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Yang H, Wu Y, Che J, Wu W, Lyu L, Li W. LC-MS and GC-MS Metabolomics Analyses Revealed That Different Exogenous Substances Improved the Quality of Blueberry Fruits under Soil Cadmium Toxicity. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2024; 72:904-915. [PMID: 38112527 DOI: 10.1021/acs.jafc.3c05879] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2023]
Abstract
Exogenous substances (ESs) can regulate plant growth and respond to environmental stress, but the effects of different ESs on blueberry fruit quality under soil cadmium (Cd) toxicity and related metabolic mechanisms are still unclear. In this study, four ES treatments [salicylic acid (SA), spermidine (Spd), 2,4-epibrassinolide (EBR), and melatonin (MT)] significantly increased blueberry fruit size, single-fruit weight, sweetness, and anthocyanin content under soil Cd toxicity and effectively reduced fruit Cd content to safe consumption levels by promoting mineral uptake (Ca, Mg, Mn, Cu and Zn). Furthermore, a total of 445, 360, 429, and 554 differentially abundant metabolites (DAMs) (LC-MS) and 63, 48, 79, and 73 DAMs (GC-MS) were identified from four comparison groups (SA/CK, Spd/CK, EBR/CK and MT/CK), respectively. The analyses revealed that ESs improved blueberry fruit quality and tolerance to Cd toxicity mainly by regulating the changes in metabolites related to ABC transporters, the TCA cycle, flavonoid biosynthesis, and phenylpropanoid biosynthesis.
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Affiliation(s)
- Hao Yang
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China
| | - Yaqiong Wu
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-sen), Nanjing 210014, China
| | - Jilu Che
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China
| | - Wenlong Wu
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-sen), Nanjing 210014, China
| | - Lianfei Lyu
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-sen), Nanjing 210014, China
| | - Weilin Li
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China
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Mehrab N, Chorom M, Norouzi Masir M, Biswas JK, Fernandes de Souza M, Meers E. Impact of soil treatment with Nitrilo Triacetic Acid (NTA) on Cd fractionation and microbial biomass in cultivated and uncultivated calcareous soil. JOURNAL OF ENVIRONMENTAL HEALTH SCIENCE & ENGINEERING 2023; 21:319-332. [PMID: 37869606 PMCID: PMC10584783 DOI: 10.1007/s40201-023-00857-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2022] [Accepted: 04/08/2023] [Indexed: 10/24/2023]
Abstract
Purpose The aim of this study was to evaluate the effectiveness of nitrilotriacetic acid (NTA) on cadmium (Cd) fractions and microbial biomass in a calcareous soil spiked with Cd under cultivated (Zea mays L.) and uncultivated regime subject to soil leaching condition. Expanding investigations related to soil-plant interactions on metal-contaminated soils with insights on microbial activity and associated soil toxicity perspective provides novel perspectives on using metal-chelating agents for soil remediation. Methods The experimental factors were three levels of Cd contamination (0, 25, and 50 mg kg-1 soil) and three levels of NTA (0, 15, and 30 mmol L-1) in loamy soil under maize-cultured and non-cultured conditions. During the experiment, the adding NTA and leaching processes were performed three times. Results The results showed that the amount of leached Cd decreased in cultivated soil compared to uncultivated soil due to partial uptake of soluble Cd by plant roots and changes in Cd fractions in soil, so that Cd leached in Cd50NTA30 was 9.2 and 6.1 mg L-1, respectively, in uncultivated and cultivated soils. Also, Cd leached in Cd25NTA30 was 5.7 and 3.1 mg L-1 respectively, in uncultivated and cultivated soils. The best treatment in terms of chemical and microbial characteristics of the soil with the high percentage of Cd removed from the soil was Cd25NTA30 in cultivated soil. In Cd25NTA30 compared to Cd25NTA0 in cultivated soil, pH (0.25 unit), microbial biomass carbon (MBC, 65.0 mg kg-1), and soil respiration (27.5 mg C-CO2 kg-1 24 h-1) decreased, while metabolic quotient (qCO2, 0.05) and dissolved organic carbon (DOC, 20.0 mg L-1) increased. Moreover, the changes of Cd fractions in Cd25NTA30 in cultivated soil compared to uncultivated soil were as follows; the exchangeable Cd (F1, 0.27 mg kg-1) and Fe/Mn-oxide-bounded Cd (F4, 0.15 mg kg-1) fractions increased, in contrast, carbonate-Cd (F2, 2.67 mg kg-1) and, organically bounded Cd (F3, 0.06 mg kg-1) fractions decreased. NTA had no significant effect on the residual fraction (F5). Conclusion The use of NTA, especially in calcareous soils, where most of the Cd is bound to calcium carbonate, was able to successfully convert insoluble fractions of Cd into soluble forms and increase the removal efficiency of Cd in the phytoremediation method. NTA is a non-toxic chelating agent to improve the accumulation of Cd in maize.
