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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] [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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Wang F, Zhao Z, Han Y, Li S, Bi X, Ren S, Pan Y, Wang D, Liu X. The Bacterial and Fungal Compositions in the Rhizosphere of Asarum heterotropoides Fr. Schmidt var. mandshuricum (Maxim.) Kitag. in a Typical Planting Region. Microorganisms 2024; 12:692. [PMID: 38674636 PMCID: PMC11051765 DOI: 10.3390/microorganisms12040692] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2024] [Revised: 03/22/2024] [Accepted: 03/25/2024] [Indexed: 04/28/2024] Open
Abstract
Asarum is a traditional Chinese medicinal plant, and its dried roots are commonly used as medicinal materials. Research into the traits of the bacteria and fungus in the Asarum rhizosphere and how they relate to the potency of medicinal plants is important. During four cropping years and collecting months, we used ITS rRNA gene amplicon and sequencing to assess the population, diversity, and predominant kinds of bacteria and fungus in the rhizosphere of Asarum. HPLC was used to determine the three bioactive ingredients, namely asarinin, aristolochic acid I, and volatile oil. The mainly secondary metabolites of Asarum, relationships between microbial communities, soil physicochemical parameters, and possible influences on microbial communities owing to various cropping years and collecting months were all statistically examined. The cropping years and collecting months affected the abundance and diversity of rhizosphere bacteria and fungi, but the cropping year had a significant impact on the structures and compositions of the bacterial communities. The rhizosphere microorganisms were influenced by both the soil physicochemical properties and enzyme activities. Additionally, this study revealed that Trichoderma was positively correlated with the three bioactive ingredients of Asarum, while Tausonia showed entirely opposite results. Gibberella and Leptosphaeria demonstrated a significantly negative correlation with asarinin and violate oil, but they were weakly correlated with the aristolochic acid I content. This study revealed variations in the Asarum rhizosphere microorganism population, diversity, and dominant types across four cropping years and collecting months. The relationship between Asarum secondary metabolites, the soil physicochemical properties, enzyme activities, and rhizosphere microorganisms was discussed. Our results will guide the exploration of the soil characteristics and rhizosphere microorganisms' structures by regulating the microbial community to enhance Asarum quality.
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Affiliation(s)
- Fuqi Wang
- School of Traditional Chinese Materia Medica, Shenyang Pharmaceutical University, Shenyang 110016, China; (F.W.); (Z.Z.)
| | - Zilu Zhao
- School of Traditional Chinese Materia Medica, Shenyang Pharmaceutical University, Shenyang 110016, China; (F.W.); (Z.Z.)
| | - Yangyang Han
- School of Traditional Chinese Materia Medica, Shenyang Pharmaceutical University, Shenyang 110016, China; (F.W.); (Z.Z.)
| | - Shiying Li
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang 110016, China
| | - Xinhua Bi
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang 110016, China
| | - Shumeng Ren
- School of Traditional Chinese Materia Medica, Shenyang Pharmaceutical University, Shenyang 110016, China; (F.W.); (Z.Z.)
| | - Yingni Pan
- School of Traditional Chinese Materia Medica, Shenyang Pharmaceutical University, Shenyang 110016, China; (F.W.); (Z.Z.)
| | - Dongmei Wang
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang 110016, China
| | - Xiaoqiu Liu
- School of Traditional Chinese Materia Medica, Shenyang Pharmaceutical University, Shenyang 110016, China; (F.W.); (Z.Z.)
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Torres P, Altier N, Beyhaut E, Fresia P, Garaycochea S, Abreo E. Phenotypic, genomic and in planta characterization of Bacillus sensu lato for their phosphorus biofertilization and plant growth promotion features in soybean. Microbiol Res 2024; 280:127566. [PMID: 38100951 DOI: 10.1016/j.micres.2023.127566] [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: 11/12/2023] [Revised: 11/30/2023] [Accepted: 12/02/2023] [Indexed: 12/17/2023]
Abstract
Bacillus sensu lato were screened for their capacity to mineralize organic phosphorus (P) and promote plant growth, improving nitrogen (N) and P nutrition of soybean. Isolates were identified through Type Strain Genome Server (TYGS) and Average Nucleotide Identity (ANI). ILBB95, ILBB510 and ILBB592 were identified as Priestia megaterium, ILBB139 as Bacillus wiedmannii, ILBB44 as a member of a sister clade of B. pumilus, ILBB15 as Peribacillus butanolivorans and ILBB64 as Lysinibacillus sp. These strains were evaluated for their capacity to mineralize sodium phytate as organic P and solubilize inorganic P in liquid medium. These assays ranked ILBB15 and ILBB64 with the highest orthophosphate production from phytate. Rhizocompetence and plant growth promotion traits were evaluated in vitro and in silico. Finally, plant bioassays were conducted to assess the effect of the co-inoculation with rhizobial inoculants on nodulation, N and P nutrition. These bioassays showed that B. pumilus, ILBB44 and P. megaterium ILBB95 increased P-uptake in plants on the poor substrate of sand:vermiculite and also on a more fertile mix. Priestia megaterium ILBB592 increased nodulation and N content in plants on the sand:vermiculite:peat mixture. Peribacillus butanolivorans ILBB15 reduced plant growth and nutrition on both substrates. Genomes of ILBB95 and ILBB592 were characterized by genes related with plant growth and biofertilization, whereas ILBB15 was differentiated by genes related to bioremediation. Priestia megaterium ILBB592 is considered as nodule-enhancing rhizobacteria and together with ILBB95, can be envisaged as prospective PGPR with the capacity to exert positive effects on N and P nutrition of soybean plants.
