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Thakur R, Dhar H, Mathew S, Gulati A. PGPR inoculants journey from lab to land: Challenges and limitations. Microbiol Res 2024; 289:127910. [PMID: 39303413 DOI: 10.1016/j.micres.2024.127910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2024] [Revised: 08/28/2024] [Accepted: 09/12/2024] [Indexed: 09/22/2024]
Affiliation(s)
- Rishu Thakur
- Menzies School of Health Research, Charles Darwin University, Northern Territory 0870, Australia.
| | - Hena Dhar
- Department of Microbiology, School of Biosciences, RIMT University, Mandi Gobindgarh 147 301, Punjab, India
| | - Supriya Mathew
- Menzies School of Health Research, Charles Darwin University, Northern Territory 0870, Australia
| | - Arvind Gulati
- CSIR, Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh 176 061, India
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Fetsiukh A, Pall T, Timmusk S. Decrease due to pollution in the rhizosphere microbial diversity can be amended by supplementation from adapted plants of another species. Sci Rep 2024; 14:18806. [PMID: 39138231 PMCID: PMC11322436 DOI: 10.1038/s41598-024-68123-1] [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: 03/03/2024] [Accepted: 07/19/2024] [Indexed: 08/15/2024] Open
Abstract
Manipulating the rhizosphere microbiome to enhance plant stress tolerance is an environmentally friendly technology and a renewable resource to restore degraded environments. Here we suggest a sustainable bioremediation strategy on the example of Stebnyk mine tailings storage. We consider Salicornia europaea rhizosphere community, and the ability of the phytoremediation plant Salix viminalis to recruit its beneficial microbiome to mediate the pollution stress at the Stebnyk mine tailings storage. The tailings contain large amounts of brine salts and heavy metals that contaminate the ground water and surrounding areas, changing soil biogeochemistry and causing increased erosion. The species richness of the endophytic bacterial community of S. viminalis roots was assessed based on observed OTUs, Shannon-InvSimpson, and evenness index. Our results obtained using the plant-based enrichment strategy show that biodiversity was decreased across the contamination zones and that S. europaea supplementation significantly increased the species richness. Our results also indicate that the number of dominating bacteria was not changed across zones in both S. europaea-treated and untreated bacterial populations, and that the decrease in richness was mainly caused by the low abundant bacterial OTUs. The importance of selecting the bioremediation strains that are likely to harbor a reservoir of genetic traits that aid in bioremediation function from the target environment is discussed.
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Affiliation(s)
- Anastasiia Fetsiukh
- Department of Forest Mycology and Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden
| | - Taavi Pall
- Department of Microbiology, Institute of Biomedicine and Translational Medicine, Faculty of Medicine, University of Tartu, Tartu, Estonia
| | - Salme Timmusk
- Department of Forest Mycology and Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden.
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Kumar D, Ali M, Sharma N, Sharma R, Manhas RK, Ohri P. Unboxing PGPR-mediated management of abiotic stress and environmental cleanup: what lies inside? ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:47423-47460. [PMID: 38992305 DOI: 10.1007/s11356-024-34157-1] [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: 02/16/2024] [Accepted: 06/24/2024] [Indexed: 07/13/2024]
Abstract
Abiotic stresses including heavy metal toxicity, drought, salt and temperature extremes disrupt the plant growth and development and lowers crop output. Presence of environmental pollutants further causes plants suffering and restrict their ability to thrive. Overuse of chemical fertilizers to reduce the negative impact of these stresses is deteriorating the environment and induces various secondary stresses to plants. Therefore, an environmentally friendly strategy like utilizing plant growth-promoting rhizobacteria (PGPR) is a promising way to lessen the negative effects of stressors and to boost plant growth in stressful conditions. These are naturally occurring inhabitants of various environments, an essential component of the natural ecosystem and have remarkable abilities to promote plant growth. Furthermore, multifarious role of PGPR has recently been widely exploited to restore natural soil against a range of contaminants and to mitigate abiotic stress. For instance, PGPR may mitigate metal phytotoxicity by boosting metal translocation inside the plant and changing the metal bioavailability in the soil. PGPR have been also reported to mitigate other abiotic stress and to degrade environmental contaminants remarkably. Nevertheless, despite the substantial quantity of information that has been produced in the meantime, there has not been much advancement in either the knowledge of the processes behind the alleged positive benefits or in effective yield improvements by PGPR inoculation. This review focuses on addressing the progress accomplished in understanding various mechanisms behind the protective benefits of PGPR against a variety of abiotic stressors and in environmental cleanups and identifying the cause of the restricted applicability in real-world.
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Affiliation(s)
- Deepak Kumar
- Department of Zoology, Guru Nanak Dev University, Amritsar, 143005, Punjab, India
| | - Mohd Ali
- Department of Zoology, Guru Nanak Dev University, Amritsar, 143005, Punjab, India
| | - Nandni Sharma
- Department of Zoology, Guru Nanak Dev University, Amritsar, 143005, Punjab, India
| | - Roohi Sharma
- Department of Zoology, Guru Nanak Dev University, Amritsar, 143005, Punjab, India
| | - Rajesh Kumari Manhas
- Department of Microbiology, Guru Nanak Dev University, Amritsar, 143005, Punjab, India
| | - Puja Ohri
- Department of Zoology, Guru Nanak Dev University, Amritsar, 143005, Punjab, India.
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4
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Cardoso AF, da costa SDA, Ferreira WX, de Castro GLS, Lins PMP, Dos Santos MAS, da Silva GB. Cost Reduction in the Production of Green Dwarf Coconut Palm Seedlings Biostimulated with Bacillus cereus. Indian J Microbiol 2024; 64:492-499. [PMID: 39010997 PMCID: PMC11246359 DOI: 10.1007/s12088-023-01163-9] [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: 03/30/2023] [Accepted: 11/22/2023] [Indexed: 07/17/2024] Open
Abstract
The production of coconut tree seedlings is an important step in the production process, as it substantially affects the productive performance of the adult plant, and the way of obtaining seedlings directly reflects the added costs. To minimize costs, the introduction of biostimulants can be considered a viable and sustainable technology. This study aimed to evaluate the effects of applying Bacillus cereus in promoting growth and reducing the costs of producing Brazilgreen dwarf coconut seedlings. The study has two stages, the first was an experiment carried out in a commercial nursery in the state of Pará-Brazil. The design was completely randomized, with two treatments: control with water (100% mineral fertilization) and B. cereus inoculation (50% mineral fertilization), with 10 replicates each. Biometric parameters and the quality of seedlings were evaluated. In the second stage, the production of stimulated seedlings was compared to that of commercial seedlings, and the effective operating cost (COE) and the total operating cost (TOC) were determined. Biostimulation with B. cereus promotes the growth of coconut tree seedlings, increases seedling quality, and reduces nursery time. In addition, the cost of production is reduced by 10%. Thus, microbial technology is a positive strategy for the production of Brazilian green dwarf coconut seedlings. Using B. cereus can guarantee obtaining seedlings with high performance and at a lower cost. These results may favor obtaining adult plants with high productivity. Supplementary Information The online version contains supplementary material available at 10.1007/s12088-023-01163-9.
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Affiliation(s)
- Aline Figueiredo Cardoso
- Plant Protection Laboratory, Institute of Agrarian Sciences, Federal Rural University of Amazon (UFRA), Belém, Brazil
| | - Sidney Daniel Araújo da costa
- Plant Protection Laboratory, Institute of Agrarian Sciences, Federal Rural University of Amazon (UFRA), Belém, Brazil
| | - Waldiney Xavier Ferreira
- Plant Protection Laboratory, Institute of Agrarian Sciences, Federal Rural University of Amazon (UFRA), Belém, Brazil
| | | | | | | | - Gisele Barata da Silva
- Plant Protection Laboratory, Institute of Agrarian Sciences, Federal Rural University of Amazon (UFRA), Belém, Brazil
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Guardado-Fierros BG, Tuesta-Popolizio DA, Lorenzo-Santiago MA, Rubio-Cortés R, Camacho-Ruíz RM, Castañeda-Nava JJ, Gutiérrez-Mora A, Contreras-Ramos SM. PGPB Consortium Formulation to Increase Fermentable Sugar in Agave tequilana Weber var. Blue: A Study in the Field. PLANTS (BASEL, SWITZERLAND) 2024; 13:1371. [PMID: 38794441 PMCID: PMC11125134 DOI: 10.3390/plants13101371] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2024] [Revised: 04/30/2024] [Accepted: 05/10/2024] [Indexed: 05/26/2024]
Abstract
Agave tequilana Weber var. Blue is used as the primary raw material in tequila production due to its fructans (inulin) content. This study evaluates the formulation of a plant-growth-promoting bacteria (PGPB) consortium (Pseudomonas sp. and Shimwellia sp.) to increase sugars in A. tequilana under field conditions. A total of three doses were tested: low (5 L ha-1), medium (10 L ha-1), and high (15 L ha-1), with a cellular density of 1 × 108 CFU mL-1 and one control treatment (without application). Total reducing sugars (TRS), inulin, sucrose, glucose, fructose, and plant growth were measured in agave plants aged 4-5 years at 0 (T0), 3 (T3), 6 (T6), and 12 (T12) months. Yield was recorded at T12. The TRS increased by 3%, and inulin by 5.3% in the high-dose treatment compared to the control at T12. Additionally, a low content of sucrose, glucose, and fructose (approximately 1%) was detected. At T12, the weight of agave heads increased by 31.2% in the medium dose and 22.3% in the high dose compared to the control. The high dose provided a higher inulin content. The A. tequilana plants were five years old and exhibited growth comparable to the standards for 6-7-year-old plants. This study demonstrates a sustainable strategy for tequila production, optimizing the use of natural resources and enhancing industry performance through increased sugar content and yield.
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Affiliation(s)
- Beatriz G. Guardado-Fierros
- Unidad de Tecnología Ambiental, Centro de Investigación y Asistencia en Tecnología y Diseño del Estado de Jalisco A.C. (CIATEJ), Normalistas No. 800, Colinas de la Normal, Guadalajara 44270, Jalisco, Mexico; (B.G.G.-F.); (D.A.T.-P.); (M.A.L.-S.)
| | - Diego A. Tuesta-Popolizio
- Unidad de Tecnología Ambiental, Centro de Investigación y Asistencia en Tecnología y Diseño del Estado de Jalisco A.C. (CIATEJ), Normalistas No. 800, Colinas de la Normal, Guadalajara 44270, Jalisco, Mexico; (B.G.G.-F.); (D.A.T.-P.); (M.A.L.-S.)
| | - Miguel A. Lorenzo-Santiago
- Unidad de Tecnología Ambiental, Centro de Investigación y Asistencia en Tecnología y Diseño del Estado de Jalisco A.C. (CIATEJ), Normalistas No. 800, Colinas de la Normal, Guadalajara 44270, Jalisco, Mexico; (B.G.G.-F.); (D.A.T.-P.); (M.A.L.-S.)
| | - Ramón Rubio-Cortés
- Promoción y Fomento de Agave S. de R.L. de C.V., Ignacio Zaragosa #55 C.P., Ixtlahuacán del Río 45260, Jalisco, Mexico;
| | - Rosa M. Camacho-Ruíz
- Unidad de Biotecnología Industrial, CIATEJ, Camino Arenero 127, Zapopan 44270, Jalisco, Mexico;
| | - José J. Castañeda-Nava
- Unidad de Biotecnología Vegetal, CIATEJ, Camino Arenero 127, Zapopan 44270, Jalisco, Mexico; (J.J.C.-N.); (A.G.-M.)
| | - Antonia Gutiérrez-Mora
- Unidad de Biotecnología Vegetal, CIATEJ, Camino Arenero 127, Zapopan 44270, Jalisco, Mexico; (J.J.C.-N.); (A.G.-M.)
| | - Silvia M. Contreras-Ramos
- Unidad de Tecnología Ambiental, Centro de Investigación y Asistencia en Tecnología y Diseño del Estado de Jalisco A.C. (CIATEJ), Normalistas No. 800, Colinas de la Normal, Guadalajara 44270, Jalisco, Mexico; (B.G.G.-F.); (D.A.T.-P.); (M.A.L.-S.)
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6
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Agbodjato NA, Babalola OO. Promoting sustainable agriculture by exploiting plant growth-promoting rhizobacteria (PGPR) to improve maize and cowpea crops. PeerJ 2024; 12:e16836. [PMID: 38638155 PMCID: PMC11025545 DOI: 10.7717/peerj.16836] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Accepted: 01/04/2024] [Indexed: 04/20/2024] Open
Abstract
Maize and cowpea are among the staple foods most consumed by most of the African population, and are of significant importance in food security, crop diversification, biodiversity preservation, and livelihoods. In order to satisfy the growing demand for agricultural products, fertilizers and pesticides have been extensively used to increase yields and protect plants against pathogens. However, the excessive use of these chemicals has harmful consequences on the environment and also on public health. These include soil acidification, loss of biodiversity, groundwater pollution, reduced soil fertility, contamination of crops by heavy metals, etc. Therefore, essential to find alternatives to promote sustainable agriculture and ensure the food and well-being of the people. Among these alternatives, agricultural techniques that offer sustainable, environmentally friendly solutions that reduce or eliminate the excessive use of agricultural inputs are increasingly attracting the attention of researchers. One such alternative is the use of beneficial soil microorganisms such as plant growth-promoting rhizobacteria (PGPR). PGPR provides a variety of ecological services and can play an essential role as crop yield enhancers and biological control agents. They can promote root development in plants, increasing their capacity to absorb water and nutrients from the soil, increase stress tolerance, reduce disease and promote root development. Previous research has highlighted the benefits of using PGPRs to increase agricultural productivity. A thorough understanding of the mechanisms of action of PGPRs and their exploitation as biofertilizers would present a promising prospect for increasing agricultural production, particularly in maize and cowpea, and for ensuring sustainable and prosperous agriculture, while contributing to food security and reducing the impact of chemical fertilizers and pesticides on the environment. Looking ahead, PGPR research should continue to deepen our understanding of these microorganisms and their impact on crops, with a view to constantly improving sustainable agricultural practices. On the other hand, farmers and agricultural industry players need to be made aware of the benefits of PGPRs and encouraged to adopt them to promote sustainable agricultural practices.
