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Kumari R, Kumar V, Koul B, Abul Farah M, Mishra AK. Synergistic effects of Trichoderma and biochar on the biocontrol of two soil-borne phytopathogens in chickpeas. Front Microbiol 2025; 16:1583114. [PMID: 40376459 PMCID: PMC12078217 DOI: 10.3389/fmicb.2025.1583114] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2025] [Accepted: 04/10/2025] [Indexed: 05/18/2025] Open
Abstract
Introduction This study aims to identify and characterize four Trichoderma isolates using molecular techniques, Fourier transform infrared spectroscopy (FTIR), and volatile organic compounds (VOC) profiling. Methods The antagonistic activity of these isolates was assessed against Fusarium oxysporum f. sp. ciceri (FOC) and Sclerotium rolfsii (SR) using a dual culture technique. The synergistic effect of Trichoderma harzianum (accession no. PP256488) combined with biochar (BC) was evaluated for plant growth enhancement and disease suppression. Four Trichoderma isolates (T. harzianum, T. asperellum, T. virens, and T. lixii) were identified through ITS region analysis, VOC profiling, and FTIR spectroscopy. Results Molecular analysis confirmed their distinct identities, and GC-MS analysis revealed 37 VOCs out of 162 with antipathogenic properties. Unique FTIR peaks were recorded at 3271.96 cm-1 for T. virens, 2800-2900 cm-1 for T. asperellum, and 2850-2950 cm-1 for both T. lixii and T. harzianum. Scanning electron microscopy (SEM) analysis of T. harzianum revealed mycoparasitic structures, including hyphal coils, penetration holes, and appressoria, indicating effective pathogen interaction. The combined application of Trichoderma and biochar (T9) significantly enhanced root length (9.23 cm), plant height (26.03 cm), and root mass (43.33 g) in chickpea plants. Moreover, treatments (T9) and (T10) reduced the disease incidence in chickpeas, decreasing fusarium wilt by 27% and collar rot by 33%, respectively. Conclusion This sustainable approach exhibits the potential of combined application of Trichoderma and biochar which can enhance plant growth and reduce disease incidence, and improve food security.
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Affiliation(s)
- Ranjna Kumari
- Department of Botany, Lovely Professional University, Phagwara, Punjab, India
| | - Vipul Kumar
- Department of Plant Pathology, School of Agriculture, Lovely Professional University, Phagwara, Punjab, India
| | - Bhupendra Koul
- Department of Biotechnology, Lovely Professional University, Phagwara, Punjab, India
| | - Mohammad Abul Farah
- Department of Zoology, College of Science, King Saud University, Riyadh, Saudi Arabia
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Singh V, Gamage H, Jones A, Wood HV, Bruning B, James A, Van Drie P, Purushotham N, Oppenheimer R, Dalal RC. Fungal endophytes influence soil organic carbon and nitrogen fractions promoting carbon sequestration and improving grain yield in soybean. Sci Rep 2025; 15:11402. [PMID: 40181087 PMCID: PMC11968937 DOI: 10.1038/s41598-025-94982-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2024] [Accepted: 03/18/2025] [Indexed: 04/05/2025] Open
Abstract
Fungal endophyte inoculants present a promising avenue for enhancing carbon sequestration in agricultural systems. These endophytes can significantly influence soil organic carbon (SOC) and nitrogen (N) fractions by modulating root exudation, soil aggregation, and organic matter decomposition. We investigated the effectiveness of commercial-stage fungal endophyte seed inoculants in an Australian soybean field trial to increase yield, total SOC, stable SOC fractions, and soil N. After one growing season, specific inoculants (Thozetella sp. and Leptodontidium sp.) and dosages increased soybean grain yield and stocks of soil organic matter (SOM) as aggregate occluded particulate organic matter (oPOM) C and N, and mineral-associated organic matter (MAOM) C and N in the topsoil layer (0-15 cm). Furthermore, positive correlations were established between grain yield and the stocks of oPOM (C and N) and MAOM (C and N) in the topsoil layer (0-15 cm). Importantly, increasing grain yield was significantly and positively associated with the proportion of oPOM-C and N stocks to total SOM stock, providing evidence of significant carbon sequestration in oPOM. However, the proportion of MAOM-C and N stock to total SOM stock decreased significantly with increasing grain yield, indicating higher proportion of MAOM is being turned over relative to other SOM fractions although the absolute amounts of MAOM-C and N remained stable. These findings suggest that fungal endophytes and dosages may have variable but potentially beneficial impacts on crop growth, yield and play a crucial role in altering SOM fractions. This alteration potentially leads to changed carbon sequestration strategies, emphasising the need for further research into fungal endophyte-mediated carbon sequestration mechanisms.
