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Rigobelo EC, de Andrade LA, Santos CHB, Frezarin ET, Sales LR, de Carvalho LAL, Guariz Pinheiro D, Nicodemo D, Babalola OO, Verdi MCQ, Mondin M, Desoignies N. Effects of Trichoderma harzianum and Bacillus subtilis on the root and soil microbiomes of the soybean plant INTACTA RR2 PRO™. FRONTIERS IN PLANT SCIENCE 2024; 15:1403160. [PMID: 39258296 PMCID: PMC11383790 DOI: 10.3389/fpls.2024.1403160] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2024] [Accepted: 08/06/2024] [Indexed: 09/12/2024]
Abstract
Introduction Soybean is a significant export product for several countries, including the United States and Brazil. There are numerous varieties of soybean. Among them, a genetically modified type known as INTACTA RR2 PRO™ has been designed to demonstrate resistance to glyphosate and to produce toxins that are lethal to several species of caterpillars. Limited information is available on the use of Trichoderma harzianum and Bacillus subtilis to promote plant growth and their impact on the plant microbiome. Methods This study aimed to evaluate the effects of these microorganisms on this soybean cultivar by analyzing parameters, such as root and shoot dry matter, nutritional status, and root and soil microbial diversity. Results The results indicated that treatments with B. subtilis alone or in combination with T. harzianum as seed or seed and soil applications significantly enhanced plant height and biomass compared to the other treatments and the control. No significant differences in phosphorus and nitrogen concentrations were detected across treatments, although some treatments showed close correlations with these nutrients. Microbial inoculations slightly influenced the soil and root microbiomes, with significant beta diversity differences between soil and root environments, but had a limited overall impact on community composition. Discussion The combined application of B. subtilis and T. harzianum particularly enhanced plant growth and promoted plant-associated microbial groups, such as Rhizobiaceae, optimizing plant-microbe interactions. Furthermore, the treatments resulted in a slight reduction in fungal richness and diversity.
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Affiliation(s)
- Everlon Cid Rigobelo
- Agricultural and Livestock Microbiology Postgraduate Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Luana Alves de Andrade
- Agricultural and Livestock Microbiology Postgraduate Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Carlos Henrique Barbosa Santos
- Agricultural and Livestock Microbiology Postgraduate Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Edvan Teciano Frezarin
- Agricultural and Livestock Microbiology Postgraduate Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Luziane Ramos Sales
- Agricultural and Livestock Microbiology Postgraduate Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Lucas Amoroso Lopes de Carvalho
- Agricultural and Livestock Microbiology Postgraduate Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Daniel Guariz Pinheiro
- Agricultural and Livestock Microbiology Postgraduate Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Daniel Nicodemo
- Faculty of Agrarian and Veterinary Sciences, State University of São Paulo (UNESP), Jaboticabal, Brazil
| | - Olubukola Oluranti Babalola
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North-West University, Mmabatho, South Africa
| | - Maria Caroline Quecine Verdi
- University of São Paulo, College of Agriculture "Luiz de Queiroz", Genetics Science Department, Piracicaba, Brazil
| | - Mateus Mondin
- University of São Paulo, College of Agriculture "Luiz de Queiroz", Genetics Science Department, Piracicaba, Brazil
| | - Nicolas Desoignies
- University of São Paulo, College of Agriculture "Luiz de Queiroz", Genetics Science Department, Piracicaba, Brazil
- Phytopathology, Microbial and Molecular Farming Lab, Center D'Etudes et Recherche Appliquée-Haute Ecole Provinciale du Hainaut Condorcet, Ath, Belgium
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Li C, Chen X, Jia Z, Zhai L, Zhang B, Grüters U, Ma S, Qian J, Liu X, Zhang J, Müller C. Meta-analysis reveals the effects of microbial inoculants on the biomass and diversity of soil microbial communities. Nat Ecol Evol 2024; 8:1270-1284. [PMID: 38849504 DOI: 10.1038/s41559-024-02437-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Accepted: 05/13/2024] [Indexed: 06/09/2024]
Abstract
Microbial inoculation involves transplanting microorganisms from their natural habitat to new plants or soils to improve plant performance, and it is being increasingly used in agriculture and ecological restoration. However, microbial inoculants can invade and alter the composition of native microbial communities; thus, a comprehensive analysis is urgently needed to understand the overall impact of microbial inoculants on the biomass, diversity, structure and network complexity of native communities. Here we provide a meta-analysis of 335 studies revealing a positive effect of microbial inoculants on soil microbial biomass. This positive effect was weakened by environmental stress and enhanced by the use of fertilizers and native inoculants. Although microbial inoculants did not alter microbial diversity, they induced major changes in the structure and bacterial composition of soil microbial communities, reducing the complexity of bacterial networks and increasing network stability. Finally, higher initial levels of soil nutrients amplified the positive impact of microbial inoculants on fungal biomass, actinobacterial biomass, microbial biomass carbon and microbial biomass nitrogen. Together, our results highlight the positive effects of microbial inoculants on soil microbial biomass, emphasizing the benefits of native inoculants and the important regulatory roles of soil nutrient levels and environmental stress.
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Affiliation(s)
- Chong Li
- Co-Innovation Center for Sustainable Forestry in Southern China, Jiangsu Province Key Laboratory of Soil and Water Conservation and Ecological Restoration, Nanjing Forestry University, Nanjing, China
- Institute of Plant Ecology, Justus-Liebig University Giessen, Giessen, Germany
| | - Xinli Chen
- Department of Renewable Resources, University of Alberta, Edmonton, Alberta, Canada
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, China
| | - Zhaohui Jia
- Co-Innovation Center for Sustainable Forestry in Southern China, Jiangsu Province Key Laboratory of Soil and Water Conservation and Ecological Restoration, Nanjing Forestry University, Nanjing, China
| | - Lu Zhai
- Department of Natural Resource Ecology and Management, Oklahoma State University, Stillwater, OK, USA
| | - Bo Zhang
- Department of Integrative Biology, Oklahoma State University, Stillwater, OK, USA
| | - Uwe Grüters
- Institute of Plant Ecology, Justus-Liebig University Giessen, Giessen, Germany
| | - Shilin Ma
- Co-Innovation Center for Sustainable Forestry in Southern China, Jiangsu Province Key Laboratory of Soil and Water Conservation and Ecological Restoration, Nanjing Forestry University, Nanjing, China
| | - Jing Qian
- Yangzhou China Grand Canal Museum, Yangzhou, China
| | - Xin Liu
- Co-Innovation Center for Sustainable Forestry in Southern China, Jiangsu Province Key Laboratory of Soil and Water Conservation and Ecological Restoration, Nanjing Forestry University, Nanjing, China.
| | - Jinchi Zhang
- Co-Innovation Center for Sustainable Forestry in Southern China, Jiangsu Province Key Laboratory of Soil and Water Conservation and Ecological Restoration, Nanjing Forestry University, Nanjing, China.
| | - Christoph Müller
- Institute of Plant Ecology, Justus-Liebig University Giessen, Giessen, Germany
- School of Biology and Environmental Science and Earth Institute, University College Dublin, Dublin, Ireland
- Liebig Centre for Agroecology and Climate Impact Research, Justus-Liebig University, Giessen, Germany
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Cunha IDCMD, Silva AVRD, Boleta EHM, Pellegrinetti TA, Zagatto LFG, Zagatto SDSS, Chaves MGD, Mendes R, Patreze CM, Tsai SM, Mendes LW. The interplay between the inoculation of plant growth-promoting rhizobacteria and the rhizosphere microbiome and their impact on plant phenotype. Microbiol Res 2024; 283:127706. [PMID: 38574431 DOI: 10.1016/j.micres.2024.127706] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Revised: 03/26/2024] [Accepted: 03/27/2024] [Indexed: 04/06/2024]
Abstract
Microbial inoculation stands as a pivotal strategy, fostering symbiotic relationships between beneficial microorganisms and plants, thereby enhancing nutrient uptake, bolstering resilience against environmental stressors, and ultimately promoting healthier and more productive plant growth. However, while the advantageous roles of inoculants are widely acknowledged, the precise and nuanced impacts of inoculation on the intricate interactions of the rhizosphere microbiome remain significantly underexplored. This study explores the impact of bacterial inoculation on soil properties, plant growth, and the rhizosphere microbiome. By employing various bacterial strains and a synthetic community (SynCom) as inoculants in common bean plants, the bacterial and fungal communities in the rhizosphere were assessed through 16 S rRNA and ITS gene sequencing. Concurrently, soil chemical parameters, plant traits, and gene expression were evaluated. The findings revealed that bacterial inoculation generally decreased pH and V%, while increasing H+Al and m% in the rhizosphere. It also decreased gene expression in plants related to detoxification, photosynthesis, and defense mechanisms, while enhancing bacterial diversity in the rhizosphere, potentially benefiting plant health. Specific bacterial strains showed varied impacts on rhizosphere microbiome assembly, predominantly affecting rhizospheric bacteria more than fungi, indirectly influencing soil conditions and plants. Notably, Paenibacillus polymyxa inoculation improved plant nitrogen (by 5.2%) and iron levels (by 28.1%), whereas Bacillus cereus boosted mycorrhization rates (by 70%). Additionally, inoculation led to increased complexity in network interactions within the rhizosphere (∼15%), potentially impacting plant health. Overall, the findings highlight the significant impact of introducing bacteria to the rhizosphere, enhancing nutrient availability, microbial diversity, and fostering beneficial plant-microbe interactions.
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Affiliation(s)
- Izadora de Cássia Mesquita da Cunha
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil; Luiz de Queiroz College of Agriculture ESALQ, University of São Paulo USP, Piracicaba, SP 13418-900, Brazil
| | - Ana Vitória Reina da Silva
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil
| | - Eduardo Henrique Marcandalli Boleta
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil
| | - Thierry Alexandre Pellegrinetti
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil
| | - Luis Felipe Guandalin Zagatto
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil; Department of Terrestrial Ecology, Netherlands Institute of Ecology NIOO-KNAW, Wageningen NL-6700 AB, the Netherlands
| | - Solange Dos Santos Silva Zagatto
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil
| | - Miriam Gonçalves de Chaves
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil
| | - Rodrigo Mendes
- Laboratory of Environmental Microbiology, Embrapa Environment, Jaguariuna 18020-000, Brazil
| | - Camila Maistro Patreze
- Institute of Biosciences, Federal University of the State of Rio de Janeiro, Rio de Janeiro, RJ 22290-240, Brazil
| | - Siu Mui Tsai
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil
| | - Lucas William Mendes
- Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, Piracicaba, SP 13416-000, Brazil.
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Feng G, Hao F, He W, Ran Q, Nie G, Huang L, Wang X, Yuan S, Xu W, Zhang X. Effect of Biogas Slurry on the Soil Properties and Microbial Composition in an Annual Ryegrass-Silage Maize Rotation System over a Five-Year Period. Microorganisms 2024; 12:716. [PMID: 38674660 PMCID: PMC11051864 DOI: 10.3390/microorganisms12040716] [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: 02/24/2024] [Revised: 03/24/2024] [Accepted: 03/29/2024] [Indexed: 04/28/2024] Open
Abstract
Soil health is seriously threatened by the overuse of chemical fertilizers in agricultural management. Biogas slurry is often seen as an organic fertilizer resource that is rich in nutrients, and its use has the goal of lowering the amount of chemical fertilizers used while preserving crop yields and soil health. However, the application of continuous biogas slurry has not yet been studied for its long-term impact on soil nutrients and microbial communities in a rotation system of annual ryegrass-silage maize (Zea mays). This study aimed to investigate the impacts on the chemical properties and microbial community of farmland soils to which chemical fertilizer (NPK) (225 kg ha-1), biogas slurry (150 t ha-1), and a combination (49.5 t ha-1 biogas slurry + 150 kg ha-1 chemical fertilizer) were applied for five years. The results indicated that compared to the control group, the long-term application of biogas slurry significantly increased the SOC, TN, AP, and AK values by 45.93%, 39.52%, 174.73%, and 161.54%, respectively; it neutralized acidic soil and increased the soil pH. TN, SOC, pH, and AP are all important environmental factors that influence the structural composition of the soil's bacterial and fungal communities. Chemical fertilizer application significantly increased the diversity of the bacterial community. Variation was observed in the composition of soil bacterial and fungal communities among the different treatments. The structure and diversity of soil microbes are affected by different methods of fertilization; the application of biogas slurry not only increases the contents of soil nutrients but also regulates the soil's bacterial and fungal community structures. Therefore, biogas slurry can serve as a sustainable management measure and offers an alternative to the application of chemical fertilizers for sustainable intensification.
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Affiliation(s)
- Guangyan Feng
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (G.F.); (F.H.); (G.N.); (L.H.); (X.W.); (S.Y.)
| | - Feixiang Hao
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (G.F.); (F.H.); (G.N.); (L.H.); (X.W.); (S.Y.)
- Industrial Crop Research Institute, Sichuan Academy of Agricultural Science, Chengdu 610066, China
| | - Wei He
- Grassland Research Institute, Chongqing Academy of Animal Science, Chongqing 402460, China; (W.H.); (Q.R.)
| | - Qifan Ran
- Grassland Research Institute, Chongqing Academy of Animal Science, Chongqing 402460, China; (W.H.); (Q.R.)
| | - Gang Nie
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (G.F.); (F.H.); (G.N.); (L.H.); (X.W.); (S.Y.)
| | - Linkai Huang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (G.F.); (F.H.); (G.N.); (L.H.); (X.W.); (S.Y.)
| | - Xia Wang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (G.F.); (F.H.); (G.N.); (L.H.); (X.W.); (S.Y.)
| | - Suhong Yuan
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (G.F.); (F.H.); (G.N.); (L.H.); (X.W.); (S.Y.)
| | - Wenzhi Xu
- Industrial Crop Research Institute, Sichuan Academy of Agricultural Science, Chengdu 610066, China
| | - Xinquan Zhang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; (G.F.); (F.H.); (G.N.); (L.H.); (X.W.); (S.Y.)
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Li X, Yi S, Chen L, Hafeez M, Zhang Z, Zhang J, Zhou S, Dong W, Huang J, Lu Y. The application of entomopathogenic nematode modified microbial communities within nesting mounds of the red imported fire ants, Solenopsis invicta. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:168748. [PMID: 38008315 DOI: 10.1016/j.scitotenv.2023.168748] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Revised: 11/10/2023] [Accepted: 11/19/2023] [Indexed: 11/28/2023]
Abstract
Entomopathogenic microorganisms (e.g., fungi, bacteria, nematodes) have been widely used in biological control of soil-dwelling pests, including the red imported fire ant (RIFA), Solenopsis invicta, a notorious invasive pest worldwide. The application of large amounts of entomopathogenic microorganisms to soil may affect the indigenous soil microbial communities. However, reports about the effect of entomopathogenic nematodes (EPN) on soil microbial communities are very few. In this study, the effects of EPN on RIFA populations and microbial communities in mounds were investigated. Our results showed that the application of the EPN Steinernema carpocapsae. All strain on mounds efficaciously suppressed RIFA worker populations, without forming significantly more satellite mounds compared with the control treatment. The application of EPN did not impact the bacterial and fungal diversity in soils derived from the RIFA mounds. However, it slightly altered the taxonomic make-up of the bacterial communities, but significantly altered the taxonomic composition of fungal communities at the phylum, family, and genus levels. The abundances of some beneficial bacteria and fungi, such as Streptomyces, decreased, while those of plant and animal pathogenic bacteria and fungi, dramatically increased, after EPN treatment. On the other hand, the abundances of some entomopathogenic fungi, such as Fusicolla, Clonostachys, and Mortierella, increased. Redundancy analysis or canonical correspondence analysis revealed a positive correlation between the efficacious EPN control and the presence of the insect-resistant bacteria, Sinomonas, as well as entomopathogenic fungi Fusicolla and Mortierella. This suggests that the interactions between EPN and entomopathogenic fungi may play a role in the biological control of RIFA. Our discoveries shed light on the interactions among EPN, RIFA, and soil microbial communities, and emphasize a possible mutualistic relationship between EPN and entomopathogenic fungi in the biological control of RIFA.
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Affiliation(s)
- Xiaowei Li
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Songwang Yi
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, China
| | - Limin Chen
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Muhammad Hafeez
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Zhijun Zhang
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Jinming Zhang
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Shuxing Zhou
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Wanying Dong
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Jun Huang
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.
| | - Yaobin Lu
- State Key Laboratory for Managing Biotic and Chemical Threats to Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Protection and Microbiology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Institute of Bio-Interaction, Xianghu Laboratory, Hangzhou 311258, China.
