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Ercole TG, Kava VM, Petters-Vandresen DAL, Nassif Gomes ME, Aluizio R, Ribeiro RA, Hungria M, Galli LV. Unlocking the growth-promoting and antagonistic power: A comprehensive whole genome study on Bacillus velezensis strains. Gene 2024; 927:148669. [PMID: 38866259 DOI: 10.1016/j.gene.2024.148669] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2024] [Revised: 05/14/2024] [Accepted: 06/06/2024] [Indexed: 06/14/2024]
Abstract
Bacillus species are extensively documented as plant growth-promoting rhizobacteria, contributing significantly to the enhancement of soil fertility, nutrient recycling, and the control of phytopathogens. Utilizing them as biocontrol agents represents an environmentally friendly strategy, particularly within the rhizospheric community. This study presents the comprehensive genome sequences of three B. velezensis strains (LGMB12, LGMB319, and LGMB426) which were previously isolated from root samples of maize (Zea mays L.), along with a type strain FZB42. The research assesses the capability of the three strains for antagonizing fungi, specifically Fusarium graminearum, Fusarium verticillioides, Colletotrichum graminicola, and Stenocarpella sp. In paired cultures involving maize fungi, treatments containing bacteria B. velezensis exhibited statistically significant differences compared to both negative and positive treatments in terms of antagonism. Furthermore, genome mining techniques were employed to explore their inherent antagonistic potential. The assembly revealed that strains LGMB12, LGMB319, LGMB426, and FZB42 exhibit genome sizes of 4,187,541 bp, 4,244,954 bp, 3,976,537 bp, and 3,990,518 respectively. Their respective G + C content stands at 46.42 %, 46.50 %, 46.51 %, and 46.38 %. Moreover, the genomes present multiple gene clusters responsible for the synthesis of secondary metabolites and carbohydrate-active enzymes (CAZymes). These clusters highlight a diverse array of antibacterial and antifungal properties, complemented by numerous plant growth-promoting genes. These results highlight the potential of B. velezensis LGMB12, LGMB319, and LGMB426 strains as biocontrol and plant growth promotion agents, being promising candidates for further studies in agricultural production, including field trials.
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Affiliation(s)
- Tairine Graziella Ercole
- Department of Genetics, Laboratory of Genetics of Microorganisms, Federal University of Parana, Av. Coronel Francisco Heráclito dos Santos, 100, 81531-980 Curitiba, PR, Brazil.
| | - Vanessa Merlo Kava
- Department of Genetics, Laboratory of Genetics of Microorganisms, Federal University of Parana, Av. Coronel Francisco Heráclito dos Santos, 100, 81531-980 Curitiba, PR, Brazil.
| | - Desirrê Alexia Lourenço Petters-Vandresen
- Department of Genetics, Laboratory of Genetics of Microorganisms, Federal University of Parana, Av. Coronel Francisco Heráclito dos Santos, 100, 81531-980 Curitiba, PR, Brazil.
| | - Maria Eduarda Nassif Gomes
- Pontifical Catholic University of Paraná, Imaculada Conceição St., 1155, 80215-901 Curitiba, PR, Brazil.
| | - Rodrigo Aluizio
- Department of Genetics, Laboratory of Genetics of Microorganisms, Federal University of Parana, Av. Coronel Francisco Heráclito dos Santos, 100, 81531-980 Curitiba, PR, Brazil.
| | - Renan Augusto Ribeiro
- Conselho Nacional de Desenvolvimento Científico e Tecnológico, SHIS QI 1 Conjunto B, Blocos A, B, C e D, Lago Sul, 71605-001 Brasília, Distrito Federal, Brazil.
| | | | - Lygia Vitoria Galli
- Department of Genetics, Laboratory of Genetics of Microorganisms, Federal University of Parana, Av. Coronel Francisco Heráclito dos Santos, 100, 81531-980 Curitiba, PR, Brazil.
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Tran DM, Nguyen DS, Nguyen TH, Tran TPH, Nguyen AD. Shotgun metagenomic dataset of root endophytic microbiome of citrus ( Citrus nobilis L.). Data Brief 2024; 56:110777. [PMID: 39211485 PMCID: PMC11357868 DOI: 10.1016/j.dib.2024.110777] [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: 05/22/2024] [Revised: 06/11/2024] [Accepted: 07/22/2024] [Indexed: 09/04/2024] Open
Abstract
Citrus (Citrus nobilis L.) is one of the main fruit crops in Dak Lak Province of Vietnam; however, a dataset on the endophytic microbiome of this plant has yet to be discovered. This article presented the endophytic microbial dataset from roots of healthy Citrus nobilis L. collected in Dak Lak for the first time. We found that 4 kingdoms, 30 phyla, 58 classes, 125 orders, 242 families, 722 genera, and 1637 species of endophytic microorganisms were identified from the sample. Actinomycetota was shown to be the main phylum (64.36 %) and biosynthesis to be the most abundant function (55.64 %) of the endophytic microbial community. Data provided insights into the composition and functional diversity of the Citrus nobilis L. endophytic microbiome, especially novel microbial resources. They could be used for the next works towards applying the endophytic microbiome for sustainable citrus production.
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Affiliation(s)
- Dinh Minh Tran
- Institute of Biotechnology and Environment, Tay Nguyen University, Buon Ma Thuot, Dak Lak 630000, Vietnam
| | - Dinh Sy Nguyen
- Faculty of Natural Science and Technology, Tay Nguyen University, Buon Ma Thuot, Dak Lak 630000, Vietnam
| | - Thi Huyen Nguyen
- Institute of Biotechnology and Environment, Tay Nguyen University, Buon Ma Thuot, Dak Lak 630000, Vietnam
| | - Thi Phuong Hanh Tran
- Faculty of Natural Science and Technology, Tay Nguyen University, Buon Ma Thuot, Dak Lak 630000, Vietnam
| | - Anh Dzung Nguyen
- Institute of Biotechnology and Environment, Tay Nguyen University, Buon Ma Thuot, Dak Lak 630000, Vietnam
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Abdo AI, Li Y, Shi Z, El-Saadony MT, Alkahtani AM, Chen Y, Wang X, Zhang J, Wei H. Biochar of invasive plants alleviated impact of acid rain on soil microbial community structure and functionality better than liming. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 282:116726. [PMID: 39047360 DOI: 10.1016/j.ecoenv.2024.116726] [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: 03/23/2024] [Revised: 06/24/2024] [Accepted: 07/11/2024] [Indexed: 07/27/2024]
Abstract
Acid rain and invasive plants have quintessential adverse impacts on terrestrial ecosystems. As an environmentally safe method for disposal of invasive plants, we tested the effect of biochar produced from these plants in altering soil deterioration under acid rain as compared with lime. Given the impacts of the feedstock type and soil properties on the response of soil to the added biochar, we hypothesized that the microbial community and functions would respond differently to the charred invasive plants under acid rain. A pot experiment was conducted to examine the response of soil microbiomes and functions to the biochar produced from Blackjack (Biden Pilosa), Wedelia (Wedelia trilobata), and Bitter vine (Mikania micrantha Kunth), or quicklime (CaO) at a rate of 1 % (w/w) under acid rain. Like soil pH, the nutrient contents (nitrogen, phosphorus, and potassium), calcium, and cation exchange capacity (CEC) were important as dominant edaphic factors affecting soil microbial community and functionality. In this respect, lime decreased nutrients availability, driven by 11-fold, 44 %, and 2-fold increments in calcium content, pH, and C/N ratio. Meanwhile, biochar improved nutrients availability under acid rain owing to maintaining a neutral pH (∼6.5), increasing calcium (by only 2-fold), and improving CEC, water repellency, and aggregation while decreasing the C/N ratio and aluminum content. Unlike biochar, lime decreased the relative abundance of Nitrosomonadaceae (the dominant ammonia-oxidizing bacteria) while augmenting the relative abundance of some fungal pathogens such as Spizellomycetaceae and Sporormiaceae. Given the highest nitrogen and dissolved organic carbon content than other biochar types, Wedelia-biochar resulted in the greatest relative abundance of Nitrosomonadaceae; thus, the microbial carbon and nitrogen biomasses were maximized. This study outlined the responses of the soil biogeochemical properties and the related microbial community structure and functionality to the biochar produced from invasive plants under acid rain. This study suggests that biochar can replace lime to ameliorate the effects of acid rain on soil physical, chemical and biological properties.
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Affiliation(s)
- Ahmed I Abdo
- Department of Ecology, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Utilization and Conservation of Food and Medicinal Resources in Northern Region, Yingdong College of Biology and Agriculture, Shaoguan University, Shaoguan 512005, China; Soil Science Department, Faculty of Agriculture, Zagazig University, Zagazig 44519, Egypt
| | - Yazheng Li
- Department of Ecology, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Provincial Key Laboratory of Eco-circular Agriculture, South China Agricultural University, Guangzhou 510642, China; Guangdong Engineering Technology Research Centre of Modern Eco-agriculture and Circular Agriculture, Guangzhou 510642, China
| | - Zhaoji Shi
- Department of Ecology, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Provincial Key Laboratory of Eco-circular Agriculture, South China Agricultural University, Guangzhou 510642, China; Guangdong Engineering Technology Research Centre of Modern Eco-agriculture and Circular Agriculture, Guangzhou 510642, China
| | - Mohamed T El-Saadony
- Department of Agricultural Microbiology, Faculty of Agriculture, Zagazig University, Zagazig 44511, Egypt
| | - Abdullah M Alkahtani
- Department of Microbiology & Clinical Parasitology, College of Medicine, King Khalid University, Abha, Saudi Arabia
| | - Yongjian Chen
- Department of Ecology, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Provincial Key Laboratory of Eco-circular Agriculture, South China Agricultural University, Guangzhou 510642, China; Guangdong Engineering Technology Research Centre of Modern Eco-agriculture and Circular Agriculture, Guangzhou 510642, China
| | - Xiaohui Wang
- Department of Ecology, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Utilization and Conservation of Food and Medicinal Resources in Northern Region, Yingdong College of Biology and Agriculture, Shaoguan University, Shaoguan 512005, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Provincial Key Laboratory of Eco-circular Agriculture, South China Agricultural University, Guangzhou 510642, China; Guangdong Engineering Technology Research Centre of Modern Eco-agriculture and Circular Agriculture, Guangzhou 510642, China
| | - Jiaen Zhang
- Department of Ecology, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Provincial Key Laboratory of Eco-circular Agriculture, South China Agricultural University, Guangzhou 510642, China; Guangdong Engineering Technology Research Centre of Modern Eco-agriculture and Circular Agriculture, Guangzhou 510642, China.
| | - Hui Wei
- Department of Ecology, College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangdong Provincial Key Laboratory of Eco-circular Agriculture, South China Agricultural University, Guangzhou 510642, China; Guangdong Engineering Technology Research Centre of Modern Eco-agriculture and Circular Agriculture, Guangzhou 510642, China
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da Costa Soares S, Vezzani FM, Favaretto N, Auler AC, da Silva Coelho I, de Sousa Pires A, Cruz LM, de Souza EM, Barth G. Effect of long-term liquid dairy manure application on activity and structure of bacteria and archaea in no-till soils depends on plant in development. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024:10.1007/s11356-024-34762-0. [PMID: 39210225 DOI: 10.1007/s11356-024-34762-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Accepted: 08/16/2024] [Indexed: 09/04/2024]
Abstract
This study aimed to evaluate the impact of long-term liquid dairy manure (LDM) application on the activity and structure of soil bacterial and archaea communities in two cropping seasons over 1 year of a no-till crop rotation system. The experiment was run in a sandy clay loam texture Oxisol, in Brazil, including LDM doses of 60, 120, and 180 m3 ha-1 year-1, installed in 2005. Soil sampling was conducted during spring 2018 and autumn 2019 at 0-10-cm depth. Microbial biomass carbon and nitrogen, 16S rRNA gene sequencing, microbial respiration and quotient were performed. Over the 14-year period, LDM application increased soil microbial community activity. Analysis of 16S rRNA gene sequencing revealed dominance by Proteobacteria, Acidobacteria, and Actinobacteria phyla (67% in spring and 70% in autumn). Genera Pirulla and Nitrososphaera showed enrichment at LDM doses of 120 and 180 m3 ha-1 year-1 doses, respectively. During spring, following black oat cropping, shifts in the relative abundance of Bacteroidetes, Proteobacteria, Firmicutes, Gemmatimonadetes, Verrucomicrobia, Chloroflexi, Actinobacteria, and AD3 phyla were observed due to LDM application, correlating with soil chemical indicators such as pH, K, Ca, Mn, and Zn. Our findings indicate that plant development strongly influences microbial community composition, potentially outweighing the impact of LDM. Our findings indicate that the application of liquid dairy manure alters the soil bacterial activity and community; however, this effect depends on the developing plant.
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Affiliation(s)
- Stallone da Costa Soares
- UFRRJ - Federal Rural University of Rio de Janeiro, Seropedica, Rio de Janeiro, Brazil.
- Dpto. de Microbiologia e Imunologia Veterinária/Instituto de Veterinária, Universidade Federal Rural Do Rio de Janeiro, Seropedica, Rio de Janeiro, 23890-000, Brazil.
| | - Fabiane Machado Vezzani
- DSEA-UFPR - Department of Soil Science and Agricultural Engineering, Federal University of Parana, Curitiba, Parana, Brazil
| | - Nerilde Favaretto
- DSEA-UFPR - Department of Soil Science and Agricultural Engineering, Federal University of Parana, Curitiba, Parana, Brazil
| | - André Carlos Auler
- DSEA-UFPR - Department of Soil Science and Agricultural Engineering, Federal University of Parana, Curitiba, Parana, Brazil
| | - Irene da Silva Coelho
- UFRRJ - Federal Rural University of Rio de Janeiro, Seropedica, Rio de Janeiro, Brazil
| | - Araceli de Sousa Pires
- BSC-UFPR - Biological Sciences Sector, Federal University of Parana, Curitiba, Parana, Brazil
| | - Leonardo Magalhães Cruz
- BSC-UFPR - Biological Sciences Sector, Federal University of Parana, Curitiba, Parana, Brazil
| | | | - Gabriel Barth
- Fundação ABC - Foundation for Agricultural Assistance and Technical Divulgation, Ponta Grossa, Parana, Brazil
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Babinska-Wensierska W, Motyka-Pomagruk A, Fondi M, Misztak AE, Mengoni A, Lojkowska E. Differences in the constituents of bacterial microbiota of soils collected from two fields of diverse potato blackleg and soft rot diseases incidences, a case study. Sci Rep 2024; 14:18802. [PMID: 39138329 PMCID: PMC11322387 DOI: 10.1038/s41598-024-69213-w] [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: 08/11/2023] [Accepted: 08/01/2024] [Indexed: 08/15/2024] Open
Abstract
The presence of bacteria from the Dickeya spp. and Pectobacterium spp. in farmlands leads to global crop losses of over $420 million annually. Since 1982, the scientists have started to suspect that the development of disease symptoms in crops might be inhibited by bacteria present in the soil. Here, we characterized in terms of physicochemical properties and the composition of bacterial soil microbiota two fields differing, on the basis of long-term studies, in the occurrence of Dickeya spp.- and Pectobacterium spp.-triggered infections. Majority, i.e. 17 of the investigated physicochemical features of the soils collected from two fields of either low or high potato blackleg and soft rot diseases incidences turned out to be similar, in contrast to the observed 4 deviations in relation to Mg, Mn, organic C and organic substance contents. By performing microbial cultures and molecular diagnostics-based identification, 20 Pectobacterium spp. strains were acquired from the field showing high blackleg and soft rot incidences. In addition, 16S rRNA gene amplicon sequencing followed by bioinformatic analysis revealed differences at various taxonomic levels in the soil bacterial microbiota of the studied fields. We observed that bacteria from the genera Bacillus, Rumeliibacillus, Acidobacterium and Gaiella turned out to be more abundant in the soil samples originating from the field of low comparing to high frequency of pectinolytic bacterial infections. In the herein presented case study, it is shown for the first time that the composition of bacterial soil microbiota varies between two fields differing in the incidences of soft rot and blackleg infections.
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Affiliation(s)
- Weronika Babinska-Wensierska
- Laboratory of Plant Protection and Biotechnology, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, University of Gdansk, 58 Abrahama, 80-307, Gdansk, Poland
- Research and Development Laboratory, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, University of Gdansk, 20 Podwale Przedmiejskie, 80-824, Gdansk, Poland
| | - Agata Motyka-Pomagruk
- Laboratory of Plant Protection and Biotechnology, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, University of Gdansk, 58 Abrahama, 80-307, Gdansk, Poland
- Research and Development Laboratory, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, University of Gdansk, 20 Podwale Przedmiejskie, 80-824, Gdansk, Poland
| | - Marco Fondi
- Laboratorio di Genetica Microbica, Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, Florence, Italy
| | - Agnieszka Emilia Misztak
- Génétique et Physiologie des Microalgues, InBioS/Phytosystems, Institut de Botanique, Université de Liège, Place du 20 Août 7, 4000, Liège, Belgium
| | - Alessio Mengoni
- Laboratorio di Genetica Microbica, Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, Florence, Italy
| | - Ewa Lojkowska
- Laboratory of Plant Protection and Biotechnology, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, University of Gdansk, 58 Abrahama, 80-307, Gdansk, Poland.
- Research and Development Laboratory, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, University of Gdansk, 20 Podwale Przedmiejskie, 80-824, Gdansk, Poland.