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Affiliation(s)
- Vijaya Singh
- Queensland Alliance for Agriculture and Food Innovation (QAAFI), School of Agriculture and Food Sustainability, The University of Queensland, St Lucia, QLD, 4072, Australia.
| | - Harshi Gamage
- Queensland Alliance for Agriculture and Food Innovation (QAAFI), School of Agriculture and Food Sustainability, The University of Queensland, St Lucia, QLD, 4072, Australia
| | - Andrew Jones
- Loam Bio, Charles Sturt University, Orange, NSW, 2800, Australia
| | - Hector Vera Wood
- Queensland Alliance for Agriculture and Food Innovation (QAAFI), School of Agriculture and Food Sustainability, The University of Queensland, St Lucia, QLD, 4072, Australia
| | - Brooke Bruning
- Loam Bio, Charles Sturt University, Orange, NSW, 2800, Australia
| | - Andrew James
- CSIRO, Queensland Biosciences Precinct, St Lucia, QLD, 4072, Australia
| | - Philip Van Drie
- CSIRO, Queensland Biosciences Precinct, St Lucia, QLD, 4072, Australia
| | | | | | - Ram C Dalal
- Queensland Alliance for Agriculture and Food Innovation (QAAFI), School of Agriculture and Food Sustainability, The University of Queensland, St Lucia, QLD, 4072, Australia
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Patil BL, Gopalkrishna AM, G M SK, R U. Molecular characterization of an endophytic strain of Bacillus subtilis with plant growth-promoting properties from a wild relative of papaya. J Appl Microbiol 2025; 136:lxaf010. [PMID: 39777499 DOI: 10.1093/jambio/lxaf010] [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: 10/24/2024] [Revised: 01/01/2025] [Accepted: 01/06/2025] [Indexed: 01/11/2025]
Abstract
AIM Bacillus subtilis is usually found in soil, and their biocontrol and plant growth-promoting capabilities are being explored more recently than ever. However, knowledge about metabolite production and genome composition of endophytic B. subtilis from seeds is limited. In the present study, B. subtilis EVCu15 strain isolated from the seeds of Vasconcellea cundinamarcensis (mountain papaya) was subjected to whole genome sequencing and detailed molecular and functional characterization. METHODS AND RESULTS Whole genome sequencing and sequence analysis of the endophytic bacterium from mountain papaya seed revealed that the bacterium was B. subtilis, strain EVCu15. The genomic sequence had more than 98% nucleotide similarity with two published whole genome sequences of B. subtilis strains. Some of the important secondary metabolite gene clusters involved in production of bioactive compounds such as surfactin, fengycin, plipastatin, bacillibactin, bacillaene, subtilomycin, subtilosin A, and bacilysin were identified from the whole genome sequence analysis. Genes encoding several plant growth-promoting metabolites, mostly involved in the nutrient metabolism, were identified in the bacterial genome. These included factors coding for nitrogen, phosphorus, iron, sulfur, potassium, and trehalose metabolism. Genes involved in auxin, riboflavin, acetoin biosynthesis, ACC deaminase activity, and xylan degradation were also identified. Proteomic analysis confirmed the biosynthesis and release of several bioactive secondary metabolites in the endophytic B. subtilis strain EVCu15. Liquid chromatography-mass spectrometry-based profiling for hormones and vitamins identified extracellular secretion of several important plant growth-promoting compounds such as IAA, salicylic acid, zeatin, vitamin D1, D2, E, K1, and pyridoxine. The in vitro and in vivo studies with the endophytic B. subtilis against various plant pathogenic fungi showed moderate to high levels of resistance. The B. subtilis EVCu15 compared to B. amyloliquefaciens showed better control over the root-knot nematode Meloidogyne incognita, in terms of egg hatching inhibition and the mortality of J2 juveniles. CONCLUSION Overall, this study underscores the biocontrol and plant growth-promoting potential of B. subtilis EVCu15, an endophyte isolated from mountain papaya seeds. Genomic analysis revealed a significant proportion of genes linked to biocontrol and plant growth promotion, corroborating its efficacy against M. incognita and various plant pathogens in vitro and in greenhouse studies. Furthermore, the bacterium's ability to produce diverse bioactive compounds, including proteins, hormones, and vitamins, was confirmed, highlighting its complex interactions within the plant system.
