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Ornik M, Salinas R, Antonacci G, Schädler M, Azarbad H. The stress history of soil bacteria under organic farming enhances the growth of wheat seedlings. Front Microbiol 2024; 15:1355158. [PMID: 38577685 PMCID: PMC10993729 DOI: 10.3389/fmicb.2024.1355158] [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: 12/13/2023] [Accepted: 03/04/2024] [Indexed: 04/06/2024] Open
Abstract
The effects of stress factors associated with climate change and agricultural management practices on microorganisms are often studied separately, and it remains to be determined how these factors impact the soil microbiome and, subsequently, plant growth characteristics. The aim of this study was to understand how the historical climate and agriculture to which soil microbes have been exposed can influence the growth characteristics of wheat seedlings and their associated bacterial communities. We collected soil from organic and conventional fields with different histories of climate conditions to extract microbes to inoculate wheat seeds under agar-based cultivation conditions. Within a growth period of 8 days, we monitored germination rates and time as well as seedling above-ground biomass and their associated bacterial communities. The results showed a positive interaction between conventional farming practices and an ambient climate for faster and higher germination rates. We demonstrate that soil microbial extracts from organic farming with experience of the future climate significantly enhanced above-ground biomass along with the diversity of bacterial communities associated with seedlings than other treatments. Such findings support the idea that organic agricultural practices not only mitigate the adverse effects of climate change but also promote the diversity of seedling-associated bacteria.
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Affiliation(s)
- Muriel Ornik
- Department of Biology, Evolutionary Ecology of Plants, Philipps-University Marburg, Marburg, Germany
| | - Renata Salinas
- Department of Biology, Evolutionary Ecology of Plants, Philipps-University Marburg, Marburg, Germany
| | - Giona Antonacci
- Department of Biology, Evolutionary Ecology of Plants, Philipps-University Marburg, Marburg, Germany
| | - Martin Schädler
- Department of Community Ecology, Helmholtz-Centre for Environmental Research – UFZ, Halle, Germany
- iDiv – Centre for Integrative Biodiversity Research Halle-Leipzig-Jena, Leipzig, Germany
| | - Hamed Azarbad
- Department of Biology, Evolutionary Ecology of Plants, Philipps-University Marburg, Marburg, Germany
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2
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Emmenegger B, Massoni J, Pestalozzi CM, Bortfeld-Miller M, Maier BA, Vorholt JA. Identifying microbiota community patterns important for plant protection using synthetic communities and machine learning. Nat Commun 2023; 14:7983. [PMID: 38042924 PMCID: PMC10693592 DOI: 10.1038/s41467-023-43793-z] [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: 06/20/2023] [Accepted: 11/20/2023] [Indexed: 12/04/2023] Open
Abstract
Plant-associated microbiomes contribute to important ecosystem functions such as host resistance to biotic and abiotic stresses. The factors that determine such community outcomes are inherently difficult to identify under complex environmental conditions. In this study, we present an experimental and analytical approach to explore microbiota properties relevant for a microbiota-conferred host phenotype, here plant protection, in a reductionist system. We screened 136 randomly assembled synthetic communities (SynComs) of five bacterial strains each, followed by classification and regression analyses as well as empirical validation to test potential explanatory factors of community structure and composition, including evenness, total commensal colonization, phylogenetic diversity, and strain identity. We find strain identity to be the most important predictor of pathogen reduction, with machine learning algorithms improving performances compared to random classifications (94-100% versus 32% recall) and non-modelled predictions (0.79-1.06 versus 1.5 RMSE). Further experimental validation confirms three strains as the main drivers of pathogen reduction and two additional strains that confer protection in combination. Beyond the specific application presented in our study, we provide a framework that can be adapted to help determine features relevant for microbiota function in other biological systems.
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Affiliation(s)
| | - Julien Massoni
- Institute of Microbiology, ETH Zurich, Zurich, Switzerland.
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3
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Ding J, Wang N, Liu P, Liu B, Zhu Y, Mao J, Wang Y, Ding X, Yang H, Wei Y, Li J, Ding GC. Bacterial wilt suppressive composts: Significance of rhizosphere microbiome. WASTE MANAGEMENT (NEW YORK, N.Y.) 2023; 169:179-185. [PMID: 37453305 DOI: 10.1016/j.wasman.2023.07.011] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Revised: 07/04/2023] [Accepted: 07/10/2023] [Indexed: 07/18/2023]
Abstract
Composts are often suppressive to several plant diseases, including the devastating bacterial wilt caused by Ralstonia solanacearum. However, the underlying mechanisms are still unclear. Herein, we carried out an experiment with 38 composts collected from different factories in China to study the interlinking among bacterial wilt suppression, the physicochemical properties and bacterial community of the compost, and bacterial community in the rhizosphere of tomato fertilized by compost. Totally 26 composts were suppressive to bacterial wilt, while six composts stimulated the disease. The control efficiency was neither correlated with physicochemical properties (TC, TN, P and K, pH or GI) nor bacterial community of compost, but with rhizosphere bacterial community (r = 0.17, p = 0.016). The control efficiency was also positive correlated with taxa (Rhizobium, Aeromicrobium) known suppressive to R. solanacearum. The mushroom spent or cow manure, from which the two composts were 100% and 77% in control efficiencies against bacterial wilt respectively were subject to a pilot-scale composting reaction. The reproduced composts from mushroom spent or cow manure were only 57% and 23% effective on the control of bacterial wilt, respectively. The analysis of bacterial communities revealed that the relative abundances of R. solanacearum were 28.4% for the control, but only 7.8%-7.9% for compost fertilized tomatoes. The compost from mushroom spent also exerted a strong effect on rhizosphere bacterial community. Taken together, most composts were suppressive to bacterial wilt possibly also by modifying rhizosphere bacterial community towards inhibiting the colonization of R. solanacearum and selecting for beneficial genera of Proteobacteria, Bacteroidetes and Actinobacteria.