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Affiliation(s)
- Narges Mehrab
- Department of Soil Science, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran
- Department of Green Chemistry and Technology, Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
| | - Mostafa Chorom
- Department of Soil Science, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - Mojtaba Norouzi Masir
- Department of Soil Science, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - Jayanta Kumar Biswas
- Department of Ecological Studies, and International Centre for Ecological Engineering, University of Kalyani, Kalyani, West Bengal India
| | - Marcella Fernandes de Souza
- Department of Green Chemistry and Technology, Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
| | - Erik Meers
- Department of Green Chemistry and Technology, Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
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Zhao F, Saleem M, Xie Z, Wei X, He T, He G. Sensitive or tolerant functional microorganisms under cadmium stress: suggesting potential specific interaction network characteristics in the rhizosphere system of karst potato. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:55932-55947. [PMID: 36913018 DOI: 10.1007/s11356-023-26115-0] [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: 11/04/2022] [Accepted: 02/21/2023] [Indexed: 06/18/2023]
Abstract
The heavy metal cadmium (Cd) pollution in Chinese karst soils threatens food security, and microorganisms play an important role in regulating the migration and transformation of Cd in the soil-plant system. Nevertheless, the interaction characteristics between key microbial communities and environmental factors in response to Cd stress in specific crop environmental systems need to be explored. In this study, the soil (ferralsols)-microbe-crop (potato) system was taken as the object to explore the potato rhizosphere microbiome, using toxicology and molecular biology approaches, to explore the potato rhizosphere soil properties, microbial stress characteristics, and important microbial taxa under Cd stress. We hypothesized that different members of fungal and bacterial microbiome would regulate the resilience of potato rhizosphere and plants to Cd stress in the soil environment. Meanwhile, individual taxa will have different roles in the contaminated rhizosphere ecosystem. We found that soil pH was the main environmental factor affecting fungal community structure; urea-decomposing and nitrate-reducing functional bacteria as well as endosymbiotic and saprophytic functional fungi gradually decreased. In particular, Basidiomycota may play a key role in preventing the migration of Cd from the soil to plants (potato). These findings provide important candidates for screening the cascade of Cd inhibition (detoxification/regulation) from soil to microorganisms to plants. Our work provides an important foundation and research insights for the application of microbial remediation technology in the karst cadmium-contaminated farmland.
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Affiliation(s)
- Fulin Zhao
- College of Agricultural, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Muhammad Saleem
- Department of Biological Sciences, Alabama State University, Montgomery, AL, 36104, USA
| | - Zhao Xie
- Soil and Fertilizer Station of Guizhou Province, Guiyang, People's Republic of China
| | - Xiaoliao Wei
- College of Agricultural, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Tengbing He
- College of Agricultural, Guizhou University, Guiyang, 550025, People's Republic of China
- Institute of New Rural Development of Guizhou University, Guiyang, 550025, People's Republic of China
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Guandi He
- College of Agricultural, Guizhou University, Guiyang, 550025, People's Republic of China.
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, 550025, People's Republic of China.
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Wang Y, Bai J, Zhang L, Liu H, Wang W, Liu Z, Zhang G. Advances in studies on the plant rhizosphere microorganisms in wetlands: A visualization analysis based on CiteSpace. CHEMOSPHERE 2023; 317:137860. [PMID: 36649898 DOI: 10.1016/j.chemosphere.2023.137860] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2022] [Revised: 12/29/2022] [Accepted: 01/11/2023] [Indexed: 06/17/2023]
Abstract
Rhizosphere microorganisms and their interactions with plants in wetlands have recently attracted much attention due to their importance in enhancing plant environmental adaptation, removing wetland pollutants, and alleviating climate change. However, the fluctuating hydrological environment of wetlands leads to more complex dynamics in the rhizosphere environment. Research progress and hotspots concerning plant-rhizosphere microorganisms under special wetland environments are still kept unclear. To better understand the current research status, hotspots and trends of rhizosphere microorganisms in wetlands, we used CiteSpace bibliometric software to visualize and analyze 231 English-language publications from the Web of Science core collection database. Here, we reviewed the role played by various countries, institutions, and scholars in the studies of plant rhizosphere microorganisms in wetlands based on cooperation network analysis. We discussed the shift from bioremediation and nutrient removal to rhizosphere microbial community composition as a research hotspot for plant rhizosphere microorganisms in wetlands according to keyword co-occurrence and clustering analysis. Finally, we highlighted that more attention should be paid to the ecological functions of rhizosphere microorganisms in different wetland ecosystems, and the plant‒microbe microinterface processes and interaction patterns should be explored in depth to provide new indicators for the evaluation of wetland ecosystem functions.