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Affiliation(s)
- Nadège Adoukè Agbodjato
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North West University, Mafikeng, North West, South Africa
- Laboratoire de Biologie et de Typage Moléculaire en Microbiologie (LBTMM), Département de Biochimie et de Biologie Cellulaire, Université d’Abomey-Calavi, Calavi, Benin
| | - Olubukola Oluranti Babalola
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North West University, Mafikeng, North West, South Africa
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7
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Kankariya RA, Jape PV, Patil RP, Chaudhari AB, Dandi ND. Bioprospecting of multi-stress tolerant Pseudomonas sp. antagonistic to Rhizoctonia solani for enhanced wheat growth promotion. Int Microbiol 2024:10.1007/s10123-024-00517-7. [PMID: 38581482 DOI: 10.1007/s10123-024-00517-7] [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: 01/12/2024] [Revised: 03/15/2024] [Accepted: 03/22/2024] [Indexed: 04/08/2024]
Abstract
Salt affected cotton rhizospheric soil was explored for multi-stress resistance microbes to obtain 46 rhizobacteria. Of these, seven strains strongly inhibited the growth of phytopathogenic fungus Rhizoctonia solani by virtue of antifungal compound 2,4-diacetylphloroglucinol (DAPG) production. These seven strains demonstrated an array of plant growth-promoting activities as follows: (i) production of indole-3-acetic acid, ammonia, siderophore; (ii) solubilisation of phosphate, while two isolates showed Zn solubilisation. The phenetic and 16S ribotyping revealed affiliation of all the isolates to Pseudomonas guariconensis and presence of phlD gene marker for DAPG production. Among the seven isolates, strain VDA8 showed the highest DAPG production (0.16 μg ml-1) in liquid synthetic medium under aerobic conditions at 28 °C. Furthermore, sucrose, peptone, sodium hydrogen phosphate, ZnSO4, pH 8.0, and NaCl (1%) were observed as the best carbon, nitrogen, phosphate, trace element, pH, and salt concentration, respectively for maximum production of DAPG by strain VDA8 (3.62 ± 0.04 μg ml-1). The strain VDA8 was further assessed for wheat (Triticum aestivum) growth promotion by seed biopriming under laboratory (plate assay) and field condition in alkaline saline soil with pH 8.5. The field scale (324 m2) trials demonstrated 28.6% enhanced grain production compared to control demonstrating the newly isolated Pseudomonas sp. as multi-potent bioinoculant.
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Affiliation(s)
- Raksha A Kankariya
- Kavayitri Bahinabai Chaudhari North Maharashtra University, Jalgaon, 425001, Maharashtra, India
| | - Prasad V Jape
- Kavayitri Bahinabai Chaudhari North Maharashtra University, Jalgaon, 425001, Maharashtra, India
| | - Rajkamal P Patil
- Kavayitri Bahinabai Chaudhari North Maharashtra University, Jalgaon, 425001, Maharashtra, India
| | - Ambalal B Chaudhari
- Drs. Kiran &, Pallavi Patel Global University (KPGU), Vadodara, Gujarat, India
| | - Navin D Dandi
- Kavayitri Bahinabai Chaudhari North Maharashtra University, Jalgaon, 425001, Maharashtra, India.
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8
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Osborne MG, Simons AL, Molano G, Tolentino B, Singh A, Arismendi GJM, Alberto F, Nuzhdin SV. Investigating the relationship between microbial network features of giant kelp "seedbank" cultures and subsequent farm performance. PLoS One 2024; 19:e0295740. [PMID: 38536857 PMCID: PMC10971754 DOI: 10.1371/journal.pone.0295740] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Accepted: 11/28/2023] [Indexed: 05/01/2024] Open
Abstract
Microbial inoculants can increase the yield of cultivated crops and are successful in independent trials; however, efficacy drops in large-scale applications due to insufficient consideration of microbial community dynamics. The structure of microbiomes, in addition to the impact of individual taxa, is an important factor to consider when designing growth-promoting inoculants. Here, we investigate the microbial network and community assembly patterns of Macrocystis pyrifera gametophyte germplasm cultures (collectively referred to as a "seedbank") used to cultivate an offshore farm in Santa Barbara, California, and identify network features associated with increased biomass of mature sporophytes. We found that [1] several network features, such as clustering coefficient and edge ratios, significantly vary with biomass outcomes; [2] gametophytes that become low- or high-biomass sporophytes have different hub taxa; and [3] microbial community assembly of gametophyte germplasm cultures is niche-driven. Overall, this study describes microbial community dynamics in M. pyrifera germplasm cultures and ultimately supports the development of early life stage inoculants that can be used on seaweed cultivars to increase biomass yield.
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Affiliation(s)
- Melisa G. Osborne
- Department of Molecular and Computational Biology, University of Southern California, Los Angeles, CA, United States of America
| | - Ariel Levi Simons
- Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, United States of America
| | - Gary Molano
- Department of Molecular and Computational Biology, University of Southern California, Los Angeles, CA, United States of America
| | - Bernadeth Tolentino
- Department of Marine and Environmental Biology, University of Southern California, Los Angeles, CA, United States of America
| | - Anupam Singh
- Department of Molecular and Computational Biology, University of Southern California, Los Angeles, CA, United States of America
| | | | - Filipe Alberto
- Department of Biological Sciences, University of Wisconsin-Milwaukee, Milwaukee, WI, United States of America
| | - Sergey V. Nuzhdin
- Department of Molecular and Computational Biology, University of Southern California, Los Angeles, CA, United States of America
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9
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Bandara AY, Kang S. Trichoderma application methods differentially affect the tomato growth, rhizomicrobiome, and rhizosphere soil suppressiveness against Fusarium oxysporum. Front Microbiol 2024; 15:1366690. [PMID: 38476947 PMCID: PMC10929717 DOI: 10.3389/fmicb.2024.1366690] [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: 01/07/2024] [Accepted: 02/05/2024] [Indexed: 03/14/2024] Open
Abstract
Trichoderma spp. are widely used to enhance crop growth and suppress diverse diseases. However, inconsistent field efficacy remains a major barrier to their use as a reliable alternative to synthetic pesticides. Various strategies have been investigated to enhance the robustness of their application. Here, we evaluated how T. virens application methods (pre-, at-, and post-transplant) affect the growth of two tomato varieties and their rhizosphere fungal and bacterial communities. Although the greatest rhizosphere abundance of T. virens was observed in the post-transplant application, the at-transplant application promoted tomato growth the most, indicating that greater rhizosphere abundance does not necessarily result in better tomato growth. None of the application methods significantly altered the global rhizosphere fungal and bacterial communities of the tested varieties. Changes in specific microbial genera and guilds may underpin the enhanced tomato growth. We also investigated whether the resulting microbiome changes affect the mycelial growth and conidial germination of Fusarium oxysporum f. sp. lycopersici and F. oxysporum f. sp. radicis-lycopersici, soilborne fungal pathogens of tomato, upon exposure to volatile compounds emitted by culturable rhizosphere microbes and metabolites extracted from the rhizosphere soils after Trichoderma treatments. Volatile compounds produced by cultured rhizosphere microbes after the at-transplant application suppressed the mycelial growth of both pathogens better than those after the other treatments. Similarly, water-soluble metabolites extracted from the rhizosphere soil samples after the at-transplant application most effectively suppressed the germination rate of F. oxysporum spores. Overall, our results suggest that the at-transplant application is most advantageous for promoting the growth of the tested tomato varieties and building soil suppressiveness against the tested fusaria. However, further studies are needed before applying this method to support tomato production. We discuss critical future questions.
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Zhao J, Yu X, Zhang C, Hou L, Wu N, Zhang W, Wang Y, Yao B, Delaplace P, Tian J. Harnessing microbial interactions with rice: Strategies for abiotic stress alleviation in the face of environmental challenges and climate change. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:168847. [PMID: 38036127 DOI: 10.1016/j.scitotenv.2023.168847] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 11/21/2023] [Accepted: 11/22/2023] [Indexed: 12/02/2023]
Abstract
Rice, which feeds more than half of the world's population, confronts significant challenges due to environmental and climatic changes. Abiotic stressors such as extreme temperatures, drought, heavy metals, organic pollutants, and salinity disrupt its cellular balance, impair photosynthetic efficiency, and degrade grain quality. Beneficial microorganisms from rice and soil microbiomes have emerged as crucial in enhancing rice's tolerance to these stresses. This review delves into the multifaceted impacts of these abiotic stressors on rice growth, exploring the origins of the interacting microorganisms and the intricate dynamics between rice-associated and soil microbiomes. We highlight their synergistic roles in mitigating rice's abiotic stresses and outline rice's strategies for recruiting these microorganisms under various environmental conditions, including the development of techniques to maximize their benefits. Through an in-depth analysis, we shed light on the multifarious mechanisms through which microorganisms fortify rice resilience, such as modulation of antioxidant enzymes, enhanced nutrient uptake, plant hormone adjustments, exopolysaccharide secretion, and strategic gene expression regulation, emphasizing the objective of leveraging microorganisms to boost rice's stress tolerance. The review also recognizes the growing prominence of microbial inoculants in modern rice cultivation for their eco-friendliness and sustainability. We discuss ongoing efforts to optimize these inoculants, providing insights into the rigorous processes involved in their formulation and strategic deployment. In conclusion, this review emphasizes the importance of microbial interventions in bolstering rice agriculture and ensuring its resilience in the face of rising environmental challenges.
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Affiliation(s)
- Jintong Zhao
- Gembloux Agro-Bio Tech, University of Liege, TERRA - Teaching & Research Center, Plant Sciences, 5030 Gembloux, Belgium; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Xiaoxia Yu
- School of Water Resources & Environmental Engineering, East China University of Technology, Nanchang, Jiangxi 330000, China
| | - Chunyi Zhang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Sanya Institute, Hainan, Academy of Agricultural Sciences, Sanya 572000, China
| | - Ligang Hou
- Rice Research Institute, Jilin Academy of Agricultural Sciences, Gongzhuling, Jilin 136100, China
| | - Ningfeng Wu
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Wei Zhang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Yuan Wang
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Bin Yao
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Pierre Delaplace
- Gembloux Agro-Bio Tech, University of Liege, TERRA - Teaching & Research Center, Plant Sciences, 5030 Gembloux, Belgium
| | - Jian Tian
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China.
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11
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Roy B, Maitra D, Biswas A, Chowdhury N, Ganguly S, Bera M, Dutta S, Golder S, Roy S, Ghosh J, Mitra AK. Efficacy of High-Altitude Biofilm-Forming Novel Bacillus subtilis Species as Plant Growth-Promoting Rhizobacteria on Zea mays L. Appl Biochem Biotechnol 2024; 196:643-666. [PMID: 37171757 DOI: 10.1007/s12010-023-04563-1] [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] [Accepted: 04/26/2023] [Indexed: 05/13/2023]
Abstract
With the global population explosion, the need for increasing crop productivity is reaching its peak. The significance of organic means of cultivation including biofertilizers and biopesticides is undeniable in this context. Over the last few decades, the use of rhizobacteria to induce crop productivity has gained particular interest of researchers. Of these, several Bacillus spp. have been known for their potential plant growth-promoting and phyto-pathogenic actions. Keeping this background in mind, this study was formulated with an aim to unravel the PGPR and phyto-pathogenic potency of Bacillus sp. isolated from extreme environmental conditions, viz. high-altitude waters of Ganges at Gangotri (Basin Extent Longitude Latitude-73° 2' to 89° 5' E 21° 6' to 31° 21' N). Based on recent studies showing the impact of biofilm on bacterial PGPR potency, three novel strains of Bacillus subtilis were isolated on basis of their extremely high biofilm-producing abilities (BRAM_G1: Accession Number MW006633; BRAM_G2: Accession Numbers MT998278-MT998280; BRAM_G3: Accession Number MT998617), and were tested for their PGPR properties like nutrient sequestration, growth hormone production (IAA, GA3), stress-responsive enzyme production (ACC deaminase) and lignocellulolytic and agriculturally important enzyme productions. The strains were further tested for the plethora of metabolites (liquid and VOCs) exuded by them. Finally, the strains both in individually and in an association, i.e. consortium was tested on a test crop, viz. Zea mays L., and the data were collected at regular intervals and the results were statistically analysed. In the present study, the role of high-altitude novel Bacillus subtilis strains as potent PGPR has been analysed statistically.
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Affiliation(s)
- Bedaprana Roy
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India.
| | - Debapriya Maitra
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
| | - Abhik Biswas
- Department of Mathematics, St. Xavier's College (Autonomous), Kolkata, India
| | - Niti Chowdhury
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
| | - Saswata Ganguly
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
| | - Mainak Bera
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
| | - Shijini Dutta
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
| | - Samriddhi Golder
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
| | - Sucharita Roy
- Department of Mathematics, St. Xavier's College (Autonomous), Kolkata, India
| | - Jaydip Ghosh
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
| | - Arup Kumar Mitra
- Department of Microbiology, St. Xavier's College (Autonomous), Kolkata, India
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12
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Jiao H, Wang R, Qin W, Yang J. Screening of rhizosphere nitrogen fixing, phosphorus and potassium solubilizing bacteria of Malus sieversii (Ldb.) Roem. and the effect on apple growth. JOURNAL OF PLANT PHYSIOLOGY 2024; 292:154142. [PMID: 38134508 DOI: 10.1016/j.jplph.2023.154142] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Revised: 11/06/2023] [Accepted: 11/18/2023] [Indexed: 12/24/2023]
Abstract
Nitrogen, phosphorus and potassium inorganic fertilizers are commonly used when growing apples, but their excessive application has resulted in a decline in soil fertility and therefore an inability to maintain sustainable cultivation systems. It is possible to compensate for this with biofertilizers. Nitrogen-fixing, phosphorus solubilizing, and potassium solubilizing bacteria are biofertilizers with a broad range of possible uses. In this study, beneficial microorganisms were screened from the rhizosphere soil of the apple tree, Malus sieversii (Ldb.) Roem., which is rich in microbial diversity in natural environments. It was essential to investigate their effects on the growth of apple seedlings. Eight populations of organic phosphorus solubilizing bacteria (56), inorganic phosphorus solubilizing bacteria (13), nitrogen-fixing bacteria (22), and potassium solubilizing bacteria (24) were isolated from eight populations of Xinjiang wild apple rhizosphere in Ili by medium culture. Their morphological characteristics were recorded and their activity was determined. The most active strains were Pseudomonas migulae, Pseudomonas poae, and Pseudomonas extremaustralis, which was determined by physiological and biochemical properties and 16S rDNA sequence analysis. The L16 (45) orthogonal experiment, which used the three strains as testing materials, was created to assess the effects of the strains on apple physiological indicators, soil nutrients, leaf nutrients, and biomass, as well as to identify the ideal combination, concentration, timing, and application method. The results indicated that the peroxidase (POD) and catalase (CAT) activities of apple seedlings increased significantly under the 10 treatment, and the (SOD) activities of the 0 (control) and 1 (inorganic fertilizer only) treatments were significantly lower than the other treatments; soluble sugar, soluble protein and chlorophyll contents increased in all treatments compared to 0 and 1, while malondialdehyde and proline contents increased or decreased compared to 0 and 1; apple seedlings in treatment 10 had the highest soil N, P, and K content, leaf N, P, and K content and biomass were also all highest in treatment 10. In summary, the strains screened for the test can be used as biofertilizers and the optimum application was determined for treatment 10, meaning that the results also provide a theoretical basis for their application in artificially grown orchards.