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Affiliation(s)
- Jia Ding
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Ning Wang
- Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Pingping Liu
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Baoju Liu
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Yuelin Zhu
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China
| | - Jing Mao
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Yue Wang
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China
| | - Xiaoyan Ding
- Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Hefa Yang
- Quzhou Experimental Station, China Agricultural University, 057250 Hebei Province, China
| | - Yuquan Wei
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Ji Li
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China
| | - Guo-Chun Ding
- College of Resources and Environmental Science, Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, 100193 Beijing, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China.
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4
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Resendiz-Nava CN, Alonso-Onofre F, Silva-Rojas HV, Rebollar-Alviter A, Rivera-Pastrana DM, Stasiewicz MJ, Nava GM, Mercado-Silva EM. Tomato Plant Microbiota under Conventional and Organic Fertilization Regimes in a Soilless Culture System. Microorganisms 2023; 11:1633. [PMID: 37512805 PMCID: PMC10383152 DOI: 10.3390/microorganisms11071633] [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: 05/18/2023] [Revised: 06/15/2023] [Accepted: 06/19/2023] [Indexed: 07/30/2023] Open
Abstract
Tomato is the main vegetable cultivated under soilless culture systems (SCSs); production of organic tomato under SCSs has increased due to consumer demands for healthier and environmentally friendly vegetables. However, organic tomato production under SCSs has been associated with low crop performance and fruit quality defects. These agricultural deficiencies could be linked to alterations in tomato plant microbiota; nonetheless, this issue has not been sufficiently addressed. Thus, the main goal of the present study was to characterize the rhizosphere and phyllosphere of tomato plants cultivated under conventional and organic SCSs. To accomplish this goal, tomato plants grown in commercial greenhouses under conventional or organic SCSs were tested at 8, 26, and 44 weeks after seedling transplantation. Substrate (n = 24), root (n = 24), and fruit (n = 24) composite samples were subjected to DNA extraction and high-throughput 16S rRNA gene sequencing. The present study revealed that the tomato core microbiota was predominantly constituted by Proteobacteria, Actinobacteria, and Firmicutes. Remarkably, six bacterial families, Bacillaceae, Microbacteriaceae, Nocardioidaceae, Pseudomonadaceae, Rhodobacteraceae, and Sphingomonadaceae, were shared among all substrate, rhizosphere, and fruit samples. Importantly, it was shown that plants under organic SCSs undergo a dysbiosis characterized by significant changes in the relative abundance of Bradyrhizobiaceae, Caulobacteraceae, Chitinophagaceae, Enterobacteriaceae, Erythrobacteraceae, Flavobacteriaceae, Nocardioidaceae, Rhodobacteraceae, and Streptomycetaceae. These results suggest that microbial alterations in substrates, roots, and fruits could be potential factors in contributing to the crop performance and fruit quality deficiencies observed in organic SCSs.
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Affiliation(s)
- Carolina N Resendiz-Nava
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
| | | | - Hilda V Silva-Rojas
- Posgrado en Recursos Geneticos y Productividad, Produccion de Semillas, Colegio de Postgraduados, Km 36.5 Carretera Mexico-Texcoco, Texcoco 56264, Mexico
| | - Angel Rebollar-Alviter
- Centro Regional Morelia, Universidad Autonoma de Chapingo, Morelia 58170, Michoacan, Mexico
| | - Dulce M Rivera-Pastrana
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
| | - Matthew J Stasiewicz
- Department of Food Science and Human Nutrition, University of Illinois at Urbana-Champaign, 1302W Pennsylvania Ave, Urbana, IL 61801, USA
| | - Gerardo M Nava
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
| | - Edmundo M Mercado-Silva
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
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5
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Kuo J, Liu D, Lin CH. Functional Prediction of Microbial Communities in Sediment Microbial Fuel Cells. Bioengineering (Basel) 2023; 10:bioengineering10020199. [PMID: 36829693 PMCID: PMC9951962 DOI: 10.3390/bioengineering10020199] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2022] [Revised: 01/25/2023] [Accepted: 01/29/2023] [Indexed: 02/05/2023] Open
Abstract
Sediment microbial fuel cells (MFCs) were developed in which the complex substrates present in the sediment could be oxidized by microbes for electron production. In this study, the functional prediction of microbial communities of anode-associated soils in sediment MFCs was investigated based on 16S rRNA genes. Four computational approaches, including BugBase, Functional Annotation of Prokaryotic Taxa (FAPROTAX), the Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt2), and Tax4Fun2, were applied. A total of 67, 9, 37, and 38 functional features were statistically significant. Among these functional groups, the function related to the generation of precursor metabolites and energy was the only one included in all four computational methods, and the sum total of the proportion was 93.54%. The metabolism of cofactor, carrier, and vitamin biosynthesis was included in the three methods, and the sum total of the proportion was 29.94%. The results suggested that the microbial communities usually contribute to energy metabolism, or the metabolism of cofactor, carrier, and vitamin biosynthesis might reveal the functional status in the anode of sediment MFCs.
