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Liu C, Liu Z, Cui B, Yang H, Gao C, Chang M, Liu Y. Effects of returning peach branch waste to fields on soil carbon cycle mediated by soil microbial communities. Front Microbiol 2024; 15:1406661. [PMID: 38957617 PMCID: PMC11217190 DOI: 10.3389/fmicb.2024.1406661] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2024] [Accepted: 06/05/2024] [Indexed: 07/04/2024] Open
Abstract
In recent years, the rise in greenhouse gas emissions from agriculture has worsened climate change. Efficiently utilizing agricultural waste can significantly mitigate these effects. This study investigated the ecological benefits of returning peach branch waste to fields (RPBF) through three innovative strategies: (1) application of peach branch organic fertilizer (OF), (2) mushroom cultivation using peach branches as a substrate (MC), and (3) surface mulching with peach branches (SM). Conducted within a peach orchard ecosystem, our research aimed to assess these resource utilization strategies' effects on soil properties, microbial community, and carbon cycle, thereby contributing to sustainable agricultural practices. Our findings indicated that all RPBF treatments enhance soil nutrient content, enriching beneficial microorganisms, such as Humicola, Rhizobiales, and Bacillus. Moreover, soil AP and AK were observed to regulate the soil carbon cycle by altering the compositions and functions of microbial communities. Notably, OF and MC treatments were found to boost autotrophic microorganism abundance, thereby augmenting the potential for soil carbon sequestration and emission reduction. Interestingly, in peach orchard soil, fungal communities were found to contribute more greatly to SOC content than bacterial communities. However, SM treatment resulted in an increase in the presence of bacterial communities, thereby enhancing carbon emissions. Overall, this study illustrated the fundamental pathways by which RPBF treatment affects the soil carbon cycle, providing novel insights into the rational resource utilization of peach branch waste and the advancement of ecological agriculture.
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Affiliation(s)
- Chenyu Liu
- College of Bioscience and Resource Environment, Beijing University of Agriculture, Beijing, China
| | - Zhiling Liu
- College of Bioscience and Resource Environment, Beijing University of Agriculture, Beijing, China
| | - Bofei Cui
- College of Bioscience and Resource Environment, Beijing University of Agriculture, Beijing, China
| | - Haiqing Yang
- Fruit Industry Serve Center of Pinggu District, Beijing, China
| | - Chengda Gao
- College of Humanities and Urban-Rural Development, Beijing University of Agriculture, Beijing, China
| | - Mingming Chang
- College of Bioscience and Resource Environment, Beijing University of Agriculture, Beijing, China
| | - Yueping Liu
- College of Bioscience and Resource Environment, Beijing University of Agriculture, Beijing, China
- Key Laboratory for Northern Urban Agriculture Ministry of Agriculture and Rural Affairs, Beijing University of Agriculture, Beijing, China
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Pednekar RR, Rajan AP. Unraveling the contemporary use of microbial fuel cell in pesticide degradation and simultaneous electricity generation: a review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:144-166. [PMID: 38048001 DOI: 10.1007/s11356-023-30782-4] [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: 07/27/2023] [Accepted: 10/27/2023] [Indexed: 12/05/2023]
Abstract
Pesticide is an inevitable substance used worldwide to kill pests, but their indiscriminate use has posed serious complications to health and the environment. Various physical, chemical, and biological methods are employed for pesticide treatment, but this paper deals with microbial fuel cell (MFC) as a futuristic technology for pesticide degradation with electricity production. In MFC, organic compounds are utilized as the carbon source for electricity production and the generation of electrons which can be replaced with pollutants such as dyes, antibiotics, and pesticides as carbon sources. However, MFC is been widely studied for a decade for electricity production, but its implementation in pesticide degradation is less known. We fill this void by depicting a real picture of the global pesticide scenario with an eagle eye view of the bioremediation techniques implemented for pesticide treatment with phytoremediation and rhizoremediation as effective techniques for efficient pesticide removal. The enormous literature survey has revealed that not many researchers have ventured into this new arena of MFC employed for pesticide degradation. Based on the Scopus database, an increase in annual trend from 2014 to 2023 is observed for MFC-implemented pesticide remediation. However, a novel MFC to date for effective remediation of pesticides with simultaneous electricity generation is discussed for the first time. Furthermore, the limitation of MFC technology and the implementation of MFC and rhizoremediation as a clubbed system which is the least applied can be seen as promising and futuristic approaches to enhance pesticide degradation by bacteria and electricity as a by-product.
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Affiliation(s)
- Reshma Raviuday Pednekar
- School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, 632014, India
| | - Anand Prem Rajan
- School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, 632014, India.