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Lee Díaz AS, Minchev Z, Raaijmakers JM, Pozo MJ, Garbeva P. Impact of bacterial and fungal inoculants on the resident rhizosphere microbiome and the volatilome of tomato plants under leaf herbivory stress. FEMS Microbiol Ecol 2024; 100:fiad160. [PMID: 38331428 PMCID: PMC10858387 DOI: 10.1093/femsec/fiad160] [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: 01/30/2023] [Revised: 11/16/2023] [Accepted: 02/07/2024] [Indexed: 02/10/2024] Open
Abstract
Various studies have addressed the impact of microbial inoculants on the composition of the resident microbiome. How microbial inoculants impact plant metabolism and interact with the resident rhizobiota under herbivory stress remains elusive. Here, we investigated the impact of two bacterial and two fungal inoculants, inoculated as single species and as a synthetic community, on the rhizosphere microbiome and volatilome of tomato plants (Solanum lycopersicum) comparing nonstress conditions to exposed to leaf herbivory by Spodoptera exigua. Based on amplicon sequencing analysis, rhizobacterial community composition was significantly affected by all four inoculants and the magnitude of this effect was dependent on herbivory stress. Fungal community composition was altered by the microbial inoculants but independent of herbivory stress. The rhizosphere volatilome was impacted by the microbial inoculation and differences between treatments were evened under herbivory stress. Each microbial inoculant caused unique changes in the volatilome of stressed plants but also shared similar responses, in particular the enhanced production of dimethyl disulfide and benzothiazole. In conclusion, the introduction of microbial inoculants in the tomato rhizosphere caused unique as well as common changes in the rhizosphere microbiome and volatilome, but these changes were minor compared to the microbiome changes induced by herbivory stress.
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Affiliation(s)
- Ana Shein Lee Díaz
- Department of Microbial Ecology, The Netherlands Institute of Ecology (NIOO-KNAW), Droevendaalsesteeg 10, 6708 PB Wageningen, the Netherlands
| | - Zhivko Minchev
- Department of Soil Microbiology and Symbiotic Systems
, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Cientfícias (CSIC), Calle Prof. Albareda, 1, 18008, Granada, Spain
| | - Jos M Raaijmakers
- Department of Microbial Ecology, The Netherlands Institute of Ecology (NIOO-KNAW), Droevendaalsesteeg 10, 6708 PB Wageningen, the Netherlands
- Institute of Biology, Leiden University, Sylviusweg 72, 2333 BE, Leiden, the Netherlands
| | - María José Pozo
- Department of Soil Microbiology and Symbiotic Systems
, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Cientfícias (CSIC), Calle Prof. Albareda, 1, 18008, Granada, Spain
| | - Paolina Garbeva
- Department of Microbial Ecology, The Netherlands Institute of Ecology (NIOO-KNAW), Droevendaalsesteeg 10, 6708 PB Wageningen, the Netherlands
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Hara S, Kakizaki K, Bamba M, Itakura M, Sugawara M, Suzuki A, Sasaki Y, Takeda M, Tago K, Ohbayashi T, Aono T, Aoyagi LN, Shimada H, Shingubara R, Masuda S, Shibata A, Shirasu K, Wagai R, Akiyama H, Sato S, Minamisawa K. Does Rhizobial Inoculation Change the Microbial Community in Field Soils? A Comparison with Agricultural Land-use Changes. Microbes Environ 2024; 39:ME24006. [PMID: 39261062 PMCID: PMC11427313 DOI: 10.1264/jsme2.me24006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2024] [Accepted: 06/07/2024] [Indexed: 09/13/2024] Open
Abstract
Although microbial inoculation may be effective for sustainable crop production, detrimental aspects have been argued because of the potential of inoculated microorganisms to behave as invaders and negatively affect the microbial ecosystem. We herein compared the impact of rhizobial inoculation on the soil bacterial community with that of agricultural land-use changes using a 16S rRNA amplicon ana-lysis. Soybean plants were cultivated with and without five types of bradyrhizobial inoculants (Bradyrhizobium diazoefficiens or Bradyrhizobium ottawaense) in experimental fields of Andosol, and the high nodule occupancy (35-72%) of bradyrhizobial inoculants was confirmed by nosZ PCR. However, bradyrhizobial inoculants did not significantly affect Shannon's diversity index (α-diversity) or shifts (β-diversity) in the bacterial community in the soils. Moreover, the soil bacterial community was significantly affected by land-use types (conventional cropping, organic cropping, and original forest), where β-diversity correlated with soil chemical properties (pH, carbon, and nitrogen contents). Therefore, the effects of bradyrhizobial inoculation on bacterial communities in bulk soil were minor, regardless of high nodule occupancy. We also observed a correlation between the relative abundance of bacterial classes (Alphaproteobacteria, Gammaproteobacteria, and Gemmatimonadetes) and land-use types or soil chemical properties. The impact of microbial inoculation on soil microbial ecosystems has been exami-ned to a limited extent, such as rhizosphere communities and viability. In the present study, we found that bacterial community shifts in soil were more strongly affected by land usage than by rhizobial inoculation. Therefore, the results obtained herein highlight the importance of assessing microbial inoculants in consideration of the entire land management system.
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Affiliation(s)
- Shintaro Hara
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Kaori Kakizaki
- Graduate School of Life Sciences, Tohoku University, Sendai, 980–8577, Japan
| | - Masaru Bamba
- Graduate School of Life Sciences, Tohoku University, Sendai, 980–8577, Japan
| | - Manabu Itakura
- Graduate School of Life Sciences, Tohoku University, Sendai, 980–8577, Japan
| | - Masayuki Sugawara
- Department of Life and Food Sciences, Obihiro University of Agriculture and Veterinary Medicine, Obihiro, 080–8555, Japan
| | - Atsuo Suzuki
- Graduate School of Life Sciences, Tohoku University, Sendai, 980–8577, Japan
| | - Yuma Sasaki
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Masanori Takeda
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Kanako Tago
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Tsubasa Ohbayashi
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Toshihiro Aono
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Luciano Nobuhiro Aoyagi
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Hiroaki Shimada
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
- Research Center for Global Agromedicine, Obihiro University of Agriculture and Veterinary Medicine, Obihiro, 080–8555, Japan
| | - Ryo Shingubara
- Research Center for Advanced Analysis (NAAC), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Sachiko Masuda
- RIKEN Center for Sustainable Resource Science, Yokohama, 230–0045, Japan
| | - Arisa Shibata
- RIKEN Center for Sustainable Resource Science, Yokohama, 230–0045, Japan
| | - Ken Shirasu
- RIKEN Center for Sustainable Resource Science, Yokohama, 230–0045, Japan
| | - Rota Wagai
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Hiroko Akiyama
- Institute for Agro-Environmental Sciences (NIAES), National Agriculture and Food Research Organization (NARO), Tsukuba, 305–8604, Japan
| | - Shusei Sato
- Graduate School of Life Sciences, Tohoku University, Sendai, 980–8577, Japan
| | - Kiwamu Minamisawa
- Graduate School of Life Sciences, Tohoku University, Sendai, 980–8577, Japan
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8
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Diabankana RGC, Frolov M, Keremli S, Validov SZ, Afordoanyi DM. Genomic Insights into the Microbial Agent Streptomyces albidoflavus MGMM6 for Various Biotechnology Applications. Microorganisms 2023; 11:2872. [PMID: 38138016 PMCID: PMC10745817 DOI: 10.3390/microorganisms11122872] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Revised: 11/22/2023] [Accepted: 11/25/2023] [Indexed: 12/24/2023] Open
Abstract
Microbial biotechnology plays a crucial role in improving industrial processes, particularly in the production of compounds with diverse applications. In this study, we used bioinformatic approaches to analyze the genomic architecture of Streptomyces albidoflavus MGMM6 and identify genes involved in various metabolic pathways that have significant biotechnological potential. Genome mining revealed that MGMM6 consists of a linear chromosome of 6,932,303 bp, with a high G+C content of 73.5%, lacking any plasmid contigs. Among the annotated genes, several are predicted to encode enzymes such as dye peroxidase, aromatic ring-opening dioxygenase, multicopper oxidase, cytochrome P450 monooxygenase, and aromatic ring hydroxylating dioxygenases which are responsible for the biodegradation of numerous endogenous and xenobiotic pollutants. In addition, we identified genes associated with heavy metal resistance, such as arsenic, cadmium, mercury, chromium, tellurium, antimony, and bismuth, suggesting the potential of MGMM6 for environmental remediation purposes. The analysis of secondary metabolites revealed the presence of multiple biosynthesis gene clusters responsible for producing compounds with potent antimicrobial and metal-chelating activities. Furthermore, laboratory tests conducted under controlled conditions demonstrated the effectiveness of MGMM6 in inhibiting phytopathogenic microbes, decolorizing and degrading aromatic triphenylmethane dyes, particularly Blue Brilliant G250, from wastewater by up to 98 ± 0.15%. Overall, the results of our study highlight the promising biotechnological potential of S. albidoflavus MGMM6.
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Affiliation(s)
- Roderic Gilles Claret Diabankana
- Laboratory of Molecular Genetics and Microbiology Methods, Kazan Scientific Center of the Russian Academy of Sciences, 420111 Kazan, Russia; (M.F.); (S.K.); (S.Z.V.); (D.M.A.)
| | - Mikhail Frolov
- Laboratory of Molecular Genetics and Microbiology Methods, Kazan Scientific Center of the Russian Academy of Sciences, 420111 Kazan, Russia; (M.F.); (S.K.); (S.Z.V.); (D.M.A.)
| | - Saparmyradov Keremli
- Laboratory of Molecular Genetics and Microbiology Methods, Kazan Scientific Center of the Russian Academy of Sciences, 420111 Kazan, Russia; (M.F.); (S.K.); (S.Z.V.); (D.M.A.)
| | - Shamil Zavdatovich Validov
- Laboratory of Molecular Genetics and Microbiology Methods, Kazan Scientific Center of the Russian Academy of Sciences, 420111 Kazan, Russia; (M.F.); (S.K.); (S.Z.V.); (D.M.A.)
| | - Daniel Mawuena Afordoanyi
- Laboratory of Molecular Genetics and Microbiology Methods, Kazan Scientific Center of the Russian Academy of Sciences, 420111 Kazan, Russia; (M.F.); (S.K.); (S.Z.V.); (D.M.A.)
- Tatar Scientific Research Institute of Agricultural Chemistry and Soil Science, FRC Kazan Scientific Center, Russian Academy of Sciences, 420111 Kazan, Russia
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9
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Samain E, Duclercq J, Ait Barka E, Eickermann M, Ernenwein C, Mazoyon C, Sarazin V, Dubois F, Aussenac T, Selim S. PGPR-Soil Microbial Communities' Interactions and Their Influence on Wheat Growth Promotion and Resistance Induction against Mycosphaerella graminicola. BIOLOGY 2023; 12:1416. [PMID: 37998015 PMCID: PMC10669164 DOI: 10.3390/biology12111416] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2023] [Revised: 11/03/2023] [Accepted: 11/08/2023] [Indexed: 11/25/2023]
Abstract
The efficiency of plant-growth-promoting rhizobacteria (PGPR) may not be consistently maintained under field conditions due to the influence of soil microbial communities. The present study aims to investigate their impact on three PGPR-based biofertilizers in wheat. We used the PGPR Paenibacillus sp. strain B2 (PB2), PB2 in co-inoculation with Arthrobacter agilis 4042 (Mix 2), or with Arthrobacter sp. SSM-004 and Microbacterium sp. SSM-001 (Mix 3). Inoculation of PB2, Mix 2, and Mix 3 into non-sterile field soil had a positive effect on root and aboveground dry biomass, depending on the wheat cultivar. The efficiency of the PGPR was further confirmed by the protection they provided against Mycosphaerella graminicola, the causal agent of Septoria leaf blotch disease. PB2 exhibited protection of ≥37.8%, while Mix 2 showed ≥47.9% protection in the four cultivars tested. These results suggest that the interactions between PGPR and native soil microbial communities are crucial for promoting wheat growth and protection. Additionally, high-throughput sequencing of microbial communities conducted 7 days after PGPR inoculations revealed no negative effects of PB2, Mix 2, and Mix 3 on the soil microbial community structure. Interestingly, the presence of Arthrobacter spp. appeared to mitigate the potential negative effect of PB2 on bacterial community and foster root colonization by other beneficial bacterial strains.
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Affiliation(s)
- Erika Samain
- AGHYLE UP 2018.C101, SFR Condorcet FR CNRS 3417, UniLaSalle, 19 Rue Pierre Waguet, BP 30313, CEDEX, 60026 Beauvais, France;
- SDP, 1 Rue Quesnay, CEDEX, 02000 Laon, France;
| | - Jérôme Duclercq
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80039 Amiens, France; (J.D.); (C.M.); (F.D.)
| | - Essaïd Ait Barka
- Unité de Recherche RIBP EA4707 USC INRAE 1488, SFR Condorcet FR CNRS 3417, Université de Reims Champagne Ardenne, 51100 Reims, France;
| | - Michael Eickermann
- Luxembourg Institute of Science and Technology, 4422 Belvaux, Luxembourg;
| | | | - Candice Mazoyon
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80039 Amiens, France; (J.D.); (C.M.); (F.D.)
| | | | - Frédéric Dubois
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80039 Amiens, France; (J.D.); (C.M.); (F.D.)
| | - Thierry Aussenac
- UP Institut Polytechnique UniLaSalle, Université d’Artois, ULR 7519, 19 Rue Pierre Waguet, BP 30313, CEDEX, 60026 Beauvais, France;
| | - Sameh Selim
- AGHYLE UP 2018.C101, SFR Condorcet FR CNRS 3417, UniLaSalle, 19 Rue Pierre Waguet, BP 30313, CEDEX, 60026 Beauvais, France;
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10
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Ndour PMS, Bargaz A, Rchiad Z, Pawlett M, Clark IM, Mauchline TH, Harris J, Lyamlouli K. Microbial Catabolic Activity: Methods, Pertinence, and Potential Interest for Improving Microbial Inoculant Efficiency. MICROBIAL ECOLOGY 2023; 86:2211-2230. [PMID: 37280438 DOI: 10.1007/s00248-023-02250-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Accepted: 05/24/2023] [Indexed: 06/08/2023]
Abstract
Microbial catabolic activity (MCA) defined as the degrading activity of microorganisms toward various organic compounds for their growth and energy is commonly used to assess soil microbial function potential. For its measure, several methods are available including multi-substrate-induced respiration (MSIR) measurement which allow to estimate functional diversity using selected carbon substrates targeting specific biochemical pathways. In this review, the techniques used to measure soil MCA are described and compared with respect to their accuracy and practical use. Particularly the efficiency of MSIR-based approaches as soil microbial function indicators was discussed by (i) showing their sensitivity to different agricultural practices including tillage, amendments, and cropping systems and (ii) by investigating their relationship with soil enzyme activities and some soil chemical properties (pH, soil organic carbon, cation exchange capacity). We highlighted the potential of these MSIR-based MCA measurements to improve microbial inoculant composition and to determine their potential effects on soil microbial functions. Finally, we have proposed ideas for improving MCA measurement notably through the use of molecular tools and stable isotope probing which can be combined with classic MSIR methods. Graphical abstract describing the interrelation between the different parts and the concepts developed in the review.
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Affiliation(s)
- Papa Mamadou Sitor Ndour
- College for Sustainable Agriculture and Environmental Sciences, AgroBioSciences, Mohammed VI Polytechnic University, Ben Guerir, Morocco.
- Cranfield Soil and AgriFood Institute, School of Applied Sciences, Cranfield University, Cranfield, MK43 0AL, UK.
| | - Adnane Bargaz
- College for Sustainable Agriculture and Environmental Sciences, AgroBioSciences, Mohammed VI Polytechnic University, Ben Guerir, Morocco
| | - Zineb Rchiad
- Institute of Biological Sciences (ISSB), Faculty of Medical Sciences, Mohammed VI Polytechnic University, Ben Guerir, Morocco
| | - Mark Pawlett
- Cranfield Soil and AgriFood Institute, School of Applied Sciences, Cranfield University, Cranfield, MK43 0AL, UK
| | - Ian M Clark
- Sustainable Agriculture Sciences, Rothamsted Research, Harpenden, Hertfordshire, UK
| | - Tim H Mauchline
- Sustainable Agriculture Sciences, Rothamsted Research, Harpenden, Hertfordshire, UK
| | - Jim Harris
- Cranfield Soil and AgriFood Institute, School of Applied Sciences, Cranfield University, Cranfield, MK43 0AL, UK
| | - Karim Lyamlouli
- College for Sustainable Agriculture and Environmental Sciences, AgroBioSciences, Mohammed VI Polytechnic University, Ben Guerir, Morocco
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11
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Aaronson JK, Kulmatiski A, Forero LE, Grenzer J, Norton JM. Are Plant-Soil Feedbacks Caused by Many Weak Microbial Interactions? BIOLOGY 2023; 12:1374. [PMID: 37997973 PMCID: PMC10669423 DOI: 10.3390/biology12111374] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Accepted: 10/26/2023] [Indexed: 11/25/2023]
Abstract
We used high-throughput sequencing and multivariate analyses to describe soil microbial community composition in two four-year field plant-soil feedback (PSF) experiments in Minnesota, USA and Jena, Germany. In descending order of variation explained, microbial community composition differed between the two study sites, among years, between bulk and rhizosphere soils, and among rhizosphere soils cultivated by different plant species. To try to identify soil organisms or communities that may cause PSF, we correlated plant growth responses with the microbial community composition associated with different plants. We found that plant biomass was correlated with values on two multivariate axes. These multivariate axes weighted dozens of soil organisms, suggesting that PSF was not caused by individual pathogens or symbionts but instead was caused by 'many weak' plant-microbe interactions. Taken together, the results suggest that PSFs result from complex interactions that occur within the context of a much larger soil microbial community whose composition is determined by factors associated with 'site' or year, such as soil pH, soil type, and weather. The results suggest that PSFs may be highly variable and difficult to reproduce because they result from complex interactions that occur in the context of a larger soil microbial community.