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Affiliation(s)
- Jimmy Kuo
- Department of Planning and Research, National Museum of Marine Biology and Aquarium, Pingtung 94450, Taiwan
- Graduate Institute of Marine Biology, National Dong Hwa University, Pingtung 94450, Taiwan
| | - Daniel Liu
- Department of Biomedical Sciences, Da-Yeh University, 168 University Road, Dacun, Changhua 51591, Taiwan
| | - Chorng-Horng Lin
- Department of Biomedical Sciences, Da-Yeh University, 168 University Road, Dacun, Changhua 51591, Taiwan
- Correspondence: ; Tel.: +886-4-8511888
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6
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Pu T, Liu J, Dong J, Qian J, Zhou Z, Xia C, Wei G, Duan B. Microbial community diversity and function analysis of Aconitum carmichaelii Debeaux in rhizosphere soil of farmlands in Southwest China. Front Microbiol 2022; 13:1055638. [PMID: 36590406 PMCID: PMC9797738 DOI: 10.3389/fmicb.2022.1055638] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Accepted: 11/29/2022] [Indexed: 12/23/2022] Open
Abstract
Understanding how microbial communities affect plant growth is crucial for sustainable productivity and ecological health. However, in contrast with the crop system, there is limited information on the microbial community associated with the medicinal plant. We observed that altitude was the most influential factor on the soil microbial community structures of Aconitum carmichaelii Debeaux. For community composition, bacterial reads were assigned to 48 phyla, with Proteobacteria, Acidobacteriota, and Actinobacteriota being the dominant phyla. The fungal reads were assigned to seven phyla, and Ascomycota was the predominant phylum detected in most groups. The four dominant phyla were categorized as keystone taxa in the co-occurrence networks, suggesting that they may be involved in soil disease suppression and nutrient mobility. Bacterial co-occurrence networks had fewer edges, lower average degree, and lower density at YL1, HQ1, HQ2, BC, and DL than fungal networks, creating less intricate rhizosphere network patterns. Furthermore, the bacterial and fungal communities showed strong distance decay of similarity across the sampling range. Overall, this study improves our understanding of regulating rhizosphere microbial communities in soil systems and also provides potential production strategies for planting A. carmichaelii.
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Affiliation(s)
- Tingting Pu
- College of Pharmaceutical Science, Dali University, Dali, China
| | - Jie Liu
- College of Pharmaceutical Science, Dali University, Dali, China
| | - Jingjing Dong
- College of Pharmaceutical Science, Dali University, Dali, China
| | - Jun Qian
- College of Pharmaceutical Science, Dali University, Dali, China
| | - Zhongyu Zhou
- College of Pharmaceutical Science, Dali University, Dali, China
| | - Conglong Xia
- College of Pharmaceutical Science, Dali University, Dali, China
| | - Guangfei Wei
- College of Pharmaceutical Science, Dali University, Dali, China,Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China,*Correspondence: Guangfei Wei, ; Baozhong Duan,
| | - Baozhong Duan
- College of Pharmaceutical Science, Dali University, Dali, China,*Correspondence: Guangfei Wei, ; Baozhong Duan,
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7
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Moneda APC, de Carvalho LAL, Teheran-Sierra LG, Funnicelli MIG, Pinheiro DG. Sugarcane cultivation practices modulate rhizosphere microbial community composition and structure. Sci Rep 2022; 12:19174. [PMID: 36357461 PMCID: PMC9649670 DOI: 10.1038/s41598-022-23562-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2022] [Accepted: 11/02/2022] [Indexed: 11/12/2022] Open
Abstract
Sugarcane (Saccharum spp.) represents a crop of great economic importance, remarkably relevant in the food industry and energy supply chains from renewable sources. However, its conventional cultivation involves the intensive use of fertilizers, pesticides, and other agrochemical agents whose detrimental effects on the environment are notorious. Alternative systems, such as organic farming, have been presented as an environmentally friendly way of production. Still, the outcomes of different cropping systems on the microbiota associated with sugarcane-whose role in its health and growth is crucial-remain underexplored. Thus, we studied the rhizospheric microbiota of two adjacent sugarcane fields, which differ in terms of the type of farming system. For this, we used the sequencing of taxonomic markers of prokaryotes (gene 16S rRNA, subregions V3-V4) and fungi (Internal transcribed spacer 2) and evaluated the changes caused by the systems. Our results show a well-conserved microbiota composition among farming systems in the highest taxonomic ranks, such as phylum, class, and order. Also, both systems showed very similar alpha diversity indices and shared core taxa with growth-promoting capacities, such as bacteria from the Bacillus and Bradyrhizobium genera and the fungal genus Trichoderma. However, the composition at more specific levels denotes differences, such as the separation of the samples concerning beta diversity and the identification of 74 differentially abundant taxa between the systems. Of these, 60 were fungal taxa, indicating that this microbiota quota is more susceptible to changes caused by farming systems. The analysis of co-occurrence networks also showed the formation of peripheral sub-networks associated with the treatments-especially in fungi-and the presence of keystone taxa in terms of their ability to mediate relationships between other members of microbial communities. Considering that both crop fields used the same cultivar and had almost identical soil properties, we conclude that the observed findings are effects of the activities intrinsic to each system and can contribute to a better understanding of the effects of farming practices on the plant microbiome.