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Han J, Zhu J, Liu S, Sun X, Wang S, Miao G. Enhancing tomato disease resistance through endogenous antifungal proteins and introduced nematode-targeting dsRNA of biocontrol agent Bacillus velezensis HS-3. PEST MANAGEMENT SCIENCE 2024; 80:3839-3851. [PMID: 38511614 DOI: 10.1002/ps.8087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Revised: 02/21/2024] [Accepted: 03/21/2024] [Indexed: 03/22/2024]
Abstract
BACKGROUND As a type of biological control agent (BCA), Bacillus velezensis possesses the efficacy of inhibiting pathogenic microorganisms, promoting plant growth, and overcoming continuous cropping obstacles (CCOs). However, there is limited reporting on the optimization of the cultivation conditions for such biocontrol agents and their role as double-stranded RNA (dsRNA) delivery vectors. RESULTS In this study, a Bacillus velezensis strain HS-3 was isolated from the root zone of tomato plants with in vitro anti-Botrytis cinerea activity. The investigation into active compounds revealed that HS-3 predominantly employs proteins with molecular weights greater than 3 kDa for its antifungal activity. Liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis identified various proteases and chitosanase, further suggesting that HS-3 most likely employs these enzymes to degrade fungal cell walls for its antifungal effect. To optimize the production of extracellular proteins, fermentation parameters for HS-3 were systematically optimized, leading to an optimized medium (OP-M). HS-3 cultured in OP-M demonstrated enhanced capacity to assist tomato plants in withstanding CCOs. However, the presence of excessive nematodes in diseased soil resulted in the disease severity index (DSI) remaining high. An RNA interference mechanism was further introduced to HS-3, targeting the nematode tyrosine phosphatase (TP) gene. Ultimately, HS-3 expressing dsRNA of TP in OP-M effectively assisted tomatoes in mitigating CCOs, reducing DSI to 2.2% and 17.8% of the control after 45 and 90 days of growth, respectively. CONCLUSION The advantages of Bacillus velezensis in crop disease management and the mitigation of CCOs become even more pronounced when utilizing both optimized levels of endogenous enzymes and introduced nematode-targeting dsRNA. © 2024 Society of Chemical Industry.
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Affiliation(s)
- Juan Han
- Department of Bioengineering, Huainan Normal University, Huainan, China
- Institute of Digital Ecology and Health, Huainan Normal University, Huainan, China
| | - Jinchi Zhu
- Department of Bioengineering, Huainan Normal University, Huainan, China
| | - Shuyuan Liu
- Department of Bioengineering, Huainan Normal University, Huainan, China
| | - Xuehan Sun
- Department of Bioengineering, Huainan Normal University, Huainan, China
| | - Shunchang Wang
- Department of Bioengineering, Huainan Normal University, Huainan, China
- Key Laboratory of Bioresource and Environmental Biotechnology of Anhui Higher Education Institutes, Huainan Normal University, Huainan, China
| | - Guopeng Miao
- Department of Bioengineering, Huainan Normal University, Huainan, China
- Institute of Digital Ecology and Health, Huainan Normal University, Huainan, China
- Key Laboratory of Bioresource and Environmental Biotechnology of Anhui Higher Education Institutes, Huainan Normal University, Huainan, China
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de Oliveira-Paiva CA, Bini D, de Sousa SM, Ribeiro VP, Dos Santos FC, de Paula Lana UG, de Souza FF, Gomes EA, Marriel IE. Inoculation with Bacillus megaterium CNPMS B119 and Bacillus subtilis CNPMS B2084 improve P-acquisition and maize yield in Brazil. Front Microbiol 2024; 15:1426166. [PMID: 38989019 PMCID: PMC11233657 DOI: 10.3389/fmicb.2024.1426166] [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: 04/30/2024] [Accepted: 06/10/2024] [Indexed: 07/12/2024] Open
Abstract
Phosphorus (P) is a critical nutrient for plant growth, yet its uptake is often hindered by soil factors like clay minerals and metal oxides such as aluminum (Al), iron (Fe), and calcium (Ca), which bind P and limit its availability. Phosphate-solubilizing bacteria (PSB) have the unique ability to convert insoluble P into a soluble form, thereby fostering plant growth. This study aimed to assess the efficacy of inoculation of Bacillus megaterium B119 (rhizospheric) and B. subtilis B2084 (endophytic) via seed treatment in enhancing maize yield, grain P content, and enzyme activities across two distinct soil types in field conditions. Additionally, we investigated various mechanisms contributing to plant growth promotion, compatibility with commercial inoculants, and the maize root adhesion profile of these strains. During five crop seasons in two experimental areas in Brazil, Sete Lagoas-MG and Santo Antônio de Goiás-GO, single inoculations with either B119 or B2084 were implemented in three seasons, while a co-inoculation with both strains was applied in two seasons. All treatments received P fertilizer according to plot recommendations, except for control. Both the Bacillus strains exhibited plant growth-promoting properties relevant to P dynamics, including phosphate solubilization and mineralization, production of indole-3-acetic acid (IAA)-like molecules, siderophores, exopolysaccharides (EPS), biofilms, and phosphatases, with no antagonism observed with Azospirillum and Bradyrizhobium. Strain B2084 displayed superior maize root adhesion compared to B119. In field trials, single inoculations with either B119 or B2084 resulted in increased maize grain yield, with relative average productivities of 22 and 16% in Sete Lagoas and 6 and 3% in Santo Antônio de Goiás, respectively. Co-inoculation proved more effective, with an average yield increase of 24% in Sete Lagoas and 11% in Santo Antônio de Goiás compared to the non-inoculated control. Across all seasons, accumulated grain P content correlated with yield, and soil P availability in the rhizosphere increased after co-inoculation in Santo Antônio de Goiás. These findings complement previous research efforts and have led to the validation and registration of the first Brazilian inoculant formulated with Bacillus strains for maize, effectively enhancing and P grain content.
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Affiliation(s)
| | - Daniel Bini
- Microbiology Laboratory, Embrapa Milho e Sorgo, Sete Lagoas, Brazil
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Mahadeo K, Taïbi A, Meile JC, Côme B, Gauvin-Bialecki A, Boubakri H, Herrera-Belaroussi A, Kodja H. Exploring endophytic bacteria communities of Vanilla planifolia. BMC Microbiol 2024; 24:218. [PMID: 38902615 PMCID: PMC11188167 DOI: 10.1186/s12866-024-03362-w] [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: 09/27/2023] [Accepted: 06/04/2024] [Indexed: 06/22/2024] Open
Abstract
BACKGROUND Rhizosphere bacterial community and endophytes are now known to influence plant health and response to environmental stress. Very few studies have reported the diversity of endophytic bacterial communities of Vanilla planifolia and their potential roles in promoting plant growth or contributing to aromatic quality. RESULTS In this study, the composition and diversity of the Vanilla rhizosphere bacterial community were explored by analyzing rhizosphere soil and root tissue samples as well as green pods of three accessions of Vanilla planifolia grown on different types of substrates (compost and leaf litter). In addition, the endophytic bacterial diversity of roots and green pods as well as the evolution of endophytic bacteria after the curing process of vanilla green pods were analyzed based on a metabarcoding approach. The results showed that bacterial species richness and diversity were higher in the compost. The analysis of the soil bacterial composition displayed that Halomonas, Pseudoalteromonas, Enterobacter and Bradyrhizobium were the most abundant genera. Moreover, the results indicated that the soil bacterial community structure was linked to the host plant genotype. Regarding the roots endophytic bacteria composition, the genera Halomonas, Pseudoalteromonas, Bacillus and Carboxydocella genera were present in all samples, independently from the substrate nature. Several genera including Bacillus, Bradyrhizobium, Burkholderia and Halomonas were transmitted internally from the roots to the green pods. The curing process reduced the bacterial richness and bacterial diversity associated with the green pods. Halomonas, Pseudoalteromonas, Bacillus, and Carboxydocella are the dominant genera in the pods after the curing process. CONCLUSIONS This study provides an overview of changes of the bacterial communities dynamics especially endophytic in the roots and the green pods. It highlighted bacterial genera (Halomonas, Pseudoalteromonas, Bacillus, and Carboxydocella) potentially implicated in the formation of aroma compounds of vanilla beans.
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Affiliation(s)
- Keshika Mahadeo
- Laboratoire de Chimie et Biotechnologie des Produits Naturels, Faculté des Sciences et Technologies, Université de la Réunion, 15 Avenue René Cassin, CS 92 003, 97 744 St Denis Cedex 9, La Réunion, France
| | - Ahmed Taïbi
- QualiSud, Université de La Réunion, Univ Montpellier, Avignon Université, CIRAD, Institut Agro, Montpellier, France
| | - Jean-Christophe Meile
- QualiSud, Université de La Réunion, Univ Montpellier, Avignon Université, CIRAD, Institut Agro, Montpellier, France
| | - Bertrand Côme
- La Vanilleraie, 2 ter Domaine du Grand Hazier, allée Chassagne, Sainte Suzanne, Réunion, 97441, France
| | - Anne Gauvin-Bialecki
- Laboratoire de Chimie et Biotechnologie des Produits Naturels, Faculté des Sciences et Technologies, Université de la Réunion, 15 Avenue René Cassin, CS 92 003, 97 744 St Denis Cedex 9, La Réunion, France
| | - Hasna Boubakri
- Laboratoire d'Ecologie Microbienne, Université Claude Bernard Lyon 1, UMR CNRS 5557, UMR INRAE 1418, VetAgro Sup, Villeurbanne, 69622, France
| | - Aude Herrera-Belaroussi
- Laboratoire d'Ecologie Microbienne, Université Claude Bernard Lyon 1, UMR CNRS 5557, UMR INRAE 1418, VetAgro Sup, Villeurbanne, 69622, France
| | - Hippolyte Kodja
- QualiSud, Université de La Réunion, Univ Montpellier, Avignon Université, CIRAD, Institut Agro, Montpellier, France.
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Jibril SM, Yan W, Wang Y, Zhu X, Yunying Z, Wu J, Wang L, Zhang L, Li C. Highly diverse microbial community of regenerated seedlings reveals the high capacity of the bulb in lily, Lilium brownii. Front Microbiol 2024; 15:1387870. [PMID: 38903799 PMCID: PMC11188333 DOI: 10.3389/fmicb.2024.1387870] [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: 02/18/2024] [Accepted: 05/15/2024] [Indexed: 06/22/2024] Open
Abstract
Lily bulbs, which have both nutrient storage and reproductive functions, are a representative group of plants for studying the maintenance and transfer of plant-associated microbiomes. In this study, a comparison of the microbial composition of bulbs and their regenerated seedlings cultured under aseptic conditions, as well as subcultured seedlings that succeeded five times, was examined by amplicon sequencing. A total of 62 bacterial taxa and 56 fungal taxa were found to be transferred to the 5th generation in seedlings, which are the core microbiome of lily. After the regeneration of seedlings from bulbs, there was a significant increase in the number of detectable microbial species, and after 1, 3, and 5 successive generations, there was a decrease in the number of detectable species. Interestingly, some "new" microorganisms appeared in each generation of samples; for instance, 167 and 168 bacterial operational taxonomic units (OTUs) in the 3rd and 5th generations of seedlings that were not detected in either bulbs or seedlings of the previous two generations. These results suggest that bulbs can maintain a high diversity of microorganisms, including some with ultra-low abundance, and have a high transfer capacity to tuck shoots through continuous subculture. The diversity and maintenance of the microbiome can provide the necessary microbial reservoir support for regenerating seedlings. This habit of maintaining low abundance and high diversity may be biologically and ecologically critical for maintaining microbiome stability and function due to the sequestration nature of the plant.
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Affiliation(s)
- Sauban Musa Jibril
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Wu Yan
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Yi Wang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Xishen Zhu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Zhou Yunying
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Jie Wu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Ling Wang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Limin Zhang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
| | - Chengyun Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
- Yunnan-CABI Joint Laboratory for Integrated Prevention and Control of Transboundary Pests, Yunnan Agricultural University, Kunming, China
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Yadav A, Yadav R, Khare P. Impact of cultivating different Ocimum species on bioaerosol bacterial communities and functional genome at an agricultural site. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2024; 356:124289. [PMID: 38825219 DOI: 10.1016/j.envpol.2024.124289] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2024] [Revised: 05/10/2024] [Accepted: 05/30/2024] [Indexed: 06/04/2024]
Abstract
The effects of the surrounding environment on the bacterial composition of bioaerosol were well documented for polluted and contaminated sites. However, there is limited data on the impact of plant species, especially those that produce aromas, on bioaerosol composition at agricultural sites. Hence, the aim of this study is to evaluate the variability in bacterial communities present in bioaerosol samples collected from agricultural sites with aroma-producing crops. For this, PM2.5, PM10, and bioaerosol samples were collected from agricultural fields growing Ocimum [two varieties of O. sanctum (CIM-Aayu and CIM-Angana)] and O. kilimandscharicum (Kapoor), nearby traffic junctions and suburban areas. PM2.5 and PM10 concentrations at the agricultural site were in between the other two polluted sites. However, bioaerosol concentration was lower at agricultural sites than at other sites. The culturable bacteria Bacillus subtilis, Bacillus tequilensis, and Staphylococcus saprophyticus were more prevalent in agricultural sites than in other areas. However, the composition of non-culturable bacteria varied between sites and differed in three fields where Ocimum was cultivated. The CIM-Aayu cultivated area showed a high bacterial richness, lower Simpson and Shannon indices, and a distinctive metabolic profile. The sites CIM-Angana and CIM-Kapoor had a higher abundance of Aeromonas, while Pantoea and Pseudomonas were present at CIM-Aayu. Acinetobacter, Staphylococcus, and Bacillus were the dominant genera at the other two sites. Metabolic profiling showed that the CIM-Aayu site had a higher prevalence of pathways related to amino acid and carbohydrate metabolism and environmental information processing compared to other sites. The composition of bioaerosol among the three different Ocimum sites could be due to variations in the plant volatile and cross-feeding nature of bacterial isolates, which further needs to be explored.
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Affiliation(s)
- Anisha Yadav
- Crop Production and Protection Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow-226015, India
| | - Ranu Yadav
- Crop Production and Protection Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow-226015, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Puja Khare
- Crop Production and Protection Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow-226015, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
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11
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Baysal Ö, Studholme DJ, Jimenez-Quiros C, Tör M. Genome sequence of the plant-growth-promoting bacterium Bacillus velezensis EU07. Access Microbiol 2024; 6:000762.v3. [PMID: 38868377 PMCID: PMC11165630 DOI: 10.1099/acmi.0.000762.v3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2023] [Accepted: 04/17/2024] [Indexed: 06/14/2024] Open
Abstract
Many Gram-positive spore-forming rhizobacteria of the genus Bacillus show potential as biocontrol biopesticides that promise improved sustainability and ecological safety in agriculture. Here, we present a draft-quality genome sequence for Bacillus velezensis EU07, which shows growth-promotion in tomato plants and biocontrol against Fusarium head blight. We found that the genome of EU07 is almost identical to that of the commercially used strain QST713, but identified 46 single-nucleotide differences that distinguish these strains from each other. The availability of this genome sequence will facilitate future efforts to unravel the genetic and molecular basis for EU07's beneficial properties.
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Affiliation(s)
- Ömür Baysal
- Department of Molecular Biology and Genetics, Faculty of Science, Mugla Sitki Kocman University, 48000 Menteşe, Turkey
- Department of Biological Sciences, University of Worcester, Worcester, UK
| | | | | | - Mahmut Tör
- Department of Biological Sciences, University of Worcester, Worcester, UK
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12
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Arunrat N, Sansupa C, Sereenonchai S, Hatano R, Lal R. Fire-Induced Changes in Soil Properties and Bacterial Communities in Rotational Shifting Cultivation Fields in Northern Thailand. BIOLOGY 2024; 13:383. [PMID: 38927263 PMCID: PMC11200764 DOI: 10.3390/biology13060383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2024] [Revised: 05/22/2024] [Accepted: 05/22/2024] [Indexed: 06/28/2024]
Abstract
Fire is a common practice in rotational shifting cultivation (RSC), but little is known about the dynamics of bacterial populations and the impact of fire disturbance in northern Thailand. To fill the research gap, this study aims to investigate the dynamics of soil bacterial communities and examine how the soil's physicochemical properties influence the bacterial communities in RSC fields over a period of one year following a fire. Surface soil samples (0-2 cm depth) were collected from sites with 6 (RSC-6Y) and 12 (RSC-12Y) years of fallow in Chiang Mai Province, northern Thailand at six different time points: before burning, 5 min after burning (summer), 3 months after burning (rainy season), 6 months after burning (rainy season), 9 months after burning (winter), and 12 months after burning (summer). The results revealed a reduction in the soil bacterial communities' diversity and an increase in soil nutrient levels immediately after the fire. The fire significantly influenced the abundance of Firmicutes, Proteobacteria, Acidobacteria, and Planctomycetes, but not that of Actinobacteria. At the genus level, Bacillus, Conexibacter, and Chthoniobacter showed increased abundance following the fire. During the rainy season, a recovery in the abundance of the soil bacterial communities was observed, although soil nutrient availability declined. Soil physicochemical properties such as pH, organic matter, organic carbon, electrical conductivity, cation exchange capacity, nitrate-nitrogen, available phosphorus, exchangeable potassium, total nitrogen, bulk density, sand, and silt contents significantly influenced the composition of bacterial communities. Alpha diversity indices indicated a decrease in diversity immediately after burning, followed by an increase from the early rainy season until the summer season, indicating that seasonal variation affected the composition of the soil bacterial communities. After one year of burning, an increase in bacterial richness was observed, while the diversity of the bacterial communities reverted to pre-burning levels.