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Affiliation(s)
- Julia K. Aaronson
- Wildland Resources and the Ecology Center, Utah State University, Logan, UT 84322, USA; (J.K.A.); (L.E.F.); (J.G.)
| | - Andrew Kulmatiski
- Wildland Resources and the Ecology Center, Utah State University, Logan, UT 84322, USA; (J.K.A.); (L.E.F.); (J.G.)
| | - Leslie E. Forero
- Wildland Resources and the Ecology Center, Utah State University, Logan, UT 84322, USA; (J.K.A.); (L.E.F.); (J.G.)
| | - Josephine Grenzer
- Wildland Resources and the Ecology Center, Utah State University, Logan, UT 84322, USA; (J.K.A.); (L.E.F.); (J.G.)
| | - Jeanette M. Norton
- Plants, Soils and Climate Department and the Ecology Center, Utah State University, Logan, UT 84322, USA;
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12
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Mendes R, de Barros I, D’Andréa PA, D’Andréa-Kühl MSC, Rodrigues GS. A multi-attribute approach to evaluating the impact of biostimulants on crop performance. FRONTIERS IN PLANT SCIENCE 2023; 14:1214112. [PMID: 37636086 PMCID: PMC10449575 DOI: 10.3389/fpls.2023.1214112] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Accepted: 07/24/2023] [Indexed: 08/29/2023]
Abstract
An ever-growing collection of commercial biostimulants is becoming available in a wide variety of forms and compositions to improve crop performance. Given the intricate nature of deciphering the underlying mechanisms of commercial products, which typically comprise various biological components, it is crucial for research in this area to have robust tools to demonstrate their effectiveness in field trials. Here, we took a multi-attribute approach to evaluating the impact of biostimulants on crop performance. First, we assessed the impact of a biostimulant on the soil and rhizosphere microbiomes associated to crops in eight reference farms, including corn (3 farms), soybean (2), cotton (2) and sugarcane (1), in different biomes and production contexts in Brazil and Paraguay. Second, we modeled a set of integrated indicators to measure crop responses to biostimulant application, including five analytical themes as follows: i) crop development and production (9 indicators), ii) soil chemistry (9), iii) soil physics (5), iv) soil biology (6) and v) plant health (10). Amplicon 16S rRNA and ITS sequencing revealed that the use of the biostimulant consistently changes the structure of bacterial and fungal communities associated with the production system for all evaluated crops. In the rhizosphere samples, the most responsive bacterial taxa to biostimulant application were Prevotella in cotton; Prauserella and Methylovirgula in corn; and Methylocapsa in sugar cane. The most responsive fungal taxa to biostimulant use were Arachnomyces in soybean and cotton; and Rhizophlyctis in corn. The proposed integrated indicators yielded highly favorable positive impact indices (averaging at 0.80), indicating that biostimulant-treated fields correlate with better plant development and crop performance. Prominent indices were observed for indicators in four themes: soil biology (average index 0.84), crop production (0.81), soil physics (compaction reduction 0.81), and chemical fertility (0.75). The multi-attribute approach employed in this study offers an effective strategy for assessing the efficacy of biostimulant products across a wide range of crops and production systems.
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Ferrarezi JA, Defant H, de Souza LF, Azevedo JL, Hungria M, Quecine MC. Meta-omics integration approach reveals the effect of soil native microbiome diversity in the performance of inoculant Azospirillum brasilense. FRONTIERS IN PLANT SCIENCE 2023; 14:1172839. [PMID: 37457347 PMCID: PMC10340089 DOI: 10.3389/fpls.2023.1172839] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Accepted: 05/19/2023] [Indexed: 07/18/2023]
Abstract
Plant growth promoting bacteria (PGPB) have been used as integrative inputs to minimize the use of chemical fertilizers. However, a holistic comprehension about PGPB-plant-microbiome interactions is still incipient. Furthermore, the interaction among PGPB and the holobiont (host-microbiome association) represent a new frontier to plant breeding programs. We aimed to characterize maize bulk soil and rhizosphere microbiomes in irradiated soil (IS) and a native soil (NS) microbial community gradient (dilution-to-extinction) with Azospirillum brasilense Ab-V5, a PGPB commercial inoculant. Our hypothesis was that plant growth promotion efficiency is a result of PGPB niche occupation and persistence according to the holobiont conditions. The effects of Ab-V5 and NS microbial communities were evaluated in microcosms by a combined approach of microbiomics (species-specific qPCR, 16S rRNA metataxonomics and metagenomics) and plant phenomics (conventional and high-throughput methods). Our results revealed a weak maize growth promoting effect of Ab-V5 inoculation in undiluted NS, contrasting the positive effects of NS dilutions 10-3, 10-6, 10-9 and IS with Ab-V5. Alpha diversity in NS + Ab-V5 soil samples was higher than in all other treatments in a time course of 25 days after sowing (DAS). At 15 DAS, alpha diversity indexes were different between NS and IS, but similar in all NS dilutions in rhizospheric samples. These differences were not persistent at 25 DAS, demonstrating a stabilization process in the rhizobiomes. In NS 10-3 +Ab-V5 and NS 10-6 Ab-V5, Ab-V5 persisted in the maize rhizosphere until 15 DAS in higher abundances compared to NS. In NS + Ab-V5, abundance of six taxa were positively correlated with response to (a)biotic stresses in plant-soil interface. Genes involved in bacterial metabolism of riboses and amino acids, and cresol degradation were abundant on NS 10-3 + Ab-V5, indicating that these pathways can contribute to plant growth promotion and might be a result of Ab-V5 performance as a microbial recruiter of beneficial functions to the plant. Our results demonstrated the effects of holobiont on Ab-V5 performance. The meta-omics integration supported by plant phenomics opens new perspectives to better understanding of inoculants-holobiont interaction and for developing better strategies for optimization in the use of microbial products.
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Affiliation(s)
- Jessica Aparecida Ferrarezi
- Laboratory of Genetics of Microorganisms “Prof. Joao Lucio de Azevedo”, Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Heloísa Defant
- Laboratory of Genetics of Microorganisms “Prof. Joao Lucio de Azevedo”, Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Leandro Fonseca de Souza
- Laboratory of Genetics of Microorganisms “Prof. Joao Lucio de Azevedo”, Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil
| | - João Lúcio Azevedo
- Laboratory of Genetics of Microorganisms “Prof. Joao Lucio de Azevedo”, Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil
| | | | - Maria Carolina Quecine
- Laboratory of Genetics of Microorganisms “Prof. Joao Lucio de Azevedo”, Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil
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14
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Long J, Zhou D, Wang J, Huang B, Luo Y, Zhang G, Liu Z, Lei M. Repeated inoculation of antimony resistant bacterium reduces antimony accumulation in rice plants. CHEMOSPHERE 2023; 327:138335. [PMID: 36948256 DOI: 10.1016/j.chemosphere.2023.138335] [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: 01/12/2023] [Revised: 03/05/2023] [Accepted: 03/06/2023] [Indexed: 06/18/2023]
Abstract
Applying beneficial bacteria in rice rhizosphere to manage heavy metal behaviour in soil-plant system is a promising strategy. However, colonization/domination of exogenous bacteria in rhizosphere soils remains a challenge. In this study, a bacterium Ochrobactrum anthropi, which showed the potential of transforming soluble SbIII into Sb2O3 mineral, was repeatedly inoculated into the rice rhizosphere weekly throughout the rice growth period, and the colonization of this bacterium in rice rhizosphere soils and its effect on Sb accumulation in rice plants were investigated. Results showed that repeated inoculants changed the native bacterial community in rhizosphere soils in comparison with the control, but the inoculated O. anthropi was not identified as an abundant species. With weekly inoculation, the decrease in Sb in rice roots and straws was maintained throughout the rice growth period, with decrease percentages ranging from 36 to 49% and 33-35%. In addition, decrease percentages of Sb in husks and grains at the maturing stage obtained 34 and 37%, respectively. Furthermore, the XRD identified the formation of valentinite (Sb2O3) on rice root in inoculation treatment, and the decrease percentages in aqueous SbIII in rhizosphere were 53-100% through the growth period. It demonstrated that weekly inoculants performed their temporary activity of valentinite formation, and reduced Sb accumulation in rice plants efficiently. This study suggests that regardless of successful colonization, repeated inoculation of beneficial bacteria is an option to facilitate the positive effects of inoculated bacteria in the management of heavy metal behaviour.
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Affiliation(s)
- Jiumei Long
- Hunan Key Laboratory for Conservation & Utilization of Biological Resources in the Nanyue Mountainous Region, College of Life Sciences, Hengyang Normal University, Hengyang, 421008, PR China
| | - Dongsheng Zhou
- Hunan Key Laboratory for Conservation & Utilization of Biological Resources in the Nanyue Mountainous Region, College of Life Sciences, Hengyang Normal University, Hengyang, 421008, PR China
| | - Jing Wang
- Hunan Key Laboratory for Conservation & Utilization of Biological Resources in the Nanyue Mountainous Region, College of Life Sciences, Hengyang Normal University, Hengyang, 421008, PR China
| | - Binyan Huang
- Hunan Key Laboratory for Conservation & Utilization of Biological Resources in the Nanyue Mountainous Region, College of Life Sciences, Hengyang Normal University, Hengyang, 421008, PR China
| | - Yuanlai Luo
- Hunan Key Laboratory for Conservation & Utilization of Biological Resources in the Nanyue Mountainous Region, College of Life Sciences, Hengyang Normal University, Hengyang, 421008, PR China
| | - Guocheng Zhang
- Hunan Key Laboratory for Conservation & Utilization of Biological Resources in the Nanyue Mountainous Region, College of Life Sciences, Hengyang Normal University, Hengyang, 421008, PR China
| | - Zui Liu
- Hunan Key Laboratory for Conservation & Utilization of Biological Resources in the Nanyue Mountainous Region, College of Life Sciences, Hengyang Normal University, Hengyang, 421008, PR China
| | - Ming Lei
- Hunan Engineering Research Center for Safe & High-Efficient Utilization of Heavy Metal Pollution Farmland, College of Resource & Environment, Hunan Agricultural University, Changsha, 410128, PR China.
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Loguercio LL, Silva ACM, Ribeiro DH, de Lima Cruz JMF, Soares ACF, Marbach PAS, Cruz-Magalhães V, De Souza JT. Assessing the functional diversity of rhizobacteria from cacao by partitioning root and shoot biomasses. Appl Microbiol Biotechnol 2023:10.1007/s00253-023-12603-3. [PMID: 37256326 DOI: 10.1007/s00253-023-12603-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Revised: 05/15/2023] [Accepted: 05/18/2023] [Indexed: 06/01/2023]
Abstract
Plant-microbe interactions are critical for the sustainability of agricultural production. In this study, our aims were to characterize the genetic and functional diversity of the culturable bacterial community associated with the cacao rhizosphere and access their potential for growth promotion of cacao seedling. Culture-dependent and molecular methods were used to characterize the population densities and diversity of bacterial communities from soil and cacao plants at two locations and two plant ages. A total of 63 strains were identified through hsp60 sequencing. Pseudomonas and Enterobacter were the most abundant genera in association with the cacao rhizosphere, whereas Bacillus was more numerous in soil. Parameters of seedling growth promotion were evaluated 60 days after inoculation of seeds, with partition of the assessments into root and shoot weight. Each isolate showed beneficial, neutral or deleterious effects on plant growth, depending on the isolate and on the parts of plant assessed. Interestingly, although an apparent overall decrease in total biomass of seedlings (roots + shoots dry matters) was observed for the majority of isolates (89%), 94% of all isolates, in fact, revealed an increase in plant roots/shoots dry biomass ratio. Despite that part of the isolates (35%) appeared to significantly decrease plant height, and that 65% did not influence plant height (neutral effect), 18 had significantly increased root dry biomass; nevertheless, seven of these root growth-increasing isolates simultaneously decreased shoots-related growth parameters. The results of this study evidentiated the functional diversity of culturable cacao rhizobacteria and how the partitioning of roots and shoots in the assessment of plant growth parameters could reveal the biotechnological potential of these isolates for promoting growth of clones for rehabilitation of commercial cacao plantations. KEY POINTS: • The most common culturable bacteria in cacao roots were Pseudomonas and Enterobacter • Most culturable bacteria from cacao roots increased the root/shoot ratio • Roots and shoots should be examined separately to detect cacao beneficial bacteria.
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Affiliation(s)
- Leandro Lopes Loguercio
- Department of Biological Sciences, Santa Cruz State University, Ilhéus, BA, 45662-900, Brazil
| | - Augusto César Moura Silva
- Center for Agricultural, Biological and Environmental Sciences, Federal University of Recôncavo da Bahia, Cruz das Almas, BA, 44380-000, Brazil
- EMBRAPA Centro Nacional de Pesquisa de Mandioca E Fruticultura Tropical, Cruz das Almas, BA, 44380-000, Brazil
| | | | | | - Ana Cristina Fermino Soares
- Center for Agricultural, Biological and Environmental Sciences, Federal University of Recôncavo da Bahia, Cruz das Almas, BA, 44380-000, Brazil
| | - Phellippe Arthur Santos Marbach
- Center for Agricultural, Biological and Environmental Sciences, Federal University of Recôncavo da Bahia, Cruz das Almas, BA, 44380-000, Brazil
| | - Valter Cruz-Magalhães
- Department of Plant Pathology, Federal University of Lavras, Lavras, MG, 37200-000, Brazil
| | - Jorge Teodoro De Souza
- Department of Plant Pathology, Federal University of Lavras, Lavras, MG, 37200-000, Brazil.
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16
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Rasool S, Markou A, Hannula SE, Biere A. Effects of tomato inoculation with the entomopathogenic fungus Metarhizium brunneum on spider mite resistance and the rhizosphere microbial community. Front Microbiol 2023; 14:1197770. [PMID: 37293220 PMCID: PMC10244576 DOI: 10.3389/fmicb.2023.1197770] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Accepted: 05/05/2023] [Indexed: 06/10/2023] Open
Abstract
Entomopathogenic fungi have been well exploited as biocontrol agents that can kill insects through direct contact. However, recent research has shown that they can also play an important role as plant endophytes, stimulating plant growth, and indirectly suppressing pest populations. In this study, we examined the indirect, plant-mediated, effects of a strain of entomopathogenic fungus, Metarhizium brunneum on plant growth and population growth of two-spotted spider mites (Tetranychus urticae) in tomato, using different inoculation methods (seed treatment, soil drenching and a combination of both). Furthermore, we investigated changes in tomato leaf metabolites (sugars and phenolics), and rhizosphere microbial communities in response to M. brunneum inoculation and spider mite feeding. A significant reduction in spider mite population growth was observed in response to M. brunneum inoculation. The reduction was strongest when the inoculum was supplied both as seed treatment and soil drench. This combination treatment also yielded the highest shoot and root biomass in both spider mite-infested and non-infested plants, while spider mite infestation increased shoot but reduced root biomass. Fungal treatments did not consistently affect leaf chlorogenic acid and rutin concentrations, but M. brunneum inoculation via a combination of seed treatment and soil drenching reinforced chlorogenic acid (CGA) induction in response to spider mites and under these conditions the strongest spider mite resistance was observed. However, it is unclear whether the M. brunneum-induced increase in CGA contributed to the observed spider mite resistance, as no general association between CGA levels and spider mite resistance was observed. Spider mite infestation resulted in up to two-fold increase in leaf sucrose concentrations and a three to five-fold increase in glucose and fructose concentrations, but these concentrations were not affected by fungal inoculation. Metarhizium, especially when applied as soil drench, impacted the fungal community composition but not the bacterial community composition which was only affected by the presence of spider mites. Our results suggest that in addition to directly killing spider mites, M. brunneum can indirectly suppress spider mite populations on tomato, although the underlying mechanism has not yet been resolved, and can also affect the composition of the soil microbial community.