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Affiliation(s)
- Basavaprabhu L Patil
- ICAR-Indian Institute of Horticultural Research, Hessaraghatta Lake Post, Bengaluru 560089, Karnataka, India
| | - Amulya M Gopalkrishna
- ICAR-Indian Institute of Horticultural Research, Hessaraghatta Lake Post, Bengaluru 560089, Karnataka, India
| | - Sandeep Kumar G M
- ICAR-Indian Institute of Horticultural Research, Hessaraghatta Lake Post, Bengaluru 560089, Karnataka, India
| | - Umamaheswari R
- ICAR-Indian Institute of Horticultural Research, Hessaraghatta Lake Post, Bengaluru 560089, Karnataka, India
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Rai N, Rai SP, Sarma BK. Chickpea defense against dual stresses of salt and Fusarium wilt is enhanced through selected bHLH transcription factors carrying the bHLH-MYC_N domain. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2025; 218:109314. [PMID: 39579719 DOI: 10.1016/j.plaphy.2024.109314] [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: 10/14/2024] [Revised: 11/14/2024] [Accepted: 11/18/2024] [Indexed: 11/25/2024]
Abstract
The plant transcriptome varies between combined stresses and single stresses, and is regulated differentially by transcription factors. Therefore, understanding the complexities of plant interactions with pathogens in stressed soils is always a challenge. In chickpea, 197 CabHLH genes were newly identified. Expression of 28 defense-associated CabHLHs [individual and combined stresses of Fusarium oxysporum f. sp. ciceris (Foc) and salt (NaCl) in three chickpea cultivars (JG-315: wilt resistant, JG-36: wilt tolerant, and JG-62: wilt susceptible) in Trichoderma asperellum T42 primed and non-primed conditions] revealed upregulation of most CabHLHs at 12 h post-stress in individual stresses but decreased significantly in the combined stress (Foc and salt). However, T42 priming stimulated the transcript accumulation of most CabHLHs even earlier (6 h). Three genes (CabHLH119, 158, and 184 carrying an additional domain bHLH-MYC_N) and two additional genes (CabHLH69 and 172) belonging to the subfamilies IIIde and IIIf were upregulated significantly in all three cultivars under individual and combined stresses, and upregulated further when primed with T42. Expression of the three bHLH-MYC_N domain containing genes, and defense activities (PAL, PO activities, phenylpropanoid accumulation) in the combined stress correlated very strongly. Protein-protein interactome studies further strengthened the claim that the three bHLH-MYC_N domain carrying CabHLHs, is likely to regulate the defense signaling in chickpea under stress as they could form complexes either directly or indirectly with cis-elements of promoters of some important defense genes. The results thus showed the significance of the IIIde and IIIf subfamily genes, particularly those carrying the bHLH-MYC_N domain, in mitigating combined stresses.
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Affiliation(s)
- Nidhi Rai
- Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, 221005, India; Department of Botany, Institute of Science, Banaras Hindu University, Varanasi, 221005, India
| | - Shashi Pandey Rai
- Department of Botany, Institute of Science, Banaras Hindu University, Varanasi, 221005, India.
| | - Birinchi Kumar Sarma
- Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, 221005, India.
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Chen X, Liu J, Chen AJ, Wang L, Jiang X, Gong A, Liu W, Wu H. Burkholderia ambifaria H8 as an effective biocontrol strain against maize stalk rot via producing volatile dimethyl disulfide. PEST MANAGEMENT SCIENCE 2024; 80:4125-4136. [PMID: 38578571 DOI: 10.1002/ps.8119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 03/08/2024] [Accepted: 04/02/2024] [Indexed: 04/06/2024]
Abstract
BACKGROUND Maize stalk rot (MSR) caused by Fusarium graminearum is the primary factor contributing to the reduction in maize yield and quality. However, this soil-borne disease presents a significant challenge for sustainable control through field management and chemical agents. The screening of novel biocontrol agents can aid in developing innovative and successful strategies for MSR control. RESULTS A total of 407 strains of bacteria were isolated from the rhizosphere soil of a resistant maize inbred line. One strain exhibited significant antagonistic activity in plate and pot experiments, and was identified as Burkholderia ambifaria H8. The strain could significantly inhibit the mycelial growth and spore germination of F. graminearum, induce resistance to stalk rot, and promote plant growth. The volatile compounds produced by strain H8 and its secondary metabolites in the sterile fermentation broth exhibited antagonistic activity. The primary volatile compound produced by strain H8 was identified as dimethyl disulfide (DMDS) using gas chromatography tandem mass spectrometry. Through in vitro antagonistic activity assays and microscopic observation, it was confirmed that DMDS was capable of inhibiting mycelial growth and disrupting the mycelial structure of F. graminearum, suggesting it may be the major active compound for strain H8. The transcriptome data of F. graminearum further indicated that strain H8 and its volatile compounds could alter pathogenic fungi metabolism, influence the related metabolic pathways, and potentially induce cell apoptosis within F. graminearum. CONCLUSION Our results showed that B. ambifaria H8 was capable of producing the volatile substance dimethyl disulfide, which influenced the synthesis and permeability of cell membranes in pathogens. Thus, B. ambifaria H8 was found to be a promising biological control agent against MSR. © 2024 Society of Chemical Industry.