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Affiliation(s)
- Noppol Arunrat
- Faculty of Environment and Resource Studies, Mahidol University, Nakhon Pathom 73170, Thailand;
| | - Chakriya Sansupa
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand;
| | - Sukanya Sereenonchai
- Faculty of Environment and Resource Studies, Mahidol University, Nakhon Pathom 73170, Thailand;
| | - Ryusuke Hatano
- Laboratory of Soil Science, Research Faculty of Agriculture, Hokkaido University, Sapporo 060-8589, Japan;
| | - Rattan Lal
- CFAES Rattan Lal Center for Carbon Management and Sequestration, The Ohio State University, 2021 Coffey Rd, Columbus, OH 43210, USA;
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13
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Wang L, Cheng Y, Meftaul IM, Luo F, Kabir MA, Doyle R, Lin Z, Naidu R. Advancing Soil Health: Challenges and Opportunities in Integrating Digital Imaging, Spectroscopy, and Machine Learning for Bioindicator Analysis. Anal Chem 2024; 96:8109-8123. [PMID: 38490962 DOI: 10.1021/acs.analchem.3c05311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/17/2024]
Affiliation(s)
- Liang Wang
- Global Centre for Environmental Remediation, College of Engineering, Science and Environment, University of Newcastle, Callaghan, New South Wales 2308, Australia
- The Cooperative Research Centre for High-Performance Soils, Callaghan, New South Wales 2308, Australia
| | - Ying Cheng
- Global Centre for Environmental Remediation, College of Engineering, Science and Environment, University of Newcastle, Callaghan, New South Wales 2308, Australia
- The Cooperative Research Centre for High-Performance Soils, Callaghan, New South Wales 2308, Australia
| | - Islam Md Meftaul
- Global Centre for Environmental Remediation, College of Engineering, Science and Environment, University of Newcastle, Callaghan, New South Wales 2308, Australia
- The Cooperative Research Centre for High-Performance Soils, Callaghan, New South Wales 2308, Australia
| | - Fang Luo
- Ministry of Education Key Laboratory for Analytical Science of Food Safety and Biology, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fjian 350108, China
| | - Muhammad Ashad Kabir
- The Cooperative Research Centre for High-Performance Soils, Callaghan, New South Wales 2308, Australia
- School of Computing, Mathematics and Engineering, Charles Sturt University, Bathurst, New South Wales 2795, Australia
| | - Richard Doyle
- The Cooperative Research Centre for High-Performance Soils, Callaghan, New South Wales 2308, Australia
- Tasmanian Institute of Agriculture (TIA), University of Tasmania, Launceston, Tasmania 7250, Australia
| | - Zhenyu Lin
- Ministry of Education Key Laboratory for Analytical Science of Food Safety and Biology, Fujian Provincial Key Laboratory of Analysis and Detection for Food Safety, Fuzhou University, Fuzhou, Fjian 350108, China
| | - Ravi Naidu
- Global Centre for Environmental Remediation, College of Engineering, Science and Environment, University of Newcastle, Callaghan, New South Wales 2308, Australia
- The Cooperative Research Centre for High-Performance Soils, Callaghan, New South Wales 2308, Australia
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Liu J, Zhang S, Ma H, Huang J, Xiang M, Liu X. Inhibition and biocontrol potential of Ochrobactrum pseudogrignonense NC1 against four Phytophthora species. J GEN APPL MICROBIOL 2024; 69:327-334. [PMID: 37989280 DOI: 10.2323/jgam.2023.11.001] [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] [Indexed: 11/23/2023]
Abstract
Phytophthora species are highly destructive soilborne oomycetes pathogens that spread through infested soil and water. Ochrobactrum pseudogrignonense NC1 has been shown to inhibit plant parasitic nematodes via volatile organic compounds (VOCs). In this study, we investigated the inhibitory effect of O. pseudogrignonense NC1 against four Phytophthora species on agar plates and in vivo bioassay. We found that NC1 significantly inhibited the mycelial growth and zoospore production of all four species of Phytophthora in a dose-dependent manner. The half maximal inhibitory concentration (IC50) values for inhibition of mycelial growth (or zoospore production) were 26% (14.8%), 18.9% (14.2%), 20.3% (8.3%) and 46.9% (4%) for Phytophthora capsici Leonian, Phytophthora infestans, Phytophthora parasitica var. nicotiana and Phytophthora sojae, respectively. The biocontrol efficiency of NC1 was 46.3% in pepper seedlings against P. capsici, almost 100% in potato tubers against P. infestans, 60% in tomato leave against P. parasitica and 100% in soybean leave against P. sojae, respectively. Our findings suggest that O. pseudogrignonense NC1 has great potential as a biocontrol agent for managing Phytophthora diseases.
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Affiliation(s)
- Jinming Liu
- State Key Laboratory of Medicinal Chemical Biology, Key Laboratory of Molecular Mcrobiology and Technology of the Ministry of Education, Department of Microbiology, College of Life Sciences, Nankai University
| | - Shiyu Zhang
- State Key Laboratory of Medicinal Chemical Biology, Key Laboratory of Molecular Mcrobiology and Technology of the Ministry of Education, Department of Microbiology, College of Life Sciences, Nankai University
| | - Haikun Ma
- State Key Laboratory of Medicinal Chemical Biology, Key Laboratory of Molecular Mcrobiology and Technology of the Ministry of Education, Department of Microbiology, College of Life Sciences, Nankai University
| | - Jun Huang
- Shandong Yuanchen Biomedical Technology Group Co., Ltd
| | - Meichun Xiang
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences
| | - Xingzhong Liu
- State Key Laboratory of Medicinal Chemical Biology, Key Laboratory of Molecular Mcrobiology and Technology of the Ministry of Education, Department of Microbiology, College of Life Sciences, Nankai University
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15
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Harindintwali JD, Wen X, He C, Zhao M, Wang J, Dou Q, Xiang L, Fu Y, Alessi DS, Jiang X, Jiang J, Wang F. Synergistic mitigation of atrazine-induced oxidative stress on soybeans in black soil using biochar and Paenarthrobacter sp. AT5. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 359:120951. [PMID: 38669877 DOI: 10.1016/j.jenvman.2024.120951] [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: 02/28/2024] [Revised: 04/12/2024] [Accepted: 04/18/2024] [Indexed: 04/28/2024]
Abstract
Atrazine, a widely used herbicide in modern agriculture, can lead to soil contamination and adverse effects on specific crops. To address this, we investigated the efficacy of biochar loaded with Paenarthrobacter sp. AT5 (an atrazine-degrading bacterial strain) in mitigating atrazine's impact on soybeans in black soil. Bacterially loaded biochar (BBC) significantly enhanced atrazine removal rates in both unplanted and planted soil systems. Moreover, BBC application improved soybean biomass, photosynthetic pigments, and antioxidant systems while mitigating alterations in metabolite pathways induced by atrazine exposure. These findings demonstrate the effectiveness of BBC in reducing atrazine-induced oxidative stress on soybeans in black soil, highlighting its potential for sustainable agriculture.
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Affiliation(s)
- Jean Damascene Harindintwali
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Xin Wen
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Chao He
- Institute of Environment Pollution Control and Treatment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Mingxu Zhao
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China
| | - Jianhao Wang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China
| | - Qingyuan Dou
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Leilei Xiang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yuhao Fu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Daniel S Alessi
- Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, Canada
| | - Xin Jiang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Jiandong Jiang
- Department of Microbiology, College of Life Sciences, Nanjing Agricultural University, Key Laboratory of Agricultural and Environmental Microbiology, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
| | - Fang Wang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China; RWTH Aachen University, Institute for Environmental Research, WorringerWeg 1, 52074, Aachen, Germany.
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16
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Tang Y, Zhang Z, Tao C, Wang X. The mechanism of biofilm detachment in porous medium under flow field. BIOMICROFLUIDICS 2024; 18:034103. [PMID: 38737754 PMCID: PMC11080962 DOI: 10.1063/5.0203061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Accepted: 04/25/2024] [Indexed: 05/14/2024]
Abstract
Biofilms are communities formed by bacteria adhering to surfaces, widely present in porous medium, and their growth can lead to clogging. Our experiment finds that under certain flow conditions, biofilms detach in pores and form a dynamically changing flow path. We define detachment that occurs far from the boundary of the flow path (with a distance greater than 200 μm) as internal detachment and detachment that occurs at the boundary of the flow path as external detachment. To understand the mechanism of biofilm detachment, we study the detachment behaviors of the Bacillus subtilis biofilm in a porous medium in a microfluidic device, where Bacillus subtilis strain is triple fluorescent labeled, which can represent three main phenotypes during the biofilm formation: motile cells, matrix-producing cells, and spores. We find that slow small-scale internal detachment occurs in regions with very few motile cells and matrix-producing cells, and bacterial movement in these areas is disordered. The increase in the number of matrix-producing cells induces clogging, and after clogging, the rapid detachment of the bulk internal biofilm occurs due to the increased pressure difference at the inlet and outlet. When both internal and external detachments occur simultaneously, the number of matrix-producing cells in the internal detachment area is 2.5 times that in the external detachment area. The results indicate that biofilm detachment occurs in areas with fewer matrix-producing cells, as matrix-producing cells can help resist detachment by secreting extracellular polymeric substances (EPSs).
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Affiliation(s)
- Yangyang Tang
- School of Mechanical Engineering, University of Science and Technology Beijing, Beijing 100083, China
| | - Zheng Zhang
- School of Mechanical Engineering, University of Science and Technology Beijing, Beijing 100083, China
| | - Cong Tao
- School of Mechanical Engineering, University of Science and Technology Beijing, Beijing 100083, China
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17
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Yang D, Zhang X, Li Z, Chu R, Shah S, Wang X, Zhang X. Antagonistic effect of Bacillus and Pseudomonas combinations against Fusarium oxysporum and their effect on disease resistance and growth promotion in watermelon. J Appl Microbiol 2024; 135:lxae074. [PMID: 38632051 DOI: 10.1093/jambio/lxae074] [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: 10/04/2023] [Revised: 01/19/2024] [Accepted: 04/16/2024] [Indexed: 04/19/2024]
Abstract
AIMS We aimed to develop an effective bacterial combination that can combat Fusarium oxysporum infection in watermelon using in vitro and pot experiments. METHODS AND RESULTS In total, 53 strains of Bacillus and 4 strains of Pseudomonas were screened. Pseudomonas strains P3 and P4 and Bacillus strains XY-2-3, XY-13, and GJ-1-15 exhibited good antagonistic effects against F. oxysporum. P3 and P4 were identified as Pseudomonas chlororaphis and Pseudomonas fluorescens, respectively. XY-2-3 and GJ-1-15 were identified as B. velezensis, and XY-13 was identified as Bacillus amyloliquefaciens. The three Bacillus strains were antifungal, promoted the growth of watermelon seedlings and had genes to synthesize antagonistic metabolites such as bacilysin, surfactin, yndj, fengycin, iturin, and bacillomycin D. Combinations of Bacillus and Pseudomonas strains, namely, XY-2-3 + P4, GJ-1-15 + P4, XY-13 + P3, and XY-13 + P4, exhibited a good compatibility. These four combinations exhibited antagonistic effects against 11 pathogenic fungi, including various strains of F. oxysporum, Fusarium solani, and Rhizoctonia. Inoculation of these bacterial combinations significantly reduced the incidence of Fusarium wilt in watermelon, promoted plant growth, and improved soil nutrient availability. XY-13 + P4 was the most effective combination against Fusarium wilt in watermelon with the inhibition rate of 78.17%. The number of leaves; aboveground fresh and dry weights; chlorophyll, soil total nitrogen, and soil available phosphorus content increased by 26.8%, 72.12%, 60.47%, 16.97%, 20.16%, and 16.50%, respectively, after XY-13 + P4 inoculation compared with the uninoculated control. Moreover, total root length, root surface area, and root volume of watermelon seedlings were the highest after XY-13 + P3 inoculation, exhibiting increases by 265.83%, 316.79%, and 390.99%, respectively, compared with the uninoculated control. CONCLUSIONS XY-13 + P4 was the best bacterial combination for controlling Fusarium wilt in watermelon, promoting the growth of watermelon seedlings, and improving soil nutrient availability.
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Affiliation(s)
- Dongya Yang
- School of Wine and Horticulture, Ningxia University, Helanshan Xilu No. 489, Yinchuan 750021, China
| | - Xueqing Zhang
- School of Wine and Horticulture, Ningxia University, Helanshan Xilu No. 489, Yinchuan 750021, China
| | - Zhaoxuan Li
- School of Wine and Horticulture, Ningxia University, Helanshan Xilu No. 489, Yinchuan 750021, China
| | - Rui Chu
- School of Wine and Horticulture, Ningxia University, Helanshan Xilu No. 489, Yinchuan 750021, China
| | - Sadiq Shah
- Department of Food Science and Technology, Garden Campus, Abdul Wali Khan University, Mardan 23200, Pakistan
| | - Xiaozhuo Wang
- School of Wine and Horticulture, Ningxia University, Helanshan Xilu No. 489, Yinchuan 750021, China
| | - Xueyan Zhang
- School of Wine and Horticulture, Ningxia University, Helanshan Xilu No. 489, Yinchuan 750021, China
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18
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Li B, He X, Guo S, Li D, Wang Y, Meng X, Dai P, Hu T, Cao K, Wang S. Characterization of Bacillus amyloliquefaciens BA-4 and its biocontrol potential against Fusarium-related apple replant disease. FRONTIERS IN PLANT SCIENCE 2024; 15:1370440. [PMID: 38708392 PMCID: PMC11067707 DOI: 10.3389/fpls.2024.1370440] [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: 01/14/2024] [Accepted: 04/03/2024] [Indexed: 05/07/2024]
Abstract
Apple replant disease (ARD), caused by Fusarium pathogens, is a formidable threat to the renewal of apple varieties in China, necessitating the development of effective and sustainable control strategies. In this study, the bacterial strain BA-4 was isolated from the rhizosphere soil of healthy apple trees in a replanted orchard, demonstrating a broad-spectrum antifungal activity against five crucial apple fungal pathogens. Based on its morphology, physiological and biochemical traits, utilization of carbon sources, and Gram stain, strain BA-4 was tentatively identified as Bacillus amyloliquefaciens. Phylogenetic analysis using 16S rDNA and gyrB genes conclusively identified BA-4 as B. amyloliquefaciens. In-depth investigations into B. amyloliquefaciens BA-4 revealed that the strain possesses the capacity to could secrete cell wall degrading enzymes (protease and cellulase), produce molecules analogous to indole-3-acetic acid (IAA) and siderophores, and solubilize phosphorus and potassium. The diverse attributes observed in B. amyloliquefaciens BA-4 underscore its potential as a versatile microorganism with multifaceted benefits for both plant well-being and soil fertility. The extracellular metabolites produced by BA-4 displayed a robust inhibitory effect on Fusarium hyphal growth and spore germination, inducing irregular swelling, atrophy, and abnormal branching of fungal hyphae. In greenhouse experiments, BA-4 markedly reduced the disease index of Fusarium-related ARD, exhibiting protective and therapeutic efficiencies exceeding 80% and 50%, respectively. Moreover, BA-4 demonstrated plant-promoting abilities on both bean and Malus robusta Rehd. (MR) seedlings, leading to increased plant height and primary root length. Field experiments further validated the biocontrol effectiveness of BA-4, demonstrating its ability to mitigate ARD symptoms in MR seedlings with a notable 33.34% reduction in mortality rate and improved biomass. Additionally, BA-4 demonstrates robust and stable colonization capabilities in apple rhizosphere soil, particularly within the 10-20 cm soil layer, which indicates that it has long-term effectiveness potential in field conditions. Overall, B. amyloliquefaciens BA-4 emerges as a promising biocontrol agent with broad-spectrum antagonistic capabilities, positive effects on plant growth, and strong colonization abilities for the sustainable management of ARD in apple cultivation.
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Affiliation(s)
- Bo Li
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Institute of Agricultural Information and Economics, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, Hebei, China
| | - Xiaoxing He
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Saiya Guo
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Dongxu Li
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Yanan Wang
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Xianglong Meng
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Pengbo Dai
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Tongle Hu
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Keqiang Cao
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
| | - Shutong Wang
- College of Plant Protection, State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
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19
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Jiao W, Wen J, Li N, Ou T, Qiu C, Ji Y, Lin K, Liu X, Xie J. The biocontrol potentials of rhizospheric bacterium Bacillus velezensis K0T24 against mulberry bacterial wilt disease. Arch Microbiol 2024; 206:213. [PMID: 38616201 DOI: 10.1007/s00203-024-03935-3] [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: 02/20/2024] [Revised: 03/15/2024] [Accepted: 03/18/2024] [Indexed: 04/16/2024]
Abstract
Mulberry bacterial wilt disease, caused by Ralstonia pseudosolanacearum, is a devastating soil-borne disease in the silk-mulberry-related industry. In this study, through high-throughput sequencing, we compared the rhizosphere bacterial composition of the mulberry-resistant cultivar (K10) and susceptible cultivar (G12), confirming Bacillus as a genus-level biomarker for K10. Next, twelve Bacillus spp. isolates, derived from the rhizosphere of K10, were screened for their antagonistic activity against R. pseudosolanacearum. The isolate showing strong antagonism was identified as B. velezensis K0T24 and selected for further analysis. The fermentation supernatant of B. velezensis K0T24 significantly inhibited the growth of R. pseudosolanacearum (82.47%) and the expression of its pathogenic genes. Using B. velezensis K0T24 in mulberry seedlings also increased defense enzyme activities and achieved a control efficacy of up to 55.17% against mulberry bacterial wilt disease. Collectively, our findings demonstrate the potential of B. velezensis K0T24 in suppressing mulberry bacterial wilt disease.
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Affiliation(s)
- Wenlian Jiao
- State Key Laboratory of Resource Insects, College of Sericulture, Textile and Biomass Science, Southwest University, No.2 Tiansheng Road, Beibei District, Chongqing, 400715, China
| | - Ju Wen
- State Key Laboratory of Resource Insects, College of Sericulture, Textile and Biomass Science, Southwest University, No.2 Tiansheng Road, Beibei District, Chongqing, 400715, China
| | - Na Li
- State Key Laboratory of Resource Insects, College of Sericulture, Textile and Biomass Science, Southwest University, No.2 Tiansheng Road, Beibei District, Chongqing, 400715, China
| | - Ting Ou
- State Key Laboratory of Resource Insects, College of Sericulture, Textile and Biomass Science, Southwest University, No.2 Tiansheng Road, Beibei District, Chongqing, 400715, China
| | - Changyu Qiu
- Guangxi Key Laboratory of Sericultural Genetic Improvement and Efficient Breeding, Guangxi Zhuang Autonomous Region Sericultural Technology Promotion Station, Nanning, Guangxi Zhuang Autonomous Region, 530007, China
| | - Yutong Ji
- Westa College, Southwest University, Chongqing, 400715, China
| | - Kai Lin
- State Key Laboratory of Resource Insects, College of Sericulture, Textile and Biomass Science, Southwest University, No.2 Tiansheng Road, Beibei District, Chongqing, 400715, China
| | - Xiaojiao Liu
- State Key Laboratory of Resource Insects, College of Sericulture, Textile and Biomass Science, Southwest University, No.2 Tiansheng Road, Beibei District, Chongqing, 400715, China.
| | - Jie Xie
- State Key Laboratory of Resource Insects, College of Sericulture, Textile and Biomass Science, Southwest University, No.2 Tiansheng Road, Beibei District, Chongqing, 400715, China.