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Affiliation(s)
- Yaqi Wang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, PR China
| | - Junhong Bai
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, PR China.
| | - Ling Zhang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, PR China
| | - Haizhu Liu
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, PR China
| | - Wei Wang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, PR China
| | - Zhe Liu
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, PR China
| | - Guangliang Zhang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, PR China
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Liu J, Zhang D, Luo Y, Zhang Y, Xu L, Chen P, Wu E, Ma Q, Wang H, Zhao L, Feng B. Cadmium tolerance and accumulation from the perspective of metal ion absorption and root exudates in broomcorn millet. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 250:114506. [PMID: 36608571 DOI: 10.1016/j.ecoenv.2023.114506] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Revised: 12/27/2022] [Accepted: 01/02/2023] [Indexed: 06/17/2023]
Abstract
Cadmium (Cd) is a persistent heavy metal that poses environmental and public health concerns. This study aimed to identify the potential biomarkers responsible for Cd tolerance and accumulation by investigating the response of the content of essential metal elements, transporter gene expression, and root exudates to Cd stress in broomcorn millet (Panicum miliaceum). A hydroponics experiment was conducted using two broomcorn millet cultivars with distinct Cd tolerance levels and accumulation phenotypes (Cd-tolerant and Cd-sensitive cultivars). Cd stress inhibited lateral root growth, especially in the Cd-sensitive cultivar. Furthermore, Cd accumulation was significantly greater in the Cd-tolerant cultivar than in the Cd-sensitive cultivar. Cd stress significantly inhibited the absorption of essential metal elements and significantly increased the calcium concentration. Differentially expressed genes involved in metal ion transport were identified via transcriptome analysis. Cd stress altered the composition of root exudates, thus increasing lipid species and decreasing alkaloid, lignan, sugar, and alcohol species. Moreover, Cd stress significantly reduced most alkaloid, organic acid, and phenolic acid exudates in the Cd-tolerant cultivar, while it increased most lipid and phenolic acid exudates in the Cd-sensitive cultivar. Some significantly changed root exudates (ferulic acid, O-coumaric acid, and spermine) are involved in the phenylalanine biosynthesis, and arginine and proline metabolic pathways, thus, may be potential biomarkers of Cd stress response. Overall, metal ion absorption and root exudates are critical for Cd tolerance and accumulation in broomcorn millet. These findings provide valuable insights into improving Cd phytoremediation by applying mineral elements or metabolites.
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Affiliation(s)
- Jiajia Liu
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Dazhong Zhang
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Yan Luo
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Yuanbo Zhang
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Lei Xu
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Pengliang Chen
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Enguo Wu
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Qian Ma
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Honglu Wang
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Lin Zhao
- Shaanxi Provincial Research Academy of Environmental Sciences, Xi'an, Shaanxi 710061, China.
| | - Baili Feng
- College of Agronomy, State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China.
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Asare MO, Száková J, Tlustoš P. The fate of secondary metabolites in plants growing on Cd-, As-, and Pb-contaminated soils-a comprehensive review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:11378-11398. [PMID: 36529801 PMCID: PMC9760545 DOI: 10.1007/s11356-022-24776-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Accepted: 12/11/2022] [Indexed: 04/12/2023]
Abstract
The study used scattered literature to summarize the effects of excess Cd, As, and Pb from contaminated soils on plant secondary metabolites/bioactive compounds (non-nutrient organic substances). Hence, we provided a systematic overview involving the sources and forms of Cd, As, and Pb in soils, plant uptake, mechanisms governing the interaction of these risk elements during the formation of secondary metabolites, and subsequent effects. The biogeochemical characteristics of soils are directly responsible for the mobility and bioavailability of risk elements, which include pH, redox potential, dissolved organic carbon, clay content, Fe/Mn/Al oxides, and microbial transformations. The radial risk element flow in plant systems is restricted by the apoplastic barrier (e.g., Casparian strip) and chelation (phytochelatins and vacuole sequestration) in roots. However, bioaccumulation is primarily a function of risk element concentration and plant genotype. The translocation of risk elements to the shoot via the xylem and phloem is well-mediated by transporter proteins. Besides the dysfunction of growth, photosynthesis, and respiration, excess Cd, As, and Pb in plants trigger the production of secondary metabolites with antioxidant properties to counteract the toxic effects. Eventually, this affects the quantity and quality of secondary metabolites (including phenolics, flavonoids, and terpenes) and adversely influences their antioxidant, antiinflammatory, antidiabetic, anticoagulant, and lipid-lowering properties. The mechanisms governing the translocation of Cd, As, and Pb are vital for regulating risk element accumulation in plants and subsequent effects on secondary metabolites.
