reference point to analyze stress-gene-metabolite relationships for the biomarker designing in rice. Further, it can also help to decipher several metabolic systems associated with salt tolerance in rice which will be useful in developing salt-tolerance cultivars by conventional breeding/genetic engineering/exogenous application of metabolites.
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Affiliation(s)
- Nitasana Rajkumari
- ICAR-National Institute for Plant Biotechnology, LBS Centre, New Delhi, 110012, India
- ICAR-Indian Agricultural Research Institute, Pusa, New Delhi, 110012, India
| | - Soni Chowrasia
- ICAR-National Institute for Plant Biotechnology, LBS Centre, New Delhi, 110012, India
- Department of Bioscience and Biotechnology, Banastahli Vidyapith, Tonk, Rajasthan, 304022, India
| | - Jyoti Nishad
- ICAR-National Institute for Plant Biotechnology, LBS Centre, New Delhi, 110012, India
| | - Showkat Ahmad Ganie
- Plant Molecular Sciences and Centre of Systems and Synthetic Biology, Department of Biological Sciences, Royal Holloway University of London, Egham, TW20 0EX, Surrey, UK
- School of Life Sciences, University of Essex, Colchester, CO4 3SQ, UK
| | - Tapan Kumar Mondal
- ICAR-National Institute for Plant Biotechnology, LBS Centre, New Delhi, 110012, India.
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Nguyen TP, Meng DR, Chang CH, Su PY, Ou CA, Hou PF, Sung HM, Chou CH, Ohme-Takagi M, Huang HJ. Antifungal mechanism of volatile compounds emitted by Actinomycetota Paenarthrobacter ureafaciens from a disease-suppressive soil on Saccharomyces cerevisiae. mSphere 2023; 8:e0032423. [PMID: 37750721 PMCID: PMC10597458 DOI: 10.1128/msphere.00324-23] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2023] [Accepted: 08/07/2023] [Indexed: 09/27/2023] Open
Abstract
Increasing evidence suggests that in disease-suppressive soils, microbial volatile compounds (mVCs) released from bacteria may inhibit the growth of plant-pathogenic fungi. However, the antifungal activities and molecular responses of fungi to different mVCs remain largely undescribed. In this study, we first evaluated the responses of pathogenic fungi to treatment with mVCs from Paenarthrobacter ureafaciens. Then, we utilized the well-characterized fungal model organism Saccharomyces cerevisiae to study the potential mechanistic effects of the mVCs. Our data showed that exposure to P. ureafaciens mVCs leads to reduced growth of several pathogenic fungi, and in yeast cells, mVC exposure prompts the accumulation of reactive oxygen species. Further experiments with S. cerevisiae deletion mutants indicated that Slt2/Mpk1 and Hog1 MAPKs play major roles in the yeast response to P. ureafaciens mVCs. Transcriptomic analysis revealed that exposure to mVCs was associated with 1,030 differentially expressed genes (DEGs) in yeast. According to gene ontology and Kyoto Encyclopedia of Genes and Genomes analyses, many of these DEGs are involved in mitochondrial dysfunction, cell integrity, mitophagy, cellular metabolism, and iron uptake. Genes encoding antimicrobial proteins were also significantly altered in the yeast after exposure to mVCs. These findings suggest that oxidative damage and mitochondrial dysfunction are major contributors to the fungal toxicity of mVCs. Furthermore, our data showed that cell wall, antioxidant, and antimicrobial defenses are induced in yeast exposed to mVCs. Thus, our findings expand upon previous research by delineating the transcriptional responses of the fungal model. IMPORTANCE Since the use of bacteria-emitted volatile compounds in phytopathogen control is of considerable interest, it is important to understand the molecular mechanisms by which fungi may adapt to microbial volatile compounds (mVCs). Paenarthrobacter ureafaciens is an isolated bacterium from disease-suppressive soil that belongs to the Actinomycetota phylum. P. ureafaciens mVCs showed a potent antifungal effect on phytopathogens, which may contribute to disease suppression in soil. However, our knowledge about the antifungal mechanism of mVCs is limited. This study has proven that mVCs are toxic to fungi due to oxidative stress and mitochondrial dysfunction. To deal with mVC toxicity, antioxidants and physical defenses are required. Furthermore, iron uptake and CAP proteins are required for antimicrobial defense, which is necessary for fungi to deal with the thread from mVCs. This study provides essential foundational knowledge regarding the molecular responses of fungi to inhibitory mVCs.
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Affiliation(s)
- Tri-Phuong Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - De-Rui Meng
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Ching-Han Chang
- Graduate Program in Translational Agricultural Sciences, National Cheng Kung University and Academia Sinica, Tainan, Taiwan
| | - Pei-Yu Su
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Chieh-An Ou
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Ping-Fu Hou
- Kaohsiung District Agricultural Research and Extension Station, Pingtung, Taiwan
| | - Huang-Mo Sung
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Chang-Hung Chou
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Masaru Ohme-Takagi
- Institute of Tropical Plant Sciences and Microbiology, National Cheng Kung University, Tainan, Taiwan
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
- Graduate Program in Translational Agricultural Sciences, National Cheng Kung University and Academia Sinica, Tainan, Taiwan
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Tu Y, Shen J, Peng Z, Xu Y, Li Z, Liang J, Wei Q, Zhao H, Huang J. Biochar-Dual Oxidant Composite Particles Alleviate the Oxidative Stress of Phenolic Acid on Tomato Seed Germination. Antioxidants (Basel) 2023; 12:antiox12040910. [PMID: 37107285 PMCID: PMC10136075 DOI: 10.3390/antiox12040910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2023] [Revised: 04/03/2023] [Accepted: 04/06/2023] [Indexed: 04/29/2023] Open
Abstract
Phenolic acid is a well-known allelochemical, but also a pollutant in soil and water impeding crop production. Biochar is a multifunctional material widely used to mitigate the phenolic acids allelopathic effect. However, phenolic acid absorbed by biochar can still be released. In order to improve the removal efficiency of phenolic acids by biochar, the biochar-dual oxidant (BDO) composite particles were synthesized in this study, and the underlying mechanism of the BDO particles in ameliorating p-coumaric acid (p-CA) oxidative damage to tomato seed germination was revealed. Upon p-CA treatment, the BDO composite particles application increased the radical length, radical surface area, and germination index by 95.0%, 52.8%, and 114.6%, respectively. Compared to using biochar or oxidants alone, the BDO particles addition resulted in a higher removal rate of p-CA and produced more O2•-, HO•, SO4•- and 1O2 radicals via autocatalytic action, suggesting that BDO particles removed phenolic acid by both adsorption and free radical oxidation. The addition of BDO particles maintained the levels of the antioxidant enzyme activity close to the control, and reduced the malondialdehyde and H2O2 by 49.7% and 49.5%, compared to the p-CA treatment. Integrative metabolomic and transcriptomic analyses revealed that 14 key metabolites and 62 genes were involved in phenylalanine and linoleic acid metabolism, which increased dramatically under p-CA stress but down-regulated with the addition of BDO particles. This study proved that the use of BDO composite particles could alleviate the oxidative stress of phenolic acid on tomato seeds. The findings will provide unprecedented insights into the application and mechanism of such composite particles as continuous cropping soil conditioners.