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Affiliation(s)
- Xinyu Chen
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Key Laboratory of Integrated Pest Management in Crops, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Chinese Academy of Agricultural Science, Beijing, China
| | - Jingrong Liu
- College of Life Science, Xinyang Normal University, Xinyang, China
| | - Amanda Juan Chen
- Microbiome Research Center, Moon (Beijing) Biotech Ltd., Beijing, P.R. China
| | - Lin Wang
- Microbiome Research Center, Moon (Beijing) Biotech Ltd., Beijing, P.R. China
| | - Xianzhi Jiang
- Microbiome Research Center, Moon (Beijing) Biotech Ltd., Beijing, P.R. China
| | - Andong Gong
- College of Life Science, Xinyang Normal University, Xinyang, China
| | - Wende Liu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Key Laboratory of Integrated Pest Management in Crops, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Chinese Academy of Agricultural Science, Beijing, China
| | - Hanxiang Wu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Key Laboratory of Integrated Pest Management in Crops, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection, Chinese Academy of Agricultural Science, Beijing, China
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Abdullaeva Y, Mardonova G, Eshboev F, Cardinale M, Egamberdieva D. Harnessing chickpea bacterial endophytes for improved plant health and fitness. AIMS Microbiol 2024; 10:489-506. [PMID: 39219751 PMCID: PMC11362273 DOI: 10.3934/microbiol.2024024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2024] [Revised: 06/12/2024] [Accepted: 06/24/2024] [Indexed: 09/04/2024] Open
Abstract
Endophytic bacteria live asymptomatically inside the tissues of host plants without inflicting any damage. Endophytes can confer several beneficial traits to plants, which can contribute to their growth, development, and overall health. They have been found to stimulate plant growth by enhancing nutrient uptake and availability. They can produce plant growth-promoting substances such as auxins, cytokinins, and gibberellins, which regulate various aspects of plant growth and development. Endophytes can also improve root system architecture, leading to increased nutrient and water absorption. Some endophytes possess the ability to solubilize nutrients, such as phosphorus and potassium, making them more available for plant uptake, and fixing atmospheric nitrogen. Chickpea (Cicer arietinum) is a major legume crop that has mutualistic interactions with endophytes. These endophytes can benefit the chickpea plant in various ways, including higher growth, improved nutrient uptake, increased tolerance to abiotic and biotic stressors, and disease suppression. They can produce enzymes and metabolites that scavenge harmful reactive oxygen species, thus reducing oxidative stress. Moreover, several studies reported that endophytes produce antimicrobial compounds, lytic enzymes, and volatile organic compounds that inhibit the growth of fungal pathogens and trigger systemic defense responses in plants, leading to increased resistance against a broad range of pathogens. They can activate plant defense pathways, including the production of defense-related enzymes, phytoalexins, and pathogenesis-related proteins, thereby providing long-lasting protection. It is important to note that the diversity and function of chickpea-associated endophytes can vary depending on factors such as variety, geographical location, and environmental conditions. The mechanisms behind the plant-beneficial interactions are still being intensively explored. In this review, new biotechnologies in agricultural production and ecosystem stability were presented. Thus, harnessing chickpea endophytes could be exploited in developing drought-resistant cultivars that can maintain productivity in arid and semi-arid environments, crucial for meeting the global demand for chickpeas.
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Affiliation(s)
- Yulduzkhon Abdullaeva
- Institute of Molecular Microbiology and Biotechnology, University of Münster, Münster, Germany
| | - Gulsanam Mardonova
- Faculty of Biology, National University of Uzbekistan, Tashkent 100174, Uzbekistan
| | - Farkhod Eshboev
- S. Yu. Yunusov Institute of the Chemistry of Plant Substances, Academy of Sciences of Uzbekistan, Tashkent 100170, Uzbekistan
- Institute of Fundamental and Applied Research, National University of Uzbekistan TIIAME, Tashkent 100000, Uzbekistan
| | - Massimiliano Cardinale
- Department of Biological and Environmental Sciences and Technologies–DiSTeBA, University of Salento, Lecce, Italy
| | - Dilfuza Egamberdieva
- Faculty of Biology, National University of Uzbekistan, Tashkent 100174, Uzbekistan
- Institute of Fundamental and Applied Research, National University of Uzbekistan TIIAME, Tashkent 100000, Uzbekistan
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Saadaoui M, Faize M, Rifai A, Tayeb K, Omri Ben Youssef N, Kharrat M, Roeckel-Drevet P, Chaar H, Venisse JS. Evaluation of Tunisian wheat endophytes as plant growth promoting bacteria and biological control agents against Fusarium culmorum. PLoS One 2024; 19:e0300791. [PMID: 38758965 PMCID: PMC11101125 DOI: 10.1371/journal.pone.0300791] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Accepted: 03/05/2024] [Indexed: 05/19/2024] Open
Abstract
Plant growth-promoting rhizobacteria (PGPR) applications have emerged as an ideal substitute for synthetic chemicals by their ability to improve plant nutrition and resistance against pathogens. In this study, we isolated fourteen root endophytes from healthy wheat roots cultivated in Tunisia. The isolates were identified based from their 16S rRNA gene sequences. They belonged to Bacillota and Pseudomonadota taxa. Fourteen strains were tested for their growth-promoting and defense-eliciting potentials on durum wheat under greenhouse conditions, and for their in vitro biocontrol power against Fusarium culmorum, an ascomycete responsible for seedling blight, foot and root rot, and head blight diseases of wheat. We found that all the strains improved shoot and/or root biomass accumulation, with Bacillus mojavensis, Paenibacillus peoriae and Variovorax paradoxus showing the strongest promoting effects. These physiological effects were correlated with the plant growth-promoting traits of the bacterial endophytes, which produced indole-related compounds, ammonia, and hydrogen cyanide (HCN), and solubilized phosphate and zinc. Likewise, plant defense accumulations were modulated lastingly and systematically in roots and leaves by all the strains. Testing in vitro antagonism against F. culmorum revealed an inhibition activity exceeding 40% for five strains: Bacillus cereus, Paenibacillus peoriae, Paenibacillus polymyxa, Pantoae agglomerans, and Pseudomonas aeruginosa. These strains exhibited significant inhibitory effects on F. culmorum mycelia growth, sporulation, and/or macroconidia germination. P. peoriae performed best, with total inhibition of sporulation and macroconidia germination. These finding highlight the effectiveness of root bacterial endophytes in promoting plant growth and resistance, and in controlling phytopathogens such as F. culmorum. This is the first report identifying 14 bacterial candidates as potential agents for the control of F. culmorum, of which Paenibacillus peoriae and/or its intracellular metabolites have potential for development as biopesticides.