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Affiliation(s)
- Pablo Torres
- Bioinsumos, Área de Recursos Naturales, Producción y Ambiente, Instituto Nacional de Investigación Agropecuaria (INIA Uruguay), Uruguay
| | - Nora Altier
- Bioinsumos, Área de Recursos Naturales, Producción y Ambiente, Instituto Nacional de Investigación Agropecuaria (INIA Uruguay), Uruguay
| | - Elena Beyhaut
- Bioinsumos, Área de Recursos Naturales, Producción y Ambiente, Instituto Nacional de Investigación Agropecuaria (INIA Uruguay), Uruguay
| | - Pablo Fresia
- Unidad Mixta Pasteur+INIA, Institut Pasteur de Montevideo, Uruguay
| | - Silvia Garaycochea
- Bioinsumos, Área de Recursos Naturales, Producción y Ambiente, Instituto Nacional de Investigación Agropecuaria (INIA Uruguay), Uruguay; Área Mejoramiento Genético y Biotecnología Vegetal, Instituto Nacional de Investigación Agropecuaria (INIA Uruguay), Uruguay
| | - Eduardo Abreo
- Bioinsumos, Área de Recursos Naturales, Producción y Ambiente, Instituto Nacional de Investigación Agropecuaria (INIA Uruguay), Uruguay.
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Meng L, Chen Y, Tang L, Sun X, Huo H, He Y, Huang Y, Shao Q, Pan S, Li Z. Effects of temperature-related changes on charred bone in soil: From P release to microbial community. CURRENT RESEARCH IN MICROBIAL SCIENCES 2024; 6:100221. [PMID: 38292865 PMCID: PMC10825478 DOI: 10.1016/j.crmicr.2024.100221] [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] [Indexed: 02/01/2024] Open
Abstract
Phosphorus (P) is one of the most common limited nutrients in terrestrial ecosystems. Animal bones, with abundant bioapatite, are considerable P sources in terrestrial ecosystems. Heating significantly promotes P release from bone bioapatite, which may alleviate P limitation in soil. This study aimed to explore P release from charred bone (CB) under heating at various temperatures (based on common natural heating). It showed that heating at ∼300 °C significantly increased the P release (up to ∼30 mg/kg) from CB compared with other heating temperatures. Then, the subsequent changes of available P and pH induced evident alternation of soil microbial community composition. For instance, CB heated at ∼300 °C caused elevation of phosphate-solubilizing fungi (PSF) abundance. This further stimulated P mobility in the soil. Meanwhile, the fungal community assembly process was shifted from stochastic to deterministic, whereas the bacterial community was relatively stable. This indicated that the bacterial community showed fewer sensitive responses to the CB addition. This study hence elucidated the significant contribution of heated bone materials on P supply. Moreover, functional fungi might assist CB treated by natural heating (e.g., fire) to construct P "Hot Spots".