- Westa College, Southwest University, Chongqing, 400715, China.
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20
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Comba-González NB, Chaves-Moreno D, Santamaría-Vanegas J, Montoya-Castaño D. A pan-genomic assessment: Delving into the genome of the marine epiphyte Bacillus altitudinis strain 19_A and other very close Bacillus strains from multiple environments. Heliyon 2024; 10:e27820. [PMID: 38560215 PMCID: PMC10981035 DOI: 10.1016/j.heliyon.2024.e27820] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 02/14/2024] [Accepted: 03/07/2024] [Indexed: 04/04/2024] Open
Abstract
Marine macroalgae are the habitat of epiphytic bacteria and provide several conditions for a beneficial biological interaction to thrive. Although Bacillus is one of the most abundant epiphytic genera, genomic information on marine macroalgae-associated Bacillus species remains scarce. In this study, we further investigated our previously published genome of the epiphytic strain Bacillus altitudinis 19_A to find features that could be translated to potential metabolites produced by this microorganism, as well as genes that play a role in its interaction with its macroalgal host. To achieve this goal, we performed a pan-genome analysis of Bacillus sp. and a codon bias assessment, including the genome of the strain Bacillus altitudinis 19_A and 29 complete genome sequences of closely related Bacillus strains isolated from soil, marine environments, plants, extreme environments, air, and food. This genomic analysis revealed that Bacillus altitudinis 19_A possessed unique genes encoding proteins involved in horizontal gene transfer, DNA repair, transcriptional regulation, and bacteriocin biosynthesis. In this comparative analysis, codon bias was not associated with the habitat of the strains studied. Some accessory genes were identified in the Bacillus altitudinis 19_A genome that could be related to its epiphytic lifestyle, as well as gene clusters for the biosynthesis of a sporulation-killing factor and a bacteriocin, showing their potential as a source of antimicrobial peptides. Our results provide a comprehensive view of the Bacillus altitudinis 19_A genome to understand its adaptation to the marine environment and its potential as a producer of bioactive compounds.
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Affiliation(s)
| | - Diego Chaves-Moreno
- Microbial Interactions and Processes Research Group, Helmholtz Centre for Infection Research, Braunschweig, Germany
| | | | - Dolly Montoya-Castaño
- Bioprocesses and Bioprospecting Group, Biotechnology Institute, Universidad Nacional de Colombia, Colombia
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21
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Yu Z, Wang D, Zhang B, Mao H, Wang Z, Yan Z, Tao C, Deng X, Shen Q, Li R. Bacillus velezensis SQR9 promotes plant growth through colonization and rhizosphere-phyllosphere bacteria interaction. ENVIRONMENTAL MICROBIOLOGY REPORTS 2024; 16:e13250. [PMID: 38575119 PMCID: PMC10994692 DOI: 10.1111/1758-2229.13250] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/24/2023] [Accepted: 03/12/2024] [Indexed: 04/06/2024]
Abstract
The rhizosphere and phyllosphere of plants are home to a diverse range of microorganisms that play pivotal roles in ecosystem services. Consequently, plant growth-promoting bacteria (PGPB) are extensively utilized as inoculants to enhance plant growth and boost productivity. Despite this, the interactions between the rhizosphere and phyllosphere, which are influenced by PGPB inoculation, have not been thoroughly studied to date. In this study, we inoculated Bacillus velezensis SQR9, a PGPB, into the bulk soil, rhizosphere or phyllosphere, and subsequently examined the bacterial communities in the rhizosphere and phyllosphere using amplicon sequencing. Our results revealed that PGPB inoculation increased its abundance in the corresponding compartment, and all treatments demonstrated plant growth promotion effects. Further analysis of the sequencing data indicated that the presence of PGPB exerted a more significant impact on bacterial communities in both the rhizosphere and phyllosphere than in the inoculation compartment. Notably, the PGPB stimulated similar rhizosphere-beneficial microbes regardless of the inoculation site. We, therefore, conclude that PGPB can promote plant growth both directly and indirectly through the interaction between the rhizosphere and phyllosphere, leading to the enrichment of beneficial microorganisms.
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Affiliation(s)
- Zhao Yu
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Dongsheng Wang
- Nanjing Institute of Vegetable ScienceNanjingJiangsuPeople's Republic of China
| | - Bo Zhang
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Hancheng Mao
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Zhe Wang
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Zhiguang Yan
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Chengyuan Tao
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Xuhui Deng
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Qirong Shen
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
| | - Rong Li
- The Sanya Institute of Nanjing Agricultural University, Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Key Lab of Organic‐Based Fertilizers of China, Jiangsu Collaborative Innovation Center for Solid Organic Wastes, Educational Ministry Engineering Center of Resource‐saving FertilizersNanjing Agricultural UniversityNanjingJiangsuPeople's Republic of China
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22
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Nikolaidou C, Mola M, Papakostas S, Aschonitis VG, Monokrousos N, Kougias PG. The effect of anaerobic digestate as an organic soil fertilizer on the diversity and structure of the indigenous soil microbial and nematode communities. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024:10.1007/s11356-024-32850-9. [PMID: 38517633 DOI: 10.1007/s11356-024-32850-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2023] [Accepted: 03/06/2024] [Indexed: 03/24/2024]
Abstract
Anaerobic digestate is a popular soil additive which can promote sustainability and transition toward a circular economy. This study addresses how anaerobic digestate modifies soil health when combined with a common chemical fertilizer. Attention was given to soil microbes and, a neglected but of paramount importance soil taxonomic group, soil nematodes. A mesocosm experiment was set up in order to assess the soil's microbial and nematode community. The results demonstrated that the microbial diversity was not affected by the different fertilization regimes, although species richness increased after digestate and mixed fertilization. The composition and abundance of nematode community did not respond to any treatment. Mixed fertilization notably increased potassium (K) and boron (B) levels, while nitrate (NO3-) levels were uniformly elevated across fertilized soils, despite variations in nitrogen input. Network analysis revealed that chemical fertilization led to a densely interconnected network with mainly mutualistic relationships which could cause ecosystem disruption, while digestate application formed a more complex community based on bacterial interactions. However, the combination of both orchestrated a more balanced and less complex community structure, which is more resilient to random disturbances, but on the downside, it is more likely to collapse under targeted perturbations.
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Affiliation(s)
- Charitini Nikolaidou
- Soil and Water Resources Institute, Hellenic Agricultural Organization Dimitra, 57001, Thessaloniki, Greece
- University Center of International Programmes of Studies, International Hellenic University, 57001, Thessaloniki, Greece
| | - Magkdi Mola
- Soil and Water Resources Institute, Hellenic Agricultural Organization Dimitra, 57001, Thessaloniki, Greece
- University Center of International Programmes of Studies, International Hellenic University, 57001, Thessaloniki, Greece
| | - Spiros Papakostas
- Department of Science and Technology, International Hellenic University, 57001, Thessaloniki, Greece
| | - Vassilis G Aschonitis
- Soil and Water Resources Institute, Hellenic Agricultural Organization Dimitra, 57001, Thessaloniki, Greece
| | - Nikolaos Monokrousos
- University Center of International Programmes of Studies, International Hellenic University, 57001, Thessaloniki, Greece
| | - Panagiotis G Kougias
- Soil and Water Resources Institute, Hellenic Agricultural Organization Dimitra, 57001, Thessaloniki, Greece.
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23
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Ashajyothi M, Mahadevakumar S, Venkatesh YN, Sarma PVSRN, Danteswari C, Balamurugan A, Prakash G, Khandelwal V, Tarasatyavathi C, Podile AR, Mysore KS, Chandranayaka S. Comprehensive genomic analysis of Bacillus subtilis and Bacillus paralicheniformis associated with the pearl millet panicle reveals their antimicrobial potential against important plant pathogens. BMC PLANT BIOLOGY 2024; 24:197. [PMID: 38500040 PMCID: PMC10946124 DOI: 10.1186/s12870-024-04881-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Accepted: 03/04/2024] [Indexed: 03/20/2024]
Abstract
BACKGROUND Plant microbiome confers versatile functional roles to enhance survival fitness as well as productivity. In the present study two pearl millet panicle microbiome member species Bacillus subtilis PBs 12 and Bacillus paralicheniformis PBl 36 found to have beneficial traits including plant growth promotion and broad-spectrum antifungal activity towards taxonomically diverse plant pathogens. Understanding the genomes will assist in devising a bioformulation for crop protection while exploiting their beneficial functional roles. RESULTS Two potential firmicute species were isolated from pearl millet panicles. Morphological, biochemical, and molecular characterization revealed their identities as Bacillus subtilis PBs 12 and Bacillus paralicheniformis PBl 36. The seed priming assays revealed the ability of both species to enhance plant growth promotion and seedling vigour index. Invitro assays with PBs 12 and PBl 36 showed the antibiosis effect against taxonomically diverse plant pathogens (Magnaporthe grisea; Sclerotium rolfsii; Fusarium solani; Alternaria alternata; Ganoderma sp.) of crops and multipurpose tree species. The whole genome sequence analysis was performed to unveil the genetic potential of these bacteria for plant protection. The complete genomes of PBs 12 and PBl 36 consist of a single circular chromosome with a size of 4.02 and 4.33 Mb and 4,171 and 4,606 genes, with a G + C content of 43.68 and 45.83%, respectively. Comparative Average Nucleotide Identity (ANI) analysis revealed a close similarity of PBs 12 and PBl 36 with other beneficial strains of B. subtilis and B. paralicheniformis and found distant from B. altitudinis, B. amyloliquefaciens, and B. thuringiensis. Functional annotation revealed a majority of pathway classes of PBs 12 (30) and PBl 36 (29) involved in the biosynthesis of secondary metabolites, polyketides, and non-ribosomal peptides, followed by xenobiotic biodegradation and metabolism (21). Furthermore, 14 genomic regions of PBs 12 and 15 of PBl 36 associated with the synthesis of RiPP (Ribosomally synthesized and post-translationally modified peptides), terpenes, cyclic dipeptides (CDPs), type III polyketide synthases (T3PKSs), sactipeptides, lanthipeptides, siderophores, NRPS (Non-Ribosomal Peptide Synthetase), NRP-metallophone, etc. It was discovered that these areas contain between 25,458 and 33,000 secondary metabolite-coding MiBiG clusters which code for a wide range of products, such as antibiotics. The PCR-based screening for the presence of antimicrobial peptide (cyclic lipopeptide) genes in PBs 12 and 36 confirmed their broad-spectrum antifungal potential with the presence of spoVG, bacA, and srfAA AMP genes, which encode antimicrobial compounds such as subtilin, bacylisin, and surfactin. CONCLUSION The combined in vitro studies and genome analysis highlighted the antifungal potential of pearl millet panicle-associated Bacillus subtilis PBs12 and Bacillus paralicheniformis PBl36. The genetic ability to synthesize several antimicrobial compounds indicated the industrial value of PBs 12 and PBl 36, which shed light on further studies to establish their action as a biostimulant for crop protection.
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Affiliation(s)
- Mushineni Ashajyothi
- Plant Protection Lab, ICAR-Central Agroforestry Research Institute, Jhansi, Uttar Pradesh, 284003, India
| | - Shivannegowda Mahadevakumar
- Botanical Survey of India, Andaman and Nicobar Regional Centre, Haddo, Port Blair, Andaman and Nicobar Islands, 744102, India
| | - Y N Venkatesh
- Plant Protection Lab, ICAR-Central Agroforestry Research Institute, Jhansi, Uttar Pradesh, 284003, India
| | - Pullabhotla V S R N Sarma
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Hyderabad, Telangana, 500046, India
| | - Chalasani Danteswari
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Hyderabad, Telangana, 500046, India
| | | | - Ganesan Prakash
- ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Vikas Khandelwal
- All India Coordinated Research Project On Pearl Millet, Agriculture University, Jodhpur, Rajasthan, 342304, India
| | - C Tarasatyavathi
- All India Coordinated Research Project On Pearl Millet, Agriculture University, Jodhpur, Rajasthan, 342304, India
| | - Appa Rao Podile
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Hyderabad, Telangana, 500046, India
| | - Kirankumar S Mysore
- Department of Biochemistry and Molecular Biology, Oklahoma State University, Stillwater, OK, USA
| | - Siddaiah Chandranayaka
- Department of Studies in Biotechnology, University of Mysore, Mysore, Karnataka, 570 006, India.
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24
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Fernandes P, Pinto R, Correia C, Mourão I, Moura L, Brito LM. Valorization of kiwi waste through composting. ENVIRONMENTAL TECHNOLOGY 2024:1-15. [PMID: 38471044 DOI: 10.1080/09593330.2024.2326797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Accepted: 02/28/2024] [Indexed: 03/14/2024]
Abstract
Kiwi waste from the calibration process is a major environmental problem of kiwi production due to landfill deposition. This work aims to contribute to the agronomic use of recycled kiwi waste through composting. With this objective, a composting experiment was carried out with kiwi fruit waste mixed with 5%, 10% and 20% (fresh weight) of wheat straw from bundles used to protect kiwifruit trunks from frost, as abulking agent to increase aeration, in the piles 5S, 10S and 20S, respectively. The highest temperatures for piles 5S and 10S were above 60°C, whereas the temperature did not reach 40°C in the pile with the highest straw content (20S) because the aeration increased heat loss in addition to increased C/N ratio of this pile. Also, the amount of organic matter mineralized decreased with increasing amount of straw because of the high C/N ratio of the straw. The highest total N (29.7 g kg-1) and the lowest C/N ratio (13) of the compost with 5% of straw is important from the agricultural point of view to promote N availability. In contrast, the high electrical conductivity (4.6 dS m-1) of this compost increases the risk of salt accumulation in the soil. Our results show that the compost with 10% straw, with high degree of maturation, absence of poor hygiene indicators as coliforms and pathogens as Salmonella sp., high organic matter content and rich in nutrients, together with the adequate compost pH and low electrical conductivity improves compost quality.
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Affiliation(s)
- Paulo Fernandes
- Escola Superior de Tecnologia e Gestão, Instituto Politécnico de Viana do Castelo, Rua Escola Industrial e Comercial de Nun'Álvares, Viana do Castelo, Portugal
- Centro de Investigação e Desenvolvimento em Sistemas Agroalimentares e Sustentabilidade (CISAS), R. Escola Industrial e Comercial de Nun'Álvares, Viana do Castelo, Portugal
| | - Rui Pinto
- Centro de Investigação e Desenvolvimento em Sistemas Agroalimentares e Sustentabilidade (CISAS), R. Escola Industrial e Comercial de Nun'Álvares, Viana do Castelo, Portugal
| | - Cláudia Correia
- Escola Superior Agrária, Instituto Politécnico de Viana do Castelo, Ponte de Lima, Portugal
| | - Isabel Mourão
- Escola Superior Agrária, Instituto Politécnico de Viana do Castelo, Ponte de Lima, Portugal
- Centro de Investigação de Montanha (CIMO), Instituto Politécnico de Bragança, Campus Santa Apolónia, Bragança, Portugal
| | - Luísa Moura
- Centro de Investigação e Desenvolvimento em Sistemas Agroalimentares e Sustentabilidade (CISAS), R. Escola Industrial e Comercial de Nun'Álvares, Viana do Castelo, Portugal
- Escola Superior Agrária, Instituto Politécnico de Viana do Castelo, Ponte de Lima, Portugal
| | - Luis Miguel Brito
- Centro de Investigação e Desenvolvimento em Sistemas Agroalimentares e Sustentabilidade (CISAS), R. Escola Industrial e Comercial de Nun'Álvares, Viana do Castelo, Portugal
- Escola Superior Agrária, Instituto Politécnico de Viana do Castelo, Ponte de Lima, Portugal
- Centro de Investigação de Montanha (CIMO), Instituto Politécnico de Bragança, Campus Santa Apolónia, Bragança, Portugal
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25
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Kang W, Duan Y, Lei P. Transcriptomic changes in soybean underlying growth promotion and defense against cyst nematode after Bacillus simplex Sneb545 treatment. Gene 2024; 898:148080. [PMID: 38101712 DOI: 10.1016/j.gene.2023.148080] [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: 08/24/2023] [Revised: 11/11/2023] [Accepted: 12/12/2023] [Indexed: 12/17/2023]
Abstract
Bacillus simplex Sneb45 is a plant-growth-promoting rhizobacterium that promotes soybean growth and systemic resistance to cyst nematode. To investigate transcriptional changes in soybean roots in response to B. simplex Sneb45 treatment, transcriptome analysis and quantitative real-time PCR were conducted to detect and validate the differentially expressed genes (DEGs). In total, 19,109 DEGs were obtained. After B. simplex Sneb545 treatment, 970 and 1265 genes were up- and down-regulated at 5 days post-inoculation (dpi), respectively, and 142 and 47 genes were up- and down-regulated at 10 dpi, respectively, compared with untreated soybean roots. Functional annotation of DEGs indicated that B. simplex Sneb545 regulated soybean growth and defense against cyst nematode possibly through genes related to auxin, gibberellin, and NB-LRR protein. In addition, GO and KEGG enrichment analyses indicated that the DEGs were enriched in metabolism, signal transduction, and plant-pathogen interaction pathways. Moreover, the auxin and gibberellin contents were lower in B. simplex Sneb545-treated soybean roots than in untreated roots at 5 dpi. B. simplex Sneb545 possibly altered the expression of wound-induced protein and NAC transcription factor to regulate soybean growth and defense against cyst nematode. Our study provided deep insights into the alterations in soybean transcriptome after exposure to B. simplex Sneb45 and a theoretical basis for further exploring molecular functions underlying the biological control activity of B. simplex Sneb545.