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Zhang Y, Yan Y, Dai Q, Tan J, Wang C, Zhou H, Hu Z. Glyphosate spraying exacerbates nitrogen and phosphorus loss in karst slope farmland. ENVIRONMENTAL MONITORING AND ASSESSMENT 2023; 196:80. [PMID: 38141083 DOI: 10.1007/s10661-023-12238-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Accepted: 12/14/2023] [Indexed: 12/24/2023]
Abstract
Glyphosate herbicide is an indispensable material in agricultural production. In order to explore the potential environmental effects of glyphosate application in karst slope farmland, this paper used a variable slope steel tank to simulate the surface microtopography and underground pore structure characteristics of karst slope farmland, and combined with artificial rainfall experiments to explore the migration path of glyphosate in karst slope farmland and the impact of spraying glyphosate on soil nitrogen and phosphorus loss. The results showed that under the condition of heavy rain, glyphosate in karst slope farmland was mainly transported and diffused by surface runoff, supplemented by underground runoff; secondly, in different hydrological paths, glyphosate directly affected the content of nitrogen and phosphorus in runoff, and all showed extremely significant positive correlation (p < 0.001). In addition, rainfall conditions such as rainfall intensity, rainfall duration, and runoff affected the content of nitrogen and phosphorus in runoff to varying degrees. In conclusion, the application of glyphosate significantly increased the content of nitrogen and phosphorus in different runoff and accelerated the loss of nitrogen and phosphorus from soil, which not only led to soil degradation, but also threatened the safety of aquatic ecosystem. Therefore, in the prevention and control of agricultural non-point source pollution, the threat of glyphosate to the surrounding aquatic ecosystem cannot be ignored, especially in karst areas with frequent rainstorms and serious water erosion, long-term monitoring and risk assessment of glyphosate are needed.
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Affiliation(s)
- You Zhang
- College of Forestry, Guizhou University, Guiyang, 550025, People's Republic of China
- Tongren Polytechnic College, Tongren, 554300, People's Republic of China
- Institute of Soil Erosion and Ecological Restoration, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Youjin Yan
- College of Forestry, Guizhou University, Guiyang, 550025, People's Republic of China
- Institute of Soil Erosion and Ecological Restoration, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Quanhou Dai
- College of Forestry, Guizhou University, Guiyang, 550025, People's Republic of China.
- Institute of Soil Erosion and Ecological Restoration, Guizhou University, Guiyang, 550025, People's Republic of China.
| | - Juan Tan
- College of Forestry, Guizhou University, Guiyang, 550025, People's Republic of China
- Institute of Soil Erosion and Ecological Restoration, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Chenyang Wang
- College of Forestry, Guizhou University, Guiyang, 550025, People's Republic of China
- Institute of Soil Erosion and Ecological Restoration, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Hong Zhou
- College of Forestry, Guizhou University, Guiyang, 550025, People's Republic of China
- Institute of Soil Erosion and Ecological Restoration, Guizhou University, Guiyang, 550025, People's Republic of China
| | - Zeyin Hu
- College of Forestry, Guizhou University, Guiyang, 550025, People's Republic of China
- Institute of Soil Erosion and Ecological Restoration, Guizhou University, Guiyang, 550025, People's Republic of China
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Guerrero Ramírez JR, Ibarra Muñoz LA, Balagurusamy N, Frías Ramírez JE, Alfaro Hernández L, Carrillo Campos J. Microbiology and Biochemistry of Pesticides Biodegradation. Int J Mol Sci 2023; 24:15969. [PMID: 37958952 PMCID: PMC10649977 DOI: 10.3390/ijms242115969] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Revised: 10/17/2023] [Accepted: 10/20/2023] [Indexed: 11/15/2023] Open
Abstract
Pesticides are chemicals used in agriculture, forestry, and, to some extent, public health. As effective as they can be, due to the limited biodegradability and toxicity of some of them, they can also have negative environmental and health impacts. Pesticide biodegradation is important because it can help mitigate the negative effects of pesticides. Many types of microorganisms, including bacteria, fungi, and algae, can degrade pesticides; microorganisms are able to bioremediate pesticides using diverse metabolic pathways where enzymatic degradation plays a crucial role in achieving chemical transformation of the pesticides. The growing concern about the environmental and health impacts of pesticides is pushing the industry of these products to develop more sustainable alternatives, such as high biodegradable chemicals. The degradative properties of microorganisms could be fully exploited using the advances in genetic engineering and biotechnology, paving the way for more effective bioremediation strategies, new technologies, and novel applications. The purpose of the current review is to discuss the microorganisms that have demonstrated their capacity to degrade pesticides and those categorized by the World Health Organization as important for the impact they may have on human health. A comprehensive list of microorganisms is presented, and some metabolic pathways and enzymes for pesticide degradation and the genetics behind this process are discussed. Due to the high number of microorganisms known to be capable of degrading pesticides and the low number of metabolic pathways that are fully described for this purpose, more research must be conducted in this field, and more enzymes and genes are yet to be discovered with the possibility of finding more efficient metabolic pathways for pesticide biodegradation.
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Affiliation(s)
- José Roberto Guerrero Ramírez
- Instituto Tecnológico de Torreón, Tecnológico Nacional de México, Torreon 27170, Coahuila, Mexico; (J.R.G.R.); (J.E.F.R.); (L.A.H.)
| | - Lizbeth Alejandra Ibarra Muñoz
- Laboratorio de Biorremediación, Facultad de Ciencias Biológicas, Universidad Autónoma de Coahuila, Torreon 27275, Coahuila, Mexico; (L.A.I.M.); (N.B.)
| | - Nagamani Balagurusamy
- Laboratorio de Biorremediación, Facultad de Ciencias Biológicas, Universidad Autónoma de Coahuila, Torreon 27275, Coahuila, Mexico; (L.A.I.M.); (N.B.)