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Affiliation(s)
- Michael O Asare
- Department of Agroenvironmental Chemistry and Plant Nutrition, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences, Kamýcká 129, 165 21, Prague 6, Czech Republic.
| | - Jiřina Száková
- Department of Agroenvironmental Chemistry and Plant Nutrition, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences, Kamýcká 129, 165 21, Prague 6, Czech Republic
| | - Pavel Tlustoš
- Department of Agroenvironmental Chemistry and Plant Nutrition, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences, Kamýcká 129, 165 21, Prague 6, Czech Republic
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Jin J, Huang R, Wang J, Wang C, Liu R, Zhang H, Deng M, Li S, Li X, Tang R, Li C. Increase in Cd Tolerance through Seed-Borne Endophytic Fungus Epichloë gansuensis Affected Root Exudates and Rhizosphere Bacterial Community of Achnatherum inebrians. Int J Mol Sci 2022; 23:13094. [PMID: 36361880 PMCID: PMC9654189 DOI: 10.3390/ijms232113094] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2022] [Revised: 10/23/2022] [Accepted: 10/25/2022] [Indexed: 08/19/2023] Open
Abstract
Soil cadmium (Cd) pollution is a serious environmental problem imperiling food safety and human health. The endophyte Epichloë gansuensis can improve the tolerance of Achnatherum inebrians to Cd stress. However, it is still unknown whether and how the endophyte helps host plants build up a specific bacterial community when challenged by CdCl2. In this study, the responses of the structure and function of bacterial community and root exudates of E+ (E. gansuensis infected) and E- (E. gansuensis uninfected) plants to Cd stress were investigated. Analysis of bacterial community structure indicated that the rhizosphere bacterial community predominated over the root endosphere bacterial community in enhancing the resistance of CdCl2 in a host mediated by E. gansuensis. E+ plant strengthened the interspecific cooperation of rhizosphere bacterial species. Moreover, the analysis of root exudates demonstrated E. gansuensis and increased the contents of organic acids and amino acids under Cd stress, and most root exudates were significantly correlated with rhizosphere bacteria. These results suggested that E. gansuensis employed a specific strategy to recruit distinct rhizosphere bacterial species and relevant functions by affecting root exudates to improve the tolerance of the host to Cd stress. This study provides a firm foundation for the potential application of symbionts in improving phytostabilization efficiency.
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Affiliation(s)
- Jie Jin
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Rong Huang
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Jianfeng Wang
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
- State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Xining 810016, China
| | - Chao Wang
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Ronggui Liu
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Hanwen Zhang
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Maohua Deng
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Shicai Li
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Xinglu Li
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Rong Tang
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
| | - Chunjie Li
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, Collaborative Innovation Center for Western Ecological Safety, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
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Lopez-Guerrero MG, Wang P, Phares F, Schachtman DP, Alvarez S, van Dijk K. A glass bead semi-hydroponic system for intact maize root exudate analysis and phenotyping. PLANT METHODS 2022; 18:25. [PMID: 35246193 PMCID: PMC8897885 DOI: 10.1186/s13007-022-00856-4] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/12/2021] [Accepted: 02/08/2022] [Indexed: 06/14/2023]
Abstract
BACKGROUND Although there have been numerous studies describing plant growth systems for root exudate collection, a common limitation is that these systems require disruption of the plant root system to facilitate exudate collection. Here, we present a newly designed semi-hydroponic system that uses glass beads as solid support to simulate soil impedance, which combined with drip irrigation, facilitates growth of healthy maize plants, collection and analysis of root exudates, and phenotyping of the roots with minimal growth disturbance or root damage. RESULTS This system was used to collect root exudates from seven maize genotypes using water or 1 mM CaCl2, and to measure root phenotype data using standard methods and the Digital imaging of root traits (DIRT) software. LC-MS/MS (Liquid Chromatography-Tandem Mass Spectrometry) and GC-MS (Gas Chromatography-Mass Spectrometry) targeted metabolomics platforms were used to detect and quantify metabolites in the root exudates. Phytohormones, some of which are reported in maize root exudates for the first time, the benzoxazinoid DIMBOA (2,4-Dihydroxy-7-methoxy-1,4-benzoxazin-3-one), amino acids, and sugars were detected and quantified. After validating the methodology using known concentrations of standards for the targeted compounds, we found that the choice of the exudate collection solution affected the exudation and analysis of a subset of analyzed metabolites. No differences between collection in water or CaCl2 were found for phytohormones and sugars. In contrast, the amino acids were more concentrated when water was used as the exudate collection solution. The collection in CaCl2 required a clean-up step before MS analysis which was found to interfere with the detection of a subset of the amino acids. Finally, using the phenotypic measurements and the metabolite data, significant differences between genotypes were found and correlations between metabolites and phenotypic traits were identified. CONCLUSIONS A new plant growth system combining glass beads supported hydroponics with semi-automated drip irrigation of sterile solutions was implemented to grow maize plants and collect root exudates without disturbing or damaging the roots. The validated targeted exudate metabolomics platform combined with root phenotyping provides a powerful tool to link plant root and exudate phenotypes to genotype and study the natural variation of plant populations.