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Affiliation(s)
- Huiying Jiao
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China.
| | - Ruizhe Wang
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China.
| | - Wei Qin
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China.
| | - Jiaxin Yang
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China.
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13
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Williamson J, Matthews AC, Raymond B. Competition and co-association, but not phosphorous availability, shape the benefits of phosphate-solubilizing root bacteria for maize ( Zea mays). Access Microbiol 2023; 5:000543.v3. [PMID: 38188242 PMCID: PMC10765048 DOI: 10.1099/acmi.0.000543.v3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Accepted: 11/16/2023] [Indexed: 01/09/2024] Open
Abstract
Predicting the conditions under which rhizobacteria benefit plant growth remains challenging. Here we tested the hypothesis that benefits from inoculation with phosphate-solubilizing rhizobacteria will depend upon two environmental conditions: phosphate availability and competition between bacteria. We used maize-associated rhizobacteria with varying phosphate solubilization ability in experiments in soil, sterilized soil and gnotobiotic microcosms under conditions of varying orthophosphate availability, while we manipulated the intensity of competition by varying the number of isolates in plant inocula. Growth promotion by microbes did not depend on phosphate availability but was affected by interactions between inoculants: the beneficial effects of one Serratia isolate were only detectable when plants were inoculated with a single strain and the beneficial effects of a competition-sensitive Rhizobium was only detectable in sterilized soil or in microcosms inoculated with single strains. Moreover, microcosm experiments suggested that facilitation of a parasitic isolate, not competitive interactions between bacteria, prevented plants from gaining benefits from a potential mutualist. Competition and facilitation affected colonization of plants in microcosms but growth promotion by Serratia was more affected by inoculation treatment than culturable densities on roots. Experimental manipulation of seed inocula can reveal whether plant growth stimulation is robust with respect to competition, as well as the ecological strategies of different rhizobacteria. From an applied perspective, phosphate solubilization may not provide the mechanism for bacterial growth promotion but may indicate mutualistic potential due to phylogenetic associations. Importantly, benefits to plants are vulnerable to interactions between rhizobacteria and may not persist in mixed inoculations.
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Affiliation(s)
- Joseph Williamson
- Department of Life Sciences, Silwood Park campus, Imperial College London, Ascot, SL5 7PY, UK
- Centre for Biodiversity and Environment Research, Department of Genetics, University College London, Gower St, London, WC1E 6BT, UK
| | - Andrew Charles Matthews
- Department of Life Sciences, Silwood Park campus, Imperial College London, Ascot, SL5 7PY, UK
- College of Life and Environmental Sciences, Penryn campus, University of Exeter, Penryn, TR10 9FE, UK
| | - Ben Raymond
- Department of Life Sciences, Silwood Park campus, Imperial College London, Ascot, SL5 7PY, UK
- College of Life and Environmental Sciences, Penryn campus, University of Exeter, Penryn, TR10 9FE, UK
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14
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Timofeeva AM, Galyamova MR, Sedykh SE. Plant Growth-Promoting Soil Bacteria: Nitrogen Fixation, Phosphate Solubilization, Siderophore Production, and Other Biological Activities. PLANTS (BASEL, SWITZERLAND) 2023; 12:4074. [PMID: 38140401 PMCID: PMC10748132 DOI: 10.3390/plants12244074] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Revised: 12/04/2023] [Accepted: 12/04/2023] [Indexed: 12/24/2023]
Abstract
This review covers the literature data on plant growth-promoting bacteria in soil, which can fix atmospheric nitrogen, solubilize phosphates, produce and secrete siderophores, and may exhibit several different behaviors simultaneously. We discuss perspectives for creating bacterial consortia and introducing them into the soil to increase crop productivity in agrosystems. The application of rhizosphere bacteria-which are capable of fixing nitrogen, solubilizing organic and inorganic phosphates, and secreting siderophores, as well as their consortia-has been demonstrated to meet the objectives of sustainable agriculture, such as increasing soil fertility and crop yields. The combining of plant growth-promoting bacteria with mineral fertilizers is a crucial trend that allows for a reduction in fertilizer use and is beneficial for crop production.
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Affiliation(s)
- Anna M. Timofeeva
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, 630090 Novosibirsk, Russia;
- Faculty of Natural Sciences, Novosibirsk State University, 630090 Novosibirsk, Russia;
| | - Maria R. Galyamova
- Faculty of Natural Sciences, Novosibirsk State University, 630090 Novosibirsk, Russia;
| | - Sergey E. Sedykh
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, 630090 Novosibirsk, Russia;
- Faculty of Natural Sciences, Novosibirsk State University, 630090 Novosibirsk, Russia;
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15
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Yuan Y, Shi Y, Liu Z, Fan Y, Liu M, Ningjing M, Li Y. Promotional Properties of ACC Deaminase-Producing Bacterial Strain DY1-3 and Its Enhancement of Maize Resistance to Salt and Drought Stresses. Microorganisms 2023; 11:2654. [PMID: 38004666 PMCID: PMC10673606 DOI: 10.3390/microorganisms11112654] [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: 09/29/2023] [Revised: 10/12/2023] [Accepted: 10/20/2023] [Indexed: 11/26/2023] Open
Abstract
Salt stress and drought stress can decrease the growth and productivity of agricultural crops. Plant growth-promoting bacteria (PGPB) may protect and promote plant growth at abiotic stress. The aim of this study was to search for bacterial strains that can help crops resist rises in drought and salt stresses, to improve crop seed resistance under drought and salt stresses, and to investigate the effect of bacterial strains that can help crop resist external stresses under different stress conditions. Pseudomonas DY1-3, a strain from the soil under the glacier moss community of Tien Shan No. 1, was selected to investigate its growth-promoting effects. Previous studies have shown that this strain is capable of producing ACC (1-aminocyclopropane-1-carboxylic acid) deaminase. In this experiment, multifunctional biochemical test assays were evaluated to determine their potential as PGPB and their bacterial growth-promoting properties and stress-resistant effects on maize plants were verified through seed germination experiments and pot experiments. The results showed that strain DY1-3 has good salt and drought tolerance, as well as the ability to melt phosphorus, fix nitrogen, and produce iron carriers, IAA, EPS, and other pro-biomasses. This study on the growth-promoting effects of the DY1-3 bacterial strain on maize seeds revealed that the germination rate, primary root length, germ length, number of root meristems, and vigor index of the maize seeds were increased after soaking them in bacterial solution under no-stress, drought-stress, and salt-stress environments. In the potting experiments, seedlings in the experimental group inoculated with DY1-3 showed increased stem thicknesses, primary root length, numbers of root meristems, and plant height compared to control seedlings using sterile water. In the study on the physiological properties of the plants related to resistance to stress, the SOD, POD, CAT, and chlorophyll contents of the seedlings in the experimental group, to which the DY1-3 strain was applied, were higher than those of the control group of seedlings to which the bacterial solution was not applied. The addition of the bacterial solution reduced the content of MDA in the experimental group seedlings, which indicated that DY1-3 could positively affect the promotion of maize seedlings and seeds against abiotic stress. In this study, it was concluded that strain DY1-3 is a valuable strain for application, which can produce a variety of pro-biotic substances to promote plant growth in stress-free environments or to help plants resist abiotic stresses. In addition to this, the strain itself has good salt and drought tolerance, making it an option to help crops grown in saline soils to withstand abiotic stresses, and a promising candidate for future application in agricultural biofertilizers.
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Affiliation(s)
| | | | | | - Yonghong Fan
- National Demonstration Center for Experimental Biology Education, Xinjiang Key Laboratory of Biological Resources and Genetic Engineering, College of Life Science & Technology, Xinjiang University, Urumqi 830017, China (Z.L.)
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16
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Das A, Patro S, Simnani FZ, Singh D, Sinha A, Kumari K, Rao PV, Singh S, Kaushik NK, Panda PK, Suar M, Verma SK. Biofilm modifiers: The disparity in paradigm of oral biofilm ecosystem. Biomed Pharmacother 2023; 164:114966. [PMID: 37269809 DOI: 10.1016/j.biopha.2023.114966] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2023] [Revised: 05/19/2023] [Accepted: 05/29/2023] [Indexed: 06/05/2023] Open
Abstract
A biofilm is a population of sessile microorganisms that has a distinct organized structure and characteristics like channels and projections. Good oral hygiene and reduction in the prevalence of periodontal diseases arise from minimal biofilm accumulation in the mouth, however, studies focusing on modifying the ecology of oral biofilms have not yet been consistently effective. The self-produced matrix of extracellular polymeric substances and greater antibiotic resistance make it difficult to target and eliminate biofilm infections, which lead to serious clinical consequences that are often lethal. Therefore, a better understanding is required to target and modify the ecology of biofilms in order to eradicate the infection, not only in instances of oral disorders but also in terms of nosocomial infections. The review focuses on several biofilm ecology modifiers to prevent biofilm infections, as well as the involvement of biofilm in antibiotic resistance, implants or in-dwelling device contamination, dental caries, and other periodontal disorders. It also discusses recent advances in nanotechnology that may lead to novel strategies for preventing and treating infections caused by biofilms as well as a novel outlook to infection control.
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Affiliation(s)
- Antarikshya Das
- KIIT School of Dental Sciences, KIIT University, Bhubaneswar 751024, Odisha, India
| | - Swadheena Patro
- KIIT School of Dental Sciences, KIIT University, Bhubaneswar 751024, Odisha, India.
| | | | - Dibyangshee Singh
- KIIT School of Biotechnology, KIIT University, Bhubaneswar 751024, Odisha, India
| | - Adrija Sinha
- KIIT School of Biotechnology, KIIT University, Bhubaneswar 751024, Odisha, India
| | - Khushbu Kumari
- KIIT School of Dental Sciences, KIIT University, Bhubaneswar 751024, Odisha, India
| | - Patnala Vedika Rao
- KIIT School of Medical Sciences, KIIT University, Bhubaneswar 751024, Odisha, India
| | - Sarita Singh
- BVG Life Sciences Limited, Sagar Complex, Old Pune-Mumbai Road, Chinchwad, Pune 411034, India
| | - Nagendra Kumar Kaushik
- Plasma Bioscience Research Center, Department of Electrical and Biological Physics, Kwangwoon University, 01897 Seoul, Republic of Korea.
| | - Pritam Kumar Panda
- Condensed Matter Theory Group, Materials Theory Division, Department of Physics and Astronomy, Uppsala University, Box 516, SE-751 20 Uppsala, Sweden.
| | - Mrutyunjay Suar
- KIIT School of Dental Sciences, KIIT University, Bhubaneswar 751024, Odisha, India.
| | - Suresh K Verma
- KIIT School of Dental Sciences, KIIT University, Bhubaneswar 751024, Odisha, India.
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17
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Kaneko H, Miyata F, Kurokawa M, Hashimoto K, Kuchitsu K, Furuya T. Diversity and characteristics of plant immunity-activating bacteria from Brassicaceae plants. BMC Microbiol 2023; 23:175. [PMID: 37407947 DOI: 10.1186/s12866-023-02920-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Accepted: 06/28/2023] [Indexed: 07/07/2023] Open
Abstract
BACKGROUND Microorganisms that activate plant immune responses are useful for application as biocontrol agents in agriculture to minimize crop losses. The present study was conducted to identify and characterize plant immunity-activating microorganisms in Brassicaceae plants. RESULTS A total of 25 bacterial strains were isolated from the interior of a Brassicaceae plant, Raphanus sativus var. hortensis. Ten different genera of bacteria were identified: Pseudomonas, Leclercia, Enterobacter, Xanthomonas, Rhizobium, Agrobacterium, Pantoea, Rhodococcus, Microbacterium, and Plantibacter. The isolated strains were analyzed using a method to detect plant immunity-activating microorganisms that involves incubation of the microorganism with tobacco BY-2 cells, followed by treatment with cryptogein, a proteinaceous elicitor of tobacco immune responses. In this method, cryptogein-induced production of reactive oxygen species (ROS) in BY-2 cells serves as a marker of immune activation. Among the 25 strains examined, 6 strains markedly enhanced cryptogein-induced ROS production in BY-2 cells. These 6 strains colonized the interior of Arabidopsis plants, and Pseudomonas sp. RS3R-1 and Rhodococcus sp. RS1R-6 selectively enhanced plant resistance to the bacterial pathogens Pseudomonas syringae pv. tomato DC3000 and Pectobacterium carotovorum subsp. carotovorum NBRC 14082, respectively. In addition, Pseudomonas sp. RS1P-1 effectively enhanced resistance to both pathogens. We also comprehensively investigated the localization (i.e., cellular or extracellular) of the plant immunity-activating components produced by the bacteria derived from R. sativus var. hortensis and the components produced by previously isolated bacteria derived from another Brassicaceae plant species, Brassica rapa var. perviridis. Most gram-negative strains enhanced cryptogein-induced ROS production in BY-2 cells via the presence of cells themselves rather than via extracellular components, whereas many gram-positive strains enhanced ROS production via extracellular components. Comparative genomic analyses supported the hypothesis that the structure of lipopolysaccharides in the outer cell envelope plays an important role in the ROS-enhancing activity of gram-negative Pseudomonas strains. CONCLUSIONS The assay method described here based on elicitor-induced ROS production in cultured plant cells enabled the discovery of novel plant immunity-activating bacteria from R. sativus var. hortensis. The results in this study also suggest that components involved in the ROS-enhancing activity of the bacteria may differ depending largely on genus and species.
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Affiliation(s)
- Hiroki Kaneko
- Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Yamazaki, Noda, 2641, 278-8510, Chiba, Japan
| | - Fuma Miyata
- Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Yamazaki, Noda, 2641, 278-8510, Chiba, Japan
| | - Mari Kurokawa
- Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Yamazaki, Noda, 2641, 278-8510, Chiba, Japan
| | - Kenji Hashimoto
- Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Yamazaki, Noda, 2641, 278-8510, Chiba, Japan
| | - Kazuyuki Kuchitsu
- Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Yamazaki, Noda, 2641, 278-8510, Chiba, Japan
| | - Toshiki Furuya
- Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Yamazaki, Noda, 2641, 278-8510, Chiba, Japan.