| | - José Ernesto Frías Ramírez
- Instituto Tecnológico de Torreón, Tecnológico Nacional de México, Torreon 27170, Coahuila, Mexico; (J.R.G.R.); (J.E.F.R.); (L.A.H.)
| | - Leticia Alfaro Hernández
- Instituto Tecnológico de Torreón, Tecnológico Nacional de México, Torreon 27170, Coahuila, Mexico; (J.R.G.R.); (J.E.F.R.); (L.A.H.)
| | - Javier Carrillo Campos
- Facultad de Zootecnia y Ecología, Universidad Autónoma de Chihuahua, Chihuahua 31453, Chihuahua, Mexico
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Lv H, Li X, He D, Chen X, Liu M, Lan Y, Zhao J, Wang H, Yan Z. Genotype-Controlled Vertical Transmission Exerts Selective Pressure on Community Assembly of Salvia miltiorrhiza. MICROBIAL ECOLOGY 2023; 86:2934-2948. [PMID: 37667132 DOI: 10.1007/s00248-023-02295-7] [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: 05/07/2023] [Accepted: 08/27/2023] [Indexed: 09/06/2023]
Abstract
The plant's endophytic fungi play an important role in promoting host development and metabolism. Studies have shown that the factors affecting the assembly of the endophyte community mainly include host genotype, vertical transmission, and soil origin. However, we do not know the role of vertically transmitted endohytic fungi influences on the host-plant's endophytic community assembly. Salvia miltiorrhiza from three production areas were used as research objects; we constructed three production area genotypes of S. miltiorrhiza regenerated seedlings simultaneously. Based on high-throughput sequencing, we analyzed the effects of genotype, soil origin, and vertical transmission on endophytic fungal communities. The results show that the community of soil origins significantly affected the endophytic fungal community in the regenerated seedlings of S. miltiorrhiza. The influence of genotype on community composition occurs through a specific mechanism. Genotype may selectively screen certain communities into the seed, thereby exerting selection pressure on the community composition process of offspring. As the number of offspring increases gradually, the microbiota, controlled by genotype and transmitted vertically, stabilizes, ultimately resulting in a significant effect of genotype on community composition.Furthermore, we observed that the taxa influencing the active ingredients are also selected as the vertically transmitted community. Moreover, the absence of an initial vertically transmitted community in S. miltiorrhiza makes it more vulnerable to infection by pathogenic fungi. Therefore, it is crucial to investigate and comprehend the selection model of the vertically transmitted community under varying genotypes and soil conditions. This research holds significant implications for enhancing the quality and yield of medicinal plants and economic crops.
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Affiliation(s)
- Hongyang Lv
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China
- Chengdu University of Traditional Chinese Medicine, Chengdu, China
| | - Xiaoyu Li
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China
- Chengdu University of Traditional Chinese Medicine, Chengdu, China
| | - Dongmei He
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China
- Chengdu University of Traditional Chinese Medicine, Chengdu, China
| | - Xin Chen
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China
- Chengdu University of Traditional Chinese Medicine, Chengdu, China
| | - Min Liu
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China
- Chengdu University of Traditional Chinese Medicine, Chengdu, China
| | - Yin Lan
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China
- Chengdu University of Traditional Chinese Medicine, Chengdu, China
| | - Jin Zhao
- State Key Laboratory of Quality Research in Chinese Medicine, Chengdu, China.
- Institute of Chinese Medical Sciences, University of Macau, Taipa, China.
| | - Hai Wang
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China.
- Chengdu University of Traditional Chinese Medicine, Chengdu, China.
| | - Zhuyun Yan
- State Key Laboratory of Characteristic Chinese Medicine Resources in Southwest China, Chengdu, China.
- Chengdu University of Traditional Chinese Medicine, Chengdu, China.
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Zhang Y, Sun S, Luo D, Mao P, Rosazlina R, Martin F, Xu L. Decline in Morel Production upon Continuous Cropping Is Related to Changes in Soil Mycobiome. J Fungi (Basel) 2023; 9:jof9040492. [PMID: 37108946 PMCID: PMC10143708 DOI: 10.3390/jof9040492] [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: 03/16/2023] [Revised: 04/07/2023] [Accepted: 04/18/2023] [Indexed: 04/29/2023] Open
Abstract
The black morel Morchella sextelata (Morchellaceae, Pezizales) is a valuable edible mushroom that can be cultivated on a large scale, but a severe yield decline is observed during continuous cropping. The effect of long-term cropping on soil-borne diseases and the dysbiosis of the microbiome and how these biotic factors affect the morel yield are not well understood. To help fill this knowledge gap, we designed an indoor experiment to investigate the influence of black morel cropping regimes on soil physicochemical properties, richness and distribution of fungal community, and morel primordial production. In this study, we employed rDNA metabarcoding and microbial network analysis to evaluate the effect of non-continuous and continuous cropping regimes on the fungal community during three developmental stages of black morel production, namely, the bare soil mycelium, mushroom conidial, and primordial stages. The results showed that during the first year, M. sextelata mycelium overwhelmed the resident soil fungal community by reducing the alpha diversity and niche breadth of soil fungal patterns by a greater amount compared to the continuous cropping regime, leading to high crop yield of 12.39 ± 6.09/quadrat but less complex soil mycobiome. To sustain continuous cropping, exogenous nutrition bags and morel mycelial spawn were consecutively added to the soil. The additional nutrient input stimulated the growth of fungal saprotrophic decomposers. The degrading activity of soil saprotrophs, including M.sextelata, caused a significant increase in soil nutrient content. This led to an inhibitory effect on the formation of morel primordia, resulting in a sharp decline to 0.29 ± 0.25/quadrat and 0.17 ± 0.24/quadrat, respectively, in the final morel cropping. Our findings provided a dynamic overview of the soil fungal community during morel mushroom production, allowing us to identify beneficial and detrimental fungal taxa in the soil mycobiome involved in morel cultivation. The information acquired from this study can be applied to mitigate the adverse impact of continuous cropping on the yield of black morel.