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Affiliation(s)
- Yuting Tu
- Institute of Agricultural Resources and Environment, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Jinchun Shen
- College of Horticulture, South China Agricultural University, Guangzhou 510642, China
| | - Zhiping Peng
- Institute of Agricultural Resources and Environment, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Plant Nutrition and Fertilizer in South Region, Ministry of Agriculture, Guangzhou 510640, China
- Guangdong Key Laboratory of Nutrient Cycling and Farmland Conservation, Guangzhou 510640, China
| | - Yanggui Xu
- Institute of Agricultural Resources and Environment, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Plant Nutrition and Fertilizer in South Region, Ministry of Agriculture, Guangzhou 510640, China
- Guangdong Key Laboratory of Nutrient Cycling and Farmland Conservation, Guangzhou 510640, China
| | - Zhuxian Li
- Institute of Agricultural Resources and Environment, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Jianyi Liang
- Institute of Agricultural Resources and Environment, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Qiufang Wei
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China
| | - Hongbo Zhao
- College of Horticulture, South China Agricultural University, Guangzhou 510642, China
| | - Jichuan Huang
- Institute of Agricultural Resources and Environment, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Plant Nutrition and Fertilizer in South Region, Ministry of Agriculture, Guangzhou 510640, China
- Guangdong Key Laboratory of Nutrient Cycling and Farmland Conservation, Guangzhou 510640, China
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Chen Y, Yang L, Zhang L, Li J, Zheng Y, Yang W, Deng L, Gao Q, Mi Q, Li X, Zeng W, Ding X, Xiang H. Autotoxins in continuous tobacco cropping soils and their management. FRONTIERS IN PLANT SCIENCE 2023; 14:1106033. [PMID: 37139103 PMCID: PMC10149998 DOI: 10.3389/fpls.2023.1106033] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2022] [Accepted: 03/29/2023] [Indexed: 05/05/2023]
Abstract
Tobacco belongs to the family Solanaceae, which easily forms continuous cropping obstacles. Continuous cropping exacerbates the accumulation of autotoxins in tobacco rhizospheric soil, affects the normal metabolism and growth of plants, changes soil microecology, and severely reduces the yield and quality of tobacco. In this study, the types and composition of tobacco autotoxins under continuous cropping systems are summarized, and a model is proposed, suggesting that autotoxins can cause toxicity to tobacco plants at the cell level, plant-growth level, and physiological process level, negatively affecting soil microbial life activities, population number, and community structure and disrupting soil microecology. A combined strategy for managing tobacco autotoxicity is proposed based on the breeding of superior varieties, and this approach can be combined with adjustments to cropping systems, the induction of plant immunity, and the optimization of cultivation and biological control measures. Additionally, future research directions are suggested and challenges associated with autotoxicity are provided. This study aims to serve as a reference and provide inspirations needed to develop green and sustainable strategies and alleviate the continuous cropping obstacles of tobacco. It also acts as a reference for resolving continuous cropping challenges in other crops.
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Affiliation(s)
- Yudong Chen
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
- College of Plant Protection, Shandong Agricultural University, Tai’an, China
| | - Long Yang
- College of Plant Protection, Shandong Agricultural University, Tai’an, China
- *Correspondence: Long Yang, ; Wanli Zeng, ; Xinhua Ding, ; Haiying Xiang,
| | | | - Jianrong Li
- Yuxi Cigarette Factory, Hongta Tobacco Group Co. Ltd., Yuxi, China
| | - Yalin Zheng
- College of Plant Protection, Shandong Agricultural University, Tai’an, China
| | - Wenwu Yang
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
| | - Lele Deng
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
| | - Qian Gao
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
| | - Qili Mi
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
| | - Xuemei Li
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
| | - Wanli Zeng
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
- *Correspondence: Long Yang, ; Wanli Zeng, ; Xinhua Ding, ; Haiying Xiang,
| | - Xinhua Ding
- College of Plant Protection, Shandong Agricultural University, Tai’an, China
- *Correspondence: Long Yang, ; Wanli Zeng, ; Xinhua Ding, ; Haiying Xiang,
| | - Haiying Xiang
- Technology Center of China Tobacco Yunnan Industrial Co. Ltd., Kunming, China
- *Correspondence: Long Yang, ; Wanli Zeng, ; Xinhua Ding, ; Haiying Xiang,
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9
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Du J, Du C, Ge X, Wen S, Zhou X, Zhang L, Hu J. Genome-Wide Analysis of the AAAP Gene Family in Populus and Functional Analysis of PsAAAP21 in Root Growth and Amino Acid Transport. Int J Mol Sci 2022; 24:ijms24010624. [PMID: 36614067 PMCID: PMC9820651 DOI: 10.3390/ijms24010624] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 12/21/2022] [Accepted: 12/23/2022] [Indexed: 12/31/2022] Open
Abstract
The adventitious root (AR) is the basis for successful propagation by plant cuttings and tissue culture and is essential for maintaining the positive traits of a variety. Members of the amino acid/auxin permease (AAAP) gene family play indispensable roles in various plant metabolisms and have few studies on root growth and amino acid transport. In this study, with a systematic bioinformatics analysis of the Populus AAAP family, 83 PtrAAAPs were identified from Populus trichocarpa and grouped into 8 subfamilies. Subsequently, chromosomal distribution, genetic structure, cis-elements analysis, and expression pattern analysis of the AAAP family were performed and the potential gene AAAP21 regulating root development was screened by combining the results of RNA-Seq and QTL mapping. PsAAAP21 was proven as promoting root development by enhancing AR formation. Differentially expressed genes (DEGs) from RNA-seq results of overexpressing lines were enriched to multiple amino acid-related pathways, and the amino acid treatment to transgenic lines indicated that PsAAAP21 regulated amino acid transport, including tyrosine, methionine, and arginine. Analysis of the AAAP gene family provided a theoretical basis for uncovering the functions of AAAP genes. The identification of PsAAAP21 on root promotion and amino acid transport in Populus will help with breeding new woody plant species with strong rooting ability.
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Affiliation(s)
- Jiujun Du
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
| | - Changjian Du
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
| | - Xiaolan Ge
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
| | - Shuangshuang Wen
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
| | - Xinglu Zhou
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
| | - Lei Zhang
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- Collaborative Innovation Center of Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China
- Correspondence: (L.Z.); (J.H.); Tel.: +86-10-62889642 (L.Z.); +86-10-62888862 (J.H.)
| | - Jianjun Hu
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
- Collaborative Innovation Center of Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China
- Correspondence: (L.Z.); (J.H.); Tel.: +86-10-62889642 (L.Z.); +86-10-62888862 (J.H.)
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10
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Huang Y, Li F, Yi J, Yan H, He Z, Li X. Transcriptomic and physio-biochemical features in rice (Oryza sativa L.) in response to mercury stress. CHEMOSPHERE 2022; 309:136612. [PMID: 36179923 DOI: 10.1016/j.chemosphere.2022.136612] [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: 05/24/2022] [Revised: 09/24/2022] [Accepted: 09/24/2022] [Indexed: 06/16/2023]
Abstract
Mercury (Hg) is a toxic and nonessential element for organisms, and its contamination in the environment is a global concern. Previous research has shown that Hg stress may cause severe damage to rice roots; however, the transcriptomic changes in roots and physio-biochemical responses in leaves to different levels of Hg stress are not fully understood. In the present study, rice seedlings were exposed to 20, 80, and 160 μM HgCl2 for three days in hydroponic experiments. The results showed that the majority of Hg was accumulated in rice roots after Hg exposure, and the 80- and 160-μM Hg stresses significantly increased the root-to-shoot translocation factors relative to 20-μM Hg stress, resulting in elevated Hg concentrations in rice shoots. Only the 160-μM Hg stress significantly inhibited root growth compared with the control, while photosynthesis capacity in leaves was significantly reduced under Hg stress. RNA transcriptome sequencing analyses of the roots showed that common responsive differentially expressed genes were strongly associated with glutathione metabolism, amino acid biosynthesis, and secondary metabolite metabolism, which may play significant roles in Hg accumulation by rice plants. Nine crucial genes identified by protein-protein interaction network analysis may be used as candidate target genes for further investigation of the detoxification mechanism, encoding proteins involved in jasmonic acid synthesis, sugar metabolism, allene oxide synthase, glutathione peroxidase, dismutase, and catalase. Furthermore, physio-biochemical analyses of the leaves indicated that higher production of reactive oxygen species was induced by Hg stress, while glutathione and antioxidant enzymes may play crucial roles in Hg detoxification. Our findings provide transcriptomic and physio-biochemical features of rice roots and shoots, which advance our understanding of the responsive and detoxification mechanisms in rice under different levels of Hg stress.
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Affiliation(s)
- Yingmei Huang
- Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Fangbai Li
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, China
| | - Jicai Yi
- College of Life Sciences, South China Agricultural University, Guangzhou, 510642, China
| | - Huili Yan
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Zhenyan He
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Xiaomin Li
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou, 510006, China.