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18
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Ait Bessai S, Cruz J, Carril P, Melo J, Santana MM, Mouazen AM, Cruz C, Yadav AN, Dias T, Nabti EH. The Plant Growth-Promoting Potential of Halotolerant Bacteria Is Not Phylogenetically Determined: Evidence from Two Bacillus megaterium Strains Isolated from Saline Soils Used to Grow Wheat. Microorganisms 2023; 11:1687. [PMID: 37512860 PMCID: PMC10384442 DOI: 10.3390/microorganisms11071687] [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: 06/05/2023] [Revised: 06/21/2023] [Accepted: 06/26/2023] [Indexed: 07/30/2023] Open
Abstract
(1) Background: Increasing salinity, further potentiated by climate change and soil degradation, will jeopardize food security even more. Therefore, there is an urgent need for sustainable agricultural practices capable of maintaining high crop yields despite adverse conditions. Here, we tested if wheat, a salt-sensitive crop, could be a good reservoir for halotolerant bacteria with plant growth-promoting (PGP) capabilities. (2) Methods: We used two agricultural soils from Algeria, which differ in salinity but are both used to grow wheat. Soil halotolerant bacterial strains were isolated and screened for 12 PGP traits related to phytohormone production, improved nitrogen and phosphorus availability, nutrient cycling, and plant defence. The four 'most promising' halotolerant PGPB strains were tested hydroponically on wheat by measuring their effect on germination, survival, and biomass along a salinity gradient. (3) Results: Two halotolerant bacterial strains with PGP traits were isolated from the non-saline soil and were identified as Bacillus subtilis and Pseudomonas fluorescens, and another two halotolerant bacterial strains with PGP traits were isolated from the saline soil and identified as B. megaterium. When grown under 250 mM of NaCl, only the inoculated wheat seedlings survived. The halotolerant bacterial strain that displayed all 12 PGP traits and promoted seed germination and plant growth the most was one of the B. megaterium strains isolated from the saline soil. Although they both belonged to the B. megaterium clade and displayed a remarkable halotolerance, the two bacterial strains isolated from the saline soil differed in two PGP traits and had different effects on plant performance, which clearly shows that PGP potential is not phylogenetically determined. (4) Conclusions: Our data highlight that salt-sensitive plants and non-saline soils can be reservoirs for halotolerant microbes with the potential to become effective and sustainable strategies to improve plant tolerance to salinity. However, these strains need to be tested under field conditions and with more crops before being considered biofertilizer candidates.
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Affiliation(s)
- Sylia Ait Bessai
- Laboratoire de Maitrise des Energies Renouvelables, Faculté des Sciences de la Nature et de la Vie, Université de Bejaia, Bejaia 06000, Algeria
| | - Joana Cruz
- cE3c-Centre for Ecology, Evolution and Environmental Changes and CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal
- Competence Centre for Molecular Biology, SGS Molecular, Polo Tecnológico de Lisboa, Rua Cesina Adães Bermudes, Lt 11, 1600-604 Lisboa, Portugal
| | - Pablo Carril
- cE3c-Centre for Ecology, Evolution and Environmental Changes and CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal
| | - Juliana Melo
- cE3c-Centre for Ecology, Evolution and Environmental Changes and CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal
| | - Margarida M Santana
- cE3c-Centre for Ecology, Evolution and Environmental Changes and CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal
| | - Abdul M Mouazen
- Department of Environment, Faculty of Bioscience Engineering, Ghent University, 9000 Gent, Belgium
| | - Cristina Cruz
- cE3c-Centre for Ecology, Evolution and Environmental Changes and CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal
| | - Ajar Nath Yadav
- Department of Biotechnology, Dr. Khem Singh Gill Akal College of Agriculture, Eternal University, Baru Sahib, Sirmour 173101, India
| | - Teresa Dias
- cE3c-Centre for Ecology, Evolution and Environmental Changes and CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal
| | - El-Hafid Nabti
- Laboratoire de Maitrise des Energies Renouvelables, Faculté des Sciences de la Nature et de la Vie, Université de Bejaia, Bejaia 06000, Algeria
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19
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Timmusk S, Pall T, Raz S, Fetsiukh A, Nevo E. The potential for plant growth-promoting bacteria to impact crop productivity in future agricultural systems is linked to understanding the principles of microbial ecology. Front Microbiol 2023; 14:1141862. [PMID: 37275175 PMCID: PMC10235605 DOI: 10.3389/fmicb.2023.1141862] [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: 01/10/2023] [Accepted: 03/28/2023] [Indexed: 06/07/2023] Open
Abstract
Global climate change poses challenges to land use worldwide, and we need to reconsider agricultural practices. While it is generally accepted that biodiversity can be used as a biomarker for healthy agroecosystems, we must specify what specifically composes a healthy microbiome. Therefore, understanding how holobionts function in native, harsh, and wild habitats and how rhizobacteria mediate plant and ecosystem biodiversity in the systems enables us to identify key factors for plant fitness. A systems approach to engineering microbial communities by connecting host phenotype adaptive traits would help us understand the increased fitness of holobionts supported by genetic diversity. Identification of genetic loci controlling the interaction of beneficial microbiomes will allow the integration of genomic design into crop breeding programs. Bacteria beneficial to plants have traditionally been conceived as "promoting and regulating plant growth". The future perspective for agroecosystems should be that microbiomes, via multiple cascades, define plant phenotypes and provide genetic variability for agroecosystems.
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Affiliation(s)
- Salme Timmusk
- Department of Forest Mycology and Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden
| | - Taavi Pall
- Estonian Health Care Board Department of Gene Technology, Tallinn, Estonia
| | - Shmuel Raz
- Department of Information Systems, University of Haifa, Haifa, Israel
| | - Anastasiia Fetsiukh
- Department of Forest Mycology and Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden
| | - Eviatar Nevo
- Institute of Evolution, University of Haifa, Haifa, Israel
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20
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Lima-Tenório MK, Furmam-Cherobim F, Karas PR, Hyeda D, Takahashi WY, Pinto Junior AS, Galvão CW, Tenório-Neto ET, Etto RM. Azospirillum brasilense AbV5/6 encapsulation in dual-crosslinked beads based on cationic starch. Carbohydr Polym 2023; 308:120631. [PMID: 36813333 DOI: 10.1016/j.carbpol.2023.120631] [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: 09/12/2022] [Revised: 12/26/2022] [Accepted: 01/26/2023] [Indexed: 02/05/2023]
Abstract
The main challenge of agriculture is feeding the growing population and at the same time providing environmental sustainability. Using Azospirillum brasilense as a biofertilizer has proved to be a promising solution. However, its prevalence in soil has not been efficient due to biotic and abiotic stresses. Thus, to overcome this drawback, we encapsulated the A. brasilense AbV5 and AbV6 strains in a dual-crosslinked bead based on cationic starch. The starch was previously modified with ethylenediamine by an alkylation approach. Then, the beads were obtained by a dripping technique, crosslinking sodium tripolyphosphate with a blend containing starch, cationic starch, and chitosan. The AbV5/6 strains were encapsulated into the hydrogel beads by a swelling diffusion method followed by desiccation. Plants treated with encapsulated AbV5/6 cells showed an increase in the root length by 19 %, shoot fresh weight by 17 %, and the content of chlorophyll b by 71 %. The encapsulation of AbV5/6 strains showed to keep A. brasilense viability for at least 60 days and efficiency to promote maize growth.
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Affiliation(s)
- Michele K Lima-Tenório
- Microbial Molecular Biology Laboratory, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil; Postgraduate Program in Agronomy, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil.
| | - Fernanda Furmam-Cherobim
- Microbial Molecular Biology Laboratory, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil; Postgraduate Program in Agronomy, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil
| | - Pedro R Karas
- Microbial Molecular Biology Laboratory, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil
| | - Daiane Hyeda
- Microbial Molecular Biology Laboratory, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil; Postgraduate Program in Agronomy, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil
| | - Willian Y Takahashi
- Microbial Molecular Biology Laboratory, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil; Postgraduate Program in Agronomy, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil
| | - Arthur S Pinto Junior
- Simbiose Company, Manager of Research and Development, CEP: 98005-970 Cruz Alta, RS, Brazil
| | - Carolina W Galvão
- Microbial Molecular Biology Laboratory, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil; Postgraduate Program in Agronomy, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil.
| | - Ernandes T Tenório-Neto
- Laboratory of Multifunctional Polymeric Materials, State University of Ponta Grossa (UEPG), Department of Chemistry, L-27, CEP: 84030-900 Ponta Grossa, PR, Brazil.
| | - Rafael M Etto
- Microbial Molecular Biology Laboratory, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil; Postgraduate Program in Agronomy, State University of Ponta Grossa (UEPG), CEP: 84030-900 Ponta Grossa, PR, Brazil.
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Quan L, Shi L, Zhang S, Yao Q, Yang Q, Zhu Y, Liu Y, Lian C, Chen Y, Shen Z, Duan K, Xia Y. Ectomycorrhizal fungi, two species of Laccaria, differentially block the migration and accumulation of cadmium and copper in Pinus densiflora. CHEMOSPHERE 2023; 334:138857. [PMID: 37187383 DOI: 10.1016/j.chemosphere.2023.138857] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Revised: 04/09/2023] [Accepted: 05/04/2023] [Indexed: 05/17/2023]
Abstract
The root tips of host plant species can establish ectomycorrhizae with their fungal partners, thereby altering the responses of the host plants to heavy metal (HM) toxicity. Here, two species of Laccaria, L. bicolor and L. japonica, were investigated in symbiosis with Pinus densiflora to study their potential for promotion of phytoremediation of HM-contaminated soils in pot experiments. The results showed that L. japonica had significantly higher dry biomass than L. bicolor in mycelia grown on modified Melin-Norkrans medium containing elevated levels of cadmium (Cd) or copper (Cu). Meanwhile, the accumulations of Cd or Cu in L. bicolor mycelia were much higher than that in L. japonica at the same level of Cd or Cu. Therefore, L. japonica displayed a stronger tolerance to HM toxicity than L. bicolor in situ. Compared with non-mycorrhizal P. densiflora seedlings, inoculation with two Laccaria species significantly increased the growth of P. densiflora seedlings in absence or presence of HM. The mantle of host roots blocked the uptake and migration of HM, which led to the decrease of Cd and Cu accumulation in the P. densiflora shoots and roots, except for the root Cd accumulation of L. bicolor-mycorrhizal plants when 25 mg kg-1 Cd exposure. Furthermore, HM distribution in mycelia showed Cd and Cu are mainly retained in the cell walls of mycelia. These results provide strong evidence that the two species of Laccaria in this system may have different strategies to assist host tree against HM toxicity.
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Affiliation(s)
- Lingtong Quan
- College of Life Sciences, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource, Nanjing Agricultural University, Nanjing, 210095, China
| | - Liang Shi
- College of Life Sciences, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource, Nanjing Agricultural University, Nanjing, 210095, China
| | - Shijie Zhang
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Nanjing, 210014, China
| | - Qian Yao
- China Tobacco Henan Industrial Co., Ltd, Zhengzhou, 450000, China
| | - Qi Yang
- China Tobacco Henan Industrial Co., Ltd, Zhengzhou, 450000, China
| | - Yongwei Zhu
- College of Life Sciences, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource, Nanjing Agricultural University, Nanjing, 210095, China
| | - Yanli Liu
- Jinpu Landscape Architecture Limited Company, Nanjing, 211100, China
| | - Chunlan Lian
- Asian Research Center for Bioresource and Environmental Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Midori-cho, Nishitokyo, Tokyo, 188-0002, Japan
| | - Yahua Chen
- College of Life Sciences, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource, Nanjing Agricultural University, Nanjing, 210095, China
| | - Zhenguo Shen
- College of Life Sciences, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource, Nanjing Agricultural University, Nanjing, 210095, China.
| | - Kun Duan
- China Tobacco Henan Industrial Co., Ltd, Zhengzhou, 450000, China.
| | - Yan Xia
- College of Life Sciences, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource, Nanjing Agricultural University, Nanjing, 210095, China.
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Kour D, Kour H, Khan SS, Khan RT, Bhardwaj M, Kailoo S, Kumari C, Rasool S, Yadav AN, Sharma YP. Biodiversity and Functional Attributes of Rhizospheric Microbiomes: Potential Tools for Sustainable Agriculture. Curr Microbiol 2023; 80:192. [PMID: 37101055 DOI: 10.1007/s00284-023-03300-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2022] [Accepted: 04/11/2023] [Indexed: 04/28/2023]
Abstract
The quest for increasing agricultural yield due to increasing population pressure and demands for healthy food has inevitably led to the indiscriminate use of chemical fertilizers. On the contrary, the exposure of the crops to abiotic stress and biotic stress interferes with crop growth further hindering the productivity. Sustainable agricultural practices are of major importance to enhance production and feed the rising population. The use of plant growth promoting (PGP) rhizospheric microbes is emerging as an efficient approach to ameliorate global dependence on chemicals, improve stress tolerance of plants, boost up growth and ensure food security. Rhizosphere associated microbiomes promote the growth by enhancing the uptake of the nutrients, producing plant growth regulators, iron chelating complexes, shaping the root system under stress conditions and decreasing the levels of inhibitory ethylene concentrations and protecting plants from oxidative stress. Plant growth-promoting rhizospheric microbes belong to diverse range of genera including Acinetobacter, Achromobacter, Aspergillus, Bacillus, Burkholderia, Flavobacterium, Klebsiella, Micrococcus, Penicillium, Pseudomonas, Serratia and Trichoderma. Plant growth promoting microbes are an interesting aspect of research for scientific community and a number of formulations of beneficial microbes are also commercially available. Thus, recent progress in our understanding on rhizospheric microbiomes along with their major roles and mechanisms of action under natural and stressful conditions should facilitate their application as a reliable component in the management of sustainable agricultural system. This review highlights the diversity of plant growth promoting rhizospheric microbes, their mechanisms of plant growth promotion, their role under biotic and abiotic stress and status of biofertilizers. The article further focuses on the role of omics approaches in plant growth promoting rhizospheric microbes and draft genome of PGP microbes.
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Affiliation(s)
- Divjot Kour
- Department of Microbiology, Akal College of Basic Sciences, Eternal University, Baru Sahib, Sirmaur, 173101, Himachal Pradesh, India
| | - Harpreet Kour
- Department of Botany, University of Jammu, Jammu, 180006, Jammu and Kashmir, India
| | - Sofia Shareif Khan
- Department of Biotechnology, Shri Mata Vaishno Devi University, Katra, 182320, Jammu and Kashmir, India
| | - Rabiya Tabbassum Khan
- Department of Biotechnology, Shri Mata Vaishno Devi University, Katra, 182320, Jammu and Kashmir, India
| | - Mansavi Bhardwaj
- Department of Biotechnology, Shri Mata Vaishno Devi University, Katra, 182320, Jammu and Kashmir, India
| | - Swadha Kailoo
- Department of Biotechnology, Shri Mata Vaishno Devi University, Katra, 182320, Jammu and Kashmir, India
| | - Chandresh Kumari
- Faculty of Applied Sciences and Biotechnology, Shoolini University, Vill-Bhajhol Solan, 173229, Himachal Pradesh, India
| | - Shafaq Rasool
- Department of Biotechnology, Shri Mata Vaishno Devi University, Katra, 182320, Jammu and Kashmir, India
| | - Ajar Nath Yadav
- Department of Biotechnology, Dr. Khem Singh Gill Akal College of Agriculture, Eternal University, Baru Sahib, Sirmaur, 173101, Himachal Pradesh, India.