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Affiliation(s)
- Wenshu Kang
- College of Environment, Shenyang University, Shenyang 110044, PR China
| | - Yuxi Duan
- College of plant protection, Shenyang Agricultural University, Shenyang 110866, PR China
| | - Piao Lei
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, PR China.
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26
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Adriano-Anaya L, Pardo-Girón LF, Salvador-Adriano M, Salvador-Figueroa M, Ovando-Medina I, Moreno-Castillo B. Effectiveness of Bacillus subtilis ANT01 and Rhizobium sp. 11B on the control of fusarium wilt in pineapple ( Ananas comosus). PeerJ 2024; 12:e16871. [PMID: 38464753 PMCID: PMC10921932 DOI: 10.7717/peerj.16871] [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: 09/28/2023] [Accepted: 01/10/2024] [Indexed: 03/12/2024] Open
Abstract
Pineapple (Ananas comosus) is commonly infected by Fusarium oxysporum, causal agent of the fusarium wilt disease. Conventionally, growers use synthetic fungicides to control the disease, which lead to environmental pollution, hazardous effects on non-target organisms and risks on human health. The aim of this work was to assess the effectiveness of Bacillus subtilis ANT01 and Rhizobium sp. 11B to control fusarium wilt on pineapple plants. Four treatments derived from a complete factorial design were tested under field conditions. Treatments composed of B. subtilis ANT01 and the combination B. subtilis ANT01-Rhizobium sp. 11B decreased disease severity by 94.4% and 86.1%, respectively. On the other hand, the treatment prepared with Rhizobium sp. 11B alone showed a reduction of 75.0%. Size of leaves and nutritional condition (SPAD units) of the biocontrol agents-treated plants showed no statistical differences. Moreover, B. subtilis ANT01 decreased by 46% the initial soil population of F. oxysporum, while Rhizobium sp. 11B, B. subtilis ANT01 plus Rhizobium sp. 11B and control, showed a population reduction of 12.5%, 24.2% and 23.0%, respectively. These results make evident the potential of B. subtilis ANT01 as biocontrol agent of the pathogen under field conditions.
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Affiliation(s)
- Lourdes Adriano-Anaya
- Instituto de Biociencias, Campus IV, Universidad Autónoma de Chiapas, Tapachula, Chiapas, Mexico
| | | | - Miguel Salvador-Adriano
- Instituto de Biociencias, Campus IV, Universidad Autónoma de Chiapas, Tapachula, Chiapas, Mexico
| | - Miguel Salvador-Figueroa
- Instituto de Biociencias, Campus IV, Universidad Autónoma de Chiapas, Tapachula, Chiapas, Mexico
| | - Isidro Ovando-Medina
- Instituto de Biociencias, Campus IV, Universidad Autónoma de Chiapas, Tapachula, Chiapas, Mexico
| | - Benjamin Moreno-Castillo
- Instituto de Biociencias, Campus IV, Universidad Autónoma de Chiapas, Tapachula, Chiapas, Mexico
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27
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Balmaseda A, Miot-Sertier C, Lytra G, Poulain B, Reguant C, Lucas P, Nioi C. Application of white wine lees for promoting lactic acid bacteria growth and malolactic fermentation in wine. Int J Food Microbiol 2024; 413:110583. [PMID: 38277869 DOI: 10.1016/j.ijfoodmicro.2024.110583] [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: 11/14/2023] [Revised: 01/09/2024] [Accepted: 01/14/2024] [Indexed: 01/28/2024]
Abstract
In the context of ecological transition, the use of wine by-products for industrial applications is a major challenge. Wine lees, the second wine by-product in terms of quantity, represent a source of nutrients that can be used for stimulating the growth of microorganisms. Here, white wine lees were used as a stimulating agent for the growth of wine lactic acid bacteria (LAB) and to promote wine malolactic fermentation (MLF) driven out by Oenococcus oeni. By adding freeze-dried wine lees to wines under different conditions - including different wine lees at different concentrations and different O. oeni strains at various initial populations - it was observed that wine lees can enhance the growth of LAB and reduce the duration of MLF. The chemical composition of wines was also evaluated, proving that wine lees do not compromise the quality of the wines. In addition, wine lees did not seem to promote the growth of spoilage microorganisms like as Brettanomyces bruxellensis. Altogether, this work reports the possibility of recovering the lees of white wine to obtain a product favoring the MLF of red wines. More general, we propose a recycling strategy of wine by-products to obtain new products for winemaking.
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Affiliation(s)
- Aitor Balmaseda
- Univ. Bordeaux, INRAE, Bordeaux INP, Bordeaux Sciences Agro, UMR 1366, OENO, ISVV, F-33882 Villenave d'Ornon, France; Universitat Rovira i Virgili, Departament de Bioquímica i Biotecnologia, Facultat d'Enologia, Grup de Biotecnologia Enològica, C/ Marcel⋅lí Domingo 1, 43007 Tarragona, Catalonia, Spain.
| | - Cécile Miot-Sertier
- Univ. Bordeaux, INRAE, Bordeaux INP, Bordeaux Sciences Agro, UMR 1366, OENO, ISVV, F-33882 Villenave d'Ornon, France
| | - Georgia Lytra
- Univ. Bordeaux, INRAE, Bordeaux INP, Bordeaux Sciences Agro, UMR 1366, OENO, ISVV, F-33882 Villenave d'Ornon, France
| | - Benjamin Poulain
- Univ. Bordeaux, INRAE, Bordeaux INP, Bordeaux Sciences Agro, UMR 1366, OENO, ISVV, F-33882 Villenave d'Ornon, France
| | - Cristina Reguant
- Universitat Rovira i Virgili, Departament de Bioquímica i Biotecnologia, Facultat d'Enologia, Grup de Biotecnologia Enològica, C/ Marcel⋅lí Domingo 1, 43007 Tarragona, Catalonia, Spain
| | - Patrick Lucas
- Univ. Bordeaux, INRAE, Bordeaux INP, Bordeaux Sciences Agro, UMR 1366, OENO, ISVV, F-33882 Villenave d'Ornon, France
| | - Claudia Nioi
- Univ. Bordeaux, INRAE, Bordeaux INP, Bordeaux Sciences Agro, UMR 1366, OENO, ISVV, F-33882 Villenave d'Ornon, France
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Zhou N, Guo H, Zhang Z, Wang H. The discrepant metabolic pathways of PAHs by facultative anaerobic bacteria under aerobic and nitrate-reducing conditions. CHEMOSPHERE 2024; 351:141230. [PMID: 38237784 DOI: 10.1016/j.chemosphere.2024.141230] [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: 08/30/2023] [Revised: 01/07/2024] [Accepted: 01/14/2024] [Indexed: 01/28/2024]
Abstract
Studies regarding the facultative anaerobic biodegradation of polycyclic aromatic hydrocarbons (PAHs) were still in the initial stage. In this study, a facultative anaerobe which was identified as Bacillus Firmus and named as PheN7 was firstly isolated from the mixed petroleum-polluted soil samples using phenanthrene and nitrate as the solo carbon resource and electron acceptor under anaerobic condition. The degradation rates of PheN7 towards phenanthrene were detected as 33.17 μM/d, 13.81 μM/d and 7.11 μM/d at the initial phenanthrene concentration of 250.17 μM with oxygen, nitrate and sulfate as the electron acceptor, respectively. The metabolic pathways toward phenanthrene by PheN7 were deduced combining the metagenome analysis of PheN7 and intermediate metabolites of phenanthrene under aerobic and nitrate-reducing conditions. Dioxygenation and carboxylation were inferred as the initial activation reactions of phenanthrene degradation in these two pathways. This study highlighted the significance of facultative anaerobic bacteria in natural PAHs biodegradation, revealing the discrepant metabolic fates of PAHs by one solo bacteria under aerobic and anaerobic environments.
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Affiliation(s)
- Nan Zhou
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, 100084, China
| | - Haijiao Guo
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, 100084, China
| | - Zuotao Zhang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, 100084, China
| | - Hui Wang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, 100084, China.
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29
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Jagadeesan Y, Meenakshisundaram S, Pichaimuthu S, Balaiah A. A scientific version of understanding "Why did the chickens cross the road"? - A guided journey through Bacillus spp. towards sustainable agriculture, circular economy and biofortification. ENVIRONMENTAL RESEARCH 2024; 244:117907. [PMID: 38109965 DOI: 10.1016/j.envres.2023.117907] [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: 10/11/2023] [Revised: 12/07/2023] [Accepted: 12/08/2023] [Indexed: 12/20/2023]
Abstract
The world, a famished planet with an overgrowing population, requires enormous food crops. This scenario compelled the farmers to use a high quantity of synthetic fertilizers for high food crop productivity. However, prolonged usage of chemical fertilizers results in severe adverse effects on soil and water quality. On the other hand, the growing population significantly consumes large quantities of poultry meats. Eventually, this produces a mammoth amount of poultry waste, chicken feathers. Owing to the protein value of the chicken feathers, these wastes are converted into protein hydrolysate and further extend their application as biostimulants for sustained agriculture. The protein profile of chicken feather protein hydrolysate (CFPH) produced through Bacillus spp. was the maximum compared to physical and chemical protein extraction methods. Several studies proved that the application of CFPH and active Bacillus spp. culture to soil and plants results in enhanced plant growth, phytochemical constituents, crop yield, soil nutrients, fertility, microbiome and resistance against diverse abiotic and biotic stresses. Overall, "CFPH - Jack of all trades" and "Bacillus spp. - an active camouflage to the surroundings where they applied showed profound and significant benefits to the plant growth under the most adverse conditions. In addition, Bacillus spp. coheres the biofortification process in plants through the breakdown of metals into metal ions that eventually increase the nutrient value of the food crops. However, detailed information on them is missing. This can be overcome by further real-world studies on rhizoengineering through a multi-omics approach and their interaction with plants. This review has explored the best possible and efficient strategy for managing chicken feather wastes into protein-rich CFPH through Bacillus spp. bioconversion and utilizing the CFPH and Bacillus spp. as biostimulants, biofertilizers, biopesticides and biofortificants. This paper is an excellent report on organic waste management, circular economy and sustainable agriculture research frontier.
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Affiliation(s)
- Yogeswaran Jagadeesan
- Department of Biotechnology, University College of Engineering, Anna University - BIT Campus, Tiruchirappalli, Tamilnadu, 620 024, India.
| | - Shanmugapriya Meenakshisundaram
- Department of Biotechnology, University College of Engineering, Anna University - BIT Campus, Tiruchirappalli, Tamilnadu, 620 024, India.
| | - Suthakaran Pichaimuthu
- Genprotic Biopharma Private Limited, SPIC Bioprocess Laboratory, Anna University, Taramani Campus, Taramani, Chennai, Tamilnadu, 600113, India.
| | - Anandaraj Balaiah
- Department of Biotechnology, University College of Engineering, Anna University - BIT Campus, Tiruchirappalli, Tamilnadu, 620 024, India.
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30
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Bini D, Mattos BB, Figueiredo JEF, Dos Santos FC, Marriel IE, Dos Santos CA, de Oliveira-Paiva CA. Parameter evaluation for developing phosphate-solubilizing Bacillus inoculants. Braz J Microbiol 2024; 55:737-748. [PMID: 38008804 PMCID: PMC10920567 DOI: 10.1007/s42770-023-01182-0] [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: 07/31/2023] [Accepted: 11/11/2023] [Indexed: 11/28/2023] Open
Abstract
Bacterial inoculants have been used in agriculture to improve plant performance. However, laboratory and field requirements must be completed before a candidate can be employed as an inoculant. Therefore, this study aimed to evaluate the parameters for inoculant formulation and the potential of Bacillus subtilis (B70) and B. pumilus (B32) to improve phosphorus availability in maize (Zea mays L.) crops. In vitro experiments assessed the bacterial ability to solubilize and mineralize phosphate, their adherence to roots, and shelf life in cassava starch (CS), carboxymethyl cellulose (CMC), peat, and activated charcoal (AC) stored at 4 °C and room temperature for 6 months. A field experiment evaluated the effectiveness of strains to increase the P availability to plants growing with rock phosphate (RP) and a mixture of RP and triple superphosphate (TS) and their contribution to improving maize yield and P accumulation in grains. The B70 was outstanding in solubilizing RP and phytate mineralization and more stable in carriers and storage conditions than B32. However, root adherence was more noticeable in B32. Among carriers, AC was the most effective for preserving viable cell counts, closely similar to those of the initial inoculum of both strains. Maize productivity using the mixture RPTS was similar for B70 and B32. The best combination was B70 with RP, which improved the maize yield (6532 kg ha-1) and P accumulation in grains (15.95 kg ha-1). Our results indicated that the inoculant formulation with AC carrier and B70 is a feasible strategy for improving phosphorus mobilization in the soil and maize productivity.
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Affiliation(s)
- Daniel Bini
- Embrapa Milho E Sorgo, Sete Lagoas, MG, 35701-970, Brazil
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31
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Yang P, Yuan P, Liu W, Zhao Z, Bernier MC, Zhang C, Adhikari A, Opiyo SO, Zhao L, Banks F, Xia Y. Plant Growth Promotion and Plant Disease Suppression Induced by Bacillus amyloliquefaciens Strain GD4a. PLANTS (BASEL, SWITZERLAND) 2024; 13:672. [PMID: 38475518 DOI: 10.3390/plants13050672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2024] [Revised: 02/20/2024] [Accepted: 02/22/2024] [Indexed: 03/14/2024]
Abstract
Botrytis cinerea, the causative agent of gray mold disease (GMD), invades plants to obtain nutrients and disseminates through airborne conidia in nature. Bacillus amyloliquefaciens strain GD4a, a beneficial bacterium isolated from switchgrass, shows great potential in managing GMD in plants. However, the precise mechanism by which GD4a confers benefits to plants remains elusive. In this study, an A. thaliana-B. cinerea-B. amyloliquefaciens multiple-scale interaction model was used to explore how beneficial bacteria play essential roles in plant growth promotion, plant pathogen suppression, and plant immunity boosting. Arabidopsis Col-0 wild-type plants served as the testing ground to assess GD4a's efficacy. Additionally, bacterial enzyme activity and targeted metabolite tests were conducted to validate GD4a's potential for enhancing plant growth and suppressing plant pathogens and diseases. GD4a was subjected to co-incubation with various bacterial, fungal, and oomycete pathogens to evaluate its antagonistic effectiveness in vitro. In vivo pathogen inoculation assays were also carried out to investigate GD4a's role in regulating host plant immunity. Bacterial extracellular exudate (BEE) was extracted, purified, and subjected to untargeted metabolomics analysis. Benzocaine (BEN) from the untargeted metabolomics analysis was selected for further study of its function and related mechanisms in enhancing plant immunity through plant mutant analysis and qRT-PCR analysis. Finally, a comprehensive model was formulated to summarize the potential benefits of applying GD4a in agricultural systems. Our study demonstrates the efficacy of GD4a, isolated from switchgrass, in enhancing plant growth, suppressing plant pathogens and diseases, and bolstering host plant immunity. Importantly, GD4a produces a functional bacterial extracellular exudate (BEE) that significantly disrupts the pathogenicity of B. cinerea by inhibiting fungal conidium germination and hypha formation. Additionally, our study identifies benzocaine (BEN) as a novel small molecule that triggers basal defense, ISR, and SAR responses in Arabidopsis plants. Bacillus amyloliquefaciens strain GD4a can effectively promote plant growth, suppress plant disease, and boost plant immunity through functional BEE production and diverse gene expression.
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Affiliation(s)
- Piao Yang
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
| | - Pu Yuan
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
| | - Wenshan Liu
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
| | - Zhenzhen Zhao
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
| | - Matthew C Bernier
- Campus Chemical Instrument Center, Mass Spectrometry and Proteomics Facility, The Ohio State University, Columbus, OH 43210, USA
| | - Chunquan Zhang
- College of Agriculture and Applied Sciences, Alcorn State University, Lorman, MS 39096, USA
| | - Ashna Adhikari
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
| | - Stephen Obol Opiyo
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
| | - Lijing Zhao
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
| | - Fredrekis Banks
- College of Agriculture and Applied Sciences, Alcorn State University, Lorman, MS 39096, USA
| | - Ye Xia
- Department of Plant Pathology, College of Food, Agricultural and Environmental Sciences, The Ohio State University, Columbus, OH 43210, USA
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32
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Maral-Gül D, Eltem R. Evaluation of Bacillus isolates as a biological control agents against soilborne phytopathogenic fungi. Int Microbiol 2024:10.1007/s10123-024-00490-1. [PMID: 38376639 DOI: 10.1007/s10123-024-00490-1] [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: 08/03/2023] [Revised: 01/03/2024] [Accepted: 02/07/2024] [Indexed: 02/21/2024]
Abstract
Pesticides, used in agriculture to control plant diseases, pose risks to the environment and human health. To address this, there's a growing focus on biocontrol, using microorganisms instead of chemicals. In this study, we aimed to identify Bacillus isolates as potential biological control agents. We tested 1574 Bacillus isolates for antifungal effects against pathogens like Botrytis cinerea, Fusarium solani, and Rhizoctonia solani. Out of these, 77 isolates formed inhibition zones against all three pathogens. We then investigated their lytic enzyme activities (protease, chitinase, and chitosanase) and the production of antifungal metabolites (siderophore and hydrogen cyanide). Coagulase activity was also examined to estimate potential pathogenicity in humans and animals. After evaluating all mechanisms, 19 non-pathogenic Bacillus isolates with significant antifungal effects were chosen. Molecular identification revealed they belonged to B. subtilis (n = 19) strains. The 19 native Bacillus strains, demonstrating strong antifungal effects in vitro, have the potential to form the basis for biocontrol product development. This could address challenges in agricultural production, marking a crucial stride toward sustainable agriculture.