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Affiliation(s)
| | - Peng Wang
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA
- Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA
| | - Felicia Phares
- Nebraska Center for Biotechnology, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA
| | - Daniel P Schachtman
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA
- Center for Plant Science Innovation, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA
| | - Sophie Alvarez
- Nebraska Center for Biotechnology, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA.
| | - Karin van Dijk
- Biochemistry Department, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA.
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Rathi D, Verma JK, Pareek A, Chakraborty S, Chakraborty N. Dissection of grasspea (Lathyrus sativus L.) root exoproteome reveals critical insights and novel proteins. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2022; 316:111161. [PMID: 35151446 DOI: 10.1016/j.plantsci.2021.111161] [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: 07/09/2021] [Revised: 11/20/2021] [Accepted: 12/18/2021] [Indexed: 06/14/2023]
Abstract
The plant exoproteome is crucial because its constituents greatly influence plant phenotype by regulating physiological characteristics to adapt to environmental stresses. The root exudates constitute a dynamic aspect of plant exoproteome, as its molecular composition ensures a beneficial rhizosphere in a species-specific manner. We investigated the root exoproteome of grasspea, a stress-resilient pulse and identified 2861 non-redundant proteins, belonging to a myriad of functional classes, including root development, rhizosphere augmentation as well as defense functions against soil-borne pathogens. Significantly, we identified 1986 novel exoproteome constituents of grasspea, potentially involved in cell-to-cell communication and root meristem maintenance, among other critical roles. Sequence-based comparison revealed that grasspea shares less than 30 % of its exoproteome with the reports so far from model plants as well as crop species. Further, the exoproteome revealed 65 % proteins to be extracellular in nature and of these, 37 % constituents were predicted to follow unconventional protein secretion (UPS) mode. We validated the UPS for four stress-responsive proteins, which were otherwise predicted to follow classical protein secretion (CPS). Conclusively, we recognized not only the highest number of root exudate proteins, but also pinpointed novel signatures of dicot root exoproteome.
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Affiliation(s)
- Divya Rathi
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Jitendra Kumar Verma
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Akanksha Pareek
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Subhra Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Niranjan Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi, 110067, India.
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10
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Zhang M, Cai Z, Zhang G, Zhang D, Pan X. Abiotic mechanism changing tetracycline resistance in root mucus layer of floating plant: The role of antibiotic-exudate complexation. JOURNAL OF HAZARDOUS MATERIALS 2021; 416:125728. [PMID: 33813291 DOI: 10.1016/j.jhazmat.2021.125728] [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: 11/04/2020] [Revised: 03/16/2021] [Accepted: 03/19/2021] [Indexed: 06/12/2023]
Abstract
Antibiotic contamination and antibiotic resistance have caused growing concerns in different aquatic environments. This work investigated the complexation between tetracycline chloride (TCH) and the molecular weight (MW)-fractionated root exudates - the key abiotic mechanism impacting antibiotic fate and antibiotic resistance in rhizosphere. Results show that the affinity of TCH to the high MW exudates (≥10 kDa) facilitated the TCH deposition on roots and meanwhile reinforced the expression of certain tetracycline resistance genes (i.e. tetA) and the growth of tetracycline resistant bacteria. The interaction between TCH and the lower MW exudates (<10 kDa) completely inhibited the bacteria growth even below the minimum inhibitory concentration of TCH. In microcosms, the abiotic interaction between TCH and root exudates made effects along with biotic processes. Persistent TCH stimulation (≥50 µg/L, 7 d) induced the change of tet gene abundance and bacteria phyla composition though the mediation of root exudates made the rhizosphere less sensitive to the TCH stress. Summarily, the affinity of antibiotics to root exudates varied with MWs, which was closely related to (i) the antibiotic fate in the root mucus layer, (ii) the bacteria inhibition capacity of antibiotics, and (iii) the antibiotic resistance and bacterial community.