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11
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Zhang X, Ning K, Yang Z, Huang X, Yu H, Fu N, Qin X, Hao L, Zhang F. Responses of transcriptome and metabolome in the roots of Pugionium cornutum (L.) Gaertn to exogenously applied phthalic acid. BMC PLANT BIOLOGY 2022; 22:535. [PMID: 36396992 PMCID: PMC9670373 DOI: 10.1186/s12870-022-03927-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Accepted: 11/06/2022] [Indexed: 06/16/2023]
Abstract
BACKGROUND The yield and quality of Pugionium cornutum (L.) Gaertn., a healthy, green vegetable with low sugar and high protein contents and high medicinal value, is severely affected by autotoxicity, which is a leading factor in the formation of plant disease. To help characterize the autotoxicity mechanism of P. cornutum (L.) Gaertn., we performed transcriptomic and metabolic analysis of the roots of P. cornutum (L.) Gaertn. response to phthalic acid, an autotoxin from P. cornutum (L.) Gaertn. RESULTS In this study, high-throughput sequencing of nine RNA-seq libraries generated from the roots.of P. cornutum (L.) Gaertn. under different phthalic acid treatments yielded 37,737 unigenes. In total, 1085 (703 upregulated and 382 downregulated) and 5998 (4385 upregulated and 1613 downregulated) DEGs were identified under 0.1 and 10 mmol·L- 1 phthalic acid treatment, respectively, compared with the control treatment. Glutathione metabolism was among the top five important enriched pathways. In total, 457 and 435 differentially accumulated metabolites were detected under 0.1 and 10 mmol·L- 1 phthalic acid treatment compared with the control, respectively, of which 223 and 253, respectively, increased in abundance. With the increase in phthalic acid concentration, the accumulation of ten metabolites increased significantly, while that of four metabolites decreased significantly, and phthalic acid, dambonitol, 4-hydroxy-butyric acid, homocitrulline, and ethyl β-D-glucopyranoside were 100 times more abundant under the 10 mmol·L- 1 phthalic acid treatment than under the control. Seventeen differentially expressed genes significantly associated with phthalic acid content were identified. In addition, the L-histidinol content was highest under 0.1 mmol·L- 1 phthalic acid, and a total of eleven differentially expressed genes were significantly positively correlated with the L-histidinol content, all of which were annotated to heat shock proteins, aquaporins and cysteine proteases. CONCLUSIONS Accumulation of autotoxins altered the metabolic balance in P. cornutum (L.) Gaertn. and influenced water absorption and carbon and nitrogen metabolism. These important results provide insights into the formation mechanisms of autotoxicity and for the subsequent development of new control measures to improve the production and quality of replanted plants.
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Affiliation(s)
- Xiaoyan Zhang
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
| | - Kezhen Ning
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
| | - Zhongren Yang
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
- Inner Mongolia Autonomous Region Key Laboratory of Big Data Research and Application for Agriculture and Animal Husbandry, Hohhot, 010011, China
| | - Xiumei Huang
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
| | - Hongtao Yu
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
| | - Nana Fu
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
| | - Xinyuan Qin
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
| | - Lizhen Hao
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China
| | - Fenglan Zhang
- College of Horticultural and Plant Protection, Inner Mongolia Agricultural University, Inner Mongolia Key Laboratory of Wild Peculiar Vegetable Germplasm Resource and Germplasm Enhancement, Hohhot, 010011, China.
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12
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He Z, Wang Y, Yan Y, Qin S, He H, Mao R, Liang Z. Dynamic analysis of physiological indices and transcriptome profiling revealing the mechanisms of the allelopathic effects of phenolic acids on Pinellia ternata. FRONTIERS IN PLANT SCIENCE 2022; 13:1039507. [PMID: 36340387 PMCID: PMC9635339 DOI: 10.3389/fpls.2022.1039507] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Accepted: 09/26/2022] [Indexed: 06/16/2023]
Abstract
Pinellia ternata (Thunb.) is a famous traditional Chinese medicine with high medicinal value, but its culture is strongly hindered by the continuous cropping obstacles (CCO) which are tightly associated with allelopathic effects. Deciphering the response mechanisms of P. ternata to allelochemicals is critical for overcoming the CCO. Here, we elucidate the response of P. ternata to phenolic acids treatment via physiological indices, cellular approaches, and transcriptome analysis. Phenolic acids showed a significant effect on the growth of P. ternata seedlings, similar to the phenotype of continuous cropping. Cellular analysis demonstrated that phenolic acids remarkably induced root cell death. Physiological analysis revealed that phenolic acids induced the overaccumulated of H2O2 and O 2 - in root cells. However, two exogenous antioxidants (L-ascorbic acid and β-gentiobiose) aid in the scavenging of over-accumulated H2O2 and O 2 - by promoting the antioxidant enzyme activity such as superoxide dismutase (SOD), ascorbate peroxidase (APX), and catalase (CAT). Transcriptome analysis demonstrated that differentially expressed genes (DEGs) related to the cell wall degeneration and reactive oxygen species (ROS) metabolism were upregulated by phenolic acid treatment. In addition, downregulated DEGs involved in sucrose and starch metabolism and phenylpropanoid biosynthesis pathways decreased the key metabolites contents. Taken together, phenolic acids caused root cell death by inducing the overaccumulation of H2O2 and O 2 - , and L-ascorbic acid and β-gentiobiose effectively alleviated ROS stress. The present study elucidates the underlying mechanism of the allelopathic effect of phenolic acids, offers valuable information for further understanding the mechanism of CCO, and could contribute to improving guidance for further P. ternata production.
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Affiliation(s)
- Zhigui He
- School of Leisure and Health, Guilin Tourism University, Guilin, China
- College of Life Sciences, Northwest A&F University, Yangling, China
| | - Yanfeng Wang
- College of Life Sciences, Yan’an University, Yan’an, China
- Shaanxi Key Laboratory of Chinese Jujube, Yan’an, China
| | - Yan Yan
- College of Life Sciences, Yan’an University, Yan’an, China
- Shaanxi Key Laboratory of Chinese Jujube, Yan’an, China
| | - Shaowei Qin
- School of Leisure and Health, Guilin Tourism University, Guilin, China
| | - Huan He
- College of Life Sciences, Yan’an University, Yan’an, China
| | - Renjun Mao
- College of Life Sciences, Yan’an University, Yan’an, China
- College of Life Sciences, Northwest A&F University, Yangling, China
- Shaanxi Key Laboratory of Chinese Jujube, Yan’an, China
| | - Zongsuo Liang
- College of Life Sciences, Northwest A&F University, Yangling, China
- College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou, China
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13
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Yang H, Zhou S, Wu L, Wang L. Interference of Dihydrocoumarin with Hormone Transduction and Phenylpropanoid Biosynthesis Inhibits Barnyardgrass (Echinochloa crus-galli) Root Growth. PLANTS 2022; 11:plants11192505. [PMID: 36235371 PMCID: PMC9572682 DOI: 10.3390/plants11192505] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/22/2022] [Revised: 09/13/2022] [Accepted: 09/19/2022] [Indexed: 11/16/2022]
Abstract
Botanical compounds with herbicidal activity exhibit safety, low toxicity, and low chances of herbicide resistance development in plants. They have widespread applications in green agricultural production and the development of organic agriculture. In the present study, dihydrocoumarin showed potential as a botanical herbicide, and its phenotypic characteristics and mechanism of action were studied in barnyardgrass [Echinochloa crus-galli (L.) P.Beauv.] seedlings. The results indicated that dihydrocoumarin inhibited the growth of barnyardgrass without causing significant inhibition of rice seedling growth at concentrations ranging between 0.5 and 1.0 g/L. Additionally, dihydrocoumarin treatment could cause oxidative stress in barnyardgrass, disrupt the cell membrane, and reduce the root cell activity, resulting in root cell death. Transcriptomic analyses revealed that dihydrocoumarin could inhibit barnyardgrass normal growth by affecting the signal transduction of plant hormones. The results showed significant differential expression of plant hormone signal transduction genes in barnyardgrass. Additionally, dihydrocoumarin interfered with the expression of numerous phenylpropanoid biosynthesis genes in barnyardgrass that affect the production of various vital metabolites. We speculate that the barnyardgrass growth was suppressed by the interaction among hormones and phenylpropanoid biosynthesis genes, indicating that dihydrocoumarin can be applied as a bioherbicide to control barnyardgrass growth in rice transplanting fields.
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Affiliation(s)
- Haona Yang
- Hunan Weed Science Key Laboratory, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Shangfeng Zhou
- Hunan Weed Science Key Laboratory, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Lamei Wu
- Hunan Weed Science Key Laboratory, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Lifeng Wang
- Hunan Weed Science Key Laboratory, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
- Hunan Rice Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
- Correspondence:
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14
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Yan W, Cao S, Liu X, Yao G, Yu J, Zhang J, Bian T, Yu W, Wu Y. Combined physiological and transcriptome analysis revealed the response mechanism of Pogostemon cablin roots to p-hydroxybenzoic acid. FRONTIERS IN PLANT SCIENCE 2022; 13:980745. [PMID: 36226287 PMCID: PMC9549242 DOI: 10.3389/fpls.2022.980745] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Accepted: 08/22/2022] [Indexed: 06/01/2023]
Abstract
Pogostemon cablin (patchouli) cultivation is challenged by serious soil sickness, of which autotoxins accumulation is a major cause. p-hydroxybenzoic acid (p-HBA) is one of the main autotoxins of patchouli. However, the molecular mechanism underlying the response of patchouli to p-HBA remains unclear. In this study, RNA-sequencing combined with physiological analysis was used to monitor the dynamic transcriptomic and physiological changes in patchouli seedlings 0, 6, 12, 24, 48, and 96 h after p-HBA treatment. p-HBA stress inhibited root biomass accumulation, induced excessive hydrogen peroxide accumulation and lipid peroxidation, and activated most antioxidant enzymes. Compared with that of the control, the osmotic adjustment substance content was elevated with treatment. Subsequently, 15,532, 8,217, 8,946, 2,489, and 5,843 differentially expressed genes (DEGs) at 6, 12, 24, 48, and 96 h after p-HBA treatment, respectively, were identified in patchouli roots. GO functional enrichment analysis showed that the DEGs were enriched mainly in plasma membrane, defense response, response to chitin, DNA-binding transcription factor activity and abscisic acid-activated signaling pathway. The upregulated genes were involved in glycolysis/gluconeogenesis, cysteine and methionine metabolism, starch and sucrose metabolism, biosynthesis of unsaturated fatty acids, and linoleic acid metabolism. Genes associated with MAPK signaling pathway-plant, plant-pathogen interaction, plant hormone signal transduction were downregulated with p-HBA treatment. These pathways are related to root browning and rotting, leading to plant death.