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Affiliation(s)
- Shumaila Rasool
- Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
| | - Andreas Markou
- Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
| | - S. Emilia Hannula
- Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
- Institute of Environmental Sciences, Leiden University, Leiden, Netherlands
| | - Arjen Biere
- Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands
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17
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Wei W, Guan D, Ma M, Jiang X, Fan F, Meng F, Li L, Zhao B, Zhao Y, Cao F, Chen H, Li J. Long-term fertilization coupled with rhizobium inoculation promotes soybean yield and alters soil bacterial community composition. Front Microbiol 2023; 14:1161983. [PMID: 37275141 PMCID: PMC10232743 DOI: 10.3389/fmicb.2023.1161983] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2023] [Accepted: 04/12/2023] [Indexed: 06/07/2023] Open
Abstract
Microbial diversity is an important indicator of soil fertility and plays an indispensable role in farmland ecosystem sustainability. The short-term effects of fertilization and rhizobium inoculation on soil microbial diversity and community structure have been explored extensively; however, few studies have evaluated their long-term effects. Here, we applied quantitative polymerase chain reaction (qPCR) and amplicon sequencing to characterize the effect of 10-year fertilizer and rhizobium inoculation on bacterial communities in soybean bulk and rhizosphere soils at the flowering-podding and maturity stages. Four treatments were examined: non-fertilization control (CK), phosphorus and potassium fertilization (PK), nitrogen and PK fertilization (PK + N), and PK fertilization and Bradyrhizobium japonicum 5821 (PK + R). Long-term co-application of rhizobium and PK promoted soybean nodule dry weight by 33.94% compared with PK + N, and increased soybean yield by average of 32.25%, 5.90%, and 5.00% compared with CK, PK, and PK + N, respectively. The pH of PK + R was significantly higher than that of PK and PK + N at the flowering-podding stage. The bacterial abundance at the flowering-podding stage was positively correlated with soybean yield, but not at the maturity stage. The significant different class Gemmatimonadetes, and the genera Gemmatimonas, and Ellin6067 in soil at the flowering-podding stage were negatively correlated with soybean yield. However, the bacterial community at class and genus levels at maturity had no significant effect on soybean yield. The key bacterial communities that determine soybean yield were concentrated in the flowering-podding stage, not at maturity stage. Rhizosphere effect, growth period, and treatment synergies resulted in significant differences in soil bacterial community composition. Soil organic matter (OM), total nitrogen (TN), pH, and available phosphorus (AP) were the main variables affecting bacterial community structure. Overall, long-term co-application of rhizobium and fertilizer not only increased soybean yield, but also altered soil bacterial community structure through niche reconstruction and microbial interaction. Rhizobium inoculation plays key role in reducing nitrogen fertilizer application and promoting sustainable agriculture practices.
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Affiliation(s)
- Wanling Wei
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Dawei Guan
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Mingchao Ma
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
- Laboratory of Quality & Safety Risk Assessment for Microbial Products (Beijing), Ministry of Agriculture, Beijing, China
| | - Xin Jiang
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
- Laboratory of Quality & Safety Risk Assessment for Microbial Products (Beijing), Ministry of Agriculture, Beijing, China
| | - Fenliang Fan
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Fangang Meng
- Soybean Research Institute, Jilin Academy of Agricultural Sciences, Jilin, China
| | - Li Li
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
- Laboratory of Quality & Safety Risk Assessment for Microbial Products (Beijing), Ministry of Agriculture, Beijing, China
| | - Baisuo Zhao
- Laboratory of Quality & Safety Risk Assessment for Microbial Products (Beijing), Ministry of Agriculture, Beijing, China
| | - Yubin Zhao
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Fengming Cao
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
- Laboratory of Quality & Safety Risk Assessment for Microbial Products (Beijing), Ministry of Agriculture, Beijing, China
| | - Huijun Chen
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Jun Li
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
- Laboratory of Quality & Safety Risk Assessment for Microbial Products (Beijing), Ministry of Agriculture, Beijing, China
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18
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Silverstein MR, Segrè D, Bhatnagar JM. Environmental microbiome engineering for the mitigation of climate change. GLOBAL CHANGE BIOLOGY 2023; 29:2050-2066. [PMID: 36661406 DOI: 10.1111/gcb.16609] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Accepted: 12/15/2022] [Indexed: 05/28/2023]
Abstract
Environmental microbiome engineering is emerging as a potential avenue for climate change mitigation. In this process, microbial inocula are introduced to natural microbial communities to tune activities that regulate the long-term stabilization of carbon in ecosystems. In this review, we outline the process of environmental engineering and synthesize key considerations about ecosystem functions to target, means of sourcing microorganisms, strategies for designing microbial inocula, methods to deliver inocula, and the factors that enable inocula to establish within a resident community and modify an ecosystem function target. Recent work, enabled by high-throughput technologies and modeling approaches, indicate that microbial inocula designed from the top-down, particularly through directed evolution, may generally have a higher chance of establishing within existing microbial communities than other historical approaches to microbiome engineering. We address outstanding questions about the determinants of inocula establishment and provide suggestions for further research about the possibilities and challenges of environmental microbiome engineering as a tool to combat climate change.
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Affiliation(s)
- Michael R Silverstein
- Bioinformatics Program, Boston University, Boston, Massachusetts, USA
- Biological Design Center, Boston University, Boston, Massachusetts, USA
| | - Daniel Segrè
- Bioinformatics Program, Boston University, Boston, Massachusetts, USA
- Biological Design Center, Boston University, Boston, Massachusetts, USA
- Department of Biology, Boston University, Boston, Massachusetts, USA
- Department of Biomedical Engineering, Boston University, Boston, Massachusetts, USA
- Department of Physics, Boston University, Boston, Massachusetts, USA
| | - Jennifer M Bhatnagar
- Bioinformatics Program, Boston University, Boston, Massachusetts, USA
- Department of Biology, Boston University, Boston, Massachusetts, USA
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19
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Liswadiratanakul S, Yamamoto K, Matsutani M, Wattanadatsaree V, Kihara S, Shiwa Y, Shiwachi H. Replacement of water yam ( Dioscorea alata L.) indigenous root endophytes and rhizosphere bacterial communities via inoculation with a synthetic bacterial community of dominant nitrogen-fixing bacteria. Front Microbiol 2023; 14:1060239. [PMID: 36814567 PMCID: PMC9939703 DOI: 10.3389/fmicb.2023.1060239] [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: 10/03/2022] [Accepted: 01/05/2023] [Indexed: 02/09/2023] Open
Abstract
Biofertilizers containing high-density plant growth-promoting bacteria are gaining interest as a sustainable solution to environmental problems caused by eutrophication. However, owing to the limitations of current investigative techniques, the selected microorganisms are not always preferred by the host plant, preventing recruitment into the native microbiota or failing to induce plant growth-promoting effects. To address this, five nitrogen-fixing bacteria previously isolated from water yam (Dioscorea alata L.) plants and showing dominant abundance of 1% or more in the water yam microbiota were selected for analysis of their plant growth-promoting activities when used as a synthetic bacterial inoculant. Water yam cv. A-19 plants were inoculated twice at 10 and 12 weeks after planting under greenhouse conditions. Bacterial communities in root, rhizosphere, and bulk soil samples were characterized using high-throughput 16S rRNA amplicon sequencing. Compared with non-inoculated plants, all bacterial communities were significantly altered by inoculation, mainly at the genus level. The inoculation effects were apparently found in the root communities at 16 weeks after planting, with all inoculated genera showing dominance (in the top 35 genera) compared with the control samples. However, no significant differences in any of the growth parameters or nitrogen contents were observed between treatments. At 20 weeks after planting, the dominance of Stenotrophomonas in the inoculated roots decreased, indicating a decline in the inoculation effects. Interestingly, only the Allorhizobium-Neorhizobium-Pararhizobium-Rhizobium clade was dominant (>1% relative abundance) across all samples, suggesting that bacteria related to this clade are essential core bacteria for water yam growth. This is the first report on addition of a synthetic nitrogen-fixing bacterial community in water yam plants showing that native bacterial communities can be replaced by a synthetic bacterial community, with declining in the effects of Stenotrophomonas on the modified communities several weeks after inoculation.
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Affiliation(s)
- Sumetee Liswadiratanakul
- Department of International Agricultural Development, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture, Tokyo, Japan
| | - Kosuke Yamamoto
- Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture, Tokyo, Japan,*Correspondence: Kosuke Yamamoto,
| | | | - Vatanee Wattanadatsaree
- Department of International Agricultural Development, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture, Tokyo, Japan
| | - Shunta Kihara
- Department of International Agricultural Development, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture, Tokyo, Japan
| | - Yuh Shiwa
- Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture, Tokyo, Japan,NODAI Genome Research Center, Tokyo University of Agriculture, Tokyo, Japan
| | - Hironobu Shiwachi
- Department of International Agricultural Development, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture, Tokyo, Japan
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20
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Microbial-Based Products to Control Soil-Borne Pathogens: Methods to Improve Efficacy and to Assess Impacts on Microbiome. Microorganisms 2023; 11:microorganisms11010224. [PMID: 36677516 PMCID: PMC9867489 DOI: 10.3390/microorganisms11010224] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Revised: 12/30/2022] [Accepted: 01/11/2023] [Indexed: 01/17/2023] Open
Abstract
Microbial-based products (either as biopesticide or biofertilizers) have a long history of application, though their use is still limited, mainly due to a perceived low and inconsistent efficacy under field conditions. However, their efficacy has always been compared to chemical products, which have a completely different mechanism of action and production process, following the chemical paradigm of agricultural production. This paradigm has also been applied to regulatory processes, particularly for biopesticides, making the marketing of microbial-based formulations difficult. Increased knowledge about bioinocula behavior after application to the soil and their impact on soil microbiome should foster better exploitation of microbial-based products in a complex environment such as the soil. Moreover, the multifunctional capacity of microbial strains with regard to plant growth promotion and protection should also be considered in this respect. Therefore, the methods utilized for these studies are key to improving the knowledge and understanding of microbial-based product activity and improving their efficacy, which, from farmers' point of view, is the parameter to assess the usefulness of a treatment. In this review, we are thus addressing aspects related to the production and formulation process, highlighting the methods that can be used to evaluate the functioning and impact of microbial-based products on soil microbiome, as tools supporting their use and marketing.
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21
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Canfora L, Tartanus M, Manfredini A, Tkaczuk C, Majchrowska-Safaryan A, Malusà E. The impact of Beauveria species bioinocula on the soil microbial community structure in organic strawberry plantations. Front Microbiol 2023; 13:1073386. [PMID: 36713158 PMCID: PMC9874679 DOI: 10.3389/fmicb.2022.1073386] [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: 10/18/2022] [Accepted: 12/19/2022] [Indexed: 01/13/2023] Open
Abstract
Introduction The multifunctionality of microorganisms, including entomopathogenic fungi, represents a feature that could be exploited to support the development, marketing, and application of microbial-based products for plant protection. However, it is likely that this feature could affect the composition and dynamics of the resident soil microorganisms, possibly over a longer period. Therefore, the methodology utilized to evaluate such impact is critical for a reliable assessment. The present study was performed to evaluate the impact of strains of Beauveria brongniartii and Beauveria bassiana on soil bacterial and fungal communities using an approach based on the terminal restriction fragment polymorphism (T-RFLP) analysis. Materials and methods Soil samples in the vicinity of the root system were collected during a 3-year period, before and after the bioinocula application, in two organic strawberry plantations. Specific primers were used for the amplification of the bacterial 16S rRNA gene and the fungal ITS region of the ribosome. Results and discussion Data of the profile analysis from T-RFLP analysis were used to compare the operational taxonomic unit (OTU) occurrence and intensity in the inoculated soil with the uninoculated control. With regard to the impact on the bacterial community, both Beauveria species were not fully consistently affecting their composition across the seasons and fields tested. Nevertheless, some common patterns were pointed out in each field and, sometimes, also among them when considering the time elapsed from the bioinoculum application. The impact was even more inconsistent when analyzing the fungal community. It is thus concluded that the application of the bioinocula induced only a transient and limited effect on the soil microbial community, even though some changes in the structure dynamic and frequency of soil bacterial and fungal OTUs emerged.
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Affiliation(s)
- Loredana Canfora
- Centre for Agriculture and Environment (CREA-AA), Council for Agricultural Research and Economics, Rome, Italy,*Correspondence: Loredana Canfora,
| | - Małgorzata Tartanus
- Centre for Agriculture and Environment (CREA-AA), Council for Agricultural Research and Economics, Rome, Italy,Department of Plant Protection, National Institute of Horticultural Research, Skierniewice, Poland
| | - Andrea Manfredini
- Centre for Agriculture and Environment (CREA-AA), Council for Agricultural Research and Economics, Rome, Italy
| | - Cezary Tkaczuk
- Institute of Agriculture and Horticulture, Siedlce University of Natural Sciences and Humanities, Siedlce, Poland
| | - Anna Majchrowska-Safaryan
- Institute of Agriculture and Horticulture, Siedlce University of Natural Sciences and Humanities, Siedlce, Poland
| | - Eligio Malusà
- Department of Plant Protection, National Institute of Horticultural Research, Skierniewice, Poland,Eligio Malusà,
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22
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Impact of Plant-Beneficial Bacterial Inocula on the Resident Bacteriome: Current Knowledge and Future Perspectives. Microorganisms 2022; 10:microorganisms10122462. [PMID: 36557714 PMCID: PMC9781654 DOI: 10.3390/microorganisms10122462] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2022] [Revised: 12/09/2022] [Accepted: 12/12/2022] [Indexed: 12/15/2022] Open
Abstract
The inoculation of plant growth-promoting bacteria (PGPB) as biofertilizers is one of the most efficient and sustainable strategies of rhizosphere manipulation leading to increased plant biomass and yield and improved plant health, as well as the ameliorated nutritional value of fruits and edible seeds. During the last decades, exciting, but heterogeneous, results have been obtained growing PGPB inoculated plants under controlled, stressful, and open field conditions. On the other hand, the possible impact of the PGPB deliberate release on the resident microbiota has been less explored and the little available information is contradictory. This review aims at filling this gap: after a brief description of the main mechanisms used by PGPB, we focus our attention on the process of PGPB selection and formulation and we provide some information on the EU regulation for microbial inocula. Then, the concept of PGPB inocula as a tool for rhizosphere engineering is introduced and the possible impact of bacterial inoculant on native bacterial communities is discussed, focusing on those bacterial species that are included in the EU regulation and on other promising bacterial species that are not yet included in the EU regulation.
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23
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Ducousso-Détrez A, Raveau R, Fontaine J, Hijri M, Lounès-Hadj Sahraoui A. Glomerales Dominate Arbuscular Mycorrhizal Fungal Communities Associated with Spontaneous Plants in Phosphate-Rich Soils of Former Rock Phosphate Mining Sites. Microorganisms 2022; 10:microorganisms10122406. [PMID: 36557659 PMCID: PMC9782746 DOI: 10.3390/microorganisms10122406] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2022] [Revised: 11/25/2022] [Accepted: 11/30/2022] [Indexed: 12/12/2022] Open
Abstract
Arbuscular mycorrhizal fungi (AMF) are key drivers of soil functioning. They interact with multiple soil parameters, notably, phosphorus (P). In this work, AMF communities of native plants grown spontaneously on former mining sites either enriched (P sites) or not enriched with P (nP sites) by mining cuttings of rock phosphate (RP) were studied. No significant differences were observed in the root mycorrhizal rates of the plants when comparing P and nP sites. The assessment of AMF diversity and community structure using Illumina MiSeq metabarcoding and targeting 18S rDNA in roots and rhizospheric soils showed a total of 318 Amplicon Sequence Variants (ASVs) of Glomeromycota phylum. No significant difference in the diversity was found between P and nP sites. Glomeraceae species were largely dominant, formed a fungal core of 26 ASVs, and were persistent and abundant in all sites. In the P soils, eight ASVs were identified by indicator species analysis. A trend towards an increase in Diversisporaceae and Claroideoglomeraceae and a reduction in Paraglomeraceae and Glomeraceae were noticed. These results provide new insights into AMF ecology in former RP mining sites; they document that P concentration is a driver of AMF community structures in soils enriched in RP long term but also suggest an influence of land disturbance, ecosystem self-restoration, and AMF life history strategies as drivers of AMF community profiles.