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Affiliation(s)
- Ming Zhang
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou 310014, China
| | - Zhongxia Cai
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou 310014, China
| | - Guofu Zhang
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou 310014, China
| | - Daoyong Zhang
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou 310014, China.
| | - Xiangliang Pan
- Key Laboratory of Microbial Technology for Industrial Pollution Control of Zhejiang Province, College of Environment, Zhejiang University of Technology, Hangzhou 310014, China; Xinjiang Key Laboratory of Environmental Pollution and Bioremediation, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
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Javed MT, Tanwir K, Abbas S, Saleem MH, Iqbal R, Chaudhary HJ. Chromium retention potential of two contrasting Solanum lycopersicum Mill. cultivars as deciphered by altered pH dynamics, growth, and organic acid exudation under Cr stress. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:27542-27554. [PMID: 33511536 DOI: 10.1007/s11356-020-12269-8] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2020] [Accepted: 12/28/2020] [Indexed: 05/03/2023]
Abstract
Chromium (Cr), being a persistent toxic heavy metal, triggered the retardation of plant's metabolic processes by initiating changes in rhizospheric zone. Current study focused the Cr accumulation potential of two tomato (Solanum lycopersicum Mill.) cultivars through alterations of rhizospheric pH and exudation of organic acids together with plant's ionomics and morpho-physiological responses. Four-week-old seedlings of tomato cultivars (cv. Nakeb and cv. Nadir) were maintained in hydroponic solutions supplemented with 0, 100, 200, and 300 mg/L K2Cr2O7 and a start pH of 6.0. The pH of the growth medium was monitored twice a day up to 6 days as well as mineral contents and morpho-physiological attributes were recorded by harvesting half of plants after 1 week. The remaining half plants were shifted to rhizoboxes for the collection of root exudates. After 6 days, cv. Nakeb exhibited medium acidification by 0.7 units while cv. Nadir showed basification by 0.6 units under 300 mg/L treatment. Increase in applied Cr levels enhanced the root and shoot Cr accumulation in both cultivars with concomitant reduction in growth and accumulation of nutrients (Fe, Zn, K, Mg, and Ca). However, this reduction in biomass and nutrient acquisition was predominant in cv. Nakeb as compared to cv. Nadir. The release of organic acid exudates (citric, acetic, maleic, tartaric, and oxalic acids) was also recorded higher in cv. Nadir at 300 mg/L applied Cr level. This enhanced production of organic acids caused greater retention of mineral nutrients and Cr in cv. Nadir, probably due to growth medium basification. Enhanced exudations of di- and tri- carboxylic organic acids together with accumulation of mineral nutrients are the physiological and biochemical indicators which confer this genotype a better adaptation to Cr polluted biotic systems. Furthermore, it was perceived that organic acid and rhizospheric pH variation response by studied tomato cultivars under Cr stress is an important factor to be considered in food safety and metal remediation programs.
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Affiliation(s)
- Muhammad Tariq Javed
- Department of Botany, Faculty of Life Sciences, Government College University, Faisalabad, 38000, Pakistan.
| | - Kashif Tanwir
- Department of Botany, Faculty of Life Sciences, Government College University, Faisalabad, 38000, Pakistan
| | - Saghir Abbas
- Department of Botany, Faculty of Life Sciences, Government College University, Faisalabad, 38000, Pakistan
| | - Muhammad Hamzah Saleem
- MOA Key Laboratory of Crop Ecophysiology and Farming System Core in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Robina Iqbal
- Department of Botany, Faculty of Life Sciences, Government College University, Faisalabad, 38000, Pakistan
| | - Hassan Javed Chaudhary
- Department of Plant Sciences, Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan
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12
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Sun L, Cao X, Tan C, Deng Y, Cai R, Peng X, Bai J. Analysis of the effect of cadmium stress on root exudates of Sedum plumbizincicola based on metabolomics. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 205:111152. [PMID: 32846297 DOI: 10.1016/j.ecoenv.2020.111152] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Revised: 08/07/2020] [Accepted: 08/08/2020] [Indexed: 06/11/2023]
Abstract
Root exudates are the most direct manifestation of the response of plants changes in the external environment. Therefore, based on non-targeted gas chromatography-time-of-flight mass spectrometry and metabolomics, the response of Sedum plumbizincicola root exudates to Cd stress was used to reveal the possible mechanism of resistance to or accumulation of Cd. The results showed that Cd significantly changed the composition and contents of S. plumbizincicola root exudates. A total of 155 metabolites were identified in S. plumbizincicola root exudates, among which 33 showed significant differences under Cd stress, including organic acids, amino acids, lipids, and polyols. Cd stress suppressed organic acid metabolism and lipid metabolism in S. plumbizincicola and significantly affected amino acid metabolism. There were 16 metabolic pathways related to Cd stress, among which arginine and proline metabolism, valine, leucine, and isoleucine biosynthesis, glycine, serine, and threonine metabolism, glutathione metabolism, and purine metabolism were the key pathways with the highest correlation, and were closely related to the stress resistance of S. plumbizincicola.