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Affiliation(s)
- Derya Maral-Gül
- Graduate School of Natural and Applied Sciences, Department of Bioengineering, Ege University, 35100, Bornova-Izmir, Türkiye.
| | - Rengin Eltem
- Faculty of Engineering, Department of Bioengineering, Ege University, Izmir, Türkiye
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33
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Dang QT, Nguyen ATQ, Nguyen AD, Nguyen NT, Dam TTN, Tran TTT, Ngo THA, Nguyen TTH, Tran TV, Dinh VM, Nguyen MN. Desilification of phytolith exacerbates the release of arsenic from rice straw. CHEMOSPHERE 2024; 349:140797. [PMID: 38016526 DOI: 10.1016/j.chemosphere.2023.140797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2023] [Revised: 11/17/2023] [Accepted: 11/22/2023] [Indexed: 11/30/2023]
Abstract
Arsenic (As) turnover in rice paddy agro-ecosystems has received much attention because As can enter the food chain through its accumulation in rice, thereby affecting human health. Returning straw to soil is a common practice to retain nutrients for soil and crops, but it also cycles As within the rice paddy field ecosystems. However, there is still a lack of detailed understanding of the fate of As in rice straw, and how or to what extent it is recycled back into the soil environment. This study aims to elucidate the relationship between the microstructure of rice straw and the release of As during rice straw decomposition. The microstructure of rice straw was found to comprise both organic and silica (phytolith) components. These two constituents are inter-embedded to form a composite-like structure that contains up to 6.48 mg As Kg-1. The 30-day batch experiments revealed that the biochemical release of As simultaneously depends upon the decomposition of the organic component and the desilicification of the silica component. Accompanying the release of As was the release of other elements such as Fe, Al, P and S. These elements can further interact with As to form less mobile compounds. The introduction of either Trichoderma harzianum or Bacillus velezensis was expected to accelerate the decomposition of rice straw, and enhance the silica dissolution, hence contributing to an increase in the As release. Despite these expectations, our observations showed the opposite effects. Microorganisms presumably have facilitated the change in solution chemistry or the inclusion of As into the newly-formed precipitates. The biochemical decomposition process can reduce straw particle size, while the negatively-charge surface will involve microsized straw particles in the electrostatic interaction, thereby favoring the dispersibility state. Therefore, the co-transport of micro-sized straw particles with As under field conditions should not be neglected.
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Affiliation(s)
- Quan T Dang
- Faculty of Environmental Sciences, University of Science, Vietnam National University, Hanoi, 334 Nguyen Trai, Thanh Xuan, Hanoi, Viet Nam; Institute of Geography, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Hanoi, Viet Nam
| | - Anh T Q Nguyen
- Faculty of Environmental Sciences, University of Science, Vietnam National University, Hanoi, 334 Nguyen Trai, Thanh Xuan, Hanoi, Viet Nam
| | - Anh D Nguyen
- University of Science and Technology of Hanoi, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Hanoi, Viet Nam
| | - Ngan T Nguyen
- Faculty of Environmental Sciences, University of Science, Vietnam National University, Hanoi, 334 Nguyen Trai, Thanh Xuan, Hanoi, Viet Nam
| | - Than T N Dam
- Department of Ecosystem Science and Management, University of Wyoming, Laramie, Wyoming, United States
| | - Thu T T Tran
- Faculty of Environmental Sciences, University of Science, Vietnam National University, Hanoi, 334 Nguyen Trai, Thanh Xuan, Hanoi, Viet Nam
| | - Thu H A Ngo
- Faculty of Chemistry, University of Science, Vietnam National University, Hanoi, 19 Le Thanh Tong, Hoan Kiem, Hanoi, Viet Nam
| | - Trang T H Nguyen
- Department of Integrated Sciences, Fulbright University Vietnam, Tan Phu Ward, District 7, Ho Chi Minh City, Viet Nam
| | - Tuan V Tran
- Faculty of Biology, University of Science, Vietnam National University, Hanoi, 334 Nguyen Trai, Thanh Xuan, Hanoi, Viet Nam
| | - Van M Dinh
- Faculty of Environmental Sciences, University of Science, Vietnam National University, Hanoi, 334 Nguyen Trai, Thanh Xuan, Hanoi, Viet Nam
| | - Minh N Nguyen
- Faculty of Environmental Sciences, University of Science, Vietnam National University, Hanoi, 334 Nguyen Trai, Thanh Xuan, Hanoi, Viet Nam.
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34
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Gottel NR, Hill MS, Neal MJ, Allard SM, Zengler K, Gilbert JA. Biocontrol in built environments to reduce pathogen exposure and infection risk. THE ISME JOURNAL 2024; 18:wrad024. [PMID: 38365248 PMCID: PMC10848226 DOI: 10.1093/ismejo/wrad024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Revised: 11/27/2023] [Accepted: 12/06/2023] [Indexed: 02/18/2024]
Abstract
The microbiome of the built environment comprises bacterial, archaeal, fungal, and viral communities associated with human-made structures. Even though most of these microbes are benign, antibiotic-resistant pathogens can colonize and emerge indoors, creating infection risk through surface transmission or inhalation. Several studies have catalogued the microbial composition and ecology in different built environment types. These have informed in vitro studies that seek to replicate the physicochemical features that promote pathogenic survival and transmission, ultimately facilitating the development and validation of intervention techniques used to reduce pathogen accumulation. Such interventions include using Bacillus-based cleaning products on surfaces or integrating bacilli into printable materials. Though this work is in its infancy, early research suggests the potential to use microbial biocontrol to reduce hospital- and home-acquired multidrug-resistant infections. Although these techniques hold promise, there is an urgent need to better understand the microbial ecology of built environments and to determine how these biocontrol solutions alter species interactions. This review covers our current understanding of microbial ecology of the built environment and proposes strategies to translate that knowledge into effective biocontrol of antibiotic-resistant pathogens.
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Affiliation(s)
- Neil R Gottel
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA 92037, United States
| | - Megan S Hill
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA 92037, United States
- Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA 92093, United States
| | - Maxwell J Neal
- Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, United States
| | - Sarah M Allard
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA 92037, United States
- Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA 92093, United States
| | - Karsten Zengler
- Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA 92093, United States
- Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, United States
- Center for Microbiome Innovation, University of California San Diego, La Jolla, CA 92093, United States
| | - Jack A Gilbert
- Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA 92037, United States
- Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA 92093, United States
- Center for Microbiome Innovation, University of California San Diego, La Jolla, CA 92093, United States
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35
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Luo X, Sun K, Li HR, Zhang XY, Pan YT, Luo DL, Wu YB, Jiang HJ, Wu XH, Ma CY, Dai CC, Zhang W. Depletion of protective microbiota promotes the incidence of fruit disease. THE ISME JOURNAL 2024; 18:wrae071. [PMID: 38691444 DOI: 10.1093/ismejo/wrae071] [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: 12/05/2023] [Revised: 03/11/2024] [Accepted: 04/24/2024] [Indexed: 05/03/2024]
Abstract
Plant-associated microbiomes play important roles in plant health and productivity. However, despite fruits being directly linked to plant productivity, little is known about the microbiomes of fruits and their potential association with fruit health. Here, by integrating 16S rRNA gene, ITS high-throughput sequencing data, and microbiological culturable approaches, we reported that roots and fruits (pods) of peanut, a typical plant that bears fruits underground, recruit different bacterial and fungal communities independently of cropping conditions and that the incidence of pod disease under monocropping conditions is attributed to the depletion of Bacillus genus and enrichment of Aspergillus genus in geocarposphere. On this basis, we constructed a synthetic community (SynCom) consisting of three Bacillus strains from geocarposphere soil under rotation conditions with high culturable abundance. Comparative transcriptome, microbiome profiling, and plant phytohormone signaling analysis reveal that the SynCom exhibited more effective Aspergillus growth inhibition and pod disease control than individual strain, which was underpinned by a combination of molecular mechanisms related to fungal cell proliferation interference, mycotoxins biosynthesis impairment, and jasmonic acid-mediated plant immunity activation. Overall, our results reveal the filter effect of plant organs on the microbiome and that depletion of key protective microbial community promotes the fruit disease incidence.
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Affiliation(s)
- Xue Luo
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Kai Sun
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Hao-Ran Li
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Xiang-Yu Zhang
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Yi-Tong Pan
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - De-Lin Luo
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Yi-Bo Wu
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Hui-Jun Jiang
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Xiao-Han Wu
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Chen-Yu Ma
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Chuan-Chao Dai
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
| | - Wei Zhang
- Jiangsu Key Laboratory for Microbes and Functional Genomics, Jiangsu Engineering and Technology Research Center for Industrialization of Microbial Resources, College of Life Sciences, Nanjing Normal University, Jiangsu Province, 210023, China
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36
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Santander C, González F, Pérez U, Ruiz A, Aroca R, Santos C, Cornejo P, Vidal G. Enhancing Water Status and Nutrient Uptake in Drought-Stressed Lettuce Plants ( Lactuca sativa L.) via Inoculation with Different Bacillus spp. Isolated from the Atacama Desert. PLANTS (BASEL, SWITZERLAND) 2024; 13:158. [PMID: 38256712 PMCID: PMC10818642 DOI: 10.3390/plants13020158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Revised: 12/26/2023] [Accepted: 01/04/2024] [Indexed: 01/24/2024]
Abstract
Drought is a major challenge for agriculture worldwide, being one of the main causes of losses in plant production. Various studies reported that some soil's bacteria can improve plant tolerance to environmental stresses by the enhancement of water and nutrient uptake by plants. The Atacama Desert in Chile, the driest place on earth, harbors a largely unexplored microbial richness. This study aimed to evaluate the ability of various Bacillus sp. from the hyper arid Atacama Desert in the improvement in tolerance to drought stress in lettuce (Lactuca sativa L. var. capitata, cv. "Super Milanesa") plants. Seven strains of Bacillus spp. were isolated from the rhizosphere of the Chilean endemic plants Metharme lanata and Nolana jaffuelii, and then identified using the 16s rRNA gene. Indole acetic acid (IAA) production, phosphate solubilization, nitrogen fixation, and 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase activity were assessed. Lettuce plants were inoculated with Bacillus spp. strains and subjected to two different irrigation conditions (95% and 45% of field capacity) and their biomass, net photosynthesis, relative water content, photosynthetic pigments, nitrogen and phosphorus uptake, oxidative damage, proline production, and phenolic compounds were evaluated. The results indicated that plants inoculated with B. atrophaeus, B. ginsengihumi, and B. tequilensis demonstrated the highest growth under drought conditions compared to non-inoculated plants. Treatments increased biomass production and were strongly associated with enhanced N-uptake, water status, chlorophyll content, and photosynthetic activity. Our results show that specific Bacillus species from the Atacama Desert enhance drought stress tolerance in lettuce plants by promoting several beneficial plant traits that facilitate water absorption and nutrient uptake, which support the use of this unexplored and unexploited natural resource as potent bioinoculants to improve plant production under increasing drought conditions.
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Affiliation(s)
- Christian Santander
- Departamento de Ciencias Químicas y Recursos Naturales, Universidad de La Frontera, Temuco 4811230, Chile; (C.S.); (F.G.); (U.P.); (A.R.); (C.S.)
- Grupo de Ingeniería Ambiental y Biotecnología, Facultad de Ciencias Ambientales y Centro EULA-Chile, Universidad de Concepción, Concepción 4070411, Chile
| | - Felipe González
- Departamento de Ciencias Químicas y Recursos Naturales, Universidad de La Frontera, Temuco 4811230, Chile; (C.S.); (F.G.); (U.P.); (A.R.); (C.S.)
- Programa de Doctorado en Ciencias Mención Biología Celular y Molecular Aplicada, Universidad de La Frontera, Temuco 4811230, Chile
| | - Urley Pérez
- Departamento de Ciencias Químicas y Recursos Naturales, Universidad de La Frontera, Temuco 4811230, Chile; (C.S.); (F.G.); (U.P.); (A.R.); (C.S.)
| | - Antonieta Ruiz
- Departamento de Ciencias Químicas y Recursos Naturales, Universidad de La Frontera, Temuco 4811230, Chile; (C.S.); (F.G.); (U.P.); (A.R.); (C.S.)
| | - Ricardo Aroca
- Departamento de Microbiología del Suelo y la Planta, Estación Experimental del Zaidín, CSIC, Profesor Albareda 1, 18008 Granada, Spain;
| | - Cledir Santos
- Departamento de Ciencias Químicas y Recursos Naturales, Universidad de La Frontera, Temuco 4811230, Chile; (C.S.); (F.G.); (U.P.); (A.R.); (C.S.)
| | - Pablo Cornejo
- Escuela de Agronomía, Facultad de Ciencias Agronómicas y de los Alimentos, Pontificia Universidad Católica de Valparaíso, Quillota 2260000, Chile
- Centro Regional de Investigación e Innovación para la Sostenibilidad de la Agricultura y los Territorios Rurales, CERES, La Palma, Quillota 2260000, Chile
| | - Gladys Vidal
- Grupo de Ingeniería Ambiental y Biotecnología, Facultad de Ciencias Ambientales y Centro EULA-Chile, Universidad de Concepción, Concepción 4070411, Chile
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Firincă C, Zamfir LG, Constantin M, Răut I, Capră L, Popa D, Jinga ML, Baroi AM, Fierăscu RC, Corneli NO, Postolache C, Doni M, Gurban AM, Jecu L, Șesan TE. Microbial Removal of Heavy Metals from Contaminated Environments Using Metal-Resistant Indigenous Strains. J Xenobiot 2023; 14:51-78. [PMID: 38249101 PMCID: PMC10801475 DOI: 10.3390/jox14010004] [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: 11/15/2023] [Revised: 12/19/2023] [Accepted: 12/27/2023] [Indexed: 01/23/2024] Open
Abstract
Contamination of soil with heavy metals has become a matter of global importance due to its impact on agriculture, environmental integrity, and therefore human health and safety. Several microbial strains isolated from soil contaminated by long-term chemical and petrochemical activities were found to manifest various levels of tolerance to Cr, Pb, and Zn, out of which Bacillus marisflavi and Trichoderma longibrachiatum exhibited above-moderate tolerance. The concentrations of target heavy metals before and after bioremediation were determined using electrochemical screen-printed electrodes (SPE) modified with different nanomaterials. The morpho-structural SEM/EDX analyses confirmed the presence of metal ions on the surface of the cell, with metal uptake being mediated by biosorption with hydroxyl, carboxyl, and amino groups as per FTIR observations. T. longibrachiatum was observed to pose a higher bioremediation potential compared to B. marisflavi, removing 87% of Cr and 67% of Zn, respectively. Conversely, B. marisflavi removed 86% of Pb from the solution, compared to 48% by T. longibrachiatum. Therefore, the fungal strain T. longibrachiatum could represent a viable option for Cr and Zn bioremediation strategies, whereas the bacterial strain B. marisflavi may be used in Pb bioremediation applications.
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Affiliation(s)
- Cristina Firincă
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
- Department of Botany and Microbiology, Faculty of Biology, University of Bucharest, 91–95 Spl. Independenței, 050095 Bucharest, Romania
| | - Lucian-Gabriel Zamfir
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Mariana Constantin
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
- Department of Pharmacy, Faculty of Pharmacy, University Titu Maiorescu of Bucharest, 040441 Bucharest, Romania
| | - Iuliana Răut
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Luiza Capră
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Diana Popa
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Maria-Lorena Jinga
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Anda Maria Baroi
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Radu Claudiu Fierăscu
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Nicoleta Olguța Corneli
- National Institute of Research and Development for Microbiology and Immunology—Cantacuzino, 103 Spl. Independenței, 050096 Bucharest, Romania
| | - Carmen Postolache
- Department of Botany and Microbiology, Faculty of Biology, University of Bucharest, 91–95 Spl. Independenței, 050095 Bucharest, Romania
| | - Mihaela Doni
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Ana-Maria Gurban
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Luiza Jecu
- Biotechnology and Bioanalysis Departments, National Institute of Research and Development in Chemistry and Petrochemistry—ICECHIM, 202 Spl. Independenței, 060021 Bucharest, Romania; (C.F.); (M.D.)
| | - Tatiana Eugenia Șesan
- Department of Botany and Microbiology, Faculty of Biology, University of Bucharest, 91–95 Spl. Independenței, 050095 Bucharest, Romania
- Field Crop Section, Academy of Agricultural and Forestry Sciences, Bd Mărăști 61, 011464 Bucharest, Romania
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Kyrylenko A, Eijlander RT, Alliney G, de Bos ELV, Wells-Bennik MHJ. Levels and types of microbial contaminants in different plant-based ingredients used in dairy alternatives. Int J Food Microbiol 2023; 407:110392. [PMID: 37729802 DOI: 10.1016/j.ijfoodmicro.2023.110392] [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: 03/27/2023] [Revised: 08/31/2023] [Accepted: 09/04/2023] [Indexed: 09/22/2023]
Abstract
In this study levels and types of microbial contaminants were investigated in 88 different plant-based ingredients including many that are used to manufacture dairy alternatives. Studied ingredients encompassed samples of pulses (pea, faba bean, chickpea, and mung bean), cereals/pseudocereals (oat, rice, amaranth and quinoa) and drupes (coconut, almond and cashew). The microbial analysis included: i) total viable count (TVC), ii) total aerobic mesophilic spore count (TMS), iii) heat resistant aerobic thermophilic spore count (HRTS), iv) anaerobic sulfite reducing Clostridium spore count (SRCS), and v) Bacillus cereus spore count (BCES). Microorganisms isolated from the counting plates with the highest sample dilutions were identified using 16S rRNA and MALDI-TOF MS analyses. Many of the investigated ingredients showed a high proportion of spores as part of their total aerobic mesophilic counts. In 63 % of the samples, the difference between TVC and TMS counts was 1 Log10 unit or less. This was particularly the case for the majority of pea isolates and concentrates, faba bean isolates, oat kernels and flakes, and for single samples of chickpea isolate, almond, amaranth, rice, quinoa, and coconut flours. Concentrations of TVC ranged between <1.0 and 5.3 Log10 CFU/g in different samples, and TMS varied between <1.0 and 4.1 Log10 CFU/g. Levels of HTRS, BCES and SRCS were generally low, typically around or below the LOD of 1.0 Log10 CFU/g. In total, 845 individual bacterial colonies were isolated belonging to 33 different genera. Bacillus licheniformis and B. cereus group strains were most frequently detected among Bacillus isolates, and these species originated primarily from pea and oat samples. Geobacillus stearothermophilus was the main species encountered as part of the HRTS. Among the Clostridium isolates, Clostridum sporogenes/tepidum were predominant species, which were mostly found in pea and almond samples. Strains with potential to cause foodborne infection or intoxication were typed using the PCR-based method for toxin genes detection. In the B. cereus group, 9 % of isolates contained the ces gene, 28 % contained hbl, 42 % cytK, and 69 % were positive for the nhe gene. Absence of the boNT-A and -B genes was confirmed for all isolated C. sporogenes/tepidum strains. Nearly all (98 %) B. licheniformis isolates were positive for the lchAA gene. Insight into the occurrence of microbial contaminants in plant-based ingredients, combined with knowledge of their key inactivation and growth characteristics, can be used for the microbial risk assessment and effective design of plant-based food processing conditions and formulations to ensure food safety and prevent spoilage.