- INTI International University, Persiaran Perdana BBN Putra Nilai, 71800, Nilai, Negeri Sembilan, Malaysia.
| | - Yash Pal Sharma
- Department of Botany, University of Jammu, Jammu, 180006, Jammu and Kashmir, India
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Tang S, Xu Y, Zeng K, Liang X, Shi X, Liu K, Ma J, Yu F, Li Y. Comparative study on plant growth-promoting bacterial inoculation by irrigation and spraying for promoting Bidens pilosa L. phytoremediation of cadmium-contaminated soil. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 254:114764. [PMID: 36907097 DOI: 10.1016/j.ecoenv.2023.114764] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Revised: 03/06/2023] [Accepted: 03/08/2023] [Indexed: 06/18/2023]
Abstract
A field study was conducted to compare FM-1 inoculation by irrigation and spraying for promoting Bidens pilosa L. phytoremediation of cadmium (Cd)-contaminated soil. Cascading relationships between bacterial inoculation by irrigation and spraying and soil properties, plant growth-promoting traits, plant biomass and Cd concentrations in Bidens pilosa L. were explored based on the partial least squares path model (PLS-PM). The results indicated that inoculation with FM-1 not only improved the rhizosphere soil environment of B. pilosa L. but also increased the Cd extracted from the soil. Moreover, Fe and P in leaves play vital roles in promoting plant growth when FM-1 is inoculated by irrigation, while Fe in leaves and stems plays a vital role in promoting plant growth when FM-1 is inoculated by spraying. In addition, FM-1 inoculation decreased the soil pH by affecting soil dehydrogenase and oxalic acid in cases with irrigation and Fe in roots in cases with spraying. Thus, the soil bioavailable Cd content increased and promoted Cd uptake by Bidens pilosa L. To address Cd-induced oxidative stress, Fe in leaves helped to convert GSH into PCs, which played a vital role in ROS scavenging when FM-1 was inoculated by irrigation. The soil urease content effectively increased the POD and APX activities in the leaves of Bidens pilosa L., which helped alleviate Cd-induced oxidative stress when FM-1 was inoculated by spraying. This study compares and illustrates the potential mechanism by which FM-1 inoculation can improve the phytoremediation of Cd-contaminated soil by Bidens pilosa L., suggesting that FM-1 inoculation by irrigation and spraying is useful in the phytoremediation of Cd-contaminated sites.
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Affiliation(s)
- Shuting Tang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; College of Environment and Resources, Guangxi Normal University, 541004 Guilin, China
| | - Yue Xu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; College of Environment and Resources, Guangxi Normal University, 541004 Guilin, China
| | - Kaiyue Zeng
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; College of Environment and Resources, Guangxi Normal University, 541004 Guilin, China
| | - Xin Liang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; College of Environment and Resources, Guangxi Normal University, 541004 Guilin, China
| | - Xinwei Shi
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; College of Environment and Resources, Guangxi Normal University, 541004 Guilin, China
| | - Kehui Liu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; Guangxi Key Laboratory of Landscape Resources Conservation and Sustainable Utilization in Lijiang River Basin, Guangxi Normal University, 541004 Guilin, China; College of Life Science, Guangxi Normal University, 541004 Guilin, China
| | - Jiangming Ma
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; Guangxi Key Laboratory of Landscape Resources Conservation and Sustainable Utilization in Lijiang River Basin, Guangxi Normal University, 541004 Guilin, China; College of Life Science, Guangxi Normal University, 541004 Guilin, China
| | - Fangming Yu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; Guangxi Key Laboratory of Landscape Resources Conservation and Sustainable Utilization in Lijiang River Basin, Guangxi Normal University, 541004 Guilin, China; College of Environment and Resources, Guangxi Normal University, 541004 Guilin, China.
| | - Yi Li
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, China; Guangxi Key Laboratory of Landscape Resources Conservation and Sustainable Utilization in Lijiang River Basin, Guangxi Normal University, 541004 Guilin, China; College of Environment and Resources, Guangxi Normal University, 541004 Guilin, China.
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Lekired A, Cherif-Silini H, Silini A, Ben Yahia H, Ouzari HI. Comparative genomics reveals the acquisition of mobile genetic elements by the plant growth-promoting Pantoea eucrina OB49 in polluted environments. Genomics 2023; 115:110579. [PMID: 36792019 DOI: 10.1016/j.ygeno.2023.110579] [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: 06/17/2022] [Revised: 02/08/2023] [Accepted: 02/09/2023] [Indexed: 02/15/2023]
Abstract
Heavy metal-tolerant plant growth-promoting bacteria (PGPB) have gained popularity in bioremediation in recent years. A genome-assisted study of a heavy metal-tolerant PGPB Pantoea eucrina OB49 isolated from the rhizosphere of wheat grown on a heavy metal-contaminated site is presented. Comparative pan-genome analysis indicated that OB49 acquired heavy metal resistance genes through horizontal gene transfer. On contigs S10 and S12, OB49 has two arsRBCH operons that give arsenic resistance. On the S12 contig, an arsRBCH operon was discovered in conjunction with the merRTPCADE operon, which provides mercury resistance. P. eucrina OB49 may be involved in an ecological alternative for heavy metal remediation and growth promotion of wheat grown in metal-polluted soils. Our results suggested the detection of mobile genetic elements that harbour the ars operon and the fluoride resistance genes adjacent to the mer operon.
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Affiliation(s)
- Abdelmalek Lekired
- Laboratory of Microorganisms and Active Biomolecules, MBA-LR03ES03, Faculty of Sciences of Tunis, University of Tunis El Manar, Tunis, Tunisia
| | - Hafsa Cherif-Silini
- Laboratory of Applied Microbiology, Department of Microbiology, Faculty of Natural and Life Sciences, Ferhat Abbas University, 19000, Setif, Algeria
| | - Allaoua Silini
- Laboratory of Applied Microbiology, Department of Microbiology, Faculty of Natural and Life Sciences, Ferhat Abbas University, 19000, Setif, Algeria
| | - Hamza Ben Yahia
- Laboratory of Microorganisms and Active Biomolecules, MBA-LR03ES03, Faculty of Sciences of Tunis, University of Tunis El Manar, Tunis, Tunisia
| | - Hadda-Imene Ouzari
- Laboratory of Microorganisms and Active Biomolecules, MBA-LR03ES03, Faculty of Sciences of Tunis, University of Tunis El Manar, Tunis, Tunisia.
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Khoshru B, Mitra D, Joshi K, Adhikari P, Rion MSI, Fadiji AE, Alizadeh M, Priyadarshini A, Senapati A, Sarikhani MR, Panneerselvam P, Mohapatra PKD, Sushkova S, Minkina T, Keswani C. Decrypting the multi-functional biological activators and inducers of defense responses against biotic stresses in plants. Heliyon 2023; 9:e13825. [PMID: 36873502 PMCID: PMC9981932 DOI: 10.1016/j.heliyon.2023.e13825] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Revised: 01/31/2023] [Accepted: 02/14/2023] [Indexed: 02/19/2023] Open
Abstract
Plant diseases are still the main problem for the reduction in crop yield and a threat to global food security. Additionally, excessive usage of chemical inputs such as pesticides and fungicides to control plant diseases have created another serious problem for human and environmental health. In view of this, the application of plant growth-promoting rhizobacteria (PGPR) for controlling plant disease incidences has been identified as an eco-friendly approach for coping with the food security issue. In this review, we have identified different ways by which PGPRs are capable of reducing phytopathogenic infestations and enhancing crop yield. PGPR suppresses plant diseases, both directly and indirectly, mediated by microbial metabolites and signaling components. Microbial synthesized anti-pathogenic metabolites such as siderophores, antibiotics, lytic enzymes, hydrogen cyanide, and several others act directly on phytopathogens. The indirect mechanisms of reducing plant disease infestation are caused by the stimulation of plant immune responses known as initiation of systemic resistance (ISR) which is mediated by triggering plant immune responses elicited through pathogen-associated molecular patterns (PAMPs). The ISR triggered in the infected region of the plant leads to the development of systemic acquired resistance (SAR) throughout the plant making the plant resistant to a wide range of pathogens. A number of PGPRs including Pseudomonas and Bacillus genera have proven their ability to stimulate ISR. However, there are still some challenges in the large-scale application and acceptance of PGPR for pest and disease management. Further, we discuss the newly formulated PGPR inoculants possessing both plant growth-promoting activities and plant disease suppression ability for a holistic approach to sustaining plant health and enhancing crop productivity.
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Affiliation(s)
- Bahman Khoshru
- Department of Soil Science, Faculty of Agriculture, University of Tabriz, Tabriz, Iran
| | - Debasis Mitra
- Department of Microbiology, Raiganj University, Raiganj - 733 134, West Bengal, India
| | - Kuldeep Joshi
- G.B. Pant National Institute of Himalayan Environment, Kosi-Katarmal, Almora-263643, Uttarakhand, India
| | - Priyanka Adhikari
- Centre for Excellence on GMP Extraction Facility (DBT, Govt. of India), National Institute of Pharmaceutical Education and Research. Guwahati-781101, Assam, India
| | | | - Ayomide Emmanuel Fadiji
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North-West University, Mmabatho 2735, South Africa
| | - Mehrdad Alizadeh
- Department of Plant Pathology, Faculty of Agriculture, Tarbiat Modares University, Tehran, Iran
| | - Ankita Priyadarshini
- Crop Production Division, ICAR – National Rice Research Institute, Cuttack, 753006, Odisha, India
| | - Ansuman Senapati
- Crop Production Division, ICAR – National Rice Research Institute, Cuttack, 753006, Odisha, India
| | | | - Periyasamy Panneerselvam
- Crop Production Division, ICAR – National Rice Research Institute, Cuttack, 753006, Odisha, India
| | | | - Svetlana Sushkova
- Academy of Biology and Biotechnology, Southern Federal University, Rostov-on-Don 344090, Russia
| | - Tatiana Minkina
- Academy of Biology and Biotechnology, Southern Federal University, Rostov-on-Don 344090, Russia
| | - Chetan Keswani
- Academy of Biology and Biotechnology, Southern Federal University, Rostov-on-Don 344090, Russia
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Ali N, Swarnkar MK, Veer R, Kaushal P, Pati AM. Temperature-induced modulation of stress-tolerant PGP genes bioprospected from Bacillus sp. IHBT-705 associated with saffron ( Crocus sativus) rhizosphere: A natural -treasure trove of microbial biostimulants. FRONTIERS IN PLANT SCIENCE 2023; 14:1141538. [PMID: 36923125 PMCID: PMC10009223 DOI: 10.3389/fpls.2023.1141538] [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: 01/10/2023] [Accepted: 02/14/2023] [Indexed: 06/18/2023]
Abstract
There is a renewed interest in sustainable agriculture wherein novel plant growth-promoting rhizobacteria (PGPR) are being explored for developing efficient biostimulants. The key requirement of a microbe to qualify as a good candidate for developing a biostimulant is its intrinsic plant growth-promoting (PGP) characteristics. Though numerous studies have been conducted to assess the beneficial effects of PGPRs on plant growth under normal and stressed conditions but not much information is available on the characterization of intrinsic traits of PGPR under stress. Here, we focused on understanding how temperature stress impacts the functionality of key stress tolerant and PGP genes of Bacillus sp. IHBT-705 isolated from the rhizosphere of saffron (Crocus sativus). To undertake the study, Bacillus sp. IHBT-705 was grown under varied temperature regimes, their PGP traits were assessed from very low to very high-temperature range and the expression trend of targeted stress tolerant and PGP genes were analyzed. The results illustrated that Bacillus sp. IHBT-705 is a stress-tolerant PGPR as it survived and multiplied in temperatures ranging from 4°C-50°C, tolerated a wide pH range (5-11), withstood high salinity (8%) and osmolarity (10% PEG). The PGP traits varied under different temperature regimes indicating that temperature influences the functionality of PGP genes. This was further ascertained through whole genome sequencing followed by gene expression analyses wherein certain genes like cspB, cspD, hslO, grpE, rimM, trpA, trpC, trpE, fhuC, fhuD, acrB5 were found to be temperature sensitive while, cold tolerant (nhaX and cspC), heat tolerant (htpX) phosphate solubilization (pstB1), siderophore production (fhuB and fhuG), and root colonization (xerC1 and xerC2) were found to be highly versatile as they could express well both under low and high temperatures. Further, the biostimulant potential was checked through a pot study on rice (Oryza sativa), wherein the application of Bacillus sp. IHBT-705 improved the length of shoots, roots, and number of roots over control. Based on the genetic makeup, stress tolerance potential, retention of PGP traits under stress, and growth-promoting potential, Bacillus sp. IHBT-705 could be considered a good candidate for developing biostimulants.
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Affiliation(s)
- Nilofer Ali
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Mohit Kumar Swarnkar
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, India
| | - Raj Veer
- Incubatee at Chief Minister Startup Scheme, Shimla, India
| | - Priya Kaushal
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, India
| | - Aparna Maitra Pati
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
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Mapping Genetic Variation in Arabidopsis in Response to Plant Growth-Promoting Bacterium Azoarcus olearius DQS-4T. Microorganisms 2023; 11:microorganisms11020331. [PMID: 36838296 PMCID: PMC9961961 DOI: 10.3390/microorganisms11020331] [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: 11/16/2022] [Revised: 01/26/2023] [Accepted: 01/27/2023] [Indexed: 02/03/2023] Open
Abstract
Plant growth-promoting bacteria (PGPB) can enhance plant health by facilitating nutrient uptake, nitrogen fixation, protection from pathogens, stress tolerance and/or boosting plant productivity. The genetic determinants that drive the plant-bacteria association remain understudied. To identify genetic loci highly correlated with traits responsive to PGPB, we performed a genome-wide association study (GWAS) using an Arabidopsis thaliana population treated with Azoarcus olearius DQS-4T. Phenotypically, the 305 Arabidopsis accessions tested responded differently to bacterial treatment by improving, inhibiting, or not affecting root system or shoot traits. GWA mapping analysis identified several predicted loci associated with primary root length or root fresh weight. Two statistical analyses were performed to narrow down potential gene candidates followed by haplotype block analysis, resulting in the identification of 11 loci associated with the responsiveness of Arabidopsis root fresh weight to bacterial inoculation. Our results showed considerable variation in the ability of plants to respond to inoculation by A. olearius DQS-4T while revealing considerable complexity regarding statistically associated loci with the growth traits measured. This investigation is a promising starting point for sustainable breeding strategies for future cropping practices that may employ beneficial microbes and/or modifications of the root microbiome.