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Affiliation(s)
- Ana Paula Corrêa Moneda
- grid.410543.70000 0001 2188 478XLaboratory of Bioinformatics, Department of Agricultural, Livestock and Environmental Biotechnology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP 14884-900 Brazil ,grid.410543.70000 0001 2188 478XGraduate Program in Agricultural and Livestock Microbiology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP Brazil
| | - Lucas Amoroso Lopes de Carvalho
- grid.410543.70000 0001 2188 478XLaboratory of Bioinformatics, Department of Agricultural, Livestock and Environmental Biotechnology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP 14884-900 Brazil ,grid.410543.70000 0001 2188 478XGraduate Program in Agricultural and Livestock Microbiology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP Brazil
| | - Luis Guillermo Teheran-Sierra
- grid.410543.70000 0001 2188 478XLaboratory of Bioinformatics, Department of Agricultural, Livestock and Environmental Biotechnology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP 14884-900 Brazil ,grid.410543.70000 0001 2188 478XGraduate Program in Agricultural and Livestock Microbiology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP Brazil
| | - Michelli Inácio Gonçalves Funnicelli
- grid.410543.70000 0001 2188 478XLaboratory of Bioinformatics, Department of Agricultural, Livestock and Environmental Biotechnology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP 14884-900 Brazil ,grid.410543.70000 0001 2188 478XGraduate Program in Agricultural and Livestock Microbiology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP Brazil
| | - Daniel Guariz Pinheiro
- grid.410543.70000 0001 2188 478XLaboratory of Bioinformatics, Department of Agricultural, Livestock and Environmental Biotechnology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP 14884-900 Brazil ,grid.410543.70000 0001 2188 478XGraduate Program in Agricultural and Livestock Microbiology, School of Agricultural and Veterinary Sciences, São Paulo State University (UNESP), Jaboticabal, SP Brazil
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8
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Wei C, Gu W, Tian R, Xu F, Han Y, Ji Y, Li T, Zhu Y, Lang P, Wu W. Comparative analysis of the structure and function of rhizosphere microbiome of the Chinese medicinal herb Alisma in different regions. Arch Microbiol 2022; 204:448. [PMID: 35778624 DOI: 10.1007/s00203-022-03084-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2022] [Revised: 06/11/2022] [Accepted: 06/16/2022] [Indexed: 11/25/2022]
Abstract
Rhizoma Alismatis, a commonly used traditional Chinese medicine, is the dried tuber of Alisma orientale and Alisma A. plantago-aquatica, mainly cultivated in Fujian and Sichuan provinces (China), respectively. Studies have shown that the rhizosphere microbiome is a key factor determining quality of Chinese medicinal plants. Here we applied metagenomics to investigate the rhizosphere microbiome of Alisma in Fujian and Sichuan, focusing on its structure and function and those genes involved in protostane triterpenes biosynthesis. The dominant phyla were Proteobacteria, Actinobacteria, Chloroflexi, Acidobacteria, and Gemmatimonadetes. Compared with Fujian, the rhizosphere of Sichuan has a greater α diversity and stronger microbial interactions but significantly lower relative abundance of archaea. Microbes with disease-suppressing functions were more abundant in Sichuan than Fujian, but vice versa for those with IAA-producing functions. Gemmatimonas, Anaeromyxobacter, and Pseudolabrys were the main contributors to the potential functional difference in two regions. Genes related to protostane triterpenes biosynthesis were enriched in Fujian. Steroidobacter, Pseudolabrys, Nevskia, and Nitrospira may contribute to the accumulation of protostane triterpenes in Alisma. This work fills a knowledge gap of Alisma's rhizosphere microbiome, providing a valuable reference for studying its beneficial microorganisms.
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Affiliation(s)
- Chenbin Wei
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
| | - Wei Gu
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China.