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Affiliation(s)
- Alina Kyrylenko
- NIZO food research, Kernhemseweg 2, 6718 ZB Ede, the Netherlands; Wageningen University and Research, Food Microbiology, P.O. Box 17, 6700 AA Wageningen, the Netherlands.
| | | | - Giovanni Alliney
- NIZO food research, Kernhemseweg 2, 6718 ZB Ede, the Netherlands; Wageningen University and Research, Food Microbiology, P.O. Box 17, 6700 AA Wageningen, the Netherlands
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Yahiaoui B, Bounabi H, Boukerb AM, Gasmi M. Insights into Genomic Features and Potential Biotechnological Applications of Bacillus halotolerans Strain HGR5. Pol J Microbiol 2023; 72:477-490. [PMID: 38103009 PMCID: PMC10725166 DOI: 10.33073/pjm-2023-045] [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: 08/18/2023] [Accepted: 10/27/2023] [Indexed: 12/17/2023] Open
Abstract
Algeria is one of the wealthiest countries in terms of hydrothermal sources, with more than two hundred hot springs. However, diverse and little-described microbial communities colonize these habitats, making them an intriguing research subject. This work reports the isolation of bacteria from two hot springs water samples in northeastern Algeria, evaluating their enzymatic activities and effect on plant pathogens. Out of the obtained 72 bacterial isolates and based on the 16S rRNA gene sequence analysis, the strain HGR5 belonging to Bacillus halotolerans had the most interesting activity profile. Interestingly, HGR5 was substantially active against Fusarium graminearum, Phytophthora infestans, and Alternaria alternata. Furthermore, this strain presented a high ability to degrade casein, Tween 80, starch, chitin, cellulose, and xylan. The genome sequence of HGR5 allowed taxonomic validation and screening of specific genetic traits, determining its antagonistic and enzymatic activities. Genome mining revealed that strain HGR5 encloses several secondary metabolite biosynthetic gene clusters (SM-BGCs) involved in metabolite production with antimicrobial properties. Thus, antimicrobial metabolites included bacillaene, fengycin, laterocidine, bacilysin, subtilosin, bacillibactin, surfactin, myxovirescin, dumulmycin, and elansolid A1. HGR5 strain genome was also mined for CAZymes associated with antifungal activity. Finally, the HGR5 strain exhibited the capacity to degrade polycaprolactone (PCL), a model substrate for polyester biodegradation. Overall, these results suggest that this strain may be a promising novel biocontrol agent with interesting plastic-degradation capability, opening the possibilities of its use in various biotechnological applications.
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Affiliation(s)
- Bilal Yahiaoui
- Laboratory of Applied Microbiology, Department of Microbiology, Faculty of Natural and Life Sciences, Ferhat Abbas University, Setif, Algeria
| | - Hadjira Bounabi
- Higher National School of Biotechnology Taoufik Khaznadar, Constantine, Algeria
- Laboratory of Biotechnology, Higher National School of Biotechnology Taoufik Khaznadar, Constantine, Algeria
| | - Amine M. Boukerb
- Univ Rouen Normandie, Université Caen Normandie, Normandie Univ, CBSA UR 4312, Rouen, France
| | - Meriem Gasmi
- Higher National School of Biotechnology Taoufik Khaznadar, Constantine, Algeria
- Laboratory of Biotechnology, Higher National School of Biotechnology Taoufik Khaznadar, Constantine, Algeria
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Shin JH, Lee HK, Lee SC, Han YK. Biological Control of Fusarium oxysporum, the Causal Agent of Fusarium Basal Rot in Onion by Bacillus spp. THE PLANT PATHOLOGY JOURNAL 2023; 39:600-613. [PMID: 38081320 PMCID: PMC10721391 DOI: 10.5423/ppj.oa.08.2023.0118] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 10/20/2023] [Accepted: 10/31/2023] [Indexed: 12/17/2023]
Abstract
Fusarium oxysporum is the main pathogen causing Fusarium basal rot in onion (Allium cepa L.), which incurs significant yield losses before and after harvest. Among management strategies, biological control is an environmentally safe and sustainable alternative to chemical control. In this study, we isolated and screened bacteria for antifungal activity against the basal rot pathogen F. oxysporum. Isolates 23-045, 23-046, 23-052, 23-055, and 23-056 significantly inhibited F. oxysporum mycelial growth and conidial germination. Isolates 23-045, 23-046, 23-052, and 23-056 suppressed the development of Fusarium basal rot in both onion seedlings and bulbs in pot and spray inoculation assays. Isolate 23-055 was effective in onion seedlings but exhibited weak inhibitory effect on onion bulbs. Based on analyses of the 16S rRNA and rpoB gene sequences together with morphological analysis, isolates 23-045, 23-046, 23-052, and 23-055 were identified as Bacillus thuringiensis, and isolate 23-056 as Bacillus toyonensis. All five bacterial isolates exhibited cellulolytic, proteolytic, and phosphate-solubilizing activity, which may contribute to their antagonistic activity against onion basal rot disease. Taken together B. thuringiensis 23-045, 23-046, 23-052, and 23-055 and B. toyonensis 23-056 have potential for the biological control of Fusarium basal rot in onion.
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Affiliation(s)
- Jong-Hwan Shin
- Horticultural and Herbal Crop Environment Division, National Institute of Horticultural & Herbal Science, Rural Development Administration, Wanju 55365, Korea
| | - Ha-Kyoung Lee
- Horticultural and Herbal Crop Environment Division, National Institute of Horticultural & Herbal Science, Rural Development Administration, Wanju 55365, Korea
| | - Seong-Chan Lee
- Horticultural and Herbal Crop Environment Division, National Institute of Horticultural & Herbal Science, Rural Development Administration, Wanju 55365, Korea
| | - You-Kyoung Han
- Horticultural and Herbal Crop Environment Division, National Institute of Horticultural & Herbal Science, Rural Development Administration, Wanju 55365, Korea
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Zhang N, Wang Z, Shao J, Xu Z, Liu Y, Xun W, Miao Y, Shen Q, Zhang R. Biocontrol mechanisms of Bacillus: Improving the efficiency of green agriculture. Microb Biotechnol 2023; 16:2250-2263. [PMID: 37837627 PMCID: PMC10686189 DOI: 10.1111/1751-7915.14348] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Revised: 09/14/2023] [Accepted: 09/20/2023] [Indexed: 10/16/2023] Open
Abstract
Species of the genus Bacillus have been widely used for the biocontrol of plant diseases in the demand for sustainable agricultural development. New mechanisms underlying Bacillus biocontrol activity have been revealed with the development of microbiome and microbe-plant interaction research. In this review, we first briefly introduce the typical Bacillus biocontrol mechanisms, such as the production of antimicrobial compounds, competition for niches/nutrients, and induction of systemic resistance. Then, we discussed in detail the new mechanisms of pathogen quorum sensing interference and reshaping of the soil microbiota. The "cry for help" mechanism was also introduced, in which plants can release specific signals under pathogen attack to recruit biocontrol Bacillus for root colonization against invasion. Finally, two emerging strategies for enhancing the biocontrol efficacy of Bacillus agents, including the construction of synthetic microbial consortia and the application of rhizosphere-derived prebiotics, were proposed.
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Affiliation(s)
- Nan Zhang
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
| | - Zhengqi Wang
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
| | - Jiahui Shao
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
| | - Zhihui Xu
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
| | - Yunpeng Liu
- State Key Laboratory of Efficient Utilization of Arid and Semi‐arid Arable Land in Northern China, The Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural SciencesBeijingChina
| | - Weibing Xun
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
| | - Youzhi Miao
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
| | - Qirong Shen
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
| | - Ruifu Zhang
- Jiangsu Provincial Key Lab of Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center of Solid Organic WastesNanjing Agricultural UniversityNanjingChina
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Radujković D, Vicca S, van Rooyen M, Wilfahrt P, Brown L, Jentsch A, Reinhart KO, Brown C, De Gruyter J, Jurasinski G, Askarizadeh D, Bartha S, Beck R, Blenkinsopp T, Cahill J, Campetella G, Canullo R, Chelli S, Enrico L, Fraser L, Hao X, Henry HAL, Hohn M, Jouri MH, Koch M, Lawrence Lodge R, Li FY, Lord JM, Milligan P, Minggagud H, Palmer T, Schröder B, Szabó G, Zhang T, Zimmermann Z, Verbruggen E. Consistent predictors of microbial community composition across spatial scales in grasslands reveal low context-dependency. Mol Ecol 2023; 32:6924-6938. [PMID: 37873915 DOI: 10.1111/mec.17178] [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: 07/01/2022] [Revised: 08/26/2023] [Accepted: 10/12/2023] [Indexed: 10/25/2023]
Abstract
Environmental circumstances shaping soil microbial communities have been studied extensively. However, due to disparate study designs, it has been difficult to resolve whether a globally consistent set of predictors exists, or context-dependency prevails. Here, we used a network of 18 grassland sites (11 of those containing regional plant productivity gradients) to examine (i) if similar abiotic or biotic factors predict both large-scale (across sites) and regional-scale (within sites) patterns in bacterial and fungal community composition, and (ii) if microbial community composition differs consistently at two levels of regional plant productivity (low vs. high). Our results revealed that bacteria were associated with particular soil properties (such as base saturation) and both bacteria and fungi were associated with plant community composition across sites and within the majority of sites. Moreover, a discernible microbial community signal emerged, clearly distinguishing high and low-productivity soils across different grasslands independent of their location in the world. Hence, regional productivity differences may be typified by characteristic soil microbial communities across the grassland biome. These results could encourage future research aiming to predict the general effects of global changes on soil microbial community composition in grasslands and to discriminate fertile from infertile systems using generally applicable microbial indicators.
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Affiliation(s)
- Dajana Radujković
- Department of Biology, Plants and Ecosystems (PLECO), Universiteitsplein 1, University of Antwerp, Wilrijk, Belgium
| | - Sara Vicca
- Department of Biology, Plants and Ecosystems (PLECO), Universiteitsplein 1, University of Antwerp, Wilrijk, Belgium
| | - Margaretha van Rooyen
- Department of Plant and Soil Science, University of Pretoria, Pretoria, South Africa
| | - Peter Wilfahrt
- Department of Disturbance Ecology, University of Bayreuth, Bayreuth, Germany
- Department of Ecology, Evolution, and Behavior, University Minnesota, Saint Paul, Minnesota, USA
| | - Leslie Brown
- Applied Behavioural Ecology & Ecosystem Research Unit, Dept. Environmental Sciences, University of South Africa, Florida, South Africa
| | - Anke Jentsch
- Department of Disturbance Ecology, University of Bayreuth, Bayreuth, Germany
| | - Kurt O Reinhart
- United States Department of Agriculture-Agricultural Research Service (or USDA-ARS), Fort Keogh Livestock& Range Research Laboratory, Miles City, Montana, USA
| | - Charlotte Brown
- Department of Biological Sciences, University of Alberta, Edmonton, Alberta, Canada
- Desert Laboratory on Tumamoc Hill, University of Arizona, Tucson, Arizona, USA
| | - Johan De Gruyter
- Department of Biology, Plants and Ecosystems (PLECO), Universiteitsplein 1, University of Antwerp, Wilrijk, Belgium
| | - Gerald Jurasinski
- Landscape Ecology, University of Rostock, Rostock, Germany
- Institute of Botany and Landscape Ecology, University of Greifswald, Greifswald, Germany
| | - Diana Askarizadeh
- Department of Rehabilitation of Arid and Mountainous Regions, Faculty of Natural Resources, University of Tehran, Tehran, Iran
| | - Sandor Bartha
- Centre for Ecological Research, Institute of Ecology and Botany, Vácrátót, Hungary
| | - Ryan Beck
- Agriculture and Agri-Food Canada, Lethbridge Research and Development Centre, Lethbridge, Alberta, Canada
| | - Theodore Blenkinsopp
- Department of Biological Sciences, University of Alberta, Edmonton, Alberta, Canada
| | - James Cahill
- Department of Biological Sciences, University of Alberta, Edmonton, Alberta, Canada
| | - Giandiego Campetella
- Unit of Plant Diversity and Ecosystems Management, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy
| | - Roberto Canullo
- Unit of Plant Diversity and Ecosystems Management, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy
| | - Stefano Chelli
- Unit of Plant Diversity and Ecosystems Management, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy
| | - Lucas Enrico
- Instituto Multidisciplinario de Biología Vegetal (CONICET-UNC) and FCEFyN, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - Lauchlan Fraser
- Department of Natural Resource Science, Thompson Rivers University, Kamloops, British Columbia, Canada
| | - Xiying Hao
- Agriculture and Agri-Food Canada, Lethbridge Research and Development Centre, Lethbridge, Alberta, Canada
| | - Hugh A L Henry
- Department of Biology, University of Western Ontario, London, Ontario, Canada
| | - Maria Hohn
- Department of Botany, Hungarian University of Agriculture and Life Sciences, Budapest, Hungary
| | | | - Marian Koch
- Soil Physics, University of Rostock, Rostock, Germany
| | | | - Frank Yonghong Li
- School of Ecology and Environment, Inner Mongolia University, Hohhot, China
| | - Janice M Lord
- Department of Botany - Te Tari Huaota, University of Otago, Dunedin, New Zealand
| | - Patrick Milligan
- Department of Biology, University of Florida, Gainesville, Florida, USA
| | - Hugjiltu Minggagud
- School of Ecology and Environment, Inner Mongolia University, Hohhot, China
| | - Todd Palmer
- Department of Biology, University of Florida, Gainesville, Florida, USA
| | | | - Gábor Szabó
- Environmental Sciences Doctoral School, Hungarian University of Agriculture and Life Sciences, Gödöllő, Hungary
| | - Tongrui Zhang
- School of Ecology and Environment, Inner Mongolia University, Hohhot, China
| | - Zita Zimmermann
- Centre for Ecological Research, Institute of Ecology and Botany, Vácrátót, Hungary
| | - Erik Verbruggen
- Department of Biology, Plants and Ecosystems (PLECO), Universiteitsplein 1, University of Antwerp, Wilrijk, Belgium
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Ajuna HB, Lim HI, Moon JH, Won SJ, Choub V, Choi SI, Yun JY, Ahn YS. The Prospect of Hydrolytic Enzymes from Bacillus Species in the Biological Control of Pests and Diseases in Forest and Fruit Tree Production. Int J Mol Sci 2023; 24:16889. [PMID: 38069212 PMCID: PMC10707167 DOI: 10.3390/ijms242316889] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2023] [Revised: 11/26/2023] [Accepted: 11/27/2023] [Indexed: 12/18/2023] Open
Abstract
Plant diseases and insect pest damage cause tremendous losses in forestry and fruit tree production. Even though chemical pesticides have been effective in the control of plant diseases and insect pests for several decades, they are increasingly becoming undesirable due to their toxic residues that affect human life, animals, and the environment, as well as the growing challenge of pesticide resistance. In this study, we review the potential of hydrolytic enzymes from Bacillus species such as chitinases, β-1,3-glucanases, proteases, lipases, amylases, and cellulases in the biological control of phytopathogens and insect pests, which could be a more sustainable alternative to chemical pesticides. This study highlights the application potential of the hydrolytic enzymes from different Bacillus sp. as effective biocontrol alternatives against phytopathogens/insect pests through the degradation of cell wall/insect cuticles, which are mainly composed of structural polysaccharides like chitins, β-glucans, glycoproteins, and lipids. This study demonstrates the prospects for applying hydrolytic enzymes from Bacillus sp. as effective biopesticides in forest and fruit tree production, their mode of biocidal activity and dual antimicrobial/insecticidal potential, which indicates a great prospect for the simultaneous biocontrol of pests/diseases. Further research should focus on optimizing the production of hydrolytic enzymes, and the antimicrobial/insecticidal synergism of different Bacillus sp. which could facilitate the simultaneous biocontrol of pests and diseases in forest and fruit tree production.
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Affiliation(s)
- Henry B. Ajuna
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Hyo-In Lim
- Forest Bioinformation Division, National Institute of Forest Science, Suwon 16631, Republic of Korea;
| | - Jae-Hyun Moon
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Sang-Jae Won
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Vantha Choub
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Su-In Choi
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Ju-Yeol Yun
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
| | - Young Sang Ahn
- Department of Forest Resources, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Republic of Korea; (H.B.A.); (J.-H.M.); (S.-J.W.); (V.C.); (S.-I.C.); (J.-Y.Y.)
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Xu X, Nielsen LJD, Song L, Maróti G, Strube ML, Kovács ÁT. Enhanced specificity of Bacillus metataxonomics using a tuf-targeted amplicon sequencing approach. ISME COMMUNICATIONS 2023; 3:126. [PMID: 38012258 PMCID: PMC10682494 DOI: 10.1038/s43705-023-00330-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2023] [Revised: 11/01/2023] [Accepted: 11/08/2023] [Indexed: 11/29/2023]
Abstract
Bacillus species are ubiquitous in nature and have tremendous application potential in agriculture, medicine, and industry. However, the individual species of this genus vary widely in both ecological niches and functional phenotypes, which, hence, requires accurate classification of these bacteria when selecting them for specific purposes. Although analysis of the 16S rRNA gene has been widely used to disseminate the taxonomy of most bacterial species, this gene fails proper classification of Bacillus species. To circumvent this restriction, we designed novel primers and optimized them to allow exact species resolution of Bacillus species in both synthetic and natural communities using high-throughput amplicon sequencing. The primers designed for the tuf gene were not only specific for the Bacillus genus but also sufficiently discriminated species both in silico and in vitro in a mixture of 11 distinct Bacillus species. Investigating the primers using a natural soil sample, 13 dominant species were detected including Bacillus badius, Bacillus velezensis, and Bacillus mycoides as primary members, neither of which could be distinguished with 16S rRNA sequencing. In conclusion, a set of high-throughput primers were developed which allows unprecedented species-level identification of Bacillus species and aids the description of the ecological distribution of Bacilli in various natural environment.