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Affiliation(s)
- Wuping Yan
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
- School of Agricultural Sciences, Jiangxi Agricultural University, Nanchang, China
| | - Shijia Cao
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
| | - Xiaofeng Liu
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
| | - Guanglong Yao
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
| | - Jing Yu
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
| | - Junfeng Zhang
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
| | - Tengfei Bian
- Department of Medicinal Chemistry, University of Florida, Gainesville, FL, United States
| | - Wengang Yu
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
| | - Yougen Wu
- College of Tropical Crops, Hainan University, Haikou, China
- College of Horticulture, Hainan University, Haikou, China
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
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15
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A comparative HS-SPME/GC-MS-based metabolomics approach for discriminating selected japonica rice varieties from different regions of China in raw and cooked form. Food Chem 2022; 385:132701. [PMID: 35320761 DOI: 10.1016/j.foodchem.2022.132701] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Revised: 03/10/2022] [Accepted: 03/12/2022] [Indexed: 11/20/2022]
Abstract
Japonica rice is widely planted in different regions of China. Rice of different geographical origins may have substantially different economic values. In this study, An untargeted metabolomics based approach using headspace solid-phase microextraction coupled to gas chromatography-mass spectrometry (HS-SPME/GC-MS) was applied to distinguish 27 japonica rice varieties originated from South, Northern and Northeastern China in raw and cooked form, respectively. Orthogonal partial least-squares discriminant analysis (OPLS-DA) models exhibited good geographic discrimination. Sixteen and twenty-two volatiles were selected as the discriminant markers in raw and cooked rice, respectively. However, only hexanal, 3,5-octadien-2-one and 2-butyl-2-octenal were selected both in raw and cooked rice. Markers in raw rice mainly involved in terpenes, lipoxygenases, indole, and shikimate and benzoic acid pathways. Markers in cooked rice were mainly derived from lipid oxidation. The results provided a deeper understanding of volatiles variation of rice in China from different geographic origins.
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16
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Liu Q, Zhang L, Wang L, Wu Q, Li K, Guo X. Autotoxin affects the rhizosphere microbial community structure by influencing the secretory characteristics of grapevine roots. Front Microbiol 2022; 13:953424. [PMID: 35958141 PMCID: PMC9360756 DOI: 10.3389/fmicb.2022.953424] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2022] [Accepted: 07/07/2022] [Indexed: 11/16/2022] Open
Abstract
Autotoxins secreted by roots into the soil can trigger rhizosphere microecological imbalances and affect root secretory properties resulting in conditions such as replanting disease. However, information on the effect of autotoxins on root secretion characteristics and regulation of the composition of rhizosphere microorganisms by altered root exudates is limited. In this study, autotoxin ρ-hydroxybenzoic acid (4-HBA) was added to the soil of potted grapevine seedlings, CO2 pulse-labeling, and DNA stable isotope probing were used to track the rhizosphere microbiome that assimilates root exudates. Bacterial and fungal microbiomes that assimilated plant-derived carbon were identified by high-throughput sequencing. Results showed that 4-HBA treatment altered bacterial and fungal communities in 13C-labeled organisms, with a lower abundance of beneficial bacteria (e.g., Gemmatimonas, Streptomyces, and Bacillus) and a higher abundance of potential pathogen fungi (e.g., Fusarium, Neocosmospora, Gibberella, and Fusicolla) by changing the composition of root exudates. The exogenous addition of upregulated compound mixtures of root exudates reduced the abundance of beneficial bacterial Bacillus and increased the abundance of potential pathogen fungi Gibberella. These results suggest that 4-HBA can alter root secretion properties and altered root exudates may enrich certain potential pathogens and reduce certain beneficial bacteria, thereby unbalancing the structure of the rhizosphere microbial community.
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Affiliation(s)
- Qianwen Liu
- Department of Pomology, College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Liheng Zhang
- Department of Pomology, College of Horticulture, Shenyang Agricultural University, Shenyang, China
- Dalian Academy of Agricultural Sciences, Dalian, China
| | - Lu Wang
- Department of Pomology, College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Qingchun Wu
- Department of Pomology, College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Kun Li
- Department of Pomology, College of Horticulture, Shenyang Agricultural University, Shenyang, China
- *Correspondence: Kun Li,
| | - Xiuwu Guo
- Department of Pomology, College of Horticulture, Shenyang Agricultural University, Shenyang, China
- Xiuwu Guo,
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17
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Liu S, Jiang J, Ma Z, Xiao M, Yang L, Tian B, Yu Y, Bi C, Fang A, Yang Y. The Role of Hydroxycinnamic Acid Amide Pathway in Plant Immunity. FRONTIERS IN PLANT SCIENCE 2022; 13:922119. [PMID: 35812905 PMCID: PMC9257175 DOI: 10.3389/fpls.2022.922119] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/17/2022] [Accepted: 06/07/2022] [Indexed: 06/15/2023]
Abstract
The compounds involved in the hydroxycinnamic acid amide (HCAA) pathway are an important class of metabolites in plants. Extensive studies have reported that a variety of plant hydroxycinnamamides exhibit pivotal roles in plant-pathogen interactions, such as p-coumaroylagmatine and ferulic acid. The aim of this review is to discuss the emerging findings on the functions of hydroxycinnamic acid amides (HCAAs) accumulation associated with plant defenses against plant pathologies, antimicrobial activity of HCAAs, and the mechanism of HCAAs involved in plant immune responses (such as reactive oxygen species (ROS), cell wall response, plant defense hormones, and stomatal immunity). However, these advances have also revealed the complexity of HCAAs participation in plant defense reactions, and many mysteries remain to be revealed. This review provides an overview of the mechanistic and conceptual insights obtained so far and highlights areas for future exploration of phytochemical defense metabolites.
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Affiliation(s)
- Saifei Liu
- College of Plant Protection, Southwest University, Chongqing, China
| | - Jincheng Jiang
- Committee on Agriculture and Rural Affairs of Yongchuan District, Chongqing, China
| | - Zihui Ma
- College of Plant Protection, Southwest University, Chongqing, China
| | - Muye Xiao
- College of Plant Protection, Southwest University, Chongqing, China
| | - Lan Yang
- Analytical and Testing Center, Southwest University, Chongqing, China
| | - Binnian Tian
- College of Plant Protection, Southwest University, Chongqing, China
| | - Yang Yu
- College of Plant Protection, Southwest University, Chongqing, China
| | - Chaowei Bi
- College of Plant Protection, Southwest University, Chongqing, China
| | - Anfei Fang
- College of Plant Protection, Southwest University, Chongqing, China
| | - Yuheng Yang
- College of Plant Protection, Southwest University, Chongqing, China
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18
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Feng F, Yang C, Li M, Zhan S, Liu H, Chen A, Wang J, Zhang Z, Gu L. Key molecular events involved in root exudates-mediated replanted disease of Rehmannia glutinosa. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2022; 172:136-150. [PMID: 35065374 DOI: 10.1016/j.plaphy.2022.01.014] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2021] [Revised: 01/12/2022] [Accepted: 01/16/2022] [Indexed: 06/14/2023]
Abstract
The perennial herbaceous plant, Rehmannia glutinosa Libosch, is one of traditional Chinese medicines with a long history of cultivation. However, replanted disease severely affects its yield and quality in production. In this study, a specific culture device was designed to accurately isolate the root exudates of R. glutinosa. In addition, the formation mechanism of replanted diseases mediated by root exudates was deeply studied in R. glutinosa. The results indicated that root exudates have obvious allelopathic activity, furthermore, metagenomics analysis found that the exudates were found to significantly induce the proliferation of harmful pathogenic fungal and the reduction of probiotics in rhizosphere of R. glutinosa. Further analysis found that, 8,758 genes were differentially expressed in root exudate-treated R. glutinosa plants. These genes mainly involved in critical cellular processes including immune response, hormone metabolism, signaling transduction and cell membrane transport. Of which, numerous genes were found to involve in immune response, such as PR (Pathogenesis-related protein), were highly expressed in root exudate-treated plants. Transiently overexpression experiments found that a PR1 could enhance the resistance of R. glutinosa to root exudates treatment. These results indicated that the interaction between root exudates and microbes altered the expression pattern of the genes related to immune pathway and signaling transduction mediated by it. These disordered genes finally severely affected the growth and development of R. glutinosa, and eventually formed the replanted disease. This study provides a novel approach to collect root exudates and a new data basis for revealing the molecular events occurring in replanted plants.