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Marois J, Lerch TZ, Dunant U, Farnet Da Silva AM, Christen P. Chemical and Microbial Characterization of Fermented Forest Litters Used as Biofertilizers. Microorganisms 2023; 11:microorganisms11020306. [PMID: 36838270 PMCID: PMC9959058 DOI: 10.3390/microorganisms11020306] [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: 11/04/2022] [Revised: 12/25/2022] [Accepted: 01/21/2023] [Indexed: 01/27/2023] Open
Abstract
The excessive use of chemicals in intensive agriculture has had a negative impact on soil diversity and fertility. A strategy for developing sustainable agriculture could rely on the use of microbial-based fertilizers, known as biofertilizers. An alternative to marketed products could be offered to small farmers if they could produce their own biofertilizers using forest litters, which harbor one of the highest microbial diversities. The aim of this study is to characterize microbial communities of Fermented Forest Litters (FFL), assuming that the fermentation process will change both their abundance and diversity. We investigated two types of differing in the chemical composition of the initial litters used and the climatic context of the forest where they are originated from. The abundance and diversity of bacterial and fungal communities were assessed using quantitative PCR and molecular genotyping techniques. The litter chemical compositions were compared before and after fermentation using Infrared spectrometry. Results obtained showed that fermentation increased the abundance of bacteria but decreased that of fungi. Low pH and change in organic matter composition observed after fermentation also significantly reduced the α-diversity of both bacterial and fungal communities. The higher proportion of aliphatic molecules and lower C/N of the FFLs compared to initial litters indicate that FFLs should be rapidly decomposed once added into the soil. This preliminary study suggests that the agronomic interest of FFLs used as biofertilizers is probably more related to the contribution of nutrients easily assimilated by plants than to the diversity of microorganisms that compose it. Further studies must be conducted with sequencing techniques to identify precisely the microbial species likely to be beneficial to plant growth.
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Affiliation(s)
- Johann Marois
- Institute of Ecology and Environnemental Sciences of Paris, UMR 7618 (CNRS, SU, IRD, UPEC, INRAe, UPC), 94010 Créteil, France
| | - Thomas Z. Lerch
- Institute of Ecology and Environnemental Sciences of Paris, UMR 7618 (CNRS, SU, IRD, UPEC, INRAe, UPC), 94010 Créteil, France
| | - Ugo Dunant
- Institut Méditerranéen de Biodiversité et d’Ecologie marine et Continentale, UMR 7263 (CNRS, AMU, IRD, AU), 13397 Marseille, France
| | - Anne-Marie Farnet Da Silva
- Institut Méditerranéen de Biodiversité et d’Ecologie marine et Continentale, UMR 7263 (CNRS, AMU, IRD, AU), 13397 Marseille, France
| | - Pierre Christen
- Institut Méditerranéen de Biodiversité et d’Ecologie marine et Continentale, UMR 7263 (CNRS, AMU, IRD, AU), 13397 Marseille, France
- Correspondence:
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Chiaranunt P, White JF. Plant Beneficial Bacteria and Their Potential Applications in Vertical Farming Systems. PLANTS (BASEL, SWITZERLAND) 2023; 12:400. [PMID: 36679113 PMCID: PMC9861093 DOI: 10.3390/plants12020400] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Revised: 01/12/2023] [Accepted: 01/12/2023] [Indexed: 06/17/2023]
Abstract
In this literature review, we discuss the various functions of beneficial plant bacteria in improving plant nutrition, the defense against biotic and abiotic stress, and hormonal regulation. We also review the recent research on rhizophagy, a nutrient scavenging mechanism in which bacteria enter and exit root cells on a cyclical basis. These concepts are covered in the contexts of soil agriculture and controlled environment agriculture, and they are also used in vertical farming systems. Vertical farming-its advantages and disadvantages over soil agriculture, and the various climatic factors in controlled environment agriculture-is also discussed in relation to plant-bacterial relationships. The different factors under grower control, such as choice of substrate, oxygenation rates, temperature, light, and CO2 supplementation, may influence plant-bacterial interactions in unintended ways. Understanding the specific effects of these environmental factors may inform the best cultural practices and further elucidate the mechanisms by which beneficial bacteria promote plant growth.
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Mazoyon C, Hirel B, Pecourt A, Catterou M, Gutierrez L, Sarazin V, Dubois F, Duclercq J. Sphingomonas sediminicola Is an Endosymbiotic Bacterium Able to Induce the Formation of Root Nodules in Pea ( Pisum sativum L.) and to Enhance Plant Biomass Production. Microorganisms 2023; 11:microorganisms11010199. [PMID: 36677491 PMCID: PMC9861922 DOI: 10.3390/microorganisms11010199] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Revised: 01/09/2023] [Accepted: 01/10/2023] [Indexed: 01/13/2023] Open
Abstract
The application of bacterial bio-inputs is a very attractive alternative to the use of mineral fertilisers. In ploughed soils including a crop rotation pea, we observed an enrichment of bacterial communities with Sphingomonas (S.) sediminicola. Inoculation experiments, cytological studies, and de novo sequencing were used to investigate the beneficial role of S. sediminicola in pea. S. sediminicola is able to colonise pea plants and establish a symbiotic association that promotes plant biomass production. Sequencing of the S. sediminicola genome revealed the existence of genes involved in secretion systems, Nod factor synthesis, and nitrogenase activity. Light and electron microscopic observations allowed us to refine the different steps involved in the establishment of the symbiotic association, including the formation of infection threads, the entry of the bacteria into the root cells, and the development of differentiated bacteroids in root nodules. These results, together with phylogenetic analysis, demonstrated that S. sediminicola is a non-rhizobia that has the potential to develop a beneficial symbiotic association with a legume. Such a symbiotic association could be a promising alternative for the development of more sustainable agricultural practices, especially under reduced N fertilisation conditions.
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Affiliation(s)
- Candice Mazoyon
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80000 Amiens, France
| | - Bertrand Hirel
- Unité Mixte de Recherche 1318 INRA-AgroParisTech, Institut Jean-Pierre Bourgin, Institut National de la Recherche Agronomique et de l'Environnement (INRAE), 78026 Versailles, France
| | - Audrey Pecourt
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80000 Amiens, France
| | - Manuella Catterou
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80000 Amiens, France
| | - Laurent Gutierrez
- Centre de Ressources Régionales en Biologie Moléculaire (CRRBM), Université de Picardie Jules Verne (UPJV), 80000 Amiens, France
| | | | - Fréderic Dubois
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80000 Amiens, France
| | - Jérôme Duclercq
- Unité Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN, UMR7058 CNRS), Université de Picardie Jules Verne (UPJV), 80000 Amiens, France
- Correspondence: ; Tel.: +33-3-22827612
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Meena M, Mehta T, Nagda A, Yadav G, Sonigra P. PGPR-mediated synthesis and alteration of different secondary metabolites during plant-microbe interactions. PLANT-MICROBE INTERACTION - RECENT ADVANCES IN MOLECULAR AND BIOCHEMICAL APPROACHES 2023:229-255. [DOI: 10.1016/b978-0-323-91875-6.00002-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
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Alfonzetti M, Doleac S, Mills CH, Gallagher RV, Tetu S. Characterizing Effects of Microbial Biostimulants and Whole-Soil Inoculums for Native Plant Revegetation. Microorganisms 2022; 11:microorganisms11010055. [PMID: 36677347 PMCID: PMC9867050 DOI: 10.3390/microorganisms11010055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Revised: 12/19/2022] [Accepted: 12/22/2022] [Indexed: 12/28/2022] Open
Abstract
Soil microbes play important roles in plant health and ecosystem functioning, however, they can often be disturbed or depleted in degraded lands. During seed-based revegetation of such sites there is often very low germination and seedling establishment success, with recruitment of beneficial microbes to the rhizosphere one potential contributor to this problem. Here we investigated whether Australian native plant species may benefit from planting seed encapsulated within extruded seed pellets amended with one of two microbe-rich products: a commercial vermicast extract biostimulant or a whole-soil inoculum from a healthy reference site of native vegetation. Two manipulative glasshouse trials assessing the performance of two Australian native plant species (Acacia parramattensis and Indigofera australis) were carried out in both unmodified field-collected soil (trial 1) and in the same soil reduced in nutrients and microbes (trial 2). Seedling emergence and growth were compared between pelleted and bare-seeded controls and analyzed alongside soil nutrient concentrations and culturable microbial community assessments. The addition of microbial amendments maintained, but did not improve upon, high levels of emergence in both plant species relative to unamended pellets. In trial 1, mean time to emergence of Acacia parramattensis seedlings was slightly shorter in both amended pellet types relative to the standard pellets, and in trial 2, whole-soil inoculum pellets showed significantly improved growth metrics. This work shows that there is potential for microbial amendments to positively affect native plant emergence and growth, however exact effects are dependent on the type of amendment, the plant species, and the characteristics of the planting site soil.
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Affiliation(s)
- Matthew Alfonzetti
- School of Natural Sciences, Macquarie University, Sydney, NSW 2109, Australia
| | - Sebastien Doleac
- School of Natural Sciences, Macquarie University, Sydney, NSW 2109, Australia
| | | | - Rachael V. Gallagher
- Hawkesbury Institute for the Environment, Western Sydney University, Locked Bag 1797, Penrith, NSW 2751, Australia
- Correspondence: (R.V.G.); (S.T.)
| | - Sasha Tetu
- School of Natural Sciences, Macquarie University, Sydney, NSW 2109, Australia
- Biomolecular Discovery Research Centre, Macquarie University, Sydney, NSW 2109, Australia
- ARC Centre of Excellence in Synthetic Biology, Macquarie University, Sydney, NSW 2109, Australia
- Correspondence: (R.V.G.); (S.T.)
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Characteristics of rhizosphere and endogenous bacterial community of Ulleung-sanmaneul, an endemic plant in Korea: application for alleviating salt stress. Sci Rep 2022; 12:21124. [PMID: 36476722 PMCID: PMC9729608 DOI: 10.1038/s41598-022-25731-z] [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: 04/27/2022] [Accepted: 12/05/2022] [Indexed: 12/12/2022] Open
Abstract
Microbes influence plant growth and fitness. However, the structure and function of microbiomes associated with rare and endemic plants remain underexplored. To investigate the bacterial community structure of Ulleung-sanmaneul (U-SMN), an endemic plant in Korea, samples were collected from natural and cultivated habitats, and their 16S rDNA was sequenced. The root bacterial community structure differed from those of bulk soil and rhizosphere in both habitats. Endogenous bacteria in cultivated plants were less diverse than wild plants, but Luteibacter rhizovicinus, Pseudomonas fulva, and Sphingomonas pruni were shared. Co-inoculation of Pseudoxanthomonas sp. JBCE485 and Variovorax paradoxus JBCE486 promoted growth and induced salt stress resistance in Arabidopsis and chive. Changes in growth promotion and phenotypes of plants by co-inoculation were mediated by increased auxin production. Each strain colonized the roots without niche competition. The results indicated that host selectivity was influential than environmental factors in formulating endophytic bacterial composition, and domestication simplified the bacterial community diversity. Our results will contribute to the growth and maintenance of endemic U-SMN plants.
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Microbiome-based biotechnology for reducing food loss post harvest. Curr Opin Biotechnol 2022; 78:102808. [PMID: 36183451 DOI: 10.1016/j.copbio.2022.102808] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2022] [Revised: 08/21/2022] [Accepted: 08/29/2022] [Indexed: 12/14/2022]
Abstract
Microbiomes have an immense potential to enhance plant resilience to various biotic and abiotic stresses. However, intrinsic microbial communities respond to changes in their host's physiology and environment during plant's life cycle. The potential of the inherent plant microbiome has been neglected for a long time, especially for the postharvest period. Currently, close to 50% of all produced fruits and vegetables are lost either during production or storage. Biological control of spoilage and storage diseases is still lacking sufficiency. Today, novel multiomics technologies allow us to study the microbiome and its responses on a community level, which will help to advance current classic approaches and develop more effective and robust microbiome-based solutions for fruit and vegetable storability, quality, and safety.
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Chang X, Wei D, Zeng Y, Zhao X, Hu Y, Wu X, Song C, Gong G, Chen H, Yang C, Zhang M, Liu T, Chen W, Yang W. Maize-soybean relay strip intercropping reshapes the rhizosphere bacterial community and recruits beneficial bacteria to suppress Fusarium root rot of soybean. Front Microbiol 2022; 13:1009689. [PMID: 36386647 PMCID: PMC9643879 DOI: 10.3389/fmicb.2022.1009689] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2022] [Accepted: 09/29/2022] [Indexed: 11/29/2022] Open
Abstract
Rhizosphere microbes play a vital role in plant health and defense against soil-borne diseases. Previous studies showed that maize-soybean relay strip intercropping altered the diversity and composition of pathogenic Fusarium species and biocontrol fungal communities in the soybean rhizosphere, and significantly suppressed soybean root rot. However, whether the rhizosphere bacterial community participates in the regulation of this intercropping on soybean root rot is not clear. In this study, the rhizosphere soil of soybean healthy plants was collected in the continuous cropping of maize-soybean relay strip intercropping and soybean monoculture in the fields, and the integrated methods of microbial profiling, dual culture assays in vitro, and pot experiments were employed to systematically investigate the diversity, composition, and function of rhizosphere bacteria related to soybean root rot in two cropping patterns. We found that intercropping reshaped the rhizosphere bacterial community and increased microbial community diversity, and meanwhile, it also recruited much richer and more diverse species of Pseudomonas sp., Bacillus sp., Streptomyces sp., and Microbacterium sp. in soybean rhizosphere when compared with monoculture. From the intercropping, nine species of rhizosphere bacteria displayed good antagonism against the pathogen Fusarium oxysporum B3S1 of soybean root rot, and among them, IRHB3 (Pseudomonas chlororaphis), IRHB6 (Streptomyces), and IRHB9 (Bacillus) were the dominant bacteria and extraordinarily rich. In contrast, MRHB108 (Streptomyces virginiae) and MRHB205 (Bacillus subtilis) were the only antagonistic bacteria from monoculture, which were relatively poor in abundance. Interestingly, introducing IRHB3 into the cultured substrates not only significantly promoted the growth and development of soybean roots but also improved the survival rate of seedlings that suffered from F. oxysporum infection. Thus, this study proves that maize-soybean relay strip intercropping could help the host resist soil-borne Fusarium root rot by reshaping the rhizosphere bacterial community and driving more beneficial microorganisms to accumulate in the soybean rhizosphere.