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Affiliation(s)
- Yan Zhang
- School of Biological Sciences, Universiti Sains Malaysia, Minden 11800, Penang, Malaysia
- Key Laboratory of Plant-Microbe Collaboration, School of Biological and Environmental Engineering, Xi'an University, Xi'an 710065, China
| | - Sifan Sun
- Key Laboratory of Plant-Microbe Collaboration, School of Biological and Environmental Engineering, Xi'an University, Xi'an 710065, China
| | - Didi Luo
- Key Laboratory of Plant-Microbe Collaboration, School of Biological and Environmental Engineering, Xi'an University, Xi'an 710065, China
| | - Ping Mao
- Key Laboratory of Plant-Microbe Collaboration, School of Biological and Environmental Engineering, Xi'an University, Xi'an 710065, China
| | - Rusly Rosazlina
- School of Biological Sciences, Universiti Sains Malaysia, Minden 11800, Penang, Malaysia
| | - Francis Martin
- Université de Lorraine, INRAE, Interactions Arbres/Microorganismes, F-54000 Nancy, France
| | - Lingling Xu
- Key Laboratory of Plant-Microbe Collaboration, School of Biological and Environmental Engineering, Xi'an University, Xi'an 710065, China
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Navarrete AA, Aburto F, González-Rocha G, Guzmán CM, Schmidt R, Scow K. Anthropogenic degradation alter surface soil biogeochemical pools and microbial communities in an Andean temperate forest. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 854:158508. [PMID: 36063938 DOI: 10.1016/j.scitotenv.2022.158508] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2022] [Revised: 08/14/2022] [Accepted: 08/30/2022] [Indexed: 06/15/2023]
Abstract
Soil microbial communities regulate a myriad of critical biogeochemical functions in forest ecosystems. Anthropogenic disturbances in natural forests could drive major shifts in plant and microbial communities resulting in substantial biogeochemical alterations. We evaluated the effect of anthropogenic disturbances in the soils of Andean temperate forests with different levels of degradation: i) mature forest (MF), ii) secondary forest (SF), iii) degraded forest (DF), and iv) deforested site converted into a prairie (DP). We quantified total soil carbon, nitrogen and phosphorous (TC, TN, and TP), and available nutrient stocks. The soil microbial community structure (i.e., composition, diversity, and abundance) was assessed under each condition from amplicon sequence variants (ASVs) obtained via NGS-Illumina sequencing and subsequent microbiome analysis. There were no significant differences in TC, TN, and TP across the forested states (MF, SF, DF). The deforested site condition presented significantly higher soil TC, TN, and TP and the lowest C:N, C:P, and N:P ratios. The DP soil microbiome was significantly more diverse in bacteria (D' = 0.47 ± 0.04); and fungi (H' = 5.11 ± 0.33). The bacterial microbiome was dominated by Proteobacteria (45.35 ± 0.89 %), Acidobacteria (20.73 ± 1.48 %), Actinobacteria (12.59 ± 0.34 %), and Bacteroidetes (7.32 ± 0.36 %) phyla in all sites. The soil fungal community was dominated by the phyla Ascomycota (42.11 ± 0.95 %), Mortierellomycota (28.74 ± 2.25 %), Basidiomycota (24.61 ± 0.52), and Mucoromycota (2.06 ± 0.43 %). Yet, there were significant differences at the genus level across conditions. Forest to prairie conversion facilitated the introduction of exotic bacterial and fungal taxa associated with agricultural activities and livestock grazing (∼50 % of DP core microbiome composed of unique ASVs). For example, the ammonia-oxidizing bacteria community emerged as a dominant group in the DP soils, along with a reduction in the ectomycorrhizal fungi community. The surface soil microbial community was surprisingly resistant to forest degradation and did not show a clear succession along the degradation gradient, but it was strongly altered after deforestation.
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Affiliation(s)
- Alejandro Atenas Navarrete
- Postgrado Facultad de Ciencias Forestales, Universidad de Concepción, Chile; Laboratorio de Investigación en Suelos, Aguas y Bosques (LISAB), Universidad de Concepción, Chile; Iniciativa Foresta Nativa, Universidad de Concepción, Concepción, Chile
| | - Felipe Aburto
- Soil and Crop Sciences Department, Texas A&M University, 370 Olsen Blvd. Heep Center, TX 77845, USA; Departamento de Planificación Territorial y Sistemas Urbanos, Facultad de Ciencias Ambientales, Universidad de Concepción, Chile.