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Affiliation(s)
- Xinming Xu
- Bacterial Interactions and Evolution Group, DTU Bioengineering, Technical University of Denmark, 2800, Lyngby, Denmark
- Institute of Biology Leiden, Leiden University, 2333 BE, Leiden, The Netherlands
| | - Lasse Johan Dyrbye Nielsen
- Bacterial Interactions and Evolution Group, DTU Bioengineering, Technical University of Denmark, 2800, Lyngby, Denmark
| | - Lijie Song
- Bacterial Interactions and Evolution Group, DTU Bioengineering, Technical University of Denmark, 2800, Lyngby, Denmark
- BGI-Tianjin, BGI-Shenzhen, 300308, Tianjin, China
| | - Gergely Maróti
- Institute of Plant Biology, Biological Research Center, ELKH, 6726, Szeged, Hungary
| | - Mikael Lenz Strube
- Bacterial Ecophysiology and Biotechnology Group, DTU Bioengineering, Technical University of Denmark, 2800, Lyngby, Denmark
| | - Ákos T Kovács
- Bacterial Interactions and Evolution Group, DTU Bioengineering, Technical University of Denmark, 2800, Lyngby, Denmark.
- Institute of Biology Leiden, Leiden University, 2333 BE, Leiden, The Netherlands.
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Hettiarachchi A, Cnockaert M, Joossens M, Gekière A, Meeus I, Vereecken NJ, Michez D, Smagghe G, Vandamme P. The wild solitary bees Andrena vaga, Anthophora plumipes, Colletes cunicularius, and Osmia cornuta microbiota are host specific and dominated by endosymbionts and environmental microorganisms. MICROBIAL ECOLOGY 2023; 86:3013-3026. [PMID: 37794084 DOI: 10.1007/s00248-023-02304-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2023] [Accepted: 09/19/2023] [Indexed: 10/06/2023]
Abstract
We characterized the microbial communities of the crop, midgut, hindgut, and ovaries of the wild solitary bees Andrena vaga, Anthophora plumipes, Colletes cunicularius, and Osmia cornuta through 16S rRNA gene and ITS2 amplicon sequencing and a large-scale isolation campaign. The bacterial communities of these bees were dominated by endosymbionts of the genera Wolbachia and Spiroplasma. Bacterial and yeast genera representing the remaining predominant taxa were linked to an environmental origin. While only a single sampling site was examined for Andrena vaga, Anthophora plumipes, and Colletes cunicularius, and two sampling sites for Osmia cornuta, the microbiota appeared to be host specific: bacterial, but not fungal, communities generally differed between the analyzed bee species, gut compartments and ovaries. This may suggest a selective process determined by floral and host traits. Many of the gut symbionts identified in the present study are characterized by metabolic versatility. Whether they exert similar functionalities within the bee gut and thus functional redundancy remains to be elucidated.
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Affiliation(s)
- Amanda Hettiarachchi
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K.L. Ledeganckstraat 35, 9000, Ghent, Belgium
| | - Margo Cnockaert
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K.L. Ledeganckstraat 35, 9000, Ghent, Belgium
| | - Marie Joossens
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K.L. Ledeganckstraat 35, 9000, Ghent, Belgium
| | - Antoine Gekière
- Laboratory of Zoology, Research Institute for Biosciences, University of Mons, Place du parc 20, 7000, Mons, Belgium
| | - Ivan Meeus
- Laboratory of Agrozoology, Department of Plants of Crops, Faculty of Bioscience Engineering, Ghent University, Coupure Links 653, 9000, Gent, Belgium
| | - Nicolas J Vereecken
- Agroecology Lab, Université libre de Bruxelles (ULB), Boulevard du Triomphe CP 264/02, 1050, Brussels, Belgium
| | - Denis Michez
- Laboratory of Zoology, Research Institute for Biosciences, University of Mons, Place du parc 20, 7000, Mons, Belgium
| | - Guy Smagghe
- Laboratory of Agrozoology, Department of Plants of Crops, Faculty of Bioscience Engineering, Ghent University, Coupure Links 653, 9000, Gent, Belgium
| | - Peter Vandamme
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K.L. Ledeganckstraat 35, 9000, Ghent, Belgium.
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Manfredini A, Malusà E, Canfora L. Aptamer-based technology for detecting Bacillus subtilis in soil. Appl Microbiol Biotechnol 2023; 107:6963-6972. [PMID: 37698608 DOI: 10.1007/s00253-023-12765-0] [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: 06/12/2023] [Revised: 08/12/2023] [Accepted: 08/28/2023] [Indexed: 09/13/2023]
Abstract
The uncertainty associated with the impact of a bioinoculant on soil microbial community and, as a consequence, on soil quality, as well as the need to define its persistence, has prompted the demand for an accurate detection and tracking of the presence and the quantification of a target microbial inoculant in soil. Although DNA or RNA-based molecular detection are well established and commonly applied in this regard, alternative ligands such as DNA-aptamers have several advantages over them, such as low cost, ease of modification, ease of immobilisation on lab-on-chip or nanosensors, high stability and not thermolability. In this study, we used a toggle-cell SELEX method to isolate, select and characterise ssDNA (single-strand DNA) aptamers to detect a Bacillus subtilis strain which is being tested as a plant growth promoting rhizobacteria (PGPR) formulation. Two ssDNA aptamers (patenting application n.102022000022590) showed strong affinity and specificity for B. subtilis strains, with values of the kinetic parameters Kd (dissociation constant) in the nanomolar range and Bmax (maximum intensity of binding) around 1. Validation of the suitability of the aptamers was validated on three inoculated soils characterised by different chemical-physical features and in soil from a field trial with the formulated B. subtilis PCM/B 00105 strain. These are considered significant features to monitor B. subtilis strains in soil, practical to optimise bioinoculant application methods, support regulatory processes and foster the shift of agricultural production toward more sustainable cropping systems. KEY POINTS: • First DNA aptamers binding a B. subtilis strain included in a bioinoculum formulation. • First DNA aptamer binding B. subtilis in soil. • Aptamer may be a method for microbial inoculant detection in soil.
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Affiliation(s)
| | - Eligio Malusà
- CREA Centro di Ricerca Viticoltura ed Enologia, 31015, Conegliano, Italy
- National Institute of Horticultural Research, 96-100, Skierniewice, Poland
| | - Loredana Canfora
- CREA Centro di Ricerca Agricoltura e Ambiente, 00184, Rome, Italy
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He Y, Qian J, Li Y, Wang P, Lu B, Liu Y, Zhang Y, Liu F. Responses of Phragmites communis and its rhizosphere bacteria to different exposure sequences of molybdenum disulfide and levofloxacin. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 335:122273. [PMID: 37506800 DOI: 10.1016/j.envpol.2023.122273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Revised: 07/20/2023] [Accepted: 07/25/2023] [Indexed: 07/30/2023]
Abstract
The effect of the molybdenum disulfide (MoS2)/levofloxacin (LVF) co-exposure was explored on Phragmites communis and rhizosphere soil bacterial communities. The sequence of MoS2/LVF exposure and the different MoS2 dosages (10 mg/kg and 100 mg/kg) contributed to different degrees of effect on the plant after 42 days of exposure. The treatment with priority addition of low dosage MoS2 significantly ameliorated P. communis growth, with root length growing up to 532.22 ± 46.29 cm compared to the sole LVF stress (200.04 ± 29.13 cm). Besides, MoS2 served as an alleviator and reduced the accumulation of reactive oxygen species (ROS) and malondialdehyde (MDA) in P. communis under LVF stress, and activated bacteria in rhizosphere soil. These rhizosphere soil microbes assisted in mitigating toxic pollution in the soil and inducing plant resistance to external stress, such as bacteria genera Bacillus, Microbacterium, Flavihumibacter and altererythrobacter. Potential functional profiling of bacterial community indicated the addition of MoS2 contributed to relieve the reduction in functional genes associated with amino acid metabolism and the debilitation of gram_negative and aerobic phenotypic traits caused by LVF stress. This finding reveals the effect of different exposure sequences of MoS2 nanoparticles and antibiotic for plant-soil systems.
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Affiliation(s)
- Yuxuan He
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, People's Republic of China; College of Environment, Hohai University, Nanjing, 210098, People's Republic of China
| | - Jin Qian
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, People's Republic of China; College of Environment, Hohai University, Nanjing, 210098, People's Republic of China.
| | - Yuanyuan Li
- China Machinery International Engineer Design&Research Institute Co.Ltd.(CMIE) East China Regional Center, 2 Zidong Road, Nanjing, 210046, People's Republic of China
| | - Peifang Wang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, People's Republic of China; College of Environment, Hohai University, Nanjing, 210098, People's Republic of China
| | - Bianhe Lu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, People's Republic of China; College of Environment, Hohai University, Nanjing, 210098, People's Republic of China
| | - Yin Liu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, People's Republic of China; College of Environment, Hohai University, Nanjing, 210098, People's Republic of China
| | - Yuhang Zhang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, People's Republic of China; College of Environment, Hohai University, Nanjing, 210098, People's Republic of China
| | - Feng Liu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, People's Republic of China; College of Environment, Hohai University, Nanjing, 210098, People's Republic of China
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Manetsberger J, Caballero Gómez N, Soria-Rodríguez C, Benomar N, Abriouel H. Simply Versatile: The Use of Peribacillus simplex in Sustainable Agriculture. Microorganisms 2023; 11:2540. [PMID: 37894197 PMCID: PMC10608964 DOI: 10.3390/microorganisms11102540] [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: 09/13/2023] [Revised: 09/30/2023] [Accepted: 10/10/2023] [Indexed: 10/29/2023] Open
Abstract
Peribacillus simplex is a Gram-positive, spore-forming bacterium derived from a vast range of different origins. Notably, it is part of the plant-growth-promoting rhizobacterial community of many crops. Although members of the Bacillaceae family have been widely used in agriculture, P. simplex has, so far, remained in the shadow of its more famous relatives, e.g., Bacillus subtilis or Bacillus thuringiensis. Recent studies have, however, started to uncover the bacterium's highly promising and versatile properties, in particular in agricultural and environmental applications. Hence, here, we review the plant-growth-promoting features of P. simplex, as well as its biocontrol activity against a variety of detrimental plant pests in different crops. We further highlight the bacterium's potential as a bioremediation agent for environmental contaminants, such as metals, pesticide residues, or (crude) oil. Finally, we examine the recent developments in the European regulatory landscape to facilitate the use of microorganisms in plant protection products. Undoubtedly, further studies on P. simplex will reveal additional benefits for agricultural and environmentally friendly applications.
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Affiliation(s)
- Julia Manetsberger
- Area of Microbiology, Department of Health Sciences, Faculty of Experimental Sciences, University of Jaén, 23071 Jaén, Spain
| | - Natacha Caballero Gómez
- Area of Microbiology, Department of Health Sciences, Faculty of Experimental Sciences, University of Jaén, 23071 Jaén, Spain
| | - Carlos Soria-Rodríguez
- Area of Public International Law and International Relations, Department of Public and European Common Law, University of Jaén, 23071 Jaén, Spain
| | - Nabil Benomar
- Area of Microbiology, Department of Health Sciences, Faculty of Experimental Sciences, University of Jaén, 23071 Jaén, Spain
| | - Hikmate Abriouel
- Area of Microbiology, Department of Health Sciences, Faculty of Experimental Sciences, University of Jaén, 23071 Jaén, Spain
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Pengproh R, Thanyasiriwat T, Sangdee K, Saengprajak J, Kawicha P, Sangdee A. Evaluation and Genome Mining of Bacillus stercoris Isolate B.PNR1 as Potential Agent for Fusarium Wilt Control and Growth Promotion of Tomato. THE PLANT PATHOLOGY JOURNAL 2023; 39:430-448. [PMID: 37817491 PMCID: PMC10580056 DOI: 10.5423/ppj.oa.01.2023.0018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2023] [Revised: 08/07/2023] [Accepted: 08/26/2023] [Indexed: 10/12/2023]
Abstract
Recently, strategies for controlling Fusarium oxysporum f. sp. lycopersici (Fol), the causal agent of Fusarium wilt of tomato, focus on using effective biocontrol agents. In this study, an analysis of the biocontrol and plant growth promoting (PGP) attributes of 11 isolates of loamy soil Bacillus spp. has been conducted. Among them, the isolates B.PNR1 and B.PNR2 inhibited the mycelial growth of Fol by inducing abnormal fungal cell wall structures and cell wall collapse. Moreover, broad-spectrum activity against four other plant pathogenic fungi, F. oxysporum f. sp. cubense race 1 (Foc), Sclerotium rolfsii, Colletotrichum musae, and C. gloeosporioides were noted for these isolates. These two Bacillus isolates produced indole acetic acid, phosphate solubilization enzymes, and amylolytic and cellulolytic enzymes. In the pot experiment, the culture filtrate from B.PNR1 showed greater inhibition of the fungal pathogens and significantly promoted the growth of tomato plants more than those of the other treatments. Isolate B.PNR1, the best biocontrol and PGP, was identified as Bacillus stercoris by its 16S rRNA gene sequence and whole genome sequencing analysis (WGS). The WGS, through genome mining, confirmed that the B.PNR1 genome contained genes/gene cluster of a nonribosomal peptide synthetase/polyketide synthase, such as fengycin, surfactin, bacillaene, subtilosin A, bacilysin, and bacillibactin, which are involved in antagonistic and PGP activities. Therefore, our finding demonstrates the effectiveness of B. stercoris strain B.PNR1 as an antagonist and for plant growth promotion, highlighting the use of this microorganism as a biocontrol agent against the Fusarium wilt pathogen and PGP abilities in tomatoes.
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Affiliation(s)
- Rattana Pengproh
- Department of Biology, Faculty of Science, Mahasarakham University, Maha Sarakham 44150, Thailand
| | - Thanwanit Thanyasiriwat
- Plant Genome and Disease Research Unit, Department of Agriculture and Resources, Faculty of Natural Resources and Agro-Industry, Kasetsart University Chalermphrakiat Sakon Nakhon Province Campus, Sakon Nakhon 47000, Thailand
| | - Kusavadee Sangdee
- Preclinical Group, Faculty of Medicine, Mahasarakham University, Muang District, Maha Sarakham 44000, Thailand
| | - Juthaporn Saengprajak
- Department of Biology, Faculty of Science, Mahasarakham University, Maha Sarakham 44150, Thailand
| | - Praphat Kawicha
- Plant Genome and Disease Research Unit, Department of Agriculture and Resources, Faculty of Natural Resources and Agro-Industry, Kasetsart University Chalermphrakiat Sakon Nakhon Province Campus, Sakon Nakhon 47000, Thailand
| | - Aphidech Sangdee
- Department of Biology, Faculty of Science, Mahasarakham University, Maha Sarakham 44150, Thailand
- Microbiology and Applied Microbiology Research Unit, Faculty of Science, Mahasarakham University, Kantarawichai District, Maha Sarakham 44150, Thailand
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50
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Garaycochea S, Altier NA, Leoni C, Neal AL, Romero H. Abundance and phylogenetic distribution of eight key enzymes of the phosphorus biogeochemical cycle in grassland soils. ENVIRONMENTAL MICROBIOLOGY REPORTS 2023; 15:352-369. [PMID: 37162018 PMCID: PMC10472533 DOI: 10.1111/1758-2229.13159] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2022] [Accepted: 04/12/2023] [Indexed: 05/11/2023]
Abstract
Grassland biomes provide valuable ecosystem services, including nutrient cycling. Organic phosphorus (Po) represents more than half of the total P in soils. Soil microorganisms release organic P through enzymatic processes, with alkaline phosphatases, acid phosphatases and phytases being the key P enzymes involved in the cycling of organic P. This study analysed 74 soil metagenomes from 17 different grassland biomes worldwide to evaluate the distribution and abundance of eight key P enzymes (PhoD, PhoX, PhoA, Nsap-A, Nsap-B, Nsap-C, BPP and CPhy) and their relationship with environmental factors. Our analyses showed that alkaline phosphatase phoD was the dataset's most abundant P-enzyme encoding genes, with a wide phylogenetic distribution. Followed by the acid phosphatases Nsap-A and Nsap-C showed similar abundance but a different distribution in their respective phylogenetic trees. Multivariate analyses revealed that pH, Tmax , SOC and soil moisture were associated with the abundance and diversity of all genes studied. PhoD and phoX genes strongly correlated with SOC and clay, and the phoX gene was more common in soils with low to medium SOC and neutral pH. In particular, P-enzyme genes tended to respond in a positively correlated manner among them, suggesting a complex relationship of abundance and diversity among them.
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Affiliation(s)
- Silvia Garaycochea
- Instituto Nacional de Investigación Agropecuaria (INIA)Estación Experimental INIA Las BrujasCanelonesUruguay
| | - Nora Adriana Altier
- Instituto Nacional de Investigación Agropecuaria (INIA)Estación Experimental INIA Las BrujasCanelonesUruguay
| | - Carolina Leoni
- Instituto Nacional de Investigación Agropecuaria (INIA)Estación Experimental INIA Las BrujasCanelonesUruguay
| | - Andrew L. Neal
- Net‐Zero and Resilient FarmingRothamsted Research, North WykeOkehamptonUK
| | - Héctor Romero
- Laboratorio de Organización y Evolución del Genoma/Genómica Evolutiva, Departamento de Ecología y Evolución, Facultad de Ciencias/CUREUniversidad de la RepúblicaMaldonadoUruguay
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