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Affiliation(s)
- Fajie Feng
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Chuyun Yang
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Mingjie Li
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Shangyu Zhan
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Hongyan Liu
- College of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan, 250355, China
| | - Aiguo Chen
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China; Qingdao Special Crop Research Center, Tobacco Research Institute of Chinese Academy of Agricultural Sciences, Qingdao, 266101, China
| | - Jianmin Wang
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Zhongyi Zhang
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Li Gu
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China.
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19
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Zhang H, Rutherford S, Qi S, Huang P, Dai Z, Du D. Transcriptome profiling of Arabidopsis thaliana roots in response to allelopathic effects of Conyza canadensis. ECOTOXICOLOGY (LONDON, ENGLAND) 2022; 31:53-63. [PMID: 34647200 DOI: 10.1007/s10646-021-02489-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 09/27/2021] [Indexed: 06/13/2023]
Abstract
The molecular mechanisms underlying allelopathy and their role in the interactions between invasive weeds and native species remain unclear. In this study, we aimed to explore the physiological and molecular response of plant roots of a native species to allelopathy from an invasive weed. We examined the growth and development of roots of native Arabidopsis thaliana for a 2-week period after being treated with aqueous extracts at different concentrations from invasive Conyza canadensis. Extracts with higher concentration in the Murashige and Skoog (MS) media (i.e., 4 mg of extract/mL of MS) significantly affected the root growth of A. thaliana. Roots of A. thaliana displayed weakened root tip activity and an accumulation of reactive oxygen species (ROS) in response to extracts from C. canadensis. The transcriptome analysis of A. thaliana roots exposed to phytotoxicity revealed differentially expressed genes (DEGs) involved in cell wall formation, abiotic stress, transporter genes and signal transduction. We found that genes associated with nutrient transport, such as major facilitator superfamily (MFS) and amino acid permease (AAP3) transporters as well as genes involved in stress response, including leucine-rich repeat receptor-like protein kinases (LRR-RLKs) were down-regulated. In addition, we found that many transcription factors associated with plant stress (such as APETALA2/ethylene response factors) were up-regulated while others (e.g., zinc-finger proteins) were down-regulated. Allelochemicals from C. canadensis also induced the up-regulation of detoxification (DTX) genes, ROS related genes, calcineurin B-like interacting protein kinases (CIPKs) and calmodulin. Overall, our findings provided insights into allelopathy in C. canadensis at the molecular level, and contributes to our understanding of invasion mechanisms of alien plant species. CLINICAL TRIALS REGISTRATION: This study does not contain any studies with clinical trials performed by any of the authors.
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Affiliation(s)
- Haiyan Zhang
- Institute of Environment and Ecology, School of the Environment Safety Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China
- Changzhou Environmental Monitoring Center, Puqian Street 149, Changzhou, 213000, PR China
| | - Susan Rutherford
- Institute of Environment and Ecology, School of the Environment Safety Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China
- The Royal Botanic Gardens and Domain Trust, MrsMacquaries Road, Sydney, NSW, 2000, Australia
| | - Shanshan Qi
- Institute of Agricultural Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China
| | - Ping Huang
- Institute of Environment and Ecology, School of the Environment Safety Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China
| | - Zhicong Dai
- Institute of Environment and Ecology, School of the Environment Safety Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China.
- Institute of Agricultural Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China.
| | - Daolin Du
- Institute of Environment and Ecology, School of the Environment Safety Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China.
- Institute of Agricultural Engineering, Jiangsu University, Xuefu Road 301, Zhenjiang, 212013, PR China.
- Jiangsu Collaborative Innovation Center of Technology and Material of Water Treatment, Suzhou University of Science and Technology, Suzhou, 215009, PR China.
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20
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Anten NPR, Chen BJW. Kin discrimination in allelopathy and consequences for agricultural weed control. PLANT, CELL & ENVIRONMENT 2021; 44:3475-3478. [PMID: 34449084 PMCID: PMC9290514 DOI: 10.1111/pce.14173] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Revised: 07/23/2021] [Accepted: 08/06/2021] [Indexed: 06/08/2023]
Affiliation(s)
- Niels P. R. Anten
- Crop & Weed Ecology Group, Centre for Crop Systems AnalysisWageningen UniversityWageningenThe Netherlands
| | - Bin J. W. Chen
- College of Biology and the EnvironmentNanjing Forestry UniversityNanjingChina
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21
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Christopher JM, Mohan M, Sridharan R, Somasundaram S, Ganesan S. Biosurfactant matrix for the environmental clean-up of dichlorophenol from aqueous medium and soil. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:64278-64294. [PMID: 34302601 DOI: 10.1007/s11356-021-15265-8] [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: 03/01/2021] [Accepted: 06/28/2021] [Indexed: 06/13/2023]
Abstract
Chlorophenols are used in many industries for their importance in preservation and herbicide preparation even though they possess high-risk factors. The prolonged usage of these compounds makes it very complicated to remove them from water and soil by conventional treatment methods. Biosurfactant are the promising structures with the ability to remove contaminants effectively. In this work, an attempt has been made to eliminate 2,4-dichlorophenol from soil and water using amino acid-enhanced cationic biosurfactant obtained from Bacillus axarquiensis. The produced BS has the ability to reduce the surface tension to 30.0 mN m-1. From RSM, the optimum conditions for the maximum production of BS were obtained at time 95 h; pH 7; temperature 35 °C, and concentration of substrate 5%. The BS was immobilized using a solid support matrix for the stability. The environmental factors such as temperature and pH have no effect on the matrix used and found to be viable even under extreme conditions. The removal efficiency was achieved in the range of 93-96% from water and 80-85% from soil. Additionally, the recyclability and reusability of the matrix were also analyzed, and it withstands up to 8 cycles. As a result, the significance of biosurfactant by enhancing the amino acid content was explored in remediation technology.
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Affiliation(s)
- Judia Magthalin Christopher
- Environmental Science Laboratory, Council of Scientific & Industrial Research (CSIR) - Central Leather Research Institute (CLRI), Adyar, Chennai, Tamil Nadu, 600020, India
- Department of Leather Technology, Alagappa College of Technology, Anna University, Adyar, Chennai, Tamil Nadu, 600020, India
| | - Monica Mohan
- Environmental Science Laboratory, Council of Scientific & Industrial Research (CSIR) - Central Leather Research Institute (CLRI), Adyar, Chennai, Tamil Nadu, 600020, India
| | - Rajalakshmi Sridharan
- Environmental Science Laboratory, Council of Scientific & Industrial Research (CSIR) - Central Leather Research Institute (CLRI), Adyar, Chennai, Tamil Nadu, 600020, India
| | - Swarnalatha Somasundaram
- Environmental Science Laboratory, Council of Scientific & Industrial Research (CSIR) - Central Leather Research Institute (CLRI), Adyar, Chennai, Tamil Nadu, 600020, India.
- Department of Leather Technology, Alagappa College of Technology, Anna University, Adyar, Chennai, Tamil Nadu, 600020, India.
| | - Sekaran Ganesan
- SRMIST, Ramapuram Campus, Chennai, Tamil Nadu, 600089, India
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22
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Yu E, Yamaji N, Mochida K, Galis I, Asaka K, Ma JF. LYSINE KETOGLUTARATE REDUCTASE TRANS-SPLICING RELATED 1 is involved in temperature-dependent root growth in rice. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:6336-6349. [PMID: 34037776 DOI: 10.1093/jxb/erab240] [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: 04/09/2021] [Accepted: 05/22/2021] [Indexed: 06/12/2023]
Abstract
Root length is an important root parameter directly related to the uptake of water and nutrients. However, the molecular mechanisms controlling root length are still not fully understood. Here, we isolated a short-root mutant of rice, dice2 (defective in cell elongation 2). The cell length and meristem size of the roots were decreased in dice2, but the root function in terms of mineral element uptake, root cell width, and root anatomy were hardly altered compared with wild-type (WT) rice. The root growth defect in dice2 could be partially rescued by high temperature. Map-based cloning combined with a complementation test revealed that the short-root phenotype was caused by a nonsense mutation in a gene which was annotated to encode Lysine Ketoglutarate Reductase Trans-Splicing related 1 (OsLKRT1). OsLKRT1, encoding a cytosol-localized protein, was expressed in all cells of the root tip and elongation region as well as the shoot. RNA-seq analysis showed that there was no difference between dice2 and the WT in the expression level of genes involved in root development identified so far. These results indicate that OsLKRT1 is involved in a novel pathway required for root cell elongation in rice, although its exact role remains to be further investigated.