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Affiliation(s)
- Xiaoli Chang
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Dengqin Wei
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Yuhan Zeng
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Xinyu Zhao
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Yu Hu
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Xiaoling Wu
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Chun Song
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Guoshu Gong
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Huabao Chen
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Chunping Yang
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Min Zhang
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Taiguo Liu
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Wanquan Chen
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
| | - Wenyu Yang
- College of Agronomy and Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, China
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Kong X, Guo Z, Yao Y, Xia L, Liu R, Song H, Zhang S. Acetic acid alters rhizosphere microbes and metabolic composition to improve willows drought resistance. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 844:157132. [PMID: 35798115 DOI: 10.1016/j.scitotenv.2022.157132] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Revised: 06/16/2022] [Accepted: 06/29/2022] [Indexed: 06/15/2023]
Abstract
The adverse effects of drought on plants are gradually exacerbated with global climatic change. Amelioration of the drought stress that is induced by low doses of acetic acid (AA) has been caused great interest in plants. However, whether AA can change soil microbial composition is still unknown. Here, we investigated how exogenous AA regulates the physiology, rhizosphere soil microorganisms and metabolic composition on Salix myrtillacea under drought stress. The physiological results showed that AA could improve the drought tolerance of S. myrtillacea. Azotobacter and Pseudomonas were enriched in the rhizosphere by AA irrigation. AA significantly increased the relative contents of amino acid metabolites (e.g., glycyl-L-tyrosine, l-glutamine and seryl-tryptophan) and decreased the relative contents of phenylpropane metabolites (e.g., fraxetin and sinapyl aldehyde) in soils. The enrichments of Azotobacter and Pseudomonas were significantly correlated with glycyl-L-tyrosine, l-glutamine, seryl-tryptophan, fraxetin and sinapyl aldehyde, which could increase the stress resistance by promoting nitrogen (N) uptake for willows. Furthermore, inoculation with Azotobacter chroococcum and Pseudomonas fluorescens could significantly improve willows drought tolerance. Therefore, our results reveal that the changes of plant physiology, rhizosphere soil microorganisms and metabolic composition induced by AA can improve willows drought resistance by enhancing N uptake.
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Affiliation(s)
- Xiangge Kong
- Key Laboratory for Bio-resources and Eco-environment of the Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
| | - Zian Guo
- Key Laboratory for Bio-resources and Eco-environment of the Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
| | - Yuan Yao
- Key Laboratory for Bio-resources and Eco-environment of the Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
| | - Linchao Xia
- Key Laboratory for Bio-resources and Eco-environment of the Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
| | - Ruixuan Liu
- Key Laboratory for Bio-resources and Eco-environment of the Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
| | - Haifeng Song
- Key Laboratory for Bio-resources and Eco-environment of the Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
| | - Sheng Zhang
- Key Laboratory for Bio-resources and Eco-environment of the Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China.
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The Microbiome Structure of the Symbiosis between the Desert Truffle Terfezia boudieri and Its Host Plant Helianthemum sessiliflorum. J Fungi (Basel) 2022; 8:jof8101062. [PMID: 36294627 PMCID: PMC9605525 DOI: 10.3390/jof8101062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 10/05/2022] [Accepted: 10/06/2022] [Indexed: 11/17/2022] Open
Abstract
The desert truffle Terfezia boudieri is an ascomycete fungus that forms ect-endomycorrhiza in the roots of plants belonging to Cistaceae. The fungus forms hypogeous edible fruit bodies, appreciated as gourmet food. Truffles and host plants are colonized by various microbes, which may contribute to their development. However, the diversity and composition of the bacterial community under field conditions in the Negev desert are still unknown. The overall goal of this research was to identify the rhizosphere microbial community supporting the establishment of a symbiotic association between T. boudieri and Helianthemum sessiliflorum. The bacterial community was characterized by fruiting bodies, mycorrhized roots, and rhizosphere soil. Based on next-generation sequencing meta-analyses of the 16S rRNA gene, we discovered diverse bacterial communities of fruit bodies that differed from those found in the roots and rhizosphere. Families of Proteobacteria, Planctomycetes, and Actinobacteria were present in all four samples. Alpha diversity analysis revealed that the rhizosphere and roots contain significantly higher bacterial species numbers compared to the fruit. Additionally, ANOSIM and PCoA provided a comparative analysis of the bacterial taxa associated with fruiting bodies, roots, and rhizosphere. The core microbiome described consists of groups whose biological role triggers important traits supporting plant growth and fruit body development.
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Pseudomonas putida mediates bacterial killing, biofilm invasion and biocontrol with a type IVB secretion system. Nat Microbiol 2022; 7:1547-1557. [PMID: 36123439 PMCID: PMC9519443 DOI: 10.1038/s41564-022-01209-6] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Accepted: 07/21/2022] [Indexed: 11/24/2022]
Abstract
Many bacteria utilize contact-dependent killing machineries to eliminate rivals in their environmental niches. Here we show that the plant root colonizer Pseudomonas putida strain IsoF is able to kill a wide range of soil and plant-associated Gram-negative bacteria with the aid of a type IVB secretion system (T4BSS) that delivers a toxic effector into bacterial competitors in a contact-dependent manner. This extends the range of targets of T4BSSs—so far thought to transfer effectors only into eukaryotic cells—to prokaryotes. Bioinformatic and genetic analyses showed that this killing machine is entirely encoded by the kib gene cluster located within a rare genomic island, which was recently acquired by horizontal gene transfer. P. putida IsoF utilizes this secretion system not only as a defensive weapon to kill bacterial competitors but also as an offensive weapon to invade existing biofilms, allowing the strain to persist in its natural environment. Furthermore, we show that strain IsoF can protect tomato plants against the phytopathogen Ralstonia solanacearum in a T4BSS-dependent manner, suggesting that IsoF can be exploited for pest control and sustainable agriculture. Pseudomonas putida uses a type IVB secretion system to kill a broad range of Gram-negative bacteria, invade biofilms and prevent phytopathogen Ralstonia solanacearum infection in tomato plants.
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Afridi MS, Fakhar A, Kumar A, Ali S, Medeiros FHV, Muneer MA, Ali H, Saleem M. Harnessing microbial multitrophic interactions for rhizosphere microbiome engineering. Microbiol Res 2022; 265:127199. [PMID: 36137486 DOI: 10.1016/j.micres.2022.127199] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Revised: 07/02/2022] [Accepted: 09/13/2022] [Indexed: 10/14/2022]
Abstract
The rhizosphere is a narrow and dynamic region of plant root-soil interfaces, and it's considered one of the most intricate and functionally active ecosystems on the Earth, which boosts plant health and alleviates the impact of biotic and abiotic stresses. Improving the key functions of the microbiome via engineering the rhizosphere microbiome is an emerging tool for improving plant growth, resilience, and soil-borne diseases. Recently, the advent of omics tools, gene-editing techniques, and sequencing technology has allowed us to unravel the entangled webs of plant-microbes interactions, enhancing plant fitness and tolerance to biotic and abiotic challenges. Plants secrete signaling compounds with low molecular weight into the rhizosphere, that engage various species to generate a massive deep complex array. The underlying principle governing the multitrophic interactions of the rhizosphere microbiome is yet unknown, however, some efforts have been made for disease management and agricultural sustainability. This review discussed the intra- and inter- microbe-microbe and microbe-animal interactions and their multifunctional roles in rhizosphere microbiome engineering for plant health and soil-borne disease management. Simultaneously, it investigates the significant impact of immunity utilizing PGPR and cover crop strategy in increasing rhizosphere microbiome functions for plant development and protection using omics techniques. The ecological engineering of rhizosphere plant interactions could be used as a potential alternative technology for plant growth improvement, sustainable disease control management, and increased production of economically significant crops.
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Affiliation(s)
- Muhammad Siddique Afridi
- Department of Plant Pathology, Federal University of Lavras, CP3037, 37200-900 Lavras, MG, Brazil.
| | - Ali Fakhar
- Division of Applied Science, Gyeongsang National University, South Korea
| | - Ashwani Kumar
- Metagenomics and Secretomics Research Laboratory, Department of Botany, Dr. Harisingh Gour University (A Central University), Sagar 470003, MP, India
| | - Sher Ali
- NMR Lab, Department of Chemistry, Federal University of Paraná, Curitiba 81530-900, PR, Brazil
| | - Flavio H V Medeiros
- Department of Plant Pathology, Federal University of Lavras, CP3037, 37200-900 Lavras, MG, Brazil
| | - Muhammad Atif Muneer
- International Magnesium Institute, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Hina Ali
- Department of Plant Sciences, Quaid-i-Azam University, Islamabad 45320, Pakistan
| | - Muhammad Saleem
- Department of Biological Sciences, Alabama State University, Montgomery, AL 36104, USA
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Elucidating the Effect of Endophytic Entomopathogenic Fungi on Bread Wheat Growth through Signaling of Immune Response-Related Hormones. Appl Environ Microbiol 2022; 88:e0088222. [PMID: 36036583 PMCID: PMC9499012 DOI: 10.1128/aem.00882-22] [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] [Indexed: 12/02/2022] Open
Abstract
Entomopathogenic fungi (EF) provide a potent biocontrol tool; also, their endophytic behavior has broadened their contribution to integrated pest management (IPM) and crop production. In this work, Beauveria bassiana and Metarhizium brunneum were applied to bread wheat (Triticum aestivum) seedlings to elucidate how fungal colonization influences plant growth and the relative expression of 24 genes involved in hormonal syntheses and plant immune mechanisms. A preliminary assay was used to determine the time needed for fungal colonization and assess its effect on wheat growth. Then, plant material collected at various times after inoculation (viz., 2, 8, 20, and 36 h and 9 and 15 days) was used to investigate gene expression by quantitative reverse transcription PCR (RT-qPCR). During the colonization time, B. bassiana and M. brunneum caused strong downregulation of most genes associated with plant immunity and the synthesis of hormones like auxin, cytokinin, and gibberellin. This effect was concomitant with a slowdown of endophytic-colonization-related plant growth until 19 days postinoculation (dpi). However, the wheat started to recover at 15 dpi, simultaneously with upregulation of auxin- and gibberellin-related genes. The results suggest that the EF trigger induced systemic resistance rather than acquired systemic resistance during early plant-microbe cross talk in wheat. Also, they confirm that the hormone and immune responses of wheat triggered by EF inoculation influenced plant growth, which can be useful with a view to optimizing management of these microorganisms for sustainable agriculture. IMPORTANCE Microbial control of insect and mite pests is a key tool to develop integrated pest management (IPM) and sustainable agriculture. Entomopathogenic fungi (EF) may have associations with the plants, playing additional ecological roles in the rhizosphere, in the phylloplane, and as plant endophytes. Beauveria bassiana 04/01TIP and Metarhizium brunneum 01/58Su are two strains that showed very good results either in pest control or plant growth promotion and would be good candidates to develop mycoinsecticides as an alternative to pesticides. However, deep knowledge about their interaction with the plant would let farmers optimize their use and understand the plant response, enhancing and promoting their broader contribution to IPM and crop production.
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Jing J, Cong WF, Bezemer TM. Legacies at work: plant-soil-microbiome interactions underpinning agricultural sustainability. TRENDS IN PLANT SCIENCE 2022; 27:781-792. [PMID: 35701291 DOI: 10.1016/j.tplants.2022.05.007] [Citation(s) in RCA: 33] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Revised: 03/29/2022] [Accepted: 05/11/2022] [Indexed: 06/15/2023]
Abstract
Agricultural intensification has had long-lasting negative legacies largely because of excessive inputs of agrochemicals (e.g., fertilizers) and simplification of cropping systems (e.g., continuous monocropping). Conventional agricultural management focuses on suppressing these negative legacies. However, there is now increasing attention for creating positive above- and belowground legacies through selecting crop species/genotypes, optimizing temporal and spatial crop combinations, improving nutrient inputs, developing intelligent fertilizers, and applying soil or microbiome inoculations. This can lead to enhanced yields and reduced pest and disease pressure in cropping systems, and can also mitigate greenhouse gas emissions and enhance carbon sequestration in soils. Strengthening positive legacies requires a deeper understanding of plant-soil-microbiome interactions and innovative crop, input, and soil management which can help to achieve agricultural sustainability.
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Affiliation(s)
- Jingying Jing
- College of Grass Science and Technology, China Agricultural University, 100193 Beijing, China.
| | - Wen-Feng Cong
- College of Resources and Environmental Sciences, Laboratory of Plant-Soil Interactions, Ministry of Education, National Observation and Research Station of Agriculture Green Development at Quzhou, China Agricultural University, 100193 Beijing, China.
| | - T Martijn Bezemer
- Institute of Biology, Above-Belowground Interactions Group, Leiden University, 2333 BE Leiden, The Netherlands; Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
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Díaz M, Bach T, González Anta G, Agaras B, Wibberg D, Noguera F, Canciani W, Valverde C. Agronomic efficiency and genome mining analysis of the wheat-biostimulant rhizospheric bacterium Pseudomonas pergaminensis sp. nov. strain 1008 T. FRONTIERS IN PLANT SCIENCE 2022; 13:894985. [PMID: 35968096 PMCID: PMC9369656 DOI: 10.3389/fpls.2022.894985] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/12/2022] [Accepted: 06/29/2022] [Indexed: 06/15/2023]
Abstract
Pseudomonas sp. strain 1008 was isolated from the rhizosphere of field grown wheat plants at the tillering stage in an agricultural plot near Pergamino city, Argentina. Based on its in vitro phosphate solubilizing capacity and the production of IAA, strain 1008 was formulated as an inoculant for bacterization of wheat seeds and subjected to multiple field assays within the period 2010-2017. Pseudomonas sp. strain 1008 showed a robust positive impact on the grain yield (+8% on average) across a number of campaigns, soil properties, seed genotypes, and with no significant influence of the simultaneous seed treatment with a fungicide, strongly supporting the use of this biostimulant bacterium as an agricultural input for promoting the yield of wheat. Full genome sequencing revealed that strain 1008 has the capacity to access a number of sources of inorganic and organic phosphorus, to compete for iron scavenging, to produce auxin, 2,3-butanediol and acetoin, and to metabolize GABA. Additionally, the genome of strain 1008 harbors several loci related to rhizosphere competitiveness, but it is devoid of biosynthetic gene clusters for production of typical secondary metabolites of biocontrol representatives of the Pseudomonas genus. Finally, the phylogenomic, phenotypic, and chemotaxonomic comparative analysis of strain 1008 with related taxa strongly suggests that this wheat rhizospheric biostimulant isolate is a representative of a novel species within the genus Pseudomonas, for which the name Pseudomonas pergaminensis sp. nov. (type strain 1008T = DSM 113453T = ATCC TSD-287T) is proposed.