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Affiliation(s)
- Mouadh Saadaoui
- Université Clermont Auvergne, INRAE, PIAF, Clermont-Ferrand, France
- Université de Tunis El Manar, Campus Universitaire Farhat Hached, Tunis, Tunisia
- Field Crops Laboratory, National Institute for Agricultural Research of Tunisia, Tunisia, Tunisia
| | - Mohamed Faize
- Laboratory of Plant Biotechnology, Ecology and Ecosystem Valorization CNRST-URL10, Faculty of Sciences, University Chouaib Doukkali, El Jadida, Morocco
| | - Aicha Rifai
- Laboratory of Plant Biotechnology, Ecology and Ecosystem Valorization CNRST-URL10, Faculty of Sciences, University Chouaib Doukkali, El Jadida, Morocco
| | - Koussa Tayeb
- Laboratory of Plant Biotechnology, Ecology and Ecosystem Valorization CNRST-URL10, Faculty of Sciences, University Chouaib Doukkali, El Jadida, Morocco
| | - Noura Omri Ben Youssef
- Field Crops Laboratory, National Institute for Agricultural Research of Tunisia, Tunisia, Tunisia
- National Institute of Agronomy of Tunisia, Tunis, Tunisia
| | - Mohamed Kharrat
- Field Crops Laboratory, National Institute for Agricultural Research of Tunisia, Tunisia, Tunisia
| | | | - Hatem Chaar
- Field Crops Laboratory, National Institute for Agricultural Research of Tunisia, Tunisia, Tunisia
- National Institute of Agronomy of Tunisia, Tunis, Tunisia
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Yao S, Zhou B. Enhancing phytoremediation of cadmium and arsenic in alkaline soil by Miscanthus sinensis: A study on the synergistic effect of endophytic fungi and biochar. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 923:171458. [PMID: 38438035 DOI: 10.1016/j.scitotenv.2024.171458] [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: 11/17/2023] [Revised: 02/25/2024] [Accepted: 03/01/2024] [Indexed: 03/06/2024]
Abstract
Endophytic fungi (Trichoderma harzianum (TH) and Paecilomyces lilacinus (PL)) showed potential in phytoremediation for soils contaminated with potentially toxic elements (PTEs (Cd and As)). However, their efficiency is limited, which can be enhanced with the assistance of biochar. This study sought to investigate the effects of TH at two application rates (T1: 4.5 g m-2; T2: 9 g m-2), PL at two application rates (P1: 4.5 g m-2; P2: 9 g m-2), in conjunction with biochar (BC) at 750 g m-2 on the phytoremediation of PTEs by Miscanthus sinensis (M. sinensis). The results showed that the integration of endophytic fungi with biochar notably enhanced the accumulation of Cd and As in M. sinensis by 59.60 %-114.38 % and 49.91 %-134.60 %, respectively. The treatments T2BC and P2BC emerged as the most effective. Specifically, the P2BC treatment significantly enhanced the soil quality index (SQI > 0.55) across all examined soil layers, markedly improving the overall soil condition. It was observed that T2BC treatment could elevate the SQI to 0.56 at the 0-15 cm depth. The combined amendment shifted the primary influences on plant PTEs accumulation from fungal diversity and soil nutrients to bacterial diversity and the availability of soil PTEs. Characteristic microorganisms identified under the combined treatments were RB41 and Pezizaceae, indicating an increase in both bacterial and fungal diversity. This combination altered the soil microbial community, influencing key metabolic pathways. The combined application of PL and biochar was superior to the TH and biochar combination for the phytoremediation of M. sinensis. This approach not only enhanced the phytoremediation potential but also positively impacted soil health and microbial community, suggesting that the synergistic use of endophytic fungi and biochar is an effective strategy for improving the condition of alkaline soils contaminated with PTEs.
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Affiliation(s)
- Shaoxiong Yao
- State Key Laboratory of Eco-Hydraulics in Northwest Arid Region of China, Xi'an University of Technology, Xi'an 710048, China
| | - Beibei Zhou
- State Key Laboratory of Eco-Hydraulics in Northwest Arid Region of China, Xi'an University of Technology, Xi'an 710048, China.