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Affiliation(s)
- En Yu
- Institute of Plant Science and Resources, Okayama University, Chuo 2-20-1, Kurashiki, Japan
| | - Naoki Yamaji
- Institute of Plant Science and Resources, Okayama University, Chuo 2-20-1, Kurashiki, Japan
| | - Keiich Mochida
- Institute of Plant Science and Resources, Okayama University, Chuo 2-20-1, Kurashiki, Japan
- RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro-cho, Tsurumi, Yokohama, Japan
| | - Ivan Galis
- Institute of Plant Science and Resources, Okayama University, Chuo 2-20-1, Kurashiki, Japan
| | - Kanatani Asaka
- RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro-cho, Tsurumi, Yokohama, Japan
| | - Jian Feng Ma
- Institute of Plant Science and Resources, Okayama University, Chuo 2-20-1, Kurashiki, Japan
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Serra Serra N, Shanmuganathan R, Becker C. Allelopathy in rice: a story of momilactones, kin recognition, and weed management. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:4022-4037. [PMID: 33647935 DOI: 10.1093/jxb/erab084] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2020] [Accepted: 02/19/2021] [Indexed: 06/12/2023]
Abstract
In the struggle to secure nutrient access and to outperform competitors, some plant species have evolved a biochemical arsenal with which they inhibit the growth or development of neighbouring plants. This process, known as allelopathy, exists in many of today's major crops, including rice. Rice synthesizes momilactones, diterpenoids that are released into the rhizosphere and inhibit the growth of numerous plant species. While the allelopathic potential of rice was recognized decades ago, many questions remain unresolved regarding the biosynthesis, exudation, and biological activity of momilactones. Here, we review current knowledge on momilactones, their role in allelopathy, and their potential to serve as a basis for sustainable weed management. We emphasize the gaps in our current understanding of when and how momilactones are produced and of how they act in plant cells, and outline what we consider the next steps in momilactone and rice allelopathy research.
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Affiliation(s)
- Núria Serra Serra
- Gregor Mendel Institute of Molecular Plant Biology, Austrian Academy of Sciences, Vienna BioCenter (VBC), 1030 Vienna, Austria
| | - Reshi Shanmuganathan
- Gregor Mendel Institute of Molecular Plant Biology, Austrian Academy of Sciences, Vienna BioCenter (VBC), 1030 Vienna, Austria
- Genetics, LMU Biocenter, Ludwig-Maximilians University, D-82152 Martinsried, Germany
| | - Claude Becker
- Gregor Mendel Institute of Molecular Plant Biology, Austrian Academy of Sciences, Vienna BioCenter (VBC), 1030 Vienna, Austria
- Genetics, LMU Biocenter, Ludwig-Maximilians University, D-82152 Martinsried, Germany
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24
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Marzec M, Situmorang A, Brewer PB, Brąszewska A. Diverse Roles of MAX1 Homologues in Rice. Genes (Basel) 2020; 11:E1348. [PMID: 33202900 PMCID: PMC7709044 DOI: 10.3390/genes11111348] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2020] [Revised: 10/30/2020] [Accepted: 11/10/2020] [Indexed: 02/07/2023] Open
Abstract
Cytochrome P450 enzymes encoded by MORE AXILLARY GROWTH1 (MAX1)-like genes produce most of the structural diversity of strigolactones during the final steps of strigolactone biosynthesis. The diverse copies of MAX1 in Oryza sativa provide a resource to investigate why plants produce such a wide range of strigolactones. Here we performed in silico analyses of transcription factors and microRNAs that may regulate each rice MAX1, and compared the results with available data about MAX1 expression profiles and genes co-expressed with MAX1 genes. Data suggest that distinct mechanisms regulate the expression of each MAX1. Moreover, there may be novel functions for MAX1 homologues, such as the regulation of flower development or responses to heavy metals. In addition, individual MAX1s could be involved in specific functions, such as the regulation of seed development or wax synthesis in rice. Our analysis reveals potential new avenues of strigolactone research that may otherwise not be obvious.
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Affiliation(s)
- Marek Marzec
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellonska 28, 40-032 Katowice, Poland;
| | - Apriadi Situmorang
- ARC Centre of Excellence in Plant Energy Biology, Waite Research Institute, School of Agriculture, Food and Wine, The University of Adelaide, Glen Osmond, SA 5064, Australia; (A.S.); (P.B.B.)
| | - Philip B. Brewer
- ARC Centre of Excellence in Plant Energy Biology, Waite Research Institute, School of Agriculture, Food and Wine, The University of Adelaide, Glen Osmond, SA 5064, Australia; (A.S.); (P.B.B.)
| | - Agnieszka Brąszewska
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellonska 28, 40-032 Katowice, Poland;
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25
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Cheng S, Tan F, Lu Y, Liu X, Li T, Yuan W, Zhao Y, Zhou DX. WOX11 recruits a histone H3K27me3 demethylase to promote gene expression during shoot development in rice. Nucleic Acids Res 2019; 46:2356-2369. [PMID: 29361035 PMCID: PMC5861455 DOI: 10.1093/nar/gky017] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2017] [Accepted: 01/09/2018] [Indexed: 02/07/2023] Open
Abstract
WUSCHEL-related homeobox (WOX) genes are key regulators of meristem activity and plant development, the chromatin mechanism of which to reprogram gene expression remains unclear. Histone H3K27me3 is a chromatin mark of developmentally repressed genes. How the repressive mark is removed from specific genes during plant development is largely unknown. Here, we show that WOX11 interacts with the H3K27me3 demethylase JMJ705 to activate gene expression during shoot development in rice. Genetic analysis indicates that WOX11 and JMJ705 cooperatively control shoot growth and commonly regulate the expression of a set of genes involved in meristem identity, chloroplast biogenesis, and energy metabolism in the shoot apex. Loss of WOX11 led to increased H3K27me3 and overexpression of JMJ705 decreased the methylation levels at a subset of common targets. JMJ705 is associated with most of the WOX11-binding sites found in the tested common targets in vivo, regardless of presence or absence of the JMJ705-binding motif. Furthermore, wox11 mutation reduced JMJ705-binding to many targets genome-wide. The results suggest that recruitment of JMJ705 to specific developmental pathway genes is promoted by DNA-binding transcription factors and that WOX11 functions to stimulate shoot growth through epigenetic reprogramming of genes involved in meristem development and energy-generating pathways.
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Affiliation(s)
- Saifeng Cheng
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Feng Tan
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Yue Lu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Xiaoyun Liu
- Institute for Interdisciplinary Research, Jianghan University, 430056 Wuhan, China
| | - Tiantian Li
- Institute for Systems Biology, Jianghan University, 430056 Wuhan, China
| | - Wenjia Yuan
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Yu Zhao
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China
| | - Dao-Xiu Zhou
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, 430070 Wuhan, China.,Institute of Plant Science Paris-Saclay (IPS2), CNRS, INRA, Université Paris-sud 11, Université Paris- Saclay, Bâtiment 630, 91405 Orsay, France
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26
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Hao H, Zhang J, Wang H, Wang Q, Chen M, Juan J, Feng Z, Chen H. Comparative transcriptome analysis reveals potential fruiting body formation mechanisms in Morchella importuna. AMB Express 2019; 9:103. [PMID: 31300949 PMCID: PMC6626090 DOI: 10.1186/s13568-019-0831-4] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2019] [Accepted: 07/04/2019] [Indexed: 01/02/2023] Open
Abstract
Morchella importuna has been artificially cultivated, but stable production remains difficult because its mechanisms of fruiting body formation are unclear. To investigate the fruiting body formation mechanisms, we sequenced the transcriptomes of Morchella importuna at the mycelial and young fruiting body stages. Among the 12,561 differentially expressed genes (DEGs), 9215 were upregulated, and 3346 were downregulated. DEG enrichment analysis showed that these genes were enriched in the "generation of precursor metabolites and energy", "carbohydrate catabolic process", and "oxidoreductase activity" Gene Ontology (GO) functional categories. Enzyme activity assay results indicated that the activity levels of CAZymes (carbohydrate-active enzymes), oxidoreductases (SOD (superoxide dismutase), CAT (catalase)) and mitochondrial complex (complex I, II, III) proteins were significantly increased from the mycelial stage to the young fruiting body stage. In addition, the genes encoding CAZymes, mitochondrial proteins, oxidoreductases and heat shock proteins had higher expression levels in the young fruiting body stage than in the mycelial stage, and the qRT-PCR results showed similar trends to the RNA-Seq results. In summary, these results suggest that carbohydrate catabolism and energy metabolism are significantly enhanced in the young fruiting body stage and that growth environment temperature changes affect the formation of fruiting bodies.