| | - Gerardo González-Rocha
- Laboratorio de Investigación en Agentes Antibacterianos (LIAA), Facultad de Ciencias Biológicas, Universidad de Concepción, Chile
| | - Carolina Merino Guzmán
- Center of Plant, Soil Interaction and Natural Resources Biotechnology, BIOREN, Universidad de La Frontera, Chile
| | - Radomir Schmidt
- Working Lands Innovation Center at the Institute of the Environment, University of California, Davis, USA
| | - Kate Scow
- Soil Microbial Ecology Lab, Department of Land, Air and Water Resources, University of California, Davis, USA
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Jia M, Sun X, Chen M, Liu S, Zhou J, Peng X. Deciphering the microbial diversity associated with healthy and wilted Paeonia suffruticosa rhizosphere soil. Front Microbiol 2022; 13:967601. [PMID: 36060757 PMCID: PMC9432862 DOI: 10.3389/fmicb.2022.967601] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Accepted: 07/19/2022] [Indexed: 11/13/2022] Open
Abstract
Plant health is closely related to the soil, where microorganisms play a critical and unique role. For instance, Paeonia suffruticosa is an emerging woody oil crop in China with attractive development and utilization prospects. However, black root rot causes wilting of the aboveground plant parts, which significantly affected its seed yield and quality. Studies found that soil microorganisms are critical in maintaining plant health, but how changes in the soil microbial communities affect the healthy and diseased oil peony is unclear. Therefore, our present study used high throughput sequencing and BIOLOG to analyze the rhizosphere soil microbial communities of healthy and diseased oil peonies. Our results revealed that the physical and chemical properties of the soil of the diseased plants had changed, with the ability to metabolize the carbon source being enhanced. Moreover, our research highlighted that the oil peony-infecting fungal pathogenic genus (Fusarium, Cylindrocarpon, and Neocosmospora) was closely associated with oil peony yield reduction and disease aggravation. Further network analysis demonstrated that the bacterial and fungal networks of the diseased plants were more complex than those of the healthy plants. Finally, the inter-kingdom network among the diseased plants further indicated that the lesions destroyed the network and increased the intraspecific correlation between the fungal groups.
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Affiliation(s)
- Manman Jia
- College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
| | - Xin Sun
- College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
| | - Man Chen
- College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
| | - Shuang Liu
- College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
| | - Jinxing Zhou
- Jianshui Research Station, School of Soil and Water Conservation, Beijing Forestry University, Beijing, China
| | - Xiawei Peng
- College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China
- Beijing Key Laboratory of Food Processing and Safety in Forestry, Beijing Forestry University, Beijing, China
- Institute of Tree Development and Genome Editing, Beijing Forestry University, Beijing, China
- *Correspondence: Xiawei Peng, ,
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Wolińska A, Podlewski J, Słomczewski A, Grządziel J, Gałązka A, Kuźniar A. Fungal Indicators of Sensitivity and Resistance to Long-Term Maize Monoculture: A Culture-Independent Approach. Front Microbiol 2022; 12:799378. [PMID: 35046921 PMCID: PMC8761758 DOI: 10.3389/fmicb.2021.799378] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Accepted: 12/07/2021] [Indexed: 01/04/2023] Open
Abstract
Although fungi are regarded as very important components of soils, the knowledge of their community in agricultural (monocultural) soils is still limited. This indicates that soil fungal communities are investigated less intensively than bacteria. Therefore, the main goal of this paper was to evaluate the fungal mycobiome structure in monoculture soils in a culture-independent approach. Firstly, the study was conducted to identify the core mycobiome composition and its variability at different stages of the maize growing season (spring, summer, and autumn). Secondly, we identified and recommended fungal indicators of both sensitivity and resistance to long-term maize monoculture. Two neighboring fields from the Potulicka Foundation area were selected for the study: K20 sown with a Gorzow mixture (intercropping mixture) to improve soil quality after a maize monoculture in 2020 and K21, where long-term (over 30 years) monoculture cultivation was continued. The basic chemical features [acidity, redox potential, total organic carbon (TOC), and moisture] of soils were determined, fungal genetic diversity was assessed by ITS next generation sequencing (NGS) analyses, and biodiversity indices were calculated. The results of the NGS technique facilitated recognition and classification of the fungal mycobiome to the taxonomic genus level and changes in the fungal structure in the three periods (spring, summer, and autumn) were assessed. It was evidenced that the mycobiome composition was dependent on both the seasons and the agricultural practices. It was also found that even a 1-year break in the monoculture in favor of an intercropping mixture improved soil properties thus contributing to higher biodiversity. Mortierella was recommended as a potential indicator of sensitivity to long-term maize cultivation, whereas Solicoccozyma and Exophiala were proposed as indicators of resistance to long-term maize cultivation. We proved that the precision farming principles applied on the Potulicka Foundation farm had a very positive effect on fungal biodiversity, which was high even in the long-term maize monoculture field. Therefore, the monoculture cultivation carried out in this way does not induce biological degradation of monoculture soils but preserves their good biological quality.