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Yousfi S, Krier F, Deracinois B, Steels S, Coutte F, Frikha-Gargouri O. Characterization of Bacillus velezensis 32a metabolites and their synergistic bioactivity against crown gall disease. Microbiol Res 2024; 280:127569. [PMID: 38103466 DOI: 10.1016/j.micres.2023.127569] [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: 10/14/2023] [Revised: 11/22/2023] [Accepted: 12/06/2023] [Indexed: 12/19/2023]
Abstract
Crown gall disease caused by Agrobacterium tumefaciens is considered to be the main bacterial threat of stone fruit plants in Mediterranean countries. In a previous study, Bacillus velezensis strain 32a was isolated from Tunisian rhizosphere soil and revealed high antagonistic potential against A. tumefaciens strains. In order to better characterize the antagonistic activity of this strain against this important plant pathogen, the production of secondary metabolites was analyzed using liquid chromatography coupled with mass spectrometry. The results revealed the production of different compounds identified as surfactins, fengycins, iturins and bacillibactin belonging to the lipopeptide group, three polyketides (macrolactins, oxydifficidin and bacillaenes), bacilysin and its chlorinated derivative; chlorotetaine. The involvement of lipopeptides in this antagonistic activity was ruled out by performing agar and broth dilution tests with pure molecules. Thus, the construction of B. velezensis 32a mutants defective in polyketides and bacilysin biosynthesis and their antagonistic activity was performed and compared to a set of derivative mutants of a comparable strain, B. velezensis GA1. The defective difficidin mutants (△dfnA and △dfnD) were unable to inhibit the growth of A. tumefaciens, indicating the high-level contribution of difficidin in the antagonism process. While the macrolactin deficient mutant (∆mlnA) slightly decreased the activity, suggesting a synergetic effect with difficidin. Remarkably, the mutant △dhbC only deficient in bacillibactin production showed significant reduction in its capacity to inhibit the growth of Agrobacterium.Taken collectively, our results showed the strong synergetic effect of difficidin and macrolactins and the significant implication of siderophore to manage crown gall disease.
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Affiliation(s)
- Sarra Yousfi
- Laboratory of Biopesticides, Center of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia; Université de Lille, UMRt BioEcoAgro 1158-INRAE, Equipe Métabolites Secondaires d'Origine Microbienne, Institut Charles Viollette, F-59000 Lille, France
| | - François Krier
- Université de Lille, UMRt BioEcoAgro 1158-INRAE, Equipe Métabolites Secondaires d'Origine Microbienne, Institut Charles Viollette, F-59000 Lille, France
| | - Barbara Deracinois
- Université de Lille, UMRt BioEcoAgro 1158-INRAE, Equipe Métabolites Secondaires d'Origine Microbienne, Institut Charles Viollette, F-59000 Lille, France
| | - Sébastien Steels
- Université de Liège, UMRt BioEcoAgro 1158-INRAE, équipe Métabolites Secondaires d'Origine Microbienne, TERRA Teaching and Research Centre, Gembloux Agro-Bio Tech, B-5030 Gembloux, Belgium
| | - François Coutte
- Université de Lille, UMRt BioEcoAgro 1158-INRAE, Equipe Métabolites Secondaires d'Origine Microbienne, Institut Charles Viollette, F-59000 Lille, France.
| | - Olfa Frikha-Gargouri
- Laboratory of Biopesticides, Center of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia
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Feng Y, Zhang Y, Shah OU, Luo K, Chen Y. Isolation and Identification of Endophytic Bacteria Bacillus sp. ME9 That Exhibits Biocontrol Activity against Xanthomonas phaseoli pv. manihotis. BIOLOGY 2023; 12:1231. [PMID: 37759630 PMCID: PMC10525512 DOI: 10.3390/biology12091231] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2023] [Revised: 09/01/2023] [Accepted: 09/07/2023] [Indexed: 09/29/2023]
Abstract
In recent years, the bacterial blight of cassava has caused substantial economic losses to the Chinese cassava industry. Chemical control methods have become the primary approach to control this disease; however, their widespread usage and harmful residues have raised concerns about environmental pollution. In order to avoid this, it is urgent to seek a green ecological method to prevent and control it. Biological control through the utilization of microorganisms not only effectively inhibits the disease, but also gives consideration to environmental friendliness. Therefore, investigating an endophytic biological control method for cassava bacterial blight is of great importance. In this study, cassava leaf tissues were used as test specimens in order to isolate endophytic bacteria by using dilution and separation methods. Bacillus ME9, derived from cassava endophytic bacteria, exhibits good antagonism against a diverse range of pathogens, including Xpm11. Its genome consists of a series of genes encoding antibacterial lipopeptides, which may be directly related to its antibacterial capabilities. Furthermore, inoculation resulted in a substantial change in the diversity of the endophytic bacterial community, characterized by improved diversity, and displayed an obvious inhibition of pathogenic bacterial growth, demonstrating successful colonization within plants. The results laid a foundation and provided theoretical support for the development and utilization of cassava endophytic bacterial diversity and endogenous disease control strategies.
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Affiliation(s)
- Yating Feng
- Sanya Nanfan Research Institute, Hainan University, Sanya 572025, China (O.U.S.)
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
| | - Yijie Zhang
- Sanya Nanfan Research Institute, Hainan University, Sanya 572025, China (O.U.S.)