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27
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Abd-Elgawad ME, Alotaibi MO. Genetic Diversity Among Saudi Peganum harmala and Rhazya stricta Populations Using Chemical and ISSR Markers. Curr Pharm Biotechnol 2019; 20:1134-1146. [PMID: 31237203 DOI: 10.2174/1389201020666190619105249] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Revised: 05/28/2019] [Accepted: 05/29/2019] [Indexed: 11/22/2022]
Abstract
BACKGROUND The vernacular name 'Harmal' is used for two plant species in Saudi Arabia, i.e. Peganum harmala L. and Rhazya stricta Decne. Both are important medicinal plants which offer interesting pharmacological properties. OBJECTIVE This study aimed to evaluate the genetic diversity among different populations of harmal based on chemical variations of alkaloids and molecular polymorphism. METHODS Total alkaloids were extracted from plants of three populations of each species and estimated by using spectrophotometer and the chemical compounds were analyzed by Gas chromatography mass spectrometry (GC-MS). Molecular polymorphism was estimated by using the Inter Simple Sequence Repeat (ISSR) fingerprints. RESULTS The results showed that the alkaloids content of R. stricta was higher than P. harmala populations. The GC-MS analysis revealed the presence of (65-53) compounds in R. stricta and P. harmala, and the percentage of polymorphism was found to be 93.2%. Sixteen ISSR primers produced 170 scorable bands with an average of 9.6 bands per primer and 75%-100% polymorphism. The cluster analysis using the unweighted pair-group method of the arithmetic average (UPGMA) method based on combined data of GC-MS and ISSR markers divided the six harmal genotypes into two major groups. CONCLUSION The existence of variations in chemical and genetic markers is useful for the selection of potential genotypes for medicinal use, and for breeding lines for medicinal substances production to spare wild plants from uncontrolled harvesting for folk medicine.
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Affiliation(s)
- Magda E Abd-Elgawad
- Biology Department, Faculty of Science, Princess Nora bent Abdul-Rahman University, Riyadh, Saudi Arabia.,Botany Department, Faculty of Science, Fayoum University, Fayoum, Egypt
| | - Modhi O Alotaibi
- Biology Department, Faculty of Science, Princess Nora bent Abdul-Rahman University, Riyadh, Saudi Arabia
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28
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Yang M, Chuan Y, Guo C, Liao J, Xu Y, Mei X, Liu Y, Huang H, He X, Zhu S. Panax notoginseng Root Cell Death Caused by the Autotoxic Ginsenoside Rg 1 Is Due to Over-Accumulation of ROS, as Revealed by Transcriptomic and Cellular Approaches. FRONTIERS IN PLANT SCIENCE 2018; 9:264. [PMID: 29541087 PMCID: PMC5836058 DOI: 10.3389/fpls.2018.00264] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2017] [Accepted: 02/14/2018] [Indexed: 05/22/2023]
Abstract
Panax notoginseng is a highly valuable medicinal herb, but its culture is strongly hindered by replant failure, mainly due to autotoxicity. Deciphering the response mechanisms of plants to autotoxins is critical for overcoming the observed autotoxicity. Here, we elucidated the response of P. notoginseng to the autotoxic ginsenoside Rg1 via transcriptomic and cellular approaches. Cellular analyses demonstrated that Rg1 inhibited root growth by disrupting the cell membrane and wall. Transcriptomic analyses confirmed that genes related to the cell membrane, cell wall decomposition and reactive oxygen species (ROS) metabolism were up-regulated by Rg1 stress. Further cellular analyses revealed that Rg1 induced ROS ([Formula: see text] and H2O2) accumulation in root cells by suppressing ascorbate peroxidase (APX) and the activities of enzymes involved in the ascorbate-glutathione (ASC-GSH) cycle. Exogenous antioxidants (ASC and gentiobiose) helped cells scavenge over-accumulated ROS by promoting superoxide dismutase (SOD) activity and the ASC-GSH cycle. Collectively, the autotoxin Rg1 caused root cell death by inducing the over-accumulation of ROS, and the use of exogenous antioxidants could represent a strategy for overcoming autotoxicity.
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Affiliation(s)
- Min Yang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Youcong Chuan
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Cunwu Guo
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Jingjing Liao
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Yanguo Xu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Xinyue Mei
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Yixiang Liu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Huichuan Huang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Xiahong He
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
| | - Shusheng Zhu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Key Laboratory for Agro-biodiversity and Pest Control of the Ministry of Education, Yunnan Agricultural University, Kunming, China
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29
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Huang LY, Lin CW, Lee RH, Chiang CY, Wang YC, Chang CH, Huang HJ. Integrating Early Transcriptomic Responses to Rhizotoxins in Rice ( Oryza sativa. L.) Reveals Key Regulators and a Potential Early Biomarker of Cadmium Toxicity. FRONTIERS IN PLANT SCIENCE 2017; 8:1432. [PMID: 28868059 PMCID: PMC5563368 DOI: 10.3389/fpls.2017.01432] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/21/2017] [Accepted: 08/03/2017] [Indexed: 06/07/2023]
Abstract
As sessile organisms, plants were constantly challenged with biotic and abiotic stresses. Transcriptional activation of stress-responsive genes is a crucial part of the plant adaptation to environmental changes. Here, early response of rice root to eight rhizotoxic stressors: arsenate, copper, cadmium, mercury, chromate, vanadate, ferulic acid and juglone, was analyzed using published microarray data. There were 539 general stress response (GSR) genes up-regulated under all eight treatments, including genes related to carbohydrate metabolism, phytohormone balance, and cell wall structure. Genes related to transcriptional coactivation showed higher Ka/Ks ratio compared to the other GSR genes. Network analysis discovered complicated interaction within GSR genes and the most connected signaling hubs were WRKY53, WRKY71, and MAPK5. Promoter analysis discovers enriched SCGCGCS cis-element in GSR genes. Moreover, GSR genes tend to be intronless and genes with shorter total intron length were induced in a higher level. Among genes uniquely up-regulated by a single stress, a phosphoenolpyruvate carboxylase kinase (PPCK) was identified as a candidate biomarker for detecting cadmium contamination. Our findings provide insights into the transcriptome dynamics of molecular response of rice to different rhizotoxic stress and also demonstrate potential use of comparative transcriptome analysis in identifying a novel potential early biomarker.
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Affiliation(s)
- Li-Yao Huang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Chung-Wen Lin
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Ruey-Hua Lee
- Institute of Tropical Plant Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Chih-Yun Chiang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Yung-Chuan Wang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Ching-Han Chang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
- Institute of Tropical Plant Sciences, National Cheng Kung UniversityTainan, Taiwan
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30
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Li M, Yang Y, Feng F, Zhang B, Chen S, Yang C, Gu L, Wang F, Zhang J, Chen A, Lin W, Chen X, Zhang Z. Differential proteomic analysis of replanted Rehmannia glutinosa roots by iTRAQ reveals molecular mechanisms for formation of replant disease. BMC PLANT BIOLOGY 2017; 17:116. [PMID: 28693420 PMCID: PMC5504617 DOI: 10.1186/s12870-017-1060-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2016] [Accepted: 06/22/2017] [Indexed: 05/07/2023]
Abstract
BACKGROUND The normal growth of Rehmannia glutinosa, a widely used medicinal plant in China, is severely disturbed by replant disease. The formation of replant disease commonly involves interactions among plants, allelochemicals and microbes; however, these relationships remain largely unclear. As a result, no effective measures are currently available to treat replant disease. RESULTS In this study, an integrated R. glutinosa transcriptome was constructed, from which an R. glutinosa protein library was obtained. iTRAQ technology was then used to investigate changes in the proteins in replanted R. glutinosa roots, and the proteins that were expressed in response to replant disease were identified. An integrated R. glutinosa transcriptome from different developmental stages of replanted and normal-growth R. glutinosa produced 65,659 transcripts, which were accurately translated into 47,818 proteins. Using this resource, a set of 189 proteins was found to be significantly differentially expressed between normal-growth and replanted R. glutinosa. Of the proteins that were significantly upregulated in replanted R. glutinosa, most were related to metabolism, immune responses, ROS generation, programmed cell death, ER stress, and lignin synthesis. CONCLUSIONS By integrating these key events and the results of previous studies on replant disease formation, a new picture of the damaging mechanisms that cause replant disease stress emerged. Replant disease altered the metabolic balance of R. glutinosa, activated immune defence systems, increased levels of ROS and antioxidant enzymes, and initiated the processes of cell death and senescence in replanted R. glutinosa. Additionally, lignin deposition in R. glutinosa roots that was caused by replanting significantly inhibited tuberous root formation. These key processes provide important insights into the underlying mechanisms leading to the formation of replant disease and also for the subsequent development of new control measures to improve production and quality of replanted plants.