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Affiliation(s)
- Lingzi Meng
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
- State Key Laboratory of Lake Science and Environment, Nanjing 210008, China
| | - Yunhui Chen
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
- State Key Laboratory of Lake Science and Environment, Nanjing 210008, China
| | - Lingyi Tang
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Xiaoqin Sun
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, Jiangsu 210014, China
| | - Hongxun Huo
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Yuxin He
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Yinan Huang
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Qi Shao
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Shang Pan
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Zhen Li
- State Key Laboratory of Lake Science and Environment, Nanjing 210008, China
- State Key Laboratory of Biogeology and Environmental Geology, Wuhan 430074, China
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, Nanjing Agricultural University, Nanjing 210095, China
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Ait-Ouakrim EH, Ziane SO, Chakhchar A, Ettaki I, El Modafar C, Douira A, Amir S, Ibnsouda-Koraichi S, Belkadi B, Filali-Maltouf A. Valorization of phosphate sludge and its bacterial biomass as a potential bioformulation for improving tomato growth. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:124263-124273. [PMID: 37996587 DOI: 10.1007/s11356-023-31103-5] [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: 07/25/2023] [Accepted: 11/14/2023] [Indexed: 11/25/2023]
Abstract
Phosphorus (P) is a vital limiting nutrient element for plant growth and yield. In Morocco, the natural phosphate rock extractions generate significant amounts of phosphate wash sludge (PS), which could be reused productively, thus creating another added value for farmers. The present study aimed to demonstrate the combination effect of soil amendment by two different PS concentrations (1% and 5%) associated with three phosphate-solubilizing bacteria (PSB) consortia (C1, C2, and C3), isolated from phosphate mining sludge, on plant growth and nutrient uptake in tomato seedlings (Solanum lycopersicum). The results obtained showed that this bioformulation significantly improved P solubilization and plant growth compared to control conditions. Of all the combinations, C3-inoculated soil amended with 5% PS was the most effective in significantly improving plant height and dry and fresh biomass of shoots and roots. P solubilization and its availability for tomato seedlings uptake were maximal with the bioformulation (C3 + 5% PS). This latter enhanced P and potassium (K) uptake by 27.89 and 38.81% in shoots and 38.57% and 74.67% in roots, respectively, compared to non-inoculated soil amended with 5% PS. The highest flowering rate (200 %) was recorded in C3-inoculated soil amended with 5% PS. Supporting these results, the principal component analysis discriminated this bioformulation (C3 + 5% PS) from the other combinations. Our results open up prospects for upgrading phosphate sludge enriched with PSB consortia as a biofertilizer that can be used in ecofriendly agriculture integrated into the circular economy.
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Affiliation(s)
- El Houcine Ait-Ouakrim
- Laboratoire de Microbiologie et Biologie Moléculaire, Centre de Biotechnologie Végétale et Microbienne Biodiversité et Environnement, Faculté des Sciences, Université Mohammed V, 10000, Rabat, Morocco
| | - Salma Oulad Ziane
- Centre d'Agrobiotechnologie et Bioingénierie, Unité de Recherche Labellisée CNRST (AgroBiotech-URL-CNRST 05), Faculté des Sciences et Techniques, Université Cadi Ayyad, 40000, Marrakech, Morocco
| | - Abdelghani Chakhchar
- Centre d'Agrobiotechnologie et Bioingénierie, Unité de Recherche Labellisée CNRST (AgroBiotech-URL-CNRST 05), Faculté des Sciences et Techniques, Université Cadi Ayyad, 40000, Marrakech, Morocco.
- Laboratoire Interdisciplinaire de Recherche en Bio-ressources, Environnement et Matériaux, Ecole Normale Supérieure de Marrakech, Université Cadi Ayyad, 40000, Marrakech, Morocco.
| | - Ismail Ettaki
- Centre d'Agrobiotechnologie et Bioingénierie, Unité de Recherche Labellisée CNRST (AgroBiotech-URL-CNRST 05), Faculté des Sciences et Techniques, Université Cadi Ayyad, 40000, Marrakech, Morocco
| | - Cherkaoui El Modafar
- Centre d'Agrobiotechnologie et Bioingénierie, Unité de Recherche Labellisée CNRST (AgroBiotech-URL-CNRST 05), Faculté des Sciences et Techniques, Université Cadi Ayyad, 40000, Marrakech, Morocco
| | - Allal Douira
- Laboratoire des Productions Végétales, Animales et Agro-Industrie, Faculté des Sciences, Université Ibn Tofail, Kenitra, Morocco
| | - Soumia Amir
- Centre d'Agrobiotechnologie et Bioingénierie, Unité de Recherche Labellisée CNRST (AgroBiotech-URL-CNRST 05), Faculté des Sciences et Techniques, Université Cadi Ayyad, 40000, Marrakech, Morocco
| | - Saad Ibnsouda-Koraichi
- Laboratoire de Biotechnologie Microbienne et Molécules Bioactives, Faculté des Sciences et Techniques, Universite Sidi Mohamed Ben Abdellah, Fes, Morocco
| | - Bouchra Belkadi
- Laboratoire de Microbiologie et Biologie Moléculaire, Centre de Biotechnologie Végétale et Microbienne Biodiversité et Environnement, Faculté des Sciences, Université Mohammed V, 10000, Rabat, Morocco
| | - Abdelkarim Filali-Maltouf
- Laboratoire de Microbiologie et Biologie Moléculaire, Centre de Biotechnologie Végétale et Microbienne Biodiversité et Environnement, Faculté des Sciences, Université Mohammed V, 10000, Rabat, Morocco
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