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Affiliation(s)
- Amandine Ducousso-Détrez
- Unité de Chimie Environnementale et Interactions sur le Vivant (UCEIV), Université du Littoral Côte d’Opale, UR 4492, SFR Condorcet FR CNRS 3417, CEDEX, 62228 Calais, France
- Institut de Recherche en Biologie Végétale (IRBV), 3 AgroBioSciences, Université de Montréal, Montréal, QC H1X 2B2, Canada
| | - Robin Raveau
- INRAE, UMR SAVE, Bordeaux Science Agro, ISVV, 33882 Villenave d’Ornon, France
| | - Joël Fontaine
- Unité de Chimie Environnementale et Interactions sur le Vivant (UCEIV), Université du Littoral Côte d’Opale, UR 4492, SFR Condorcet FR CNRS 3417, CEDEX, 62228 Calais, France
| | - Mohamed Hijri
- Institut de Recherche en Biologie Végétale (IRBV), 3 AgroBioSciences, Université de Montréal, Montréal, QC H1X 2B2, Canada
- African Genome Center, Mohammed VI Polytechnic University (UM6P), Ben Guerir 43150, Morocco
| | - Anissa Lounès-Hadj Sahraoui
- Unité de Chimie Environnementale et Interactions sur le Vivant (UCEIV), Université du Littoral Côte d’Opale, UR 4492, SFR Condorcet FR CNRS 3417, CEDEX, 62228 Calais, France
- Correspondence:
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24
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Fessia A, Sartori M, García D, Fernández L, Ponzio R, Barros G, Nesci A. In vitro studies of biofilm-forming Bacillus strains, biocontrol agents isolated from the maize phyllosphere. Biofilm 2022; 4:100097. [PMID: 36504526 PMCID: PMC9731887 DOI: 10.1016/j.bioflm.2022.100097] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Revised: 11/08/2022] [Accepted: 11/18/2022] [Indexed: 12/12/2022] Open
Abstract
We aimed to assess how biofilm formation by three Bacillus isolates was affected by changes in temperature, water potential, growth media, time, and the combinations between these factors. The strains had been selected as potential biological control agents (BCAs) in earlier studies, and they were identified as B. subtilis and B. velezensis spp. through 16 rRNA sequencing and MALDI-TOF MS. Maize leaves (ML) were used as one of the growth media, since they made it possible to simulate the nutrient content in the maize phyllosphere, from which the bacteria were originally isolated. The strains were able to form biofilm both in ML and biofilm-inducing MSgg after 24, 48, and 72 h. Biofilm development in the form of pellicles and architecturally complex colonies varied morphologically from one strain to another and depended on the conditions mentioned above. In all cases, colonies and pellicles were less complex when both temperature and water potential were lower. Scanning electron microscopy (SEM) revealed that changing levels of complexity in pellicles were correlated with those in colonies. Statistical analyses found that the quantification of biofilm produced by the isolates was influenced by all the conditions tested. In terms of motility (which may contribute to biofilm formation), swimming and swarming were possible for all strains in 0.3 and 0.7% agar, respectively. A more in-depth understanding of how abiotic factors influence biofilm formation can contribute to a more effective use of these biocontrol strains against pathogens in the maize phyllosphere.
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Affiliation(s)
- Aluminé Fessia
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina,Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina,Corresponding author. Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina.
| | - Melina Sartori
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina,Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina
| | - Daiana García
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina,Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina
| | - Luciana Fernández
- Departamento de Física, Departamento de Química, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, CONICET, X5804BYA, Río Cuarto, Argentina,Instituto de Investigaciones en Tecnologías Energéticas y Materiales Avanzados (IITEMA), Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina,Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina
| | - Rodrigo Ponzio
- Departamento de Física, Departamento de Química, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, CONICET, X5804BYA, Río Cuarto, Argentina,Instituto de Investigaciones en Tecnologías Energéticas y Materiales Avanzados (IITEMA), Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina,Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina
| | - Germán Barros
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina,Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina
| | - Andrea Nesci
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Ruta Nacional 36, Km 601, X5804ZAB, Río Cuarto, Córdoba, Argentina,Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Argentina
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25
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Shi H, Lu L, Ye J, Shi L. Effects of Two Bacillus Velezensis Microbial Inoculants on the Growth and Rhizosphere Soil Environment of Prunus davidiana. Int J Mol Sci 2022; 23:13639. [PMID: 36362427 PMCID: PMC9657632 DOI: 10.3390/ijms232113639] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Revised: 10/28/2022] [Accepted: 11/03/2022] [Indexed: 06/12/2024] Open
Abstract
Microbial inoculants, as harmless, efficient, and environmentally friendly plant growth promoters and soil conditioners, are attracting increasing attention. In this study, the effects of Bacillus velezensis YH-18 and B. velezensis YH-20 on Prunus davidiana growth and rhizosphere soil bacterial community in continuously cropped soil were investigated by inoculation tests. The results showed that in a pot seedling experiment, inoculation with YH-18 and YH-20 resulted in a certain degree of increase in diameter growth, plant height, and leaf area at different time periods of 180 days compared with the control. Moreover, after 30 and 90 days of inoculation, the available nutrients in the soil were effectively improved, which protected the continuously cropped soil from acidification. In addition, high-throughput sequencing showed that inoculation with microbial inoculants effectively slowed the decrease in soil microbial richness and diversity over a one-month period. At the phylum level, Proteobacteria and Bacteroidetes were significantly enriched on the 30th day. At the genus level, Sphingomonas and Pseudomonas were significantly enriched at 15 and 30 days, respectively. These bacterial phyla and genera can effectively improve the soil nutrient utilization rate, antagonize plant pathogenic bacteria, and benefit the growth of plants. Furthermore, inoculation with YH-18 and inoculation with YH-20 resulted in similar changes in the rhizosphere microbiome. This study provides a basis for the short-term effect of microbial inoculants on the P. davidiana rhizosphere microbiome and has application value for promoting the cultivation and production of high-quality fruit trees.
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Affiliation(s)
| | | | - Jianren Ye
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing 210037, China
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26
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Sandilya SP, Jeevan B, Subrahmanyam G, Dutta K, Vijay N, Bhattacharyya N, Chutia M. Co-inoculation of native multi-trait plant growth promoting rhizobacteria promotes plant growth and suppresses Alternaria blight disease in Castor (Ricinus communis L.). Heliyon 2022; 8:e11886. [DOI: 10.1016/j.heliyon.2022.e11886] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Revised: 09/11/2022] [Accepted: 11/17/2022] [Indexed: 11/27/2022] Open
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27
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Mawarda PC, Mallon CA, Le Roux X, van Elsas JD, Salles JF. Interactions between Bacterial Inoculants and Native Soil Bacterial Community: the Case of Spore-forming Bacillus spp. FEMS Microbiol Ecol 2022; 98:6776013. [PMID: 36302145 PMCID: PMC9681130 DOI: 10.1093/femsec/fiac127] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Revised: 07/21/2022] [Accepted: 10/25/2022] [Indexed: 01/21/2023] Open
Abstract
Microbial diversity can restrict the invasion and impact of alien microbes into soils via resource competition. However, this theory has not been tested on various microbial invaders with different ecological traits, particularly spore-forming bacteria. Here we investigated the survival capacity of two introduced spore-forming bacteria, Bacillus mycoides (BM) and B. pumillus (BP) and their impact on the soil microbiome niches with low and high diversity. We hypothesized that higher soil bacterial diversity would better restrict Bacillus survival via resource competition, and the invasion would alter the resident bacterial communities' niches only if inoculants do not escape competition with the soil community (e.g. through sporulation). Our findings showed that BP could not survive as viable propagules and transiently impacted the bacterial communities' niche structure. This may be linked to its poor resource usage and low growth rate. Having better resource use capacities, BM better survived in soil, though its survival was weakly related to the remaining resources left for them by the soil community. BM strongly affected the community niche structure, ultimately in less diverse communities. These findings show that the inverse diversity-invasibility relationship can be valid for some spore-forming bacteria, but only when they have sufficient resource use capacity.
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Affiliation(s)
| | - Cyrus A Mallon
- Microbial Community Ecology Cluster, expertise group GREEN, Groningen Institute of Evolutionary Life Sciences (GELIFES), University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
| | - Xavier Le Roux
- INRAE, CNRS, Université Lyon 1, Université de Lyon, VetAgroSup, Laboratoire d'Ecologie Microbienne LEM, UMR 1418 INRAE, UMR 5557 CNRS, 69622 Villeurbanne Cedex, France
| | - Jan Dirk van Elsas
- Microbial Community Ecology Cluster, expertise group GREEN, Groningen Institute of Evolutionary Life Sciences (GELIFES), University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
| | - Joana Falcão Salles
- Microbial Community Ecology Cluster, expertise group GREEN, Groningen Institute of Evolutionary Life Sciences (GELIFES), University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
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Mukherjee A, Singh S, Gaurav AK, Chouhan GK, Jaiswal DK, de Araujo Pereira AP, Passari AK, Abdel-Azeem AM, Verma JP. Harnessing of phytomicrobiome for developing potential biostimulant consortium for enhancing the productivity of chickpea and soil health under sustainable agriculture. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 836:155550. [PMID: 35508232 DOI: 10.1016/j.scitotenv.2022.155550] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2022] [Revised: 04/22/2022] [Accepted: 04/23/2022] [Indexed: 06/14/2023]
Abstract
The main aim of the present work was to explore culturable bacteria and to develop potential microbial consortium as bio-inoculants for enhancing plant productivity, nutritional content, and soil health. For this study, we selected two bacterial strains e.g., Enterobacter hormaechei (BHUJPCS-15) and Brevundimonas naejangsanensis (BHUJPVCRS-1) based on plant growth-promoting activities We developed a consortium of both strains and estimated plant growth promotion (PGP) activity which recorded significant better production of Indole-3-acetic acid (IAA) (61.53 μg/ml), siderophore (12.66%), ammonia (98.66 μg/ml), phosphate solubilisation (942.64 μg/ml), potassium solubilisation, and antagonistic activity against Fusarium sp. than individual bacterial strains. Bacterial consortium (E. hormaechei + B. naejangsanensis) treatment significantly enhanced plant growth attributes, grain yields, nutritional content in plant and seed, followed by E. hormaechei as compared to control. Seed treated with consortium recorded a significant increase in available N P K, enzymes and microbial communities in soils. Microbiome analysis revealed that the dominance of bacterial group and its functional properties is directly correlated with plant growth attributes, nutrient content, soil N P K, and enzyme activity. The relative abundance of bacterial phyla Proteobacteria (98%) was dominantly recorded in all treatments. The microbiome of seed and soil, treated with consortium (E. hormaechei + B. naejangsanensis) showed high amount of diversity of bacterial phyla Verrucomicrobia, Firmicutes, Bacteroidetes, Acidobacteria, Chloroflexi, and Proteobacteria than E. hormaechei (Firmicutes, Bacteroidetes, Chloroflexi and Proteobacteria) and control (Firmicutes, Bacteroidetes and Proteobacteria). In soil, root and shoot, E. hormaechei treatment enriched ligninolytic, nitrogen fixation, cellulolytic, nitrate ammonification among other pathways. The main finding is that the consortium treated seed of chickpea recorded significant enhancement of plant growth attributes, productivity, nutritional content, and soil health as well as microbial colonization in soil and seed part.
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Affiliation(s)
- Arpan Mukherjee
- Plant Microbe Interaction Lab, Institute of Environment and Sustainable Development, Banaras Hindu University, Varanasi 221005, India
| | - Saurabh Singh
- Plant Microbe Interaction Lab, Institute of Environment and Sustainable Development, Banaras Hindu University, Varanasi 221005, India
| | - Anand Kumar Gaurav
- Plant Microbe Interaction Lab, Institute of Environment and Sustainable Development, Banaras Hindu University, Varanasi 221005, India
| | - Gowardhan Kumar Chouhan
- Plant Microbe Interaction Lab, Institute of Environment and Sustainable Development, Banaras Hindu University, Varanasi 221005, India
| | - Durgesh Kumar Jaiswal
- Plant Microbe Interaction Lab, Institute of Environment and Sustainable Development, Banaras Hindu University, Varanasi 221005, India; Department of Botany, Pune University, Pune 411007, India
| | | | - Ajit Kumar Passari
- Departmento de Biología Moleculary Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, México City CDMX-04510, Mexico
| | - Ahmed M Abdel-Azeem
- Botany and Microbiology Department, Faculty of Science, Suez Canal University, Ismailia 41522, Egypt
| | - Jay Prakash Verma
- Plant Microbe Interaction Lab, Institute of Environment and Sustainable Development, Banaras Hindu University, Varanasi 221005, India.
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Abdelkhalek A, Aseel DG, Király L, Künstler A, Moawad H, Al-Askar AA. Induction of Systemic Resistance to Tobacco mosaic virus in Tomato through Foliar Application of Bacillus amyloliquefaciens Strain TBorg1 Culture Filtrate. Viruses 2022; 14:v14081830. [PMID: 36016452 PMCID: PMC9416369 DOI: 10.3390/v14081830] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Revised: 08/18/2022] [Accepted: 08/19/2022] [Indexed: 12/26/2022] Open
Abstract
The application of microbe-derived products as natural biocontrol agents to boost systemic disease resistance to virus infections in plants is a prospective strategy to make agriculture more sustainable and environmentally friendly. In the current study, the rhizobacterium Bacillus amyloliquefaciens strain TBorg1 was identified based on 16S rRNA, rpoB, and gyrA gene sequences, and evaluated for its efficiency in conferring protection of tomato from infection by Tobacco mosaic virus (TMV). Under greenhouse circumstances, foliar sprays of TBorg1 culture filtrate (TBorg1-CF) promoted tomato growth, lowered disease severity, and significantly decreased TMV accumulation in systemically infected leaves of treated plants relative to untreated controls. TMV accumulation was reduced by 90% following the dual treatment, applied 24 h before and after TMV infection. Significant increases in levels of total soluble carbohydrates, proteins, and ascorbic acid were also found. In addition, a significant rise in activities of enzymes capable of scavenging reactive oxygen species (PPO and POX), as well as decreased levels of non-enzymatic oxidative stress markers (H2O2 and MDA) were observed, compared to untreated plants. Enhanced systemic resistance to TMV was indicated by significantly increased transcript accumulation of polyphenolic pathway (C4H, HCT, and CHI) and pathogenesis-related (PR-1 and PR-5) genes. Out of the 15 compounds identified in the GC-MS analysis, 1,2-benzenedicarboxylic acid mono(2-ethylhexyl) ester and phenol, 2,4-bis(1,1-dimethylethyl), as well as L-proline, N-valeryl-, and heptadecyl ester were present in the highest concentrations in the ethyl acetate extract of TBorg1-CF. In addition, significant amounts of n-hexadecanoic acid, pyrrolo [1,2-a] pyrazine-1,4-dione hexahydro-3-(2-methylpropyl)-, nonane, 5-butyl-, and eicosane were also detected. These compounds may act as inducers of systemic resistance to viral infection. Our findings indicate that the newly isolated B. amyloliquefaciens strain TBorg1 could be a potentially useful rhizobacterium for promoting plant growth and a possible source of biocontrol agents for combating plant virus infections.
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Affiliation(s)
- Ahmed Abdelkhalek
- Plant Protection and Biomolecular Diagnosis Department, ALCRI, City of Scientific Research and Technological Applications, New Borg El Arab City 21934, Egypt
- Correspondence: ; Tel.: +20-1007556883
| | - Dalia G. Aseel
- Plant Protection and Biomolecular Diagnosis Department, ALCRI, City of Scientific Research and Technological Applications, New Borg El Arab City 21934, Egypt
| | - Lóránt Király
- Centre for Agricultural Research, Plant Protection Institute, ELKH, P.O. Box 102, H-1022 Budapest, Hungary
| | - András Künstler
- Centre for Agricultural Research, Plant Protection Institute, ELKH, P.O. Box 102, H-1022 Budapest, Hungary
| | - Hassan Moawad
- Agriculture Microbiology Department, National Research Centre, Cairo 12622, Egypt
| | - Abdulaziz A. Al-Askar
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
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Silva AMM, Estrada-Bonilla GA, Lopes CM, Matteoli FP, Cotta SR, Feiler HP, Rodrigues YF, Cardoso EJBN. Does Organomineral Fertilizer Combined with Phosphate-Solubilizing Bacteria in Sugarcane Modulate Soil Microbial Community and Functions? MICROBIAL ECOLOGY 2022; 84:539-555. [PMID: 34498120 DOI: 10.1007/s00248-021-01855-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2021] [Accepted: 08/31/2021] [Indexed: 06/13/2023]
Abstract
Soil bacterial and fungal communities are suitable soil ecosystem health indicators due to their sensitivity to management practices and their role in soil ecosystem processes. Here, information on composition and functions of bacterial and fungal communities were evaluated at two phenological stages of sugarcane (six and twelve months, equivalent to the most intensive vegetative stage and to final maturation, respectively) when organomineral fertilizer, combined with phosphate-solubilizing bacteria (PSB), was added into the soil. Organic compost enriched with apatite (C + A) or phosphorite (C + P) and compost without phosphate enrichment (C) were used in the presence or absence of PSB. In addition, we used a control fertilized with soluble triple superphosphate. The differences were more related to the sampling period than to the type of organomineral fertilizer, being observed higher available phosphorus at six months than at twelve months. Only in the C treatment we observed the presence of Bacillaceae and Planococcaceae, while Pseudomonadaceae were only prevalent in inoculated C + A. As for fungi, the genera Chaetomium and Achroiostachys were only present in inoculated C + P, while the genus Naganishia was most evident in inoculated C + A and in uninoculated C + P. Soliccocozyma represented 75% of the total fungal abundance in uninoculated C while in inoculated C, it represented 45%. The bacterial community was more related to the degradation of easily decomposable organic compounds, while the fungal community was more related to degradation of complex organic compounds. Although the microbial community showed a resilient trait, subtle changes were detected in microbial community composition and function, and this may be related to the increase in yield observed.