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Affiliation(s)
- Agnieszka Wolińska
- Department of Biology and Biotechnology of Microorganisms, Institute of Biological Sciences, The John Paul II Catholic University of Lublin, Lublin, Poland
| | | | | | - Jarosław Grządziel
- Department of Agriculture Microbiology, Institute of Soil Science and Plant Cultivation in Pulawy, Puławy, Poland
| | - Anna Gałązka
- Department of Agriculture Microbiology, Institute of Soil Science and Plant Cultivation in Pulawy, Puławy, Poland
| | - Agnieszka Kuźniar
- Department of Biology and Biotechnology of Microorganisms, Institute of Biological Sciences, The John Paul II Catholic University of Lublin, Lublin, Poland
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10
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Moinet GYK, Dhami MK, Hunt JE, Podolyan A, Liáng LL, Schipper LA, Whitehead D, Nuñez J, Nascente A, Millard P. Soil microbial sensitivity to temperature remains unchanged despite community compositional shifts along geothermal gradients. GLOBAL CHANGE BIOLOGY 2021; 27:6217-6231. [PMID: 34585498 PMCID: PMC9293425 DOI: 10.1111/gcb.15878] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Accepted: 08/24/2021] [Indexed: 05/29/2023]
Abstract
Climate warming may be exacerbated if rising temperatures stimulate losses of soil carbon to the atmosphere. The direction and magnitude of this carbon-climate feedback are uncertain, largely due to lack of knowledge of the thermal adaptation of the physiology and composition of soil microbial communities. Here, we applied the macromolecular rate theory (MMRT) to describe the temperature response of the microbial decomposition of soil organic matter (SOM) in a natural long-term warming experiment in a geothermally active area in New Zealand. Our objective was to test whether microbial communities adapt to long-term warming with a shift in their composition and their temperature response that are consistent with evolutionary theory of trade-offs between enzyme structure and function. We characterized the microbial community composition (using metabarcoding) and the temperature response of microbial decomposition of SOM (using MMRT) of soils sampled along transects of increasing distance from a geothermally active zone comprising two biomes (a shrubland and a grassland) and sampled at two depths (0-50 and 50-100 mm), such that ambient soil temperature and soil carbon concentration varied widely and independently. We found that the different environments were hosting microbial communities with distinct compositions, with thermophile and thermotolerant genera increasing in relative abundance with increasing ambient temperature. However, the ambient temperature had no detectable influence on the MMRT parameters or the relative temperature sensitivity of decomposition (Q10 ). MMRT parameters were, however, strongly correlated with soil carbon concentration and carbon:nitrogen ratio. Our findings suggest that, while long-term warming selects for warm-adapted taxa, substrate quality and quantity exert a stronger influence than temperature in selecting for distinct thermal traits. The results have major implications for our understanding of the role of soil microbial processes in the long-term effects of climate warming on soil carbon dynamics and will help increase confidence in carbon-climate feedback projections.
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Affiliation(s)
- Gabriel Y. K. Moinet
- Soil Biology GroupWageningen University and ResearchWageningenThe Netherlands
- Manaaki Whenua – Landcare ResearchLincolnNew Zealand
| | | | - John E. Hunt
- Manaaki Whenua – Landcare ResearchLincolnNew Zealand
| | | | - Liyĭn L. Liáng
- Manaaki Whenua – Landcare ResearchPalmerston NorthNew Zealand
| | | | | | | | | | - Peter Millard
- Manaaki Whenua – Landcare ResearchLincolnNew Zealand
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11
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Koczorski P, Furtado BU, Gołębiewski M, Hulisz P, Baum C, Weih M, Hrynkiewicz K. The Effects of Host Plant Genotype and Environmental Conditions on Fungal Community Composition and Phosphorus Solubilization in Willow Short Rotation Coppice. FRONTIERS IN PLANT SCIENCE 2021; 12:647709. [PMID: 34290719 PMCID: PMC8287252 DOI: 10.3389/fpls.2021.647709] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Accepted: 06/03/2021] [Indexed: 06/13/2023]
Abstract
Phosphorus (P) is an essential plant nutrient. Low availability of P in soil is mainly caused by high content of Fe2O3 in the clay fraction that binds to P making it unavailable. Beneficial microbes, such as P solubilizing microorganisms can increase the available P in soil and improve plant growth and productivity. In this study, we evaluated the effects of environmental conditions (climate, soil parameters), plant genotype, and level of plant association (rhizosphere or endophytic root organism) on the abundance and diversity of phosphorus solubilizing microorganisms in a Salix production system. We hypothesized that a lower number of endophytic fungi may possess the ability to solubilize P compared to the number of rhizosphere fungi with the same ability. We also expect that the plant genotype and the experimental site with its environmental conditions will influence fungal diversity. Two Salix genotypes grown in pure and mixed cultures were investigated for their fungal microbiome community and diversity in the rhizosphere and endosphere during two growing seasons. We found that the rhizosphere fungal community was more diverse. A general dominance of Ascomycota (Dothideomycetes) and Basidiomycota (Tremellomycetes) was observed. The classes Agaricomycetes and Pezizomycetes were more frequent in the endosphere, while Tremellomycetes and Mortierellomycetes were more abundant in the rhizosphere. Plot-specific soil properties (pH, total organic carbon, and nitrogen) significantly influenced the fungal community structure. Among the culturable fungal diversities, 10 strains of phosphate solubilizing fungi (PSFs) from roots and 12 strains from rhizosphere soil were identified using selective media supplemented with di-calcium and tri-calcium phosphates. The fungal density and the number of PSF were much higher in the rhizosphere than in the endosphere. Penicillium was the dominant genus of PSF isolated from both sites; other less frequent genera of PSFs were Alternaria, Cladosporium, and Clonostachys. Overall the main factors controlling the fungal communities (endophytic vs. rhizosphere fungi) were the soil properties and level of plant association, while no significant influence of growing season was observed. Differences between Salix genotypes were observed for culturable fungal diversity, while in metagenomic data analysis, only the class Dothideomycetes showed a significant effect from the plant genotype.