- Jiangsu Collaborative Innovation Center of Chinese Medicinal Resources Industrialization, Nanjing University of Chinese Medicine, Nanjing, 210023, China.
| | - Rong Tian
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
| | - Fei Xu
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
| | - Yun Han
- Suzhou TCM Hospital Affiliated to Nanjing University of Chinese Medicine: Suzhou Hospital of Traditional Chinese Medicine, Suzhou, 215007, China
| | - Yuanyuan Ji
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
| | - Tao Li
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
| | - Yu Zhu
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
| | - Peilei Lang
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
| | - Wenqing Wu
- Nanjing University of Chinese Medicine School of Pharmacy, 138 Xianlin Avenue, Nanjing, 210023, China
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9
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Gui H, Fan L, Wang D, Yan P, Li X, Pang Y, Zhang L, Zamanian K, Shi L, Xu J, Han W. Variations in Soil Nutrient Dynamics and Bacterial Communities After the Conversion of Forests to Long-Term Tea Monoculture Systems. Front Microbiol 2022; 13:896530. [PMID: 35814650 PMCID: PMC9263701 DOI: 10.3389/fmicb.2022.896530] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Accepted: 06/08/2022] [Indexed: 01/04/2023] Open
Abstract
The soil microbial community is a key indicator to evaluate the soil health and productivities in agricultural ecosystems. Monoculture and conversions of forests to tea plantations have been widely applied in tea plantation globally, but long-term monoculture of tea plantation could lead to soil degradation and yield decline. Understanding how long-term monoculture systems influence the soil health and ecosystem functions in tea plantation is of great importance for soil environment management. In this study, through the comparison of three independent tea plantations across eastern China composed of varying stand ages (from 3 to 90 years after conversion from forest), we found that long-term tea monoculture led to significant increases in soil total organic carbon (TOC) and microbial nitrogen (MBN). Additionally, the structure, function, and co-occurrence network of soil bacterial communities were investigated by pyrosequencing 16S rRNA genes. The pyrosequencing analysis revealed that the structures and functions of soil bacterial communities were significantly affected by different stand ages, but sampling sites and land-use conversion (from forest to tea plantation) had stronger effects than stand age on the diversity and structure of soil bacterial communities. Soil bacterial diversity can be improved with increasing stand ages in tea plantation. Further RDA analysis revealed that the C and N availability improvement in tea plantation soils led to the variation of structure and function in soil bacterial communities. Moreover, co-occurrence network analysis of soil bacterial communities also demonstrated that interactions among soil bacteria taxa were strengthened with increasing stand age. Our findings suggest that long-term monoculture with proper managements could be beneficial to soil ecosystems by increasing the C and N content and strengthening bacterial associations in tea plantations. Overall, this study provides a comprehensive understanding of the impact of land-use change and long-term monoculture stand age on soil environments in tea plantation.
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Affiliation(s)
- Heng Gui
- Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
- Centre for Mountain Futures (CMF), Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
| | - Lichao Fan
- Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
- Department of Soil Science of Temperate Ecosystems, University of Göttingen, Göttingen, Germany
- Yunnan Key Laboratory for Fungal Diversity and Green Development, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
- *Correspondence: Lichao Fan,
| | - Donghui Wang
- Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Peng Yan
- Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Xin Li
- Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Yinghua Pang
- Bureau of Agriculture and Rural Affairs of the Yuhang District, Hangzhou, China
| | - Liping Zhang
- Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Kazem Zamanian
- Department of Soil Science of Temperate Ecosystems, University of Göttingen, Göttingen, Germany
- School of Geographical Sciences, Nanjing University of Information Science and Technology, Nanjing, China
| | - Lingling Shi
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
- Centre for Mountain Futures (CMF), Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
| | - Jianchu Xu
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
- Centre for Mountain Futures (CMF), Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
| | - Wenyan Han
- Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
- Wenyan Han,
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Huang F, Mo C, Li L, Shi J, Yang Y, Liao X. Organic Fertilizer Application Mediates Tomato Defense Against Pseudomonas syringae pv. Tomato, Possibly by Reshaping the Soil Microbiome. Front Microbiol 2022; 13:939911. [PMID: 35801102 PMCID: PMC9253564 DOI: 10.3389/fmicb.2022.939911] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2022] [Accepted: 05/27/2022] [Indexed: 11/13/2022] Open
Abstract
Bacterial speck caused by Pseudomonas syringae pv. tomato is a serious foliar disease on tomato. However, it is still unknown how organic fertilizers application mediates plant defense against foliar pathogens by altering the composition of the soil microbial community. We conducted a 2-cycle pot experiment involving chemical and organic fertilizers and tracked tomato foliar pathogen incidence. Using microbiome sequencing, we then compared the differences in bulk and rhizosphere microbial communities. The results showed that, compared with soils amended with chemical fertilizer, soils amended with organic fertilizer gradually and significantly presented a reduction in tomato foliar disease, and the bacterial richness and diversity significantly increased. Moreover, the bacterial and fungal compositions of the bulk soil and rhizosphere soil of the organic fertilizer and chemical fertilizer treatments were different from each other. More importantly, the abundance of some potentially beneficial bacteria, such as Luteolibacter, Glycomyces, Flavobacterium, and Flavihumibacter, increased in the organic fertilizer-amended soil, and these genera were significantly negatively correlated with the incidence of tomato foliar disease. These results suggest that organic fertilizers can alter the taxonomy of the soil microbiome and that some specific beneficial microbial communities may play an important role in reducing the infection of foliar pathogens by inducing plant resistance.