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Affiliation(s)
- Lijuan Sun
- College of Resources and Environmental Science, Hunan Normal University, Changsha, 410081, PR China
| | - Xueying Cao
- Rural Vitalization Research Institute, Changsha University, Changsha, 410022, PR China
| | - Changyin Tan
- College of Resources and Environmental Science, Hunan Normal University, Changsha, 410081, PR China.
| | - Yueqiang Deng
- College of Resources and Environmental Science, Hunan Normal University, Changsha, 410081, PR China
| | - Runzhong Cai
- College of Resources and Environmental Science, Hunan Normal University, Changsha, 410081, PR China
| | - Xi Peng
- College of Resources and Environmental Science, Hunan Normal University, Changsha, 410081, PR China
| | - Jia Bai
- College of Resources and Environmental Science, Hunan Normal University, Changsha, 410081, PR China
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Lapie C, Sterckeman T, Paris C, Leglize P. Impact of phenanthrene on primary metabolite profiling in root exudates and maize mucilage. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:3124-3142. [PMID: 31838686 DOI: 10.1007/s11356-019-07298-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2019] [Accepted: 12/04/2019] [Indexed: 06/10/2023]
Abstract
This study was conducted to assess the impact of polycyclic aromatic hydrocarbon on the composition of rhizodeposits. Maize was submitted to increasing phenanthrene (PHE) concentrations in the substrate (0, 25, 50, and 100 mg PHE.kg-1 of dry sand). After 6 weeks of cultivation, two types of rhizodeposit solution were collected. The first one, called rhizospheric sand extract, resulted from the extraction of root adhering sand in order to collect mucilage and associated compounds. The second one, the diffusate solution, was collected by the diffusion of exudates from roots soaked in water. The impact of phenanthrene on maize morphology and functioning was measured prior to the analysis of the main components of the rhizodeposit solutions, by measuring total carbon, protein, amino acid, and sugars as well as by determining about 40 compounds using GC-MS and LC-MS. As maize exposure to PHE increased, different trends were observed in the two rhizodeposit solutions. In the diffusate solution, we measured a global increase of metabolites exudation like carbohydrates, amino acids, and proteins except for some monoglycerides and organic acids which exudation decreased in the presence of PHE. In the rhizospheric sand extract, we witnessed a decrease in carbohydrates and amino acids secretion as well as in fatty and organic acids when plants were exposed to PHE. Many of the compounds measured, like organic acids, carbohydrates, amino acids, or fatty acids, could directly or indirectly drive PAHs availability in soils with particular consequences for their degradation.
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Affiliation(s)
- Clémentine Lapie
- Inrae, Laboratoire Sols et Environnement, Université de Lorraine, F-54000, Nancy, France
| | - Thibault Sterckeman
- Inrae, Laboratoire Sols et Environnement, Université de Lorraine, F-54000, Nancy, France
| | - Cédric Paris
- Laboratoire d'Ingénierie des Biomolécules, Université de Lorraine, F-54000, Nancy, France
- Plateau d'Analyse Structurale et Métabolomique, SF4242, EFABA, Université de Lorraine, Vandœuvre-lès-Nancy, France
| | - Pierre Leglize
- Inrae, Laboratoire Sols et Environnement, Université de Lorraine, F-54000, Nancy, France.