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Affiliation(s)
- Marisa Díaz
- Rizobacter Argentina S.A., Buenos Aires, Argentina
| | - Teresa Bach
- Rizobacter Argentina S.A., Buenos Aires, Argentina
| | - Gustavo González Anta
- Escuela de Ciencias Agrarias, Exactas y Naturales, Universidad Nacional del Noroeste de la Provincia de Buenos Aires (UNNOBA), Buenos Aires, Argentina
- Departamento de Ciencias Naturales y Exactas, Universidad Nacional de San Antonio de Areco (UNSAdA), Buenos Aires, Argentina
- Indrasa Biotecnología S.A., Córdoba, Argentina
| | - Betina Agaras
- Laboratorio de Fisiología y Genética de Bacterias Beneficiosas para Plantas, Centro de Bioquímica y Microbiología del Suelo, Universidad Nacional de Quilmes-CONICET, Buenos Aires, Argentina
| | - Daniel Wibberg
- Center for Biotechnology (CeBiTec), Bielefeld University, Bielefeld, Germany
| | | | | | - Claudio Valverde
- Laboratorio de Fisiología y Genética de Bacterias Beneficiosas para Plantas, Centro de Bioquímica y Microbiología del Suelo, Universidad Nacional de Quilmes-CONICET, Buenos Aires, Argentina
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Gutiérrez CF, Rodríguez-Romero N, Egan S, Holmes E, Sanabria J. Exploiting the Potential of Bioreactors for Creating Spatial Organization in the Soil Microbiome: A Strategy for Increasing Sustainable Agricultural Practices. Microorganisms 2022; 10:microorganisms10071464. [PMID: 35889183 PMCID: PMC9319577 DOI: 10.3390/microorganisms10071464] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Revised: 07/06/2022] [Accepted: 07/08/2022] [Indexed: 02/04/2023] Open
Abstract
Industrial production of synthetic nitrogen fertilizers and their crop application have caused considerable environmental impacts. Some eco-friendly alternatives try to solve them but raise some restrictions. We tested a novel method to produce a nitrogen bioinoculant by enriching a soil microbial community in bioreactors supplying N2 by air pumping. The biomass enriched with diazotrophic bacteria was diluted and applied to N-depleted and sterilized soil of tomato plants. We estimated microbial composition and diversity by 16S rRNA metabarcoding from soil and bioreactors at different run times and during plant uprooting. Bioreactors promoted the N-fixing microbial community and revealed a hided diversity. One hundred twenty-four (124) operational taxonomic units (OTUs) were assigned to bacteria with a greater Shannon diversity during the reactor’s steady state. A total of 753 OTUs were found in the rhizospheres with higher biodiversity when the lowest concentration of bacteria was applied. The apparent bacterial abundance in the batch and continuous bioreactors suggested a more specific functional ecological organization. We demonstrate the usefulness of bioreactors to evidence hidden diversity in the soil when it passes through bioreactors. By obtaining the same growth of inoculated plants and the control with chemical synthesis fertilizers, we evidence the potential of the methodology that we have called directed bioprospecting to grow a complex nitrogen-fixing microbial community. The simplicity of the reactor’s operation makes its application promising for developing countries with low technological progress.
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Affiliation(s)
- Carlos Fernando Gutiérrez
- Environmental Microbiology and Biotechnology Laboratory, Engineering School of Environmental & Natural Resources, Engineering Faculty, Universidad del Valle, Meléndez Campus, Cali 76001, Colombia; (C.F.G.); (N.R.-R.)
| | - Nicolás Rodríguez-Romero
- Environmental Microbiology and Biotechnology Laboratory, Engineering School of Environmental & Natural Resources, Engineering Faculty, Universidad del Valle, Meléndez Campus, Cali 76001, Colombia; (C.F.G.); (N.R.-R.)
| | - Siobhon Egan
- Australian National Phenome Center, Murdoch University, Perth 6150, Australia; (S.E.); (E.H.)
| | - Elaine Holmes
- Australian National Phenome Center, Murdoch University, Perth 6150, Australia; (S.E.); (E.H.)
| | - Janeth Sanabria
- Environmental Microbiology and Biotechnology Laboratory, Engineering School of Environmental & Natural Resources, Engineering Faculty, Universidad del Valle, Meléndez Campus, Cali 76001, Colombia; (C.F.G.); (N.R.-R.)
- Australian National Phenome Center, Murdoch University, Perth 6150, Australia; (S.E.); (E.H.)
- Correspondence:
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Orozco-Mosqueda MDC, Fadiji AE, Babalola OO, Glick BR, Santoyo G. Rhizobiome engineering: Unveiling complex rhizosphere interactions to enhance plant growth and health. Microbiol Res 2022; 263:127137. [PMID: 35905581 DOI: 10.1016/j.micres.2022.127137] [Citation(s) in RCA: 21] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Revised: 06/17/2022] [Accepted: 07/13/2022] [Indexed: 12/13/2022]
Abstract
Crop plants are affected by a series of inhibitory environmental and biotic factors that decrease their growth and production. To counteract these adverse effects, plants work together with the microorganisms that inhabit their rhizosphere, which is part of the soil influenced by root exudates. The rhizosphere is a microecosystem where a series of complex interactions takes place between the resident microorganisms (rhizobiome) and plant roots. Therefore, this study analyzes the dynamics of plant-rhizobiome communication, the role of exudates (diffusible and volatile) as a factor in stimulating a diverse rhizobiome, and the differences between rhizobiomes of domesticated crops and wild plants. The study also analyzes different strategies to decipher the rhizobiome through both classical cultivation techniques and the so-called "omics" sciences. In addition, the rhizosphere engineering concept and the two general strategies to manipulate the rhizobiome, i.e., top down and bottom up engineering have been revisited. In addition, recent studies on the effects on the indigenous rhizobiome of inoculating plants with foreign strains, the impact on the endobiome, and the collateral effects on plant crops are discussed. Finally, understanding of the complex rhizosphere interactions and the biological repercussions of rhizobiome engineering as essential steps for improving plant growth and health is proposed, including under adverse conditions.
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Affiliation(s)
| | - Ayomide Emmanuel Fadiji
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
| | - Olubukola Oluranti Babalola
- Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
| | - Bernard R Glick
- Department of Biology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Gustavo Santoyo
- Instituto de Investigaciones Químico-Biológicas, Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Mich 58030, Mexico.
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Martínez-Cano B, Mendoza-Meneses CJ, García-Trejo JF, Macías-Bobadilla G, Aguirre-Becerra H, Soto-Zarazúa GM, Feregrino-Pérez AA. Review and Perspectives of the Use of Alginate as a Polymer Matrix for Microorganisms Applied in Agro-Industry. Molecules 2022; 27:4248. [PMID: 35807492 PMCID: PMC9268634 DOI: 10.3390/molecules27134248] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 06/25/2022] [Accepted: 06/28/2022] [Indexed: 12/10/2022] Open
Abstract
Alginate is a polysaccharide with the property of forming hydrogels, which is economic production, zero toxicity, and biocompatibility. In the agro-industry, alginate is used as a super absorbent polymer, coating seeds, fruits, and vegetables and as a carrier of bacteria and fungi as plant-growth promoters and biocontrol. The latter has a high impact on agriculture since the implementation of microorganisms in a polymer matrix improves soil quality; plant nutrition, and is functional as a preventive measure for the appearance of phytopathogenic. Additionally, it minimizes losses of foods due to wrong post-harvest handling. In this review, we provide an overview of physicochemical properties of alginate, some methods for preparation and modification of capsules and coatings, to finally describe its application in agro-industry as a matrix of plant-growth-promoting microorganisms, its effectiveness in cultivation and post-harvest, and its effect on the environment, as well as the prospects for future agro-industrial applications.
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Affiliation(s)
- Betsie Martínez-Cano
- Faculty of Engineering, Autonomous University of Queretaro, Campus Amazcala, El Marques 76265, Mexico; (B.M.-C.); (C.J.M.-M.); (J.F.G.-T.); (H.A.-B.)
| | - Cristian Josué Mendoza-Meneses
- Faculty of Engineering, Autonomous University of Queretaro, Campus Amazcala, El Marques 76265, Mexico; (B.M.-C.); (C.J.M.-M.); (J.F.G.-T.); (H.A.-B.)
| | - Juan Fernando García-Trejo
- Faculty of Engineering, Autonomous University of Queretaro, Campus Amazcala, El Marques 76265, Mexico; (B.M.-C.); (C.J.M.-M.); (J.F.G.-T.); (H.A.-B.)
| | - Gonzalo Macías-Bobadilla
- Faculty of Engineering, Autonomous University of Queretaro, Cerro de las Campanas, El Marques 76010, Mexico;
| | - Humberto Aguirre-Becerra
- Faculty of Engineering, Autonomous University of Queretaro, Campus Amazcala, El Marques 76265, Mexico; (B.M.-C.); (C.J.M.-M.); (J.F.G.-T.); (H.A.-B.)
| | - Genaro Martín Soto-Zarazúa
- Faculty of Engineering, Autonomous University of Queretaro, Campus Amazcala, El Marques 76265, Mexico; (B.M.-C.); (C.J.M.-M.); (J.F.G.-T.); (H.A.-B.)
| | - Ana Angélica Feregrino-Pérez
- Faculty of Engineering, Autonomous University of Queretaro, Campus Amazcala, El Marques 76265, Mexico; (B.M.-C.); (C.J.M.-M.); (J.F.G.-T.); (H.A.-B.)
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Classification of the plant-associated lifestyle of Pseudomonas strains using genome properties and machine learning. Sci Rep 2022; 12:10857. [PMID: 35760985 PMCID: PMC9237127 DOI: 10.1038/s41598-022-14913-4] [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: 10/04/2021] [Accepted: 06/15/2022] [Indexed: 12/30/2022] Open
Abstract
The rhizosphere, the region of soil surrounding roots of plants, is colonized by a unique population of Plant Growth Promoting Rhizobacteria (PGPR). Many important PGPR as well as plant pathogens belong to the genus Pseudomonas. There is, however, uncertainty on the divide between beneficial and pathogenic strains as previously thought to be signifying genomic features have limited power to separate these strains. Here we used the Genome properties (GP) common biological pathways annotation system and Machine Learning (ML) to establish the relationship between the genome wide GP composition and the plant-associated lifestyle of 91 Pseudomonas strains isolated from the rhizosphere and the phyllosphere representing both plant-associated phenotypes. GP enrichment analysis, Random Forest model fitting and feature selection revealed 28 discriminating features. A test set of 75 new strains confirmed the importance of the selected features for classification. The results suggest that GP annotations provide a promising computational tool to better classify the plant-associated lifestyle.
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Sabra MA, Alaidaroos BA, Jastaniah SD, Heflish AI, Ghareeb RY, Mackled MI, El-Saadony MT, Abdelsalam NR, Conte-Junior CA. Comparative Effect of Commercially Available Nanoparticles on Soil Bacterial Community and “Botrytis fabae” Caused Brown Spot: In vitro and in vivo Experiment. Front Microbiol 2022. [DOI: 10.3389/fmicb.2022.934031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
This study revealed the possible effects of various levels of silver nanoparticle (AgNP) application on plant diseases and soil microbial diversity. It investigated the comparison between the application of AgNPs and two commercial nanoproducts (Zn and FeNPs) on the rhizobacterial population and Botrytis fabae. Two experiments were conducted. The first studied the influence of 13 AgNP concentration on soil bacterial diversity besides two other commercial nanoparticles, ZnNPs (2,000 ppm) and FeNPs (2,500 ppm), used for comparison and application on onion seedlings. The second experiment was designed to determine the antifungal activity of previous AgNP concentrations (150, 200, 250, 300, 400, and 500 ppm) against B. fabae, tested using commercial fungicide as control. The results obtained from both experiments revealed the positive impact of AgNPs on the microbial community, representing a decrease in both the soil microbial biomass and the growth of brown spot disease, affecting microbial community composition, including bacteria, fungi, and biological varieties. In contrast, the two commercial products displayed lower effects compared to AgNPs. This result clearly showed that the AgNPs strongly inhibited the plant pathogen B. fabae growth and development, decreasing the number of bacteria (cfu/ml) and reducing the rhizosphere. Using AgNPs as an antimicrobial agent in the agricultural domain is recommended.
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49
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Mishra S, Huang Y, Li J, Wu X, Zhou Z, Lei Q, Bhatt P, Chen S. Biofilm-mediated bioremediation is a powerful tool for the removal of environmental pollutants. CHEMOSPHERE 2022; 294:133609. [PMID: 35051518 DOI: 10.1016/j.chemosphere.2022.133609] [Citation(s) in RCA: 62] [Impact Index Per Article: 31.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Revised: 01/09/2022] [Accepted: 01/11/2022] [Indexed: 06/14/2023]
Abstract
Biofilm-mediated bioremediation is an attractive approach for the elimination of environmental pollutants, because of its wide adaptability, biomass, and excellent capacity to absorb, immobilize, or degrade contaminants. Biofilms are assemblages of individual or mixed microbial cells adhering to a living or non-living surface in an aqueous environment. Biofilm-forming microorganisms have excellent survival under exposure to harsh environmental stressors, can compete for nutrients, exhibit greater tolerance to pollutants compared to free-floating planktonic cells, and provide a protective environment for cells. Biofilm communities are thus capable of sorption and metabolization of organic pollutants and heavy metals through a well-controlled expression pattern of genes governed by quorum sensing. The involvement of quorum sensing and chemotaxis in biofilms can enhance the bioremediation kinetics with the help of signaling molecules, the transfer of genetic material, and metabolites. This review provides in-depth knowledge of the process of biofilm formation in microorganisms, their regulatory mechanisms of interaction, and their importance and application as powerful bioremediation agents in the biodegradation of environmental pollutants, including hydrocarbons, pesticides, and heavy metals.
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Affiliation(s)
- Sandhya Mishra
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China
| | - Yaohua Huang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China
| | - Jiayi Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China
| | - Xiaozhen Wu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China
| | - Zhe Zhou
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China
| | - Qiqi Lei
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China
| | - Pankaj Bhatt
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China
| | - Shaohua Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China.
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50
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Tarekegne C, Wesselink R, Biemans HJA, Mulder M. Effectiveness of a competence‐based planting support training programme for development agents in Ethiopia. INTERNATIONAL JOURNAL OF TRAINING AND DEVELOPMENT 2022. [DOI: 10.1111/ijtd.12265] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Chalachew Tarekegne
- Education and Learning Sciences Group Wageningen University and Research Wageningen The Netherlands
| | - Renate Wesselink
- Education and Learning Sciences Group Wageningen University and Research Wageningen The Netherlands
| | - Harm J. A. Biemans
- Education and Learning Sciences Group Wageningen University and Research Wageningen The Netherlands
| | - Martin Mulder
- Education and Learning Sciences Group Wageningen University and Research Wageningen The Netherlands
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