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Affiliation(s)
- Feng Huang
- College of Animal Science, South China Agricultural University, Guangzhou, China
| | - Chunhao Mo
- College of Animal Science, South China Agricultural University, Guangzhou, China
| | - Linfei Li
- College of Animal Science, South China Agricultural University, Guangzhou, China
| | - Jingling Shi
- College of Animal Science, South China Agricultural University, Guangzhou, China
| | - Yiwen Yang
- College of Animal Science, South China Agricultural University, Guangzhou, China
| | - Xindi Liao
- College of Animal Science, South China Agricultural University, Guangzhou, China
- Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, Key Laboratory of Chicken Genetics, Breeding and Reproduction, Ministry Agriculture, Guangzhou, China
- National-Local Joint Engineering Research Center for Livestock Breeding, Guangzhou, China
- *Correspondence: Xindi Liao,
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11
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Azarbad H. Conventional vs. Organic Agriculture-Which One Promotes Better Yields and Microbial Resilience in Rapidly Changing Climates? Front Microbiol 2022; 13:903500. [PMID: 35814715 PMCID: PMC9261957 DOI: 10.3389/fmicb.2022.903500] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Accepted: 05/23/2022] [Indexed: 11/13/2022] Open
Abstract
In recent years, agricultural productivity has been affected dramatically by climate-related events such as drought. On the other hand, agricultural intensification is expected to increase to satisfy the need for increased global food production. Microbes associated with soil and plants produce a range of bioactive natural products that significantly contribute to crop stress tolerance. Therefore, a better understanding of the parallel effects of agricultural management (conventional and organic croplands) and climate conditions on soil-microbe-plant interactions is crucial to maximizing the effort in engineering a plant microbiome that can better support productivity in agroecosystems. This paper provides a general overview of the major current debates on conventional and organic farming performance regarding yields, particularly under ambient and future climate conditions. With the main focus on cropland, the effect of agricultural management on soil and plant microbiomes is discussed. In addition, the advantage of incorporating microbiome-based approaches into current farming practices to ensure agricultural productivity with less adverse environmental impacts is highlighted. To enhance crop production under organic farming without massive land-use changes and expansion of farmland, the microbial-based approach can be used to ensure higher productivity, particularly under a rapidly changing climate.
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Affiliation(s)
- Hamed Azarbad
- Department of Biology, Evolutionary Ecology of Plants, Philipps-University Marburg, Marburg, Germany
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12
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de Carvalho LAL, Teheran-Sierra LG, Funnicelli MIG, da Silva RC, Campanari MFZ, de Souza RSC, Arruda P, Soares MA, Pinheiro DG. Farming systems influence the compositional, structural, and functional characteristics of the sugarcane-associated microbiome. Microbiol Res 2021; 252:126866. [PMID: 34536678 DOI: 10.1016/j.micres.2021.126866] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Revised: 08/24/2021] [Accepted: 09/06/2021] [Indexed: 12/26/2022]
Abstract
Sugarcane (Saccharum spp.) has been produced worldwide as a relevant source of food and sustainable energy. However, the constant need to increase crop yield has led to excessive use of synthetic agrochemical inputs such as inorganic fertilizers, herbicides, and pesticides in plant cultures. It is known that these conventional practices can lead to deleterious effects on health and the environment. Organic farming emerges as a sustainable alternative to conventional systems; however, farm management influences in plant-associated microbiomes remain unclear. Here, the aim is to identify the effects of farming systems on the sugarcane microbiota. To address this issue, we sampled the microbiota from soils and plants under organic and conventional farming from two crop fields in Brazil. Then, we evaluated their compositional, structural, and functional traits through amplification and sequencing of phylogenetic markers of bacteria (16S rRNA gene, V3-V4 region) and fungi (Internal Transcribed Spacer - ITS2). The data processing and analyses by the DADA2 pipeline revealed 12,839 bacterial and 3,222 fungal sequence variants. Moreover, differences between analogous niches were detected considering the contrasting farming systems, with samples from the conventional system showing a slightly greater richness and diversity of microorganisms. The composition is also different between the farming systems, with 389 and 401 differentially abundant taxa for bacteria and fungi, respectively, including taxa capable of promoting plant growth. The microbial co-occurrence networks showed structural changes in microbial communities, where organic networks were more cohesive since they had closer taxa and less modularity by niches. Finally, the functional prediction revealed enriched metabolic pathways, including the increased presence of antimicrobial resistance in the conventional farming system. Taken together, our findings reveal functional, structural, and compositional adaptations of the microbial communities associated with sugarcane plants in the field, according to farming management. With this, we point out the need to unravel the mechanisms driving these adaptations.