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
| | - Obaid Ullah Shah
- Sanya Nanfan Research Institute, Hainan University, Sanya 572025, China (O.U.S.)
- Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, School of Tropical Crops, Hainan University, Haikou 570228, China
| | - Kai Luo
- Sanya Nanfan Research Institute, Hainan University, Sanya 572025, China (O.U.S.)
| | - Yinhua Chen
- Sanya Nanfan Research Institute, Hainan University, Sanya 572025, China (O.U.S.)
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
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Zhou Y, Liu H, Wu T, Zheng Y, Wang R, Xue D, Yan Q, Yuan X, Chen X. Screening of Reference Genes under Biotic Stress and Hormone Treatment of Mung Bean ( Vigna radiata) by Quantitative Real-Time PCR. Genes (Basel) 2023; 14:1739. [PMID: 37761879 PMCID: PMC10530681 DOI: 10.3390/genes14091739] [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: 08/04/2023] [Revised: 08/26/2023] [Accepted: 08/29/2023] [Indexed: 09/29/2023] Open
Abstract
Mung bean (Vigna radiata) production has been greatly threatened by numerous diseases. Infection with these pathogens causes extensive changes in gene expression and the activation of hormone signal transduction. Quantitative real-time PCR (qRT-PCR) is the most common technique used for gene expression validation. Screening proper reference genes for mung bean under pathogen infection and hormone treatment is a prerequisite for ensuring the accuracy of qRT-PCR data in mung bean disease-resistance research. In this study, six candidate reference genes (Cons4, ACT, TUA, TUB, GAPDH, and EF1α) were selected to evaluate the expression stability under four soil-borne disease pathogens (Pythium myriotylum, Pythium aphanidermatum, Fusarium oxysporum, and Rhizoctonia solani) and five hormone treatments (SA, MeJA, ETH, ABA, and GA3). In the samples from different treatments, the Ct value distribution of the six candidate reference genes was different. Under the condition of hormone treatment, the Ct value ranged from a minimum of 17.87 for EF1α to a maximum of 29.63 for GAPDH. Under the condition of pathogen infection, the Ct value ranged from a minimum of 19.43 for EF1α to a maximum of 31.82 for GAPDH. After primer specificity analysis, it was found that GAPDH was not specific, so the five reference genes Cons4, ACT, TUA, TUB, and EF1α were used in subsequent experiments. The software products GeNorm, NormFinder, BestKeeper and RefFinder were used for qRT-PCR data analysis. In general, the best candidates reference genes were: TUA for SA, ABA, GA3, and Pythium myriotylum treatment; TUB for ETH treatment; ACT for MeJA and Fusarium oxysporum treatment; and EF1α for Pythium aphanidermatum and Rhizoctonia solani treatment. The most stably expressed genes in all samples were TUA, while Cons4 was the least stable reference gene. Finally, the reliability of the reference gene was further validated by analysis of the expression profiles of four mung bean genes (Vradi0146s00260, Vradi0158s00480, Vradi07g23860, and Vradi11g03350) selected from transcriptome data. Our results provide more accurate information for the normalization of qRT-PCR data in mung bean response to pathogen interaction.
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Affiliation(s)
- Yanyan Zhou
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China (H.L.)
| | - Huan Liu
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China (H.L.)
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
| | - Ting Wu
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China (H.L.)
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
| | - Yu Zheng
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
- School of Life Sciences, Jiangsu University, Zhenjiang 212013, China
| | - Ruimin Wang
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
| | - Dong Xue
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
| | - Qiang Yan
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
| | - Xingxing Yuan
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China (H.L.)
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
| | - Xin Chen
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China (H.L.)
- Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China
- School of Life Sciences, Jiangsu University, Zhenjiang 212013, China
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12
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Li L, Wang Y, Yu C, Li S, Lin T, Han S, Zhu T, Li S. Seasonal changes in the abundance Fusarium proliferatium, microbial endophytes and nutrient levels in the roots of hybrid bamboo Bambusa pervariabilis × Dendrocalamopsis grandis. FRONTIERS IN PLANT SCIENCE 2023; 14:1185449. [PMID: 37538062 PMCID: PMC10394707 DOI: 10.3389/fpls.2023.1185449] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Accepted: 07/04/2023] [Indexed: 08/05/2023]
Abstract
Plant root pathogens invade the soil around plant roots, disturbing the systemic balance, reducing plant defenses, and causing severe disease. At present, there are few studies on the severity of plant diseases caused by pathogen invasion in different seasons and how pathogens affect root microecology. In this study, we compared the levels of nutrients in the root tissues of the two groups of plants. We used 16S and ITS amplicon sequencing with Illumina NovaSeq 6000 to compare seasonal changes in the composition and structure of microbial communities from healthy roots of bamboo Bambusa pervariabilis × Dendrocalamopsis grandis and roots infected by the soilborne pathogen Fusarium proliferatum. We have found that the invasion of the pathogen led to a substantial decrease in nutrient elements in bamboo roots, except for nitrogen. The pathogen presence correlated with seasonal changes in the bamboo root microbiome and decreased bacterial richness in diseased plants. The root microbial community structure of healthy plants was more stable than that of their diseased counterparts. Furthermore, we identified the lesion area and relative abundance of F. proliferatum were significant predictors of disease progression. The potassium tissue content and the disease lesion area were identified as factors linked with the observed changes in the bamboo root microbiome. This study provides a theoretical foundation for understanding the seasonal dynamics F. proliferatum, an economically important soilborne pathogen of hybrid bamboo grown in Sichuan Province, China.