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Affiliation(s)
- Mingjie Li
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Yanhui Yang
- College of Bioengineering, Henan University of Technology, Zhengzhou, China
| | - Fajie Feng
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Bao Zhang
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Shuqiang Chen
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Chuyun Yang
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Li Gu
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | | | - Junyi Zhang
- College of Chemical Engineering, Huaqiao University, Xiamen, China
| | - Aiguo Chen
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Wenxiong Lin
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University, Fuzhou, China
| | | | - Zhongyi Zhang
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University, Fuzhou, China
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Lin CW, Huang LY, Huang CL, Wang YC, Lai PH, Wang HV, Chang WC, Chiang TY, Huang HJ. Common Stress Transcriptome Analysis Reveals Functional and Genomic Architecture Differences Between Early and Delayed Response Genes. PLANT & CELL PHYSIOLOGY 2017; 58:546-559. [PMID: 28115496 DOI: 10.1093/pcp/pcx002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2016] [Accepted: 01/02/2017] [Indexed: 06/06/2023]
Abstract
To identify the similarities among responses to diverse environmental stresses, we analyzed the transcriptome response of rice roots to three rhizotoxic perturbations (chromium, ferulic acid and mercury) and identified common early-transient, early-constant and delayed gene inductions. Common early response genes were mostly associated with signal transduction and hormones, and delayed response genes with lipid metabolism. Network component analysis revealed complicated interactions among common genes, the most highly connected signaling hubs being PP2C68, MPK5, LRR-RLK and NPR1. Gene architecture studies revealed different conserved promoter motifs and a different ratio of CpG island distribution between early and delayed genes. In addition, early-transient genes had more exons and a shorter first exon. IMEter was used to calculate the transcription regulation effects of introns, with greater effects for the first introns of early-transient than delayed genes. The higher Ka/Ks (non-synonymous/synonymous mutation) ratio of early-constant genes than early-transient, delayed and the genome median demonstrates the rapid evolution of early-constant genes. Our results suggest that finely tuned transcriptional control in response to environmental stress in rice depends on genomic architecture and signal intensity and duration.
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Affiliation(s)
- Chung-Wen Lin
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Li-Yao Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Chao-Li Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Yong-Chuan Wang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Pei-Hsuan Lai
- Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Hao-Ven Wang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Wen-Chi Chang
- Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Tzen-Yuh Chiang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
- Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, Taiwan
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32
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Svoboda P, Janská A, Spiwok V, Prášil IT, Kosová K, Vítámvás P, Ovesná J. Global Scale Transcriptional Profiling of Two Contrasting Barley Genotypes Exposed to Moderate Drought Conditions: Contribution of Leaves and Crowns to Water Shortage Coping Strategies. FRONTIERS IN PLANT SCIENCE 2016; 7:1958. [PMID: 28083001 PMCID: PMC5187378 DOI: 10.3389/fpls.2016.01958] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2016] [Accepted: 12/09/2016] [Indexed: 05/07/2023]
Abstract
Drought is a serious threat for sustainable agriculture. Barley represents a species well adapted to environmental stresses including drought. To elucidate the adaptive mechanism of barley on transcriptional level we evaluated transcriptomic changes of two contrasting barley cultivars upon drought using the microarray technique on the level of leaves and crowns. Using bioinformatic tools, differentially expressed genes in treated vs. non-treated plants were identified. Both genotypes revealed tissue dehydration under drought conditions as shown at water saturation deficit and osmotic potential data; however, dehydration was more severe in Amulet than in drought-resistant Tadmor under the same ambient conditions. Performed analysis showed that Amulet enhanced expression of genes related to active plant growth and development, while Tadmor regarding the stimulated genes revealed conservative, water saving strategy. Common reactions of both genotypes and tissues included an induction of genes encoding several stress-responsive signaling proteins, transcription factors as well as effector genes encoding proteins directly involved in stress acclimation. In leaf, tolerant cultivar effectively stimulated mainly the expression of genes encoding proteins and enzymes involved in protein folding, sulfur metabolism, ROS detoxification or lipid biosynthesis and transport. The crown specific reaction of tolerant cultivar was an enhanced expression of genes encoding proteins and enzymes involved in cell wall lignification, ABRE-dependent abscisic acid (ABA) signaling, nucleosome remodeling, along with genes for numerous jasmonate induced proteins.
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Affiliation(s)
- Pavel Svoboda
- Division of Crop Genetics and Breeding, Crop Research InstitutePrague, Czechia
| | - Anna Janská
- Faculty of Science, Charles University in PraguePrague, Czechia
| | - Vojtěch Spiwok
- Faculty of Food and Biochemical Technology, University of Chemistry and TechnologyPrague, Czechia
| | - Ilja T. Prášil
- Division of Crop Genetics and Breeding, Crop Research InstitutePrague, Czechia
| | - Klára Kosová
- Division of Crop Genetics and Breeding, Crop Research InstitutePrague, Czechia
| | - Pavel Vítámvás
- Division of Crop Genetics and Breeding, Crop Research InstitutePrague, Czechia
| | - Jaroslava Ovesná
- Division of Crop Genetics and Breeding, Crop Research InstitutePrague, Czechia
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Ortega-Villasante C, Burén S, Barón-Sola Á, Martínez F, Hernández LE. In vivo ROS and redox potential fluorescent detection in plants: Present approaches and future perspectives. Methods 2016; 109:92-104. [DOI: 10.1016/j.ymeth.2016.07.009] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2016] [Revised: 07/08/2016] [Accepted: 07/11/2016] [Indexed: 11/16/2022] Open
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Wu B, Long Q, Gao Y, Wang Z, Shao T, Liu Y, Li Y, Ding W. Comprehensive characterization of a time-course transcriptional response induced by autotoxins in Panax ginseng using RNA-Seq. BMC Genomics 2015; 16:1010. [PMID: 26608743 PMCID: PMC4659204 DOI: 10.1186/s12864-015-2151-7] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2015] [Accepted: 10/27/2015] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND As a valuable medicinal plant, the yield of Panax ginseng is seriously affected by autotoxicity, which is a common phenomenon due to continuous cropping. However, the mechanism of autotoxicity in P. ginseng is still unknown. RESULTS In total, high throughput sequencing of 18 RNA-Seq libraries produced 996,000,000 100-nt reads that were assembled into 72,732 contigs. Compared with control, 3697 and 2828 genes were significantly up- and down-regulated across different tissues and time points, respectively. Gene Ontology enrichment analysis showed that 'enzyme inhibitor activity', 'carboxylesterase activity', 'pectinesterase activity', 'centrosome cycle and duplication' and 'mitotic spindle elongation' were enriched for the up-regulated genes. Transcription factors including AP2s/ERFs, MYBs, and WRKYs were up-regulated in roots after benzoic acid treatment. Moreover, reactive oxygen species, peroxidases and superoxide dismutase contigs were up-regulated in roots after benzoic acid treatment. Physiological and biochemical indexes showed that the proline and malondialdehyde content were restored to lower levels at a later stage after benzoic acid treatment. Benzoic acid inhibited the root hair development in a dose-dependent manner, and several differential expressed genes potentially involved in hair development were identified. Several key contigs in the flavonoid and ginsenoside biosynthesis pathways were repressed. Finally, 58,518 alternative splicing (AS) events from 12,950 genes were found after benzoic acid treatment. Interestingly, contigs in the ginsenoside biosynthetic pathway underwent AS, providing useful information about post-transcriptional regulation in P. ginseng. CONCLUSIONS This study revealed the stress-response molecular mechanisms in P. ginseng induced by benzoic acid.
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Affiliation(s)
- Bin Wu
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Qiliang Long
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Yuan Gao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Zi Wang
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Tianwei Shao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Yanan Liu
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Yong Li
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Wanlong Ding
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
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