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Affiliation(s)
- Lucas Amoroso Lopes de Carvalho
- Laboratory of Bioinformatics, Department of Agricultural and Environmental Biotechnology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil; Graduate Program in Agricultural and Livestock Microbiology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil.
| | - Luis Guillermo Teheran-Sierra
- Laboratory of Bioinformatics, Department of Agricultural and Environmental Biotechnology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil; Graduate Program in Agricultural and Livestock Microbiology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil
| | - Michelli Inácio Gonçalves Funnicelli
- Laboratory of Bioinformatics, Department of Agricultural and Environmental Biotechnology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil; Graduate Program in Agricultural and Livestock Microbiology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil
| | - Rafael Correia da Silva
- Laboratory of Bioinformatics, Department of Agricultural and Environmental Biotechnology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil; Graduate Program in Agricultural and Livestock Microbiology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil
| | - Maria Fernanda Zaneli Campanari
- Laboratory of Bioinformatics, Department of Agricultural and Environmental Biotechnology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil; Graduate Program in Agricultural and Livestock Microbiology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil
| | - Rafael Soares Correa de Souza
- Center for Molecular Biology and Genetic Engineering, University of Campinas (UNICAMP), Campinas, 13083-875, SP, Brazil; Genomics for Climate Change Research Center (GCCRC), University of Campinas (UNICAMP), Campinas, 13083-875, SP, Brazil
| | - Paulo Arruda
- Center for Molecular Biology and Genetic Engineering, University of Campinas (UNICAMP), Campinas, 13083-875, SP, Brazil; Genomics for Climate Change Research Center (GCCRC), University of Campinas (UNICAMP), Campinas, 13083-875, SP, Brazil; Department of Genetics, Evolution and Bioagents, Institute of Biology, University of Campinas (UNICAMP), Campinas, 13083-970, SP, Brazil
| | - Marcos Antônio Soares
- Department of Botany and Ecology, Federal University of Mato Grosso (UFMT), Av. Fernando Corrêa 2367, Cuiabá, MT, Brazil
| | - Daniel Guariz Pinheiro
- Laboratory of Bioinformatics, Department of Agricultural and Environmental Biotechnology, São Paulo State University (UNESP), School of Agricultural and Veterinary Sciences, Jaboticabal, 14884-900, SP, Brazil.
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13
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Fields B, Moffat EK, Harrison E, Andersen SU, Young JPW, Friman VP. Genetic variation is associated with differences in facilitative and competitive interactions in the Rhizobium leguminosarum species complex. Environ Microbiol 2021; 24:3463-3485. [PMID: 34398510 DOI: 10.1111/1462-2920.15720] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Revised: 07/08/2021] [Accepted: 08/10/2021] [Indexed: 12/01/2022]
Abstract
Competitive and facilitative interactions influence bacterial community composition, diversity and functioning. However, the role of genetic diversity for determining interactions between coexisting strains of the same, or closely related, species remains poorly understood. Here, we investigated the type (facilitative/inhibitory) and potential underlying mechanisms of pairwise interactions between 24 genetically diverse bacterial strains belonging to three genospecies (gsA,C,E) of the Rhizobium leguminosarum species complex. Interactions were determined indirectly, based on secreted compounds in cell-free supernatants, and directly, as growth inhibition in cocultures. We found supernatants mediated both facilitative and inhibitory interactions that varied greatly between strains and genospecies. Overall, gsE strains indirectly suppressed growth of gsA strains, while their own growth was facilitated by other genospecies' supernatants. Similar genospecies-level patterns were observed in direct competition, where gsA showed the highest susceptibility and gsE the highest inhibition capacity. At the genetic level, increased gsA susceptibility was associated with a non-random distribution of quorum sensing and secondary metabolite genes across genospecies. Together, our results suggest that genetic variation is associated with facilitative and competitive interactions, which could be important ecological mechanisms explaining R. leguminosarum diversity.
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Affiliation(s)
| | - Emma K Moffat
- Department of Biology, University of York, York, UK.,Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Ellie Harrison
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Stig U Andersen
- Department of Molecular Biology and Genetics, Aarhus University, Aarhus, Denmark
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14
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Trichovariability in rhizosphere soil samples and their biocontrol potential against downy mildew pathogen in pearl millet. Sci Rep 2021; 11:9517. [PMID: 33947949 PMCID: PMC8096818 DOI: 10.1038/s41598-021-89061-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2019] [Accepted: 04/19/2021] [Indexed: 02/03/2023] Open
Abstract
The present work is aimed to examine the genetic variability and the distribution pattern of beneficial Trichoderma spp. isolated from rhizosphere samples and their mode of action in improving the plant health. A total of 131 suspected fungi were isolated from the rhizospheric soil and 91 isolates were confirmed as Trichoderma spp. T. asperellum and T. harzianum were found high in the frequency of occurrence. Genetic diversity analysis using RAPD and ISSR revealed the diverse distribution pattern of Trichoderma spp. indicating their capability to adapt to broad agroclimatic conditions. Analysis of genetic diversity using molecular markers revealed intra-species diversity of isolated Trichoderma spp. The frequency of pearl millet (PM) root colonization by Trichoderma spp. was found to be 100%. However, they showed varied results for indole acetic acid, siderophore, phosphate solubilization, β-1,3-glucanase, chitinase, cellulase, lipase, and protease activity. Downy mildew disease protection studies revealed a strong involvement of Trichoderma spp. in direct suppression of the pathogen (mean 37.41) in the rhizosphere followed by inducing systemic resistance. Our findings highlights the probable distribution and diversity profile of Trichoderma spp. as well as narrate the possible utilization of Trichoderma spp. as microbial fungicides in PM cultivation across different agroclimatic zones of India.