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Reva ON, Swanevelder DZH, Mwita LA, Mwakilili AD, Muzondiwa D, Joubert M, Chan WY, Lutz S, Ahrens CH, Avdeeva LV, Kharkhota MA, Tibuhwa D, Lyantagaye S, Vater J, Borriss R, Meijer J. Genetic, Epigenetic and Phenotypic Diversity of Four Bacillus velezensis Strains Used for Plant Protection or as Probiotics. Front Microbiol 2019; 10:2610. [PMID: 31803155 PMCID: PMC6873887 DOI: 10.3389/fmicb.2019.02610] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2019] [Accepted: 10/28/2019] [Indexed: 12/11/2022] Open
Abstract
Bacillus velezensis strains are applied as ecologically safe biopesticides, plant growth promoting rhizobacteria (PGPR), and in veterinary probiotics. They are abundant in various environments including soil, plants, marine habitats, the intestinal micro-flora, etc. The mechanisms underlying this adaptive plasticity and bioactivity are not well understood, nor is it clear why several strains outperform other same species isolates by their bioactivities. The main objective of this work was to demonstrate versatility of bioactivities and lifestyle strategies of the selected B. velezensis strains suitable to serve as model organisms in future studies. Here, we performed a comparative study of newly sequenced genomes of four B. velezensis isolates with distinct phenotypes and isolation origin, which were assessed by RNA sequencing under the effect of root exudate stimuli and profiled by epigenetic modifications of chromosomal DNA. Among the selected strains, UCMB5044 is an oligotrophic PGPR strain adapted to nutrient poor desert soils. UCMB5113 and At1 are endophytes that colonize plants and require nutrient rich media. In contrast, the probiotic strain, UCMB5007, is a copiotroph, which shows no propensity to colonize plants. PacBio and Illumina sequencing approaches were used to generate complete genome assemblies, tracing epigenetic modifications, and determine gene expression profiles. All sequence data was deposited at NCBI. The strains, UCMB5113 and At1, show 99% sequence identity and similar phenotypes despite being isolated from geographically distant regions. UCMB5007 and UCMB5044 represent another group of organisms with almost identical genomes but dissimilar phenotypes and plant colonization propensity. The two plant associated strains, UCMB5044 and UCMB5113, share 398 genes putatively associated with root colonization, which are activated by exposure to maize root exudates. In contrast, UCMB5007 did not respond to root exudate stimuli. It was hypothesized that alterations in the global methylation pattern and some other epigenetic modifications enable adaptation of strains to different habitats and therefore may be of importance in terms of the biotechnological applicability of these bacteria. Contrary, the ability to grow on root exudates as a sole source of nutrients or a strong antagonism against phytopathogens showed by the strains in vitro cannot be considered as good predictors of PGPR activities.
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Affiliation(s)
- Oleg N Reva
- Centre for Bioinformatics and Computational Biology, Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, South Africa
| | | | - Liberata A Mwita
- Centre for Bioinformatics and Computational Biology, Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, South Africa.,Department of Pharmaceutical Microbiology, Muhimbili University of Health and Allied Sciences, Dar es Salaam, Tanzania
| | - Aneth David Mwakilili
- Department of Molecular Biology and Biotechnology, University of Dar es Salaam, Dar es Salaam, Tanzania.,Department of Plant Protection, Swedish University of Agricultural Sciences, Alnarp, Sweden
| | - Dillon Muzondiwa
- Centre for Bioinformatics and Computational Biology, Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, South Africa
| | - Monique Joubert
- Centre for Bioinformatics and Computational Biology, Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, South Africa
| | - Wai Yin Chan
- Biotechnology Platform, Agricultural Research Council, Pretoria, South Africa.,Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, South Africa.,Forestry and Agricultural Biotechnology Institute, DST-NRF Centre of Excellence in Tree Health Biotechnology, University of Pretoria, Pretoria, South Africa
| | - Stefanie Lutz
- Agroscope, Molecular Diagnostics, Genomics and Bioinformatics and SIB Swiss Institute of Bioinformatics, Wädenswil, Switzerland
| | - Christian H Ahrens
- Agroscope, Molecular Diagnostics, Genomics and Bioinformatics and SIB Swiss Institute of Bioinformatics, Wädenswil, Switzerland
| | - Lylia V Avdeeva
- Department of Antibiotics, D.K. Zabolotny Institute of Microbiology and Virology, Kyiv, Ukraine
| | - Maksim A Kharkhota
- Department of Antibiotics, D.K. Zabolotny Institute of Microbiology and Virology, Kyiv, Ukraine
| | - Donatha Tibuhwa
- Department of Molecular Biology and Biotechnology, University of Dar es Salaam, Dar es Salaam, Tanzania
| | - Sylvester Lyantagaye
- Department of Molecular Biology and Biotechnology, University of Dar es Salaam, Dar es Salaam, Tanzania
| | | | - Rainer Borriss
- Institut für Biologie, Humboldt Universität zu Berlin, Berlin, Germany
| | - Johan Meijer
- Department of Plant Biology, Linnéan Center for Plant Biology, Uppsala Biocenter, Swedish University of Agricultural Sciences, Uppsala, Sweden
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