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Affiliation(s)
- Piotr Koczorski
- Department of Microbiology, Faculty of Biological and Veterinary Sciences, Nicolaus Copernicus University, Torun, Poland
| | - Bliss Ursula Furtado
- Department of Microbiology, Faculty of Biological and Veterinary Sciences, Nicolaus Copernicus University, Torun, Poland
| | - Marcin Gołębiewski
- Department of Plant Physiology and Biotechnology, Faculty of Biological and Veterinary Sciences, Nicolaus Copernicus University, Torun, Poland
- Interdisciplinary Center for Modern Technologies, Nicolaus Copernicus University, Torun, Poland
| | - Piotr Hulisz
- Department of Soil Science and Landscape Management, Faculty of Earth Sciences and Spatial Management, Nicolaus Copernicus University, Torun, Poland
| | - Christel Baum
- Soil Science, Faculty of Agricultural and Environmental Sciences, University of Rostock, Rostock, Germany
| | - Martin Weih
- Department of Crop Production Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Katarzyna Hrynkiewicz
- Department of Microbiology, Faculty of Biological and Veterinary Sciences, Nicolaus Copernicus University, Torun, Poland
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12
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Hernández-Fernández M, Cordero-Bueso G, Ruiz-Muñoz M, Cantoral JM. Culturable Yeasts as Biofertilizers and Biopesticides for a Sustainable Agriculture: A Comprehensive Review. PLANTS (BASEL, SWITZERLAND) 2021; 10:822. [PMID: 33919047 PMCID: PMC8142971 DOI: 10.3390/plants10050822] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Revised: 04/07/2021] [Accepted: 04/19/2021] [Indexed: 01/18/2023]
Abstract
The extensive use of synthetic fertilizers and pesticides has negative consequences in terms of soil microbial biodiversity and environmental contamination. Faced with this growing concern, a proposed alternative agricultural method is the use of microorganisms as biofertilizers. Many works have been focused on bacteria, but the limited literature on yeasts and their potential ability to safely promote plant growth is gaining particular attention in recent years. Thus, the objective of this review is to highlight the application of yeasts as biological agents in different sectors of sustainable agricultural practices through direct or indirect mechanisms of action. Direct mechanisms include the ability of yeasts to provide soluble nutrients to plants, produce organic acids and phytohormones (indole-3-acetic acid). Indirect mechanisms involve the ability for yeasts to act as biocontrol agents through their high antifungal activity and lower insecticidal and herbicidal activity, and as soil bioremediating agents. They also act as protective agents against extreme environmental factors by activating defense mechanisms. It is evident that all the aspects that yeasts offer could be useful in the creation of quality biofertilizers and biopesticides. Hence, extensive research on yeasts could be promising and potentially provide an environmentally friendly solution to the increased crop production that will be required with a growing population.
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Affiliation(s)
| | - Gustavo Cordero-Bueso
- Laboratory of Microbiology, Department Biomedicine, Biotechnology and Public Health, University of Cádiz, Puerto Real, 11510 Cádiz, Spain; (M.H.-F.); (M.R.-M.); (J.M.C.)
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13
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Deng X, Zheng W, Jin C, Zhan Q, Bai L. Novel phenylpyrimidine derivatives containing a hydrazone moiety protect rice seedlings from injury by metolachlor. Bioorg Chem 2021; 108:104645. [PMID: 33493931 DOI: 10.1016/j.bioorg.2021.104645] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Revised: 12/11/2020] [Accepted: 01/06/2021] [Indexed: 02/04/2023]
Abstract
One strategy for solving the phytotoxicity of herbicides is to apply herbicide safeners that can efficiently alleviate the injuries of agricultural crops caused by herbicides. When metolachlor, a chloroacetamide herbicide, is applied with paddy rice, for example, the mechanisms associated with metolachlor and its residue negatively impact on the growth and yields of rice. To identify novel high-activity herbicide safener candidates for metolachlor, a series of (E)-4-(2-substituted hydrazinyl)-6-chloro-2-phenyl pyrimidines were synthesized and their structures were confirmed using IR (infrared radiation), 1H NMR, 13C NMR, and HRMS (high resolution mass spectrometry). The herbicide safener activities were then evaluated via primary tests. Compounds 3i and 3t were found to have the best herbicide activity on plant height. These compounds were then further screened for their activities at lower concentrations and showed better or similar activities compared to the positive control fenclorim, a commercial herbicide safener. The compounds 3i and 3t significantly enhanced glutathione S-transferase (GST) activity related with the herbicide safener activity in both shoots and roots tissues. Moreover, a qPCR (Real-time quantitative polymerase chain reaction) analysis found that the 3i and 3t treatments enhanced the expressions of OsGSTU3, OsGsTU39, and OsGSTF5. Finally, the results of an acute toxicity assessment with zebrafish (Danio rerio) embryos using treatments 3i and 3t indicated they are relatively safe to aquatic organisms.