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Hu D, Li S, Li Y, Peng J, Wei X, Ma J, Zhang C, Jia N, Wang E, Wang Z. Streptomyces sp. strain TOR3209: a rhizosphere bacterium promoting growth of tomato by affecting the rhizosphere microbial community. Sci Rep 2020; 10:20132. [PMID: 33208762 PMCID: PMC7675979 DOI: 10.1038/s41598-020-76887-5] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2020] [Accepted: 10/30/2020] [Indexed: 12/29/2022] Open
Abstract
Aiming at revealing the possible mechanism of its growth promoting effect on tomato, the correlations among Streptomyces sp. TOR3209 inoculation, rhizobacteriome, and tomato growth/production traits were investigated in this study. By analyses of Illumina sequencing and plate coating, differences in rhizosphere microbial communities were found in different growth stages and distinct inoculation treatments. The plant biomass/fruit yields and relative abundances of families Flavobacteriaceae, Sphingobacteriaceae, Polyangiaceae and Enterobacteriaceae in treatments T (tomato inoculated with TOR3209) and TF (tomato inoculated with TOR3209 + organic fertilizer) were higher than that in the controls (CK and CK+ organic fertilizer), respectively. The analysis of Metastats and LEfSe revealed that the genera Flavobacterium and Sorangium in seedling stage, Klebsiella in flowering stage, Collimonas in early fruit setting stage, and genera Micrococcaceae, Pontibacte and Adhaeribacter in late fruit setting stage were the most representative rhizobacteria that positively responded to TOR3209 inoculation. By cultivation method, five bacterial strains positively correlated to TOR3209 inoculation were isolated from rhizosphere and root endosphere, which were identified as tomato growth promoters affiliated to Enterobacter sp., Arthrobacter sp., Bacillus subtilis, Rhizobium sp. and Bacillus velezensis. In pot experiment, TOR3209 and B. velezensis WSW007 showed joint promotion to tomato production, while the abundance of inoculated TOR3209 was dramatically decreased in rhizosphere along the growth of tomato. Conclusively, TOR3209 might promote the tomato production via changing of microbial community in rhizosphere. These findings provide a better understanding of the interactions among PGPR in plant promotion.
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Affiliation(s)
- Dong Hu
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Shuhong Li
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Ying Li
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Jieli Peng
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Xiaoyan Wei
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Jia Ma
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Cuimian Zhang
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Nan Jia
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China
| | - Entao Wang
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, C.P. 11340, Mexico City, Mexico
| | - Zhanwu Wang
- Key Laboratory of Plants Genetic Engineering Center, Institute of Genetics and Physiology (Hebei Agricultural Products Quality and Safety Research Center), Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, 050000, People's Republic of China.
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16
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Blundell R, Schmidt JE, Igwe A, Cheung AL, Vannette RL, Gaudin ACM, Casteel CL. Organic management promotes natural pest control through altered plant resistance to insects. NATURE PLANTS 2020; 6:483-491. [PMID: 32415295 DOI: 10.1038/s41477-020-0656-9] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2019] [Accepted: 04/02/2020] [Indexed: 06/11/2023]
Abstract
Reduced insect pest populations found on long-term organic farms have mostly been attributed to increased biodiversity and abundance of beneficial predators, as well as to changes in plant nutrient content. However, the role of plant resistance has largely been ignored. Here, we determine whether host plant resistance mediates decreased pest populations in organic systems and identify potential underpinning mechanisms. We demonstrate that fewer numbers of leafhoppers (Circulifer tenellus) settle on tomatoes (Solanum lycopersicum) grown using organic management as compared to conventional. We present multiple lines of evidence, including rhizosphere soil microbiome sequencing, chemical analysis and transgenic approaches, to demonstrate that changes in leafhopper settling between organically and conventionally grown tomatoes are dependent on salicylic acid accumulation in plants and mediated by rhizosphere microbial communities. These results suggest that organically managed soils and microbial communities may play an unappreciated role in reducing plant attractiveness to pests by increasing plant resistance.
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Affiliation(s)
- Robert Blundell
- Department of Plant Pathology, University of California, Davis, CA, USA
| | | | - Alexandria Igwe
- Department of Entomology and Nematology, University of California, Davis, CA, USA
| | - Andrea L Cheung
- Department of Plant Pathology, University of California, Davis, CA, USA
| | - Rachel L Vannette
- Department of Entomology and Nematology, University of California, Davis, CA, USA
| | | | - Clare L Casteel
- Department of Plant Pathology, University of California, Davis, CA, USA.
- School of Integrative Plant Science, Plant-Microbe Biology and Plant Pathology Section, Cornell University, Ithaca, NY, USA.
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