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Affiliation(s)
- Lin Li
- College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Yaxuan Wang
- College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Cailin Yu
- College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Shuying Li
- College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Tiantian Lin
- College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Shan Han
- College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Tianhui Zhu
- College of Forestry, Sichuan Agricultural University, Chengdu, China
| | - Shujiang Li
- College of Forestry, Sichuan Agricultural University, Chengdu, China
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River, Chengdu, China
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Kang K, Niu Z, Zhang W, Wei S, Lv Y, Hu Y. Antagonistic Strain Bacillus halotolerans Jk-25 Mediates the Biocontrol of Wheat Common Root Rot Caused by Bipolaris sorokiniana. PLANTS (BASEL, SWITZERLAND) 2023; 12:828. [PMID: 36840176 PMCID: PMC9965128 DOI: 10.3390/plants12040828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/12/2023] [Revised: 02/03/2023] [Accepted: 02/04/2023] [Indexed: 06/18/2023]
Abstract
Common root rot caused by Bipolaris sorokiniana infestation in wheat is one of the main reasons for yield reduction in wheat crops worldwide. The bacterium strain JK-25 used in the current investigation was isolated from wheat rhizosphere soil and was later identified as Bacillus halotolerans based on its morphological, physiological, biochemical, and molecular properties. The strain showed significant antagonism to B. sorokiniana, Fusarium oxysporum, Fusarium graminearum, and Rhizoctonia zeae. Inhibition of B. sorokiniana mycelial dry weight and spore germination rate by JK-25 fermentation supernatant reached 60% and 88%, respectively. The crude extract of JK-25 was found, by Matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF-MS), to contain the surfactin that exerted an inhibitory effect on B. sorokiniana. The disruption of mycelial cell membranes was observed under laser scanning confocal microscope (LSCM) after treatment of B. sorokiniana mycelium with the crude extract. The antioxidant enzyme activity of B. sorokiniana was significantly reduced and the oxidation product malondialdehyde (MDA) content increased after treatment with the crude extract. The incidence of root rot was significantly reduced in pot experiments with the addition of JK-25 culture fermentation supernatant, which had a significant biological control effect of 72.06%. Its ability to produce siderophores may help to promote wheat growth and the production of proteases and pectinases may also be part of the strain's role in suppressing pathogens. These results demonstrate the excellent antagonistic effect of JK-25 against B. sorokiniana and suggest that this strain has great potential as a resource for biological control of wheat root rot strains.
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Shakirov ZS, Mamanazarova КS, Sherembetov AG, Azimova NS. Antifungal properties of rhizobacterial strains in relation to fungi of agricultural crops. BIOSYSTEMS DIVERSITY 2022. [DOI: 10.15421/012242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/11/2023] Open
Abstract
On earth, pathogenic fungal infections are considered one of the most common crop problems, accounting for more than 80% of all plant diseases. The production of biologics and the fight against pathogens are highly relevant priorities. In this article, rhizosphere cultures isolated from wheat root tubers have been studied in detail for the development of pathogenic fungi. In the course of research, the inhibitory properties of rhizobacteria against common pathogenic fungi were studied. The main mechanism of antagonism is that bacteria directly affect phytopathogens or increase plant resistance to diseases by enhancing immunity. The antagonistic activity of rhizospheric microorganisms was studied and the level of their action was determined. It has been established that wheat rhizospheric bacteria Escherichia hermannii, Enterobacter cloacae and Rahnella aquatilis affect the development of pathogens that cause Alternaria and Fusarium wilt. In the experiments, 46 strains of rhizobacteria of the genus Enterobacter (strain E. cloacae CCIM1022), Rahnella (R. aquatilis CCIM1023), Pantoea, Pseudomonas, Bacillus, Escherichia were isolated and the effectiveness of their antifungal properties on the reproduction of pathogenic fungi was tested. Pathogenic fungi Alternaria, Fusarium, causing diseases of vegetable and melon crops, were isolated from host plants. It is noted that rhizobacteria have a negative impact and block the development of pure cultures of fungi isolated from tomatoes, zucchini, figs, melons, causing fungal diseases on cups. The 46 isolated and tested strains of rhizobacteria effectively inhibited the development of pathogenic fungi. Of these, Rahnella is the first bacterium studied for this purpose, and has been given great importance in experiments to block the development of Alternaria (A. alternata CCIM 1021). The causative agents of alternariosis are widely open. However, large-scale analysis of their presence and control of pathogens has always been difficult. In experiments to combat the pathogen in the laboratory, a new agent was used to spread nitrogen-fixing bacteria.
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