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Affiliation(s)
- Xile Deng
- Key Laboratory for Biology and Control of Weeds, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Wenna Zheng
- Key Laboratory for Biology and Control of Weeds, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Can Jin
- Key Laboratory for Biology and Control of Weeds, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Qingcai Zhan
- Key Laboratory for Biology and Control of Weeds, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Lianyang Bai
- Key Laboratory for Biology and Control of Weeds, Hunan Agricultural Biotechnology Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China.
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14
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Mącik M, Gryta A, Sas-Paszt L, Frąc M. The Status of Soil Microbiome as Affected by the Application of Phosphorus Biofertilizer: Fertilizer Enriched with Beneficial Bacterial Strains. Int J Mol Sci 2020; 21:E8003. [PMID: 33121206 PMCID: PMC7663420 DOI: 10.3390/ijms21218003] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Revised: 10/21/2020] [Accepted: 10/23/2020] [Indexed: 01/05/2023] Open
Abstract
Regarding the unfavourable changes in agroecosystems resulting from the excessive application of mineral fertilizers, biopreparations containing live microorganisms are gaining increasing attention. We assumed that the application of phosphorus mineral fertilizer enriched with strains of beneficial microorganisms contribute to favourable changes in enzymatic activity and in the genetic and functional diversity of microbial populations inhabiting degraded soils. Therefore, in field experiments conditions, the effects of phosphorus fertilizer enriched with bacterial strains on the status of soil microbiome in two chemically degraded soil types (Brunic Arenosol - BA and Abruptic Luvisol - AL) were investigated. The field experiments included treatments with an optimal dose of phosphorus fertilizer (without microorganisms - FC), optimal dose of phosphorus fertilizer enriched with microorganisms including Paenibacillus polymyxa strain CHT114AB, Bacillus amyloliquefaciens strain AF75BB and Bacillus sp. strain CZP4/4 (FA100) and a dose of phosphorus fertilizer reduced by 40% and enriched with the above-mentioned bacteria (FA60). The analyzes performed included: the determination of the activity of the soil enzymes (protease, urease, acid phosphomonoesterase, β-glucosidase), the assessment of the functional diversity of microorganisms with the application of BIOLOGTM plates and the characterization of the genetic diversity of bacteria, archaea and fungi with multiplex terminal restriction fragment length polymorphism and next generation sequencing. The obtained results indicated that the application of phosphorus fertilizer enriched with microorganisms improved enzymatic activity, and the genetic and functional diversity of the soil microbial communities, however these effects were dependent on the soil type.
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Affiliation(s)
- Mateusz Mącik
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290 Lublin, Poland; (M.M.); (A.G.)
| | - Agata Gryta
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290 Lublin, Poland; (M.M.); (A.G.)
| | - Lidia Sas-Paszt
- Institute of Horticulture in Skierniewice, Pomologiczna 18, 96-100 Skierniewice, Poland;
| | - Magdalena Frąc
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290 Lublin, Poland; (M.M.); (A.G.)
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15
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Wang M, Xue J, Ma J, Feng X, Ying H, Xu H. Streptomyces lydicus M01 Regulates Soil Microbial Community and Alleviates Foliar Disease Caused by Alternaria alternata on Cucumbers. Front Microbiol 2020; 11:942. [PMID: 32499771 PMCID: PMC7243425 DOI: 10.3389/fmicb.2020.00942] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Accepted: 04/20/2020] [Indexed: 01/22/2023] Open
Abstract
Due to the adverse effect on the environment caused by excessive use of chemical fertilizers, the development of sustainable agriculture attracts a growing demand of biological based fertilizers composed of living microorganisms. In this study, an Actinobacteria Streptomyces lydicus M01 was isolated from the rhizosphere soil of Pyrus calleryana. This strain effectively promoted the plant growth and suppressed a foliar disease caused by Alternaria alternata on cucumbers. S. lydicus M01 exhibited growth promoting characteristics such as phosphate solubilization, IAA secretion, siderophore and ACC deaminase production. Through Illumina sequencing of the 16S rRNA gene and ITS gene of the soil microbes, we found that the application of S. lydicus M01 altered the composition of the microbial community by promoting beneficial groups, including bacteria genera Pseudarthrobacter, Sphingomonas, Rhodanobacter, and Pseudomonas, fungi genera Fusicolla, Humicola, Solicoccozyma, and Paraphaeosphaeria. Most of these bacteria and eukaryotes exhibit positive effects on growth promotion, such as nutrient accumulation, auxin secretion, abiotic stress alleviation, biological control, or bioremediation. Furthermore, studies on the reactive oxygen species (ROS) level and antioxidants of cucumber leaves revealed that S. lydicus M01 treatment reduced the ROS accumulation and increased the activities of antioxidases related with ROS scavenging, which indicated an enhanced disease resistance of cucumbers under biotic stress. Thus, our results suggest that the application of S. lydicus M01 can systemically affect plant microbiome interactions and represent a promising sustainable solution to improve agricultural production instead of chemical fertilizers.
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Affiliation(s)
- Mingxuan Wang
- State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, China.,College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Jian Xue
- State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, China.,College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Junjie Ma
- State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, China.,College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Xiaohai Feng
- State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, China.,College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Hanjie Ying
- State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, China.,College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China
| | - Hong Xu
- State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, China.,College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
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