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Affiliation(s)
- Antonio Marcos Miranda Silva
- "Luiz de Queiroz" College of Agriculture, University of São Paulo, Soil Science Department, Piracicaba, São Paulo, Brazil
| | - German A Estrada-Bonilla
- Corporación Colombiana de Investigación Agropecuaria (AGROSAVIA) - C.I. Tibaitatá, Mosquera, Cundinamarca, Colombia.
| | - Cíntia Masuco Lopes
- "Luiz de Queiroz" College of Agriculture, University of São Paulo, Soil Science Department, Piracicaba, São Paulo, Brazil
| | - Filipe Pereira Matteoli
- "Luiz de Queiroz" College of Agriculture, University of São Paulo, Soil Science Department, Piracicaba, São Paulo, Brazil
| | - Simone Raposo Cotta
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - Henrique Petry Feiler
- "Luiz de Queiroz" College of Agriculture, University of São Paulo, Soil Science Department, Piracicaba, São Paulo, Brazil
| | - Yasmin Florentino Rodrigues
- "Luiz de Queiroz" College of Agriculture, University of São Paulo, Soil Science Department, Piracicaba, São Paulo, Brazil
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dos Santos RM, Cueva-Yesquén LG, Garboggini FF, Desoignies N, Rigobelo EC. Inoculum Concentration and Mineral Fertilization: Effects on the Endophytic Microbiome of Soybean. Front Microbiol 2022; 13:900980. [PMID: 35875541 PMCID: PMC9301290 DOI: 10.3389/fmicb.2022.900980] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Accepted: 06/09/2022] [Indexed: 12/13/2022] Open
Abstract
Soybean crops are of great economic importance worldwide and in Brazil. This crop is a commodity that provides large amounts of financial resources to the country. Soybean productivity is influenced by several biotic and abiotic factors, and most of these factors cannot be controlled by agricultural practices. Due to the soybean cultivars used and their required yields, the soybean crop, similar to other agriculturally important crops, requires large amounts of mineral fertilizers. There are several microorganisms that colonize soybean plant roots without causing symptoms or damage. These microorganisms that colonize plant tissues are called endophytes and can often promote plant growth and development. Little is known about the factors that influence endophyticism. The aim of the present study was to evaluate whether Bacillus subtilis inoculant concentrations and levels of mineral fertilization recommended for the crop have any influence on the endophytic microbiome of soybean plant roots. The results show that B. subtilis inoculations did not affect the endophytic community of the roots; however, the evaluation of the microbial community structure according to the alpha diversity metrics observed richness, Chao1 index, Shannon index and Simpson index showed that microbial diversity of endophytes was higher at fertilization levels of 50 and 100%, with a significant difference (p < 0.05) between 0 and 50% and 0 and 100% fertilization.
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Affiliation(s)
- Roberta Mendes dos Santos
- Graduate Program in Agricultural Microbiology, Faculty of Agrarian and Veterinary Sciences, State University of Sao Paulo (UNESP), Jaboticabal, Brazil
| | - Luis Gabriel Cueva-Yesquén
- Agricultural and Livestock Microbiology Graduation Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Fabiana Fantinatti Garboggini
- Agricultural and Livestock Microbiology Graduation Program, São Paulo State University (UNESP), School of Agricultural and Veterinarian Sciences, Jaboticabal, São Paulo, Brazil
| | - Nicolas Desoignies
- Phytopathology, Microbial and Molecular Farming Lab, Centre d’Etudes et de Recherche Appliquée -Haute Ecole Provinciale du Hainaut Condorcet, Ath, Belgium
| | - Everlon Cid Rigobelo
- Graduate Program in Agricultural Microbiology, Faculty of Agrarian and Veterinary Sciences, State University of Sao Paulo (UNESP), Jaboticabal, Brazil
- *Correspondence: Everlon Cid Rigobelo,
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Daniel AI, Fadaka AO, Gokul A, Bakare OO, Aina O, Fisher S, Burt AF, Mavumengwana V, Keyster M, Klein A. Biofertilizer: The Future of Food Security and Food Safety. Microorganisms 2022; 10:1220. [PMID: 35744738 PMCID: PMC9227430 DOI: 10.3390/microorganisms10061220] [Citation(s) in RCA: 35] [Impact Index Per Article: 17.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Revised: 06/08/2022] [Accepted: 06/13/2022] [Indexed: 02/04/2023] Open
Abstract
There is a direct correlation between population growth and food demand. As the global population continues to rise, there is a need to scale up food production to meet the food demand of the population. In addition, the arable land over time has lost its naturally endowed nutrients. Hence, alternative measures such as fertilizers, pesticides, and herbicides are used to fortify the soil and scale up the production rate. As efforts are being made to meet this food demand and ensure food security, it is equally important to ensure food safety for consumption. Food safety measures need to be put in place throughout the food production chain lines. One of the fundamental measures is the use of biofertilizers or plant growth promoters instead of chemical or synthesized fertilizers, pesticides, and herbicides that poise several dangers to human and animal health. Biofertilizers competitively colonize plant root systems, which, in turn, enhance nutrient uptake, increase productivity and crop yield, improve plants' tolerance to stress and their resistance to pathogens, and improve plant growth through mechanisms such as the mobilization of essential elements, nutrients, and plant growth hormones. Biofertilizers are cost-effective and ecofriendly in nature, and their continuous usage enhances soil fertility. They also increase crop yield by up to about 10-40% by increasing protein contents, essential amino acids, and vitamins, and by nitrogen fixation. This review therefore highlighted different types of biofertilizers and the mechanisms by which they elicit their function to enhance crop yield to meet food demand. In addition, the review also addressed the role of microorganisms in promoting plant growth and the various organisms that are beneficial for enhancing plant growth.
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Affiliation(s)
- Augustine Innalegwu Daniel
- Plant Omics Laboratory, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (O.A.); (S.F.)
- Department of Biochemistry, Federal University of Technology, P.M.B 65, Minna 920101, Niger State, Nigeria
| | - Adewale Oluwaseun Fadaka
- Department of Science and Innovation/Mintek Nanotechnology Innovation Centre, Biolabels Node, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (A.O.F.); (V.M.)
| | - Arun Gokul
- Department of Plant Sciences, Qwaqwa Campus, University of the Free State, Phuthadithjaba 9866, South Africa;
| | - Olalekan Olanrewaju Bakare
- Environmental Biotechnology Laboratory, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (O.O.B.); (A.F.B.); (M.K.)
| | - Omolola Aina
- Plant Omics Laboratory, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (O.A.); (S.F.)
| | - Stacey Fisher
- Plant Omics Laboratory, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (O.A.); (S.F.)
| | - Adam Frank Burt
- Environmental Biotechnology Laboratory, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (O.O.B.); (A.F.B.); (M.K.)
| | - Vuyo Mavumengwana
- Department of Science and Innovation/Mintek Nanotechnology Innovation Centre, Biolabels Node, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (A.O.F.); (V.M.)
- Division of Molecular Biology and Human Genetics, Faculty of Medicine and Health Sciences, DST-NRF Centre of Excellence for Biomedical Tuberculosis Research, South African Medical Research Council Centre for Tuberculosis Research, Stellenbosch University, Cape Town 7505, South Africa
| | - Marshall Keyster
- Environmental Biotechnology Laboratory, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (O.O.B.); (A.F.B.); (M.K.)
| | - Ashwil Klein
- Plant Omics Laboratory, Department of Biotechnology, University of the Western Cape, Robert Sobukwe Road, Bellville 7530, South Africa; (O.A.); (S.F.)
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He C, Han T, Tan L, Li X. Effects of Dark Septate Endophytes on the Performance and Soil Microbia of Lycium ruthenicum Under Drought Stress. FRONTIERS IN PLANT SCIENCE 2022; 13:898378. [PMID: 35720577 PMCID: PMC9201775 DOI: 10.3389/fpls.2022.898378] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Accepted: 05/03/2022] [Indexed: 06/15/2023]
Abstract
In the current study, we explored the effects of dark septate endophytes (DSE) (Neocamarosporium phragmitis, Alternaria chlamydospore, and Microascus alveolaris) on the performance and rhizosphere soil microbial composition of Lycium ruthenicum Murr under drought stress. Differences in plant growth and physiological indexes, soil parameters, and microbial composition under different treatments were studied. Three DSE species could form good symbiotic relationships with L. ruthenicum plants, and the symbionts depended on DSE species and water availability. Inoculation of DSE had the greatest benefit on host plants under drought conditions. In particular, N. phragmitis and A. chlamydospore had a significant positive influence on the biomass, morphological and physiological indexes of host plants. Additionally, the content of arbuscular mycorrhiza (AM) fungi, gram-negative bacteria, and actinomycetes in the soil was significantly elevated after DSE inoculation in the absence of water. Based on a variance decomposition analysis, DSE was the most important factor affecting the growth and physiological parameters of host plants, and DSE inoculation combined with water conditions significantly affected the contents of soil microbial communities. Structural equation model (SEM) analysis showed that the positive effects of DSE on L. ruthenicum varied with DSE species and plant parameters under different water conditions. These results are helpful to understand the ecological function of DSE and its potential application in the cultivation of L. ruthenicum plants in drylands.
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Affiliation(s)
- Chao He
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Tingting Han
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Ling Tan
- Xiyuan Hospital, Chinese Academy of Traditional Chinese Medicine, Beijing, China
| | - Xianen Li
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
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Fessia A, Barra P, Barros G, Nesci A. Could Bacillus biofilms enhance the effectivity of biocontrol strategies in the phyllosphere? J Appl Microbiol 2022; 133:2148-2166. [PMID: 35476896 DOI: 10.1111/jam.15596] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Revised: 04/13/2022] [Accepted: 04/21/2022] [Indexed: 11/30/2022]
Abstract
Maize (Zea mays L.), a major crop in Argentina and a staple food around the world, is affected by the emergence and re-emergence of foliar diseases. Agrochemicals are the main control strategy nowadays, but they can cause resistance in insects and microbial pathogens and have negative effects on the environment and human health. An emerging alternative is the use of living organisms, i.e. microbial biocontrol agents, to suppress plant pathogen populations. This is a risk-free approach when the organisms acting as biocontrol agents come from the same ecosystem as the foliar pathogens they are meant to antagonize. Some epiphytic microorganisms may form biofilm by becoming aggregated and attached to a surface, as is the case of spore-forming bacteria from the genus Bacillus. Their ability to sporulate and their tolerance to long storage periods make them a frequently used biocontrol agent. Moreover, the biofilm that they create protects them against different abiotic and biotic factors and helps them to acquire nutrients, which ensures their survival on the plants they protect. This review analyzes the interactions that the phyllosphere-inhabiting Bacillus genus establishes with its environment through biofilm, and how this lifestyle could serve to design effective biological control strategies.
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Affiliation(s)
- Aluminé Fessia
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Ruta Nacional 36, Km 601, X5804ZAB Río Cuarto, Córdoba, Argentina
| | - Paula Barra
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Ruta Nacional 36, Km 601, X5804ZAB Río Cuarto, Córdoba, Argentina
| | - Germán Barros
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Ruta Nacional 36, Km 601, X5804ZAB Río Cuarto, Córdoba, Argentina
| | - Andrea Nesci
- Laboratorio de Ecología Microbiana, Departamento de Microbiología e Inmunología, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Ruta Nacional 36, Km 601, X5804ZAB Río Cuarto, Córdoba, Argentina
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Seed-Encapsulation of Desiccation-Tolerant Microorganisms for the Protection of Maize from Drought: Phenotyping Effects of a New Dry Bioformulation. PLANTS 2022; 11:plants11081024. [PMID: 35448752 PMCID: PMC9024790 DOI: 10.3390/plants11081024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/18/2022] [Revised: 04/06/2022] [Accepted: 04/07/2022] [Indexed: 11/20/2022]
Abstract
Droughts and high temperatures deeply affect crop production. The use of desiccation-tolerant (or xerotolerant) microorganisms able to protect plants from droughts represents a promising alternative. These xerotolerant microorganisms have previously been used to modulate plant responses and improve their tolerance to drought. In addition, these microorganisms could be stored and used in dry formats, which would improve their viability and resilience at a much lower cost than current market alternatives. In the present study we analyze the possibility of using strains of xerotolerant Actinobacteria in encapsulated format on seeds. Under this formulation, we carried out greenhouse with farming soil with maize plants. Under greenhouse conditions, the plants showed greater resistance to drought, as well as increased growth and production yield, but not as well in field trials. This alternative could represent a useful tool to improve water efficiency in crops for drought-affected areas or affected by water scarcity.
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36
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Ullah A, Farooq M, Qadeer A, Sanaullah M. Impact of zinc and plant growth-promoting bacteria on soil health as well as aboveground biomass of desi and kabuli chickpea under arid conditions. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:2262-2269. [PMID: 34622444 DOI: 10.1002/jsfa.11564] [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: 12/22/2020] [Revised: 09/07/2021] [Accepted: 10/08/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND Zinc (Zn) deficiency and low soil fertility are the major factors responsible for low yield in chickpea. This study was conducted to evaluate the effect of Zn application and plant growth-promoting bacteria (PGPB) (endophyte Enterobacter sp. MN17) on soil health and aboveground biomass of desi and kabuli chickpea under natural field conditions. Zn was applied as seed priming (0.001 mol L-1 ) and soil application (10 kg Zn ha-1 ) with and without PGPB. To determine the impacts of Zn and PGPB on soil biological health, soil microbial biomass carbon (MBC) and soil extracellular enzyme activities were analyzed at two growth stages: vegetative (90 days after sowing) and maturity (163 days after sowing). RESULTS The highest aboveground biomass (5.1 t ha-1 ) was recorded with Zn seed priming + PGPB in kabuli chickpea and in desi chickpea (4.8 t ha-1 ) with Zn seed priming only. The application of Zn significantly increased soil MBC, which was higher in kabuli (795 and 731 μg C g-1 ) compared to desi chickpea (655 and 533 μg C g-1 ) at both vegetative and reproductive growth stages, respectively. The highest extracellular soil enzyme activities, - β-glucosidase (4758 nmol g-1 h-1 ), acid phosphatase (5508 nmol g-1 h-1 ), chitinase (5997 nmol g-1 h-1 ) and leucine aminopeptidase (993 nmol g-1 h-1 ) - were recorded with Zn seed priming. Of the chickpea types, kabuli chickpea had higher soil extracellular enzyme activities in the rhizosphere than desi chickpea. CONCLUSION Zn seed priming along with PGPB application may improve soil health and chickpea biomass in marginal soils. © 2021 Society of Chemical Industry.
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Affiliation(s)
- Aman Ullah
- Department of Agronomy, University of Agriculture, Faisalabad, Pakistan
- Department of Plant Sciences, College of Agricultural and Marine Sciences, Sultan Qaboos University, Al-Khod, Oman
| | - Muhammad Farooq
- Department of Agronomy, University of Agriculture, Faisalabad, Pakistan
- Department of Plant Sciences, College of Agricultural and Marine Sciences, Sultan Qaboos University, Al-Khod, Oman
| | - Abdul Qadeer
- Institute of Soil and Environmental Sciences, University of Agriculture, Faisalabad, Pakistan
| | - Muhammad Sanaullah
- Institute of Soil and Environmental Sciences, University of Agriculture, Faisalabad, Pakistan
- Department of Biogeochemistry of Agroecosystems, Georg-August University of Göttingen, Göttingen, Germany
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Foliar Applications of Bacillus subtilis HA1 Culture Filtrate Enhance Tomato Growth and Induce Systemic Resistance against Tobacco mosaic virus Infection. HORTICULTURAE 2022. [DOI: 10.3390/horticulturae8040301] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
The application of microbial products as natural biocontrol agents for inducing systemic resistance against plant viral infections represents a promising strategy for sustainable and eco-friendly agricultural applications. Under greenhouse conditions, the efficacy of the culture filtrate of Bacillus subtilis strain HA1 (Acc# OM286889) for protecting tomato plants from Tobacco mosaic virus (TMV) infection was assessed. The results showed that the dual foliar application of this culture filtrate (HA1-CF) 24 h before and 24 h after TMV inoculation was the most effective treatment for enhancing tomato plant development, with substantial improvements in shoot and root parameters. Furthermore, compared to non-treated plants, HA1-CF-treated tomato had a significant increase in total phenolic and flavonoid contents of up to 27% and 50%, respectively. In addition, a considerable increase in the activities of reactive oxygen species scavenging enzymes (PPO, SOD, and POX) and a significant decrease in non-enzymatic oxidative stress markers (H2O2 and MDA) were reported. In comparison to untreated control plants, all HA1-CF-treated plants showed a significant reduction in TMV accumulation in systemically infected tomato leaves, up to a 91% reduction at 15 dpi. The qRT-PCR results confirmed that HA1-CF stimulated the transcription of several defense-related tomato genes (PR-1, PAL, CHS, and HQT), pointing to their potential role in induced resistance against TMV. GC–MS analysis showed that phenol, 2,4-bis (1,1-dimethylethyl)-, Pyrrolo [1,2-a] pyrazine-1,4-dione, hexahydro-3-(2-methylpropyl)- and eicosane are the primary ingredient compounds in the HA1-CF ethyl acetate extract, suggesting that these molecules take part in stimulating induced systemic resistance in tomato plants. Our results imply that HA1-CF is a potential resistance inducer to control plant viral infections, a plant growth promoter, and a source of bioactive compounds for sustainable disease management.
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Liu X, Le Roux X, Salles JF. The legacy of microbial inoculants in agroecosystems and potential for tackling climate change challenges. iScience 2022; 25:103821. [PMID: 35243218 PMCID: PMC8867051 DOI: 10.1016/j.isci.2022.103821] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
Microbial inoculations contribute to reducing agricultural systems' environmental footprint by supporting sustainable production and regulating climate change. However, the indirect and cascading effects of microbial inoculants through the reshaping of soil microbiome are largely overlooked. By discussing the underlying mechanisms of plant- and soil-based microbial inoculants, we suggest that a key challenge in microbial inoculation is to understand their legacy on indigenous microbial communities and the corresponding impacts on agroecosystem functions and services relevant to climate change. We explain how these legacy effects on the soil microbiome can be understood by building on the mechanisms driving microbial invasions and placing inoculation into the context of ecological succession and community assembly. Overall, we advocate that generalizing field trials to systematically test inoculants' effectiveness and developing knowledge anchored in the scientific field of biological/microbial invasion are two essential requirements for applying microbial inoculants in agricultural ecosystems to tackle climate change challenges.
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Affiliation(s)
- Xipeng Liu
- Microbial Ecology cluster, Genomics Research in Ecology and Evolution in Nature (GREEN), Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, 9747 AG Groningen, the Netherlands
| | - Xavier Le Roux
- Microbial Ecology Centre LEM, INRAE, CNRS, VetAgroSup, Université Lyon 1, Université de Lyon, UMR 1418 INRAE, UMR 5557 CNRS, 69622 Villeurbanne, France
| | - Joana Falcão Salles
- Microbial Ecology cluster, Genomics Research in Ecology and Evolution in Nature (GREEN), Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, 9747 AG Groningen, the Netherlands
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Cai G, Li J, Zhou M, Zhu G, Li Y, Lv N, Wang R, Li C, Pan X. Compost-derived indole-3-acetic-acid-producing bacteria and their effects on enhancing the secondary fermentation of a swine manure-corn stalk composting. CHEMOSPHERE 2022; 291:132750. [PMID: 34740695 DOI: 10.1016/j.chemosphere.2021.132750] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2021] [Revised: 10/27/2021] [Accepted: 10/30/2021] [Indexed: 06/13/2023]
Abstract
Composting, as an effectively bio-oxidative process, has been widely used for converting organic waste to organic fertilizer. However, the low fertilizer efficiency of composting product limited its application in agriculture. To improve the growth-promoting effect of composting product, the present study investigated the bioaugmentation strategy of inoculating indole-3-acetic-acid (IAA)-producing bacteria. Firstly, two IAA-producing bacteria (Bacillus safensis 33C and Rhodococcus rhodochrous YZ) were isolated from composting products with high IAA yields of 39.18 and 16.32 μg mL-1, respectively. Secondly, the microbial inoculants were prepared with 33C, YZ and a previously isolated IAA-producing strain Corynebacterium stationis 29B. To increase the accumulation of microbial secondary metabolites, microbial inoculants were amended at the secondary fermentation stage of composting. Physicochemical characterization showed that the maturity of composting product was significantly promoted by inoculating microbial inoculants prepared with 33C and 29B (single and combined inoculants). Finally, bioaugmentation with 33C and 29B increased the IAA contents of composting products by 2.9-5.2 times, which benefited the germination and early vegetative growth of plants. In summary, inoculating proper IAA-producing bacteria during secondary fermentation of composting could improve the quality of composting product and expand its application.
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Affiliation(s)
- Guanjing Cai
- Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China; School of Environment and Natural Resources, Renmin University of China, Beijing, 100872, China; Key Laboratory of Energy Resource Utilization from Agriculture Residue, Ministry of Agriculture and Rural Affairs, China
| | - Junjie Li
- Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Mingdian Zhou
- Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China
| | - Gefu Zhu
- School of Environment and Natural Resources, Renmin University of China, Beijing, 100872, China; Key Laboratory of Energy Resource Utilization from Agriculture Residue, Ministry of Agriculture and Rural Affairs, China.
| | - Yanlin Li
- Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Nan Lv
- Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Ruming Wang
- Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Chunxing Li
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Kgs. Lyngby DK, 2800, Denmark
| | - Xiaofang Pan
- Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China
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Renoud S, Vacheron J, Abrouk D, Prigent-Combaret C, Legendre L, Muller D, Moënne-Loccoz Y. Field Site-Specific Effects of an Azospirillum Seed Inoculant on Key Microbial Functional Groups in the Rhizosphere. Front Microbiol 2022; 12:760512. [PMID: 35154023 PMCID: PMC8825484 DOI: 10.3389/fmicb.2021.760512] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Accepted: 12/03/2021] [Indexed: 01/05/2023] Open
Abstract
The beneficial effects of plant growth–promoting Rhizobacteria (PGPR) entail several interaction mechanisms with the plant or with other root-associated microorganisms. These microbial functions are carried out by multiple taxa within functional groups and contribute to rhizosphere functioning. It is likely that the inoculation of additional PGPR cells will modify the ecology of these functional groups. We also hypothesized that the inoculation effects on functional groups are site specific, similarly as the PGPR phytostimulation effects themselves. To test this, we assessed in the rhizosphere of field-grown maize the effect of seed inoculation with the phytostimulatory PGPR Azospirillum lipoferum CRT1 on the size and/or diversity of selected microbial functional groups important for plant growth, using quantitative polymerase chain reaction and/or Illumina MiSeq metabarcoding. The functional groups included bacteria able to fix nitrogen (a key nutrient for plant growth), producers of 1-aminocyclopropane-1-carboxylate (ACC) deaminase (which modulate ethylene metabolism in plant and stimulate root growth), and producers of 2,4-diacetylphloroglucinol (an auxinic signal enhancing root branching). To test the hypothesis that such ecological effects were site-specific, the functional groups were monitored at three different field sites, with four sampling times over two consecutive years. Despite poor inoculant survival, inoculation enhanced maize growth. It also increased the size of functional groups in the three field sites, at the maize six-leaf and flowering stages for diazotrophs and only at flowering stage for ACC deaminase and 2,4-diacetylphloroglucinol producers. Sequencing done in the second year revealed that inoculation modified the composition of diazotrophs (and of the total bacterial community) and to a lesser extent of ACC deaminase producers. This study revealed an ecological impact that was field specific (even though a few taxa were impacted in all fields) and of unexpected magnitude with the phytostimulatory Azospirillum inoculant, when considering microbial functional groups. Further methodological developments are needed to monitor additional functional groups important for soil functioning and plant growth under optimal or stress conditions.
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Affiliation(s)
- Sébastien Renoud
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAe, VetAgro Sup, UMR 5557 Ecologie Microbienne, Villeurbanne, France
| | - Jordan Vacheron
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAe, VetAgro Sup, UMR 5557 Ecologie Microbienne, Villeurbanne, France
| | - Danis Abrouk
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAe, VetAgro Sup, UMR 5557 Ecologie Microbienne, Villeurbanne, France
| | - Claire Prigent-Combaret
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAe, VetAgro Sup, UMR 5557 Ecologie Microbienne, Villeurbanne, France
| | - Laurent Legendre
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAe, VetAgro Sup, UMR 5557 Ecologie Microbienne, Villeurbanne, France.,Univ Lyon, Université de St Etienne, St Etienne, France
| | - Daniel Muller
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAe, VetAgro Sup, UMR 5557 Ecologie Microbienne, Villeurbanne, France
| | - Yvan Moënne-Loccoz
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAe, VetAgro Sup, UMR 5557 Ecologie Microbienne, Villeurbanne, France
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Empirical Evidence of Arsenite Oxidase Gene as an Indicator Accounting for Arsenic Phytoextraction by Pteris vittata. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2022; 19:ijerph19031796. [PMID: 35162818 PMCID: PMC8835403 DOI: 10.3390/ijerph19031796] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Revised: 02/01/2022] [Accepted: 02/02/2022] [Indexed: 01/10/2023]
Abstract
Arsenic (As) is a toxic semi-metallic element that is ubiquitous in the environment and poses serious human health risks. Phytoextraction by Pteris vittata is considered a low-cost and environmentally friendly approach to treat As-contaminated soil. P. vittata mainly absorbs arsenate thus the bioavailability of As to P. vittata depends on the chemical form of As. Microbial redox of As contributes to the biogeochemical cycling of As, and rhizobacterium-assisted phytoextraction by P. vittata was proposed. In this study, this microbe-assisted phytoextraction was applied to two fields, and the effectiveness of phytoextraction was evaluated. The results revealed that P. vittata was able to grow in temperate and subarctic climate zones. The biomass was influenced by the weather, and the As concentration in plants was dependent on the As content in the soil. The ratio of arsenite oxidase genes (aioA-like genes) to 16S rRNA genes was employed to evaluate the effect of As phytoextraction, and the results exhibited that the ratio was related to the As concentration in P. vittata. Our results showed that arsenite oxidation in the rhizosphere might not be achieved by single-strain inoculation, while this study provided empirical evidence that the rhizospheric aioA-like genes could be an indicator for evaluating the effectiveness of As phytoextraction.
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Impact of Zero Budget Natural Farming on Crop Yields in Andhra Pradesh, SE India. SUSTAINABILITY 2022. [DOI: 10.3390/su14031689] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
It has been claimed that Zero Budget Natural Farming (ZBNF), a burgeoning practice of farming in India based on low-inputs and influenced by agro-ecological principles, has the potential to improve farm viability and food security. However, there is concern that the success of the social movement fueling the adoption of ZBNF has become out of step with the science underpinning its performance relative to other farming systems. Based on twenty field plot experiments established across six districts in Andhra Pradesh (SE India), managed by locally based farmer researchers, we present the first ‘on the ground’ assessment of ZBNF performance. We show that there is no short-term yield penalty when adopting ZBNF in small scale farming systems compared to conventional and organic alternatives. In terms of treatment response, we observed differences between agro-climatic zones, but in this initial evaluation we cannot recommend specific options tuned to these different contexts.
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43
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Adeniji AA, Babalola OO. Evaluation of Pseudomonas fulva PS9.1 and Bacillus velezensis NWUMFkBS10.5 as Candidate Plant Growth Promoters during Maize- Fusarium Interaction. PLANTS (BASEL, SWITZERLAND) 2022; 11:324. [PMID: 35161305 PMCID: PMC8839840 DOI: 10.3390/plants11030324] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Revised: 01/07/2022] [Accepted: 01/09/2022] [Indexed: 06/14/2023]
Abstract
Based on in vitro assessments, molecular and chemical analysis, Pseudomonas fulva PS9.1 and Bacillus velezensis NWUMFkBS10.5 are candidate biocontrol agents for plant disease management including maize fusariosis, a disease caused by members of the Fusarium species. This in vivo study evaluated the bio-protective potential of the aforementioned rhizobacteria strains on maize against the proliferation of the pathogenic fungus Fusarium graminearum (Fg). The study results show that the bacterized plants were not susceptible to Fg aggression and the antagonists displayed the capability to proliferate in the presence of other likely competing microflora. The screen-house data also suggest that the presence of resident soil microbiota impacted the activity of antagonists (PS9.1 and NWUMFkBS10.5). This variation was recorded in the soil treatments (sterilized and unsterilized soil). In all the experimental periods, bacterized maize plants with or without Fg inoculation significantly (p = 0.05) grew better in unsterilized soil. Besides, during the experimental periods, all the consortia treatments with or without Fg infection regardless of the soil used demonstrated appreciable performance. The result of this study suggests that the microbial agents can actively colonize the surface of their maize plant host, improve plant growth, and suppress the growth of phytopathogens. Considering their overall performance in this screen-house evaluation, P. fulva PS9.1 and B. velezensis NWUMFkBS10.5 have potential for field applications. All safety issues regarding their use under field conditions and risks associated with their extended-release into the environmental will, however, be assessed prior to further bioformulation, field investigation, and scale-up.
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Affiliation(s)
- Adetomiwa A. Adeniji
- Human Metabolomics, Faculty of Natural and Agricultural Science, Private Bag X6001, Box 269, Potchefstroom 2531, South Africa
- Food Security and Safety Niche Area, Faculty of Natural and Agricultural Science, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
| | - Olubukola O. Babalola
- Food Security and Safety Niche Area, Faculty of Natural and Agricultural Science, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
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D’Accolti M, Soffritti I, Bini F, Mazziga E, Mazzacane S, Caselli E. Pathogen Control in the Built Environment: A Probiotic-Based System as a Remedy for the Spread of Antibiotic Resistance. Microorganisms 2022; 10:microorganisms10020225. [PMID: 35208679 PMCID: PMC8876034 DOI: 10.3390/microorganisms10020225] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2021] [Revised: 01/18/2022] [Accepted: 01/19/2022] [Indexed: 02/05/2023] Open
Abstract
The high and sometimes inappropriate use of disinfectants and antibiotics has led to alarming levels of Antimicrobial Resistance (AMR) and to high water and hearth pollution, which today represent major threats for public health. Furthermore, the current SARS-CoV-2 pandemic has deeply influenced our sanitization habits, imposing the massive use of chemical disinfectants potentially exacerbating both concerns. Moreover, super-sanitation can profoundly influence the environmental microbiome, potentially resulting counterproductive when trying to stably eliminate pathogens. Instead, environmentally friendly procedures based on microbiome balance principles, similar to what applied to living organisms, may be more effective, and probiotic-based eco-friendly sanitation has been consistently reported to provide stable reduction of both pathogens and AMR in treated-environments, compared to chemical disinfectants. Here, we summarize the results of the studies performed in healthcare settings, suggesting that such an approach may be applied successfully also to non-healthcare environments, including the domestic ones, based on its effectiveness, safety, and negligible environmental impact.
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Affiliation(s)
- Maria D’Accolti
- Department of Chemical, Pharmaceutical and Agricultural Sciences and LTTA, University of Ferrara, 44121 Ferrara, Italy; (M.D.); (I.S.); (F.B.); (E.M.)
- CIAS Research Center, University of Ferrara, Via Saragat 13, 44122 Ferrara, Italy;
| | - Irene Soffritti
- Department of Chemical, Pharmaceutical and Agricultural Sciences and LTTA, University of Ferrara, 44121 Ferrara, Italy; (M.D.); (I.S.); (F.B.); (E.M.)
- CIAS Research Center, University of Ferrara, Via Saragat 13, 44122 Ferrara, Italy;
| | - Francesca Bini
- Department of Chemical, Pharmaceutical and Agricultural Sciences and LTTA, University of Ferrara, 44121 Ferrara, Italy; (M.D.); (I.S.); (F.B.); (E.M.)
| | - Eleonora Mazziga
- Department of Chemical, Pharmaceutical and Agricultural Sciences and LTTA, University of Ferrara, 44121 Ferrara, Italy; (M.D.); (I.S.); (F.B.); (E.M.)
| | - Sante Mazzacane
- CIAS Research Center, University of Ferrara, Via Saragat 13, 44122 Ferrara, Italy;
| | - Elisabetta Caselli
- Department of Chemical, Pharmaceutical and Agricultural Sciences and LTTA, University of Ferrara, 44121 Ferrara, Italy; (M.D.); (I.S.); (F.B.); (E.M.)
- CIAS Research Center, University of Ferrara, Via Saragat 13, 44122 Ferrara, Italy;
- Correspondence:
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Vandermaesen J, Du S, Daly AJ, Baetens JM, Horemans B, De Baets B, Boon N, Springael D. Interspecies Interactions of the 2,6-Dichlorobenzamide Degrading Aminobacter sp. MSH1 with Resident Sand Filter Bacteria: Indications for Mutual Cooperative Interactions That Improve BAM Mineralization Activity. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:1352-1364. [PMID: 34982540 DOI: 10.1021/acs.est.1c06653] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Bioaugmentation often involves an invasion process requiring the establishment and activity of a foreign microbe in the resident community of the target environment. Interactions with resident micro-organisms, either antagonistic or cooperative, are believed to impact invasion. However, few studies have examined the variability of interactions between an invader and resident species of its target environment, and none of them considered a bioremediation context. Aminobacter sp. MSH1 mineralizing the groundwater micropollutant 2,6-dichlorobenzamide (BAM), is proposed for bioaugmentation of sand filters used in drinking water production to avert BAM contamination. We examined the nature of the interactions between MSH1 and 13 sand filter resident bacteria in dual and triple species assemblies in sand microcosms. The residents affected MSH1-mediated BAM mineralization without always impacting MSH1 cell densities, indicating effects on cell physiology rather than on cell number. Exploitative competition explained most of the effects (70%), but indications of interference competition were also found. Two residents improved BAM mineralization in dual species assemblies, apparently in a mutual cooperation, and overruled negative effects by others in triple species systems. The results suggest that sand filter communities contain species that increase MSH1 fitness. This opens doors for assisting bioaugmentation through co-inoculation with "helper" bacteria originating from and adapted to the target environment.
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Affiliation(s)
- Johanna Vandermaesen
- Division of Soil and Water Management, KU Leuven, Kasteelpark Arenberg 20 Bus 2459, B-3001 Heverlee, Belgium
| | - Siyao Du
- Division of Soil and Water Management, KU Leuven, Kasteelpark Arenberg 20 Bus 2459, B-3001 Heverlee, Belgium
| | - Aisling J Daly
- KERMIT, Department of Data Analysis and Mathematical Modelling, Ghent University, Coupure Links 653, B-9000 Gent, Belgium
| | - Jan M Baetens
- KERMIT, Department of Data Analysis and Mathematical Modelling, Ghent University, Coupure Links 653, B-9000 Gent, Belgium
| | - Benjamin Horemans
- Division of Soil and Water Management, KU Leuven, Kasteelpark Arenberg 20 Bus 2459, B-3001 Heverlee, Belgium
| | - Bernard De Baets
- KERMIT, Department of Data Analysis and Mathematical Modelling, Ghent University, Coupure Links 653, B-9000 Gent, Belgium
| | - Nico Boon
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, B-9000 Gent, Belgium
| | - Dirk Springael
- Division of Soil and Water Management, KU Leuven, Kasteelpark Arenberg 20 Bus 2459, B-3001 Heverlee, Belgium
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Maitra S, Brestic M, Bhadra P, Shankar T, Praharaj S, Palai JB, Shah MMR, Barek V, Ondrisik P, Skalický M, Hossain A. Bioinoculants-Natural Biological Resources for Sustainable Plant Production. Microorganisms 2021; 10:51. [PMID: 35056500 PMCID: PMC8780112 DOI: 10.3390/microorganisms10010051] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2021] [Revised: 12/21/2021] [Accepted: 12/23/2021] [Indexed: 11/22/2022] Open
Abstract
Agricultural sustainability is of foremost importance for maintaining high food production. Irresponsible resource use not only negatively affects agroecology, but also reduces the economic profitability of the production system. Among different resources, soil is one of the most vital resources of agriculture. Soil fertility is the key to achieve high crop productivity. Maintaining soil fertility and soil health requires conscious management effort to avoid excessive nutrient loss, sustain organic carbon content, and minimize soil contamination. Though the use of chemical fertilizers have successfully improved crop production, its integration with organic manures and other bioinoculants helps in improving nutrient use efficiency, improves soil health and to some extent ameliorates some of the constraints associated with excessive fertilizer application. In addition to nutrient supplementation, bioinoculants have other beneficial effects such as plant growth-promoting activity, nutrient mobilization and solubilization, soil decontamination and/or detoxification, etc. During the present time, high energy based chemical inputs also caused havoc to agriculture because of the ill effects of global warming and climate change. Under the consequences of climate change, the use of bioinputs may be considered as a suitable mitigation option. Bioinoculants, as a concept, is not something new to agricultural science, however; it is one of the areas where consistent innovations have been made. Understanding the role of bioinoculants, the scope of their use, and analysing their performance in various environments are key to the successful adaptation of this technology in agriculture.
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Affiliation(s)
- Sagar Maitra
- Department of Agronomy, M.S. Swaminathan School of Agriculture, Centurion University of Technology and Management, Paralakheundi 761 211, India; (S.M.); (T.S.); (S.P.); (J.B.P.)
| | - Marian Brestic
- Department of Plant Physiology, Slovak University of Agriculture, Tr. A. Hlinku 2, 949 01 Nitra, Slovakia;
- Department of Botany and Plant Physiology, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences Prague, Kamycka 129, 165 00 Prague, Czech Republic;
| | - Preetha Bhadra
- Department of Biotechnology, M.S. Swaminathan School of Agriculture, Centurion University of Technology and Management, Paralakheundi 761 211, India;
| | - Tanmoy Shankar
- Department of Agronomy, M.S. Swaminathan School of Agriculture, Centurion University of Technology and Management, Paralakheundi 761 211, India; (S.M.); (T.S.); (S.P.); (J.B.P.)
| | - Subhashisa Praharaj
- Department of Agronomy, M.S. Swaminathan School of Agriculture, Centurion University of Technology and Management, Paralakheundi 761 211, India; (S.M.); (T.S.); (S.P.); (J.B.P.)
| | - Jnana Bharati Palai
- Department of Agronomy, M.S. Swaminathan School of Agriculture, Centurion University of Technology and Management, Paralakheundi 761 211, India; (S.M.); (T.S.); (S.P.); (J.B.P.)
| | | | - Viliam Barek
- Department of Water Resources and Environmental Engineering, Faculty of Horticulture and Landscape Engineering, Slovak University of Agriculture, Tr. A. Hlinku 2, 949 01 Nitra, Slovakia;
| | - Peter Ondrisik
- Department of Plant Physiology, Slovak University of Agriculture, Tr. A. Hlinku 2, 949 01 Nitra, Slovakia;
| | - Milan Skalický
- Department of Botany and Plant Physiology, Faculty of Agrobiology, Food, and Natural Resources, Czech University of Life Sciences Prague, Kamycka 129, 165 00 Prague, Czech Republic;
| | - Akbar Hossain
- Bangladesh Wheat and Maize Research Institute, Dinajpur 5200, Bangladesh;
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Changes in Bacterial Diversity and Composition in Response to Co-inoculation of Arbuscular Mycorrhizae and Zinc-Solubilizing Bacteria in Turmeric Rhizosphere. Curr Microbiol 2021; 79:4. [PMID: 34894281 DOI: 10.1007/s00284-021-02682-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2021] [Accepted: 10/02/2021] [Indexed: 10/19/2022]
Abstract
In the present study, the impact of co-inoculation of arbuscular mycorrhizal fungi (AM Rhizophagus sp., NCBI-MN710507) and Zinc solubilizing bacteria (ZSB2- Bacillus megaterium, NCBI-KY687496) on plant growth, soil dehydrogenase activity, soil respiration and the changes in bacterial diversity in rhizosphere of turmeric (Curcuma longa) were examined. Our results showed that higher plant height and dry biomass were observed in treatments co-inoculated with AM and ZSB2. Likewise, dehydrogenase activity and soil respiration were more significant in the co-inoculation treatment, indicating abundance of introduced as well as inherent microflora. Bacterial community analysis using 16S rRNA revealed changes in the structure and diversity of various taxa due to co-inoculation of AM and ZSB2. Alpha diversity indexes (Shannon and Chao1) and beta diversity indexes obtained through unweighted unifrac approach also showed variation among the treated samples. Chloroflexi was the dominant phylum followed by Proteobacteria, Actinobacteria and Acidobacteria which accounted for 80% of all treated samples. The composition of bacterial communities at genus level revealed that co-inoculation caused distinct bacterial profiles. The Linear discriminant analysis effect size revealed the dominance of ecologically significant genera such as Bradyrhizobium, Candidatus, Pedomicrbium, Thermoporothrix, Acinetobacter and Nitrospira in treatments co-inoculated with AM and ZSB2. On the whole, co-inoculated treatments revealed enhanced microbial activities and caused significant positive shifts in the bacterial diversity and abundance compared to treatments with sole application of ZSB2 or AM.
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Wei B, Zhang J, Wen R, Chen T, Xia N, Liu Y, Wang Z. Genetically Modified Sugarcane Intercropping Soybean Impact on Rhizosphere Bacterial Communities and Co-occurrence Patterns. Front Microbiol 2021; 12:742341. [PMID: 34970232 PMCID: PMC8713472 DOI: 10.3389/fmicb.2021.742341] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Accepted: 11/09/2021] [Indexed: 12/01/2022] Open
Abstract
Strategies involving genes in the dehydration-responsive element binding (DREB) family, which participates in drought stress regulation, and intercropping with legumes are becoming prominent options in promoting sustainable sugarcane cultivation. An increasing number of studies focusing on root interactions in intercropping systems, particularly involving transgenic crops, are being conducted to better understand and thus, harness beneficial soil microbes to enhance plant growth. We designed experiments to investigate the characteristics of two intercropping patterns, soybean with wild-type (WT) sugarcane and soybean with genetically modified (GM) Ea-DREB2B-overexpressing sugarcane, to assess the response of the rhizosphere microbiota to the different cropping patterns. Bacterial diversity in the rhizosphere microbial community differed between the two intercropping pattens. In addition, the biomass of GM sugarcane that intercropped with soybean was significantly improved compared with WT sugarcane, and the aboveground biomass and root biomass of GM soybean intercropping sugarcane increased by 49.15 and 46.03% compared with monoculture. Furthermore, a beneficial rhizosphere environment for the growth of Actinobacteria was established in the systems intercropped with GM sugarcane. Improving the production mode of crops by genetic modification is a key strategy to improving crop yields and provides new opportunities to further investigate the effects of intercropping on plant roots and soil microbiota. Thus, this study provides a basis for selecting suitable sugarcane-soybean intercropping patterns and a theoretical foundation for a sustainable sugarcane production.
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Affiliation(s)
- Beilei Wei
- State Key Laboratory of Molecular Vaccinology and Molecular Diagnostics, National Institute of Diagnostics and Vaccine Development in Infectious Diseases, School of Life Sciences, School of Public Health, Xiamen University, Xiamen, China
- College of Agronomy, Guangxi University, Nanning, China
- Guangxi Key Laboratory of Sugarcane Biology, Nanning, China
| | - Jinlian Zhang
- State Key Laboratory of Molecular Vaccinology and Molecular Diagnostics, National Institute of Diagnostics and Vaccine Development in Infectious Diseases, School of Life Sciences, School of Public Health, Xiamen University, Xiamen, China
- Microbiology Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, China
| | - Rushuang Wen
- College of Agronomy, Guangxi University, Nanning, China
| | - Tingsu Chen
- Microbiology Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, China
| | - Ningshao Xia
- State Key Laboratory of Molecular Vaccinology and Molecular Diagnostics, National Institute of Diagnostics and Vaccine Development in Infectious Diseases, School of Life Sciences, School of Public Health, Xiamen University, Xiamen, China
| | - Yue Liu
- College of Agronomy, Guangxi University, Nanning, China
- Guangxi Key Laboratory of Sugarcane Biology, Nanning, China
| | - Ziting Wang
- College of Agronomy, Guangxi University, Nanning, China
- Guangxi Key Laboratory of Sugarcane Biology, Nanning, China
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Lee SA, Kim HS, Sang MK, Song J, Weon HY. Effect of Bacillus mesonae H20-5 Treatment on Rhizospheric Bacterial Community of Tomato Plants under Salinity Stress. THE PLANT PATHOLOGY JOURNAL 2021; 37:662-672. [PMID: 34897257 PMCID: PMC8666243 DOI: 10.5423/ppj.ft.10.2021.0156] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Revised: 11/18/2021] [Accepted: 11/21/2021] [Indexed: 06/14/2023]
Abstract
Plant growth-promoting bacteria improve plant growth under abiotic stress conditions. However, their effects on microbial succession in the rhizosphere are poorly understood. In this study, the inoculants of Bacillus mesonae strain H20-5 were administered to tomato plants grown in soils with different salinity levels (EC of 2, 4, and 6 dS/m). The bacterial communities in the bulk and rhizosphere soils were examined 14 days after H20-5 treatment using Illumina MiSeq sequencing of the bacterial 16S rRNA gene. Although the abundance of H20-5 rapidly decreased in the bulk and rhizosphere soils, a shift in the bacterial community was observed following H20-5 treatment. The variation in bacterial communities due to H20-5 treatment was higher in the rhizosphere than in the bulk soils. Additionally, the bacterial species richness and diversity were greater in the H20-5 treated rhizosphere than in the control. The composition and structure of the bacterial communities varied with soil salinity levels, and those in the H20-5 treated rhizosphere soil were clustered. The members of Actinobacteria genera, including Kineosporia, Virgisporangium, Actinoplanes, Gaiella, Blastococcus, and Solirubrobacter, were enriched in the H20-5 treated rhizosphere soils. The microbial co-occurrence network of the bacterial community in the H20-5 treated rhizosphere soils had more modules and keystone taxa compared to the control. These findings revealed that the strain H20-5 induced systemic tolerance in tomato plants and influenced the diversity, composition, structure, and network of bacterial communities. The bacterial community in the H20-5 treated rhizosphere soils also appeared to be relatively stable to soil salinity changes.
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Affiliation(s)
- Shin Ae Lee
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju 55365,
Korea
- Division of Genetic Diversity, Honam National Institute of Biological Resources, Mokpo 58762,
Korea
| | - Hyeon Su Kim
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju 55365,
Korea
| | - Mee Kyung Sang
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju 55365,
Korea
| | - Jaekyeong Song
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju 55365,
Korea
| | - Hang-Yeon Weon
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju 55365,
Korea
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50
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Xiao X, Zhu Y, Gao C, Zhang Y, Gao Y, Zhao Y. Microbial inoculations improved rice yields by altering the presence of soil rare bacteria. Microbiol Res 2021; 254:126910. [PMID: 34768028 DOI: 10.1016/j.micres.2021.126910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2021] [Revised: 08/26/2021] [Accepted: 10/25/2021] [Indexed: 10/20/2022]
Abstract
Microbial inoculation is a promising way to improve crop yields in an eco-friendly and economic manner. However, the effects of inoculation on soil resident rare species, representing most of the diversity, are still not well documented and need further assessment. Here, we conducted a pot experiment to test the effects of single-strain and co-inoculants of Rhodopseudomonas palustris and Bacillus subtilis on soil rare and abundant bacteria through sequencing 16S ribosomal RNA gene amplicons. The results showed that microbial inoculations significantly improved the rice yields up to 17.73 %, and R. palustris and B. subtilis co-inoculation showed synergistic effects on rice yields. The inoculations exerted significant modification in soil bacterial community structure, with a more pronounced influence on the rare community than the abundant. The large shifts in rare community structure induced the increase of beneficial rare members and enhanced the membrane transporters and signal transduction together with the increase of some essential metabolism pathways. According to the random forest modeling, relative abundance of the subgroups of rare and abundant communities could explain 61.37-63.09 % of the variations in the rice yields. Structural equation modeling further demonstrated the potential predominant role of rare bacteria in impacting the crop yields (r = 0.95). Overall, our study proved the effectiveness of the co-inoculant in promoting the rice yields through mediating the soil rare bacteria of microbial community. These findings expand current understanding of the microbial inoculation impacts on subsequent crop yield and the underlying microbial mechanisms in agricultural ecosystem.
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Affiliation(s)
- Xian Xiao
- School of Environmental and Safety Engineering, Changzhou University, Changzhou 213164, China; Jiangsu Petrochemical Safety and Environmental Engineering Research Center, Changzhou 213164, China
| | - Yan Zhu
- School of Environmental and Safety Engineering, Changzhou University, Changzhou 213164, China
| | - Chenxin Gao
- School of Environmental and Safety Engineering, Changzhou University, Changzhou 213164, China
| | - Yimin Zhang
- Nanjing Institute of Environmental Sciences, Ministry of Environmental Protection of China, Nanjing 210042, China
| | - Yuexiang Gao
- Nanjing Institute of Environmental Sciences, Ministry of Environmental Protection of China, Nanjing 210042, China
| | - Yuan Zhao
- School of Environmental and Safety Engineering, Changzhou University, Changzhou 213164, China.
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