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Xing Y, Zhang P, Zhang W, Yu C, Luo Z. Continuous cropping of potato changed the metabolic pathway of root exudates to drive rhizosphere microflora. Front Microbiol 2024; 14:1318586. [PMID: 38249485 PMCID: PMC10797025 DOI: 10.3389/fmicb.2023.1318586] [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: 10/11/2023] [Accepted: 12/04/2023] [Indexed: 01/23/2024] Open
Abstract
For potato production, continuous cropping (CC) could lead to autotoxicity buildup and microflora imbalance in the field soil, which may result in failure of crops and reduction in yield. In this study, non-targeted metabolomics (via liquid chromatography with tandem mass spectrometry (LC-MS/MS)) combined with metagenomic profiling (via high-throughput amplicon sequencing) were used to evaluate correlations between metabolomics of potato root exudates and communities of bacteria and fungi around potato plants to illustrate the impacts of CC. Potato plants were grown in soil collected from fields with various CC years (0, 1, 4, and 7 years). Metabolomic analysis showed that the contents and types of potential autotoxins in potato root exudates increased significantly in CC4 and CC7 plants (i.e., grown in soils with 4 and 7 years of CC). The differentially expressed metabolites were mainly produced via alpha-linolenic acid metabolism in plant groups CC0 and CC1 (i.e., no CC or 1 year CC). The metabolomics of the groups CC4 and CC7 became dominated by styrene degradation, biosynthesis of siderophore group non-ribosomal peptides, phenylpropanoid biosynthesis, and biosynthesis of various plant secondary metabolites. Continuous cropping beyond 4 years significantly changed the bacterial and fungal communities in the soil around the potato crops, with significant reduction of beneficial bacteria and accumulation of harmful fungi. Correlations between DEMs and microflora biomarkers were established with strong significances. These results suggested that continuous cropping of potato crops changed their metabolism as reflected in the plant root exudates and drove rhizosphere microflora to directions less favorable to plant growth, and it needs to be well managed to assure potato yield.
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Affiliation(s)
- Yanhong Xing
- College of Resources and Environmental Sciences, Gansu Agricultural University, Lanzhou, China
| | - Pingliang Zhang
- Dryland Agriculture Institute, Gansu Academy of Agricultural Sciences, Lanzhou, China
| | - Wenming Zhang
- College of Resources and Environmental Sciences, Gansu Agricultural University, Lanzhou, China
| | - Chenxu Yu
- Department of Agriculture and Biosystem Engineering, Iowa State University, Ames, IA, United States
| | - Zhuzhu Luo
- College of Resources and Environmental Sciences, Gansu Agricultural University, Lanzhou, China
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2
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Peng J, Wang X, Wang H, Li X, Zhang Q, Wang M, Yan J. Advances in understanding grapevine downy mildew: From pathogen infection to disease management. MOLECULAR PLANT PATHOLOGY 2024; 25:e13401. [PMID: 37991155 PMCID: PMC10788597 DOI: 10.1111/mpp.13401] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2023] [Accepted: 09/29/2023] [Indexed: 11/23/2023]
Abstract
Plasmopara viticola is geographically widespread in grapevine-growing regions. Grapevine downy mildew disease, caused by this biotrophic pathogen, leads to considerable yield losses in viticulture annually. Because of the great significance of grapevine production and wine quality, research on this disease has been widely performed since its emergence in the 19th century. Here, we review and discuss recent understanding of this pathogen from multiple aspects, including its infection cycle, disease symptoms, genome decoding, effector biology, and management and control strategies. We highlight the identification and characterization of effector proteins with their biological roles in host-pathogen interaction, with a focus on sustainable control methods against P. viticola, especially the use of biocontrol agents and environmentally friendly compounds.
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Affiliation(s)
- Junbo Peng
- Beijing Key Laboratory of Environment Friendly Management on Fruit Diseases and Pests in North ChinaInstitute of Plant Protection, Beijing Academy of Agriculture and Forestry SciencesBeijingChina
| | - Xuncheng Wang
- Beijing Key Laboratory of Environment Friendly Management on Fruit Diseases and Pests in North ChinaInstitute of Plant Protection, Beijing Academy of Agriculture and Forestry SciencesBeijingChina
| | - Hui Wang
- Beijing Key Laboratory of Environment Friendly Management on Fruit Diseases and Pests in North ChinaInstitute of Plant Protection, Beijing Academy of Agriculture and Forestry SciencesBeijingChina
| | - Xinghong Li
- Beijing Key Laboratory of Environment Friendly Management on Fruit Diseases and Pests in North ChinaInstitute of Plant Protection, Beijing Academy of Agriculture and Forestry SciencesBeijingChina
| | - Qi Zhang
- Beijing Key Laboratory of Environment Friendly Management on Fruit Diseases and Pests in North ChinaInstitute of Plant Protection, Beijing Academy of Agriculture and Forestry SciencesBeijingChina
| | - Meng Wang
- Beijing Key Laboratory of Environment Friendly Management on Fruit Diseases and Pests in North ChinaInstitute of Plant Protection, Beijing Academy of Agriculture and Forestry SciencesBeijingChina
| | - Jiye Yan
- Beijing Key Laboratory of Environment Friendly Management on Fruit Diseases and Pests in North ChinaInstitute of Plant Protection, Beijing Academy of Agriculture and Forestry SciencesBeijingChina
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3
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Brescia F, Sillo F, Franchi E, Pietrini I, Montesano V, Marino G, Haworth M, Zampieri E, Fusini D, Schillaci M, Papa R, Santamarina C, Vita F, Chitarra W, Nerva L, Petruzzelli G, Mennone C, Centritto M, Balestrini R. The 'microbiome counterattack': Insights on the soil and root-associated microbiome in diverse chickpea and lentil genotypes after an erratic rainfall event. ENVIRONMENTAL MICROBIOLOGY REPORTS 2023; 15:459-483. [PMID: 37226644 PMCID: PMC10667653 DOI: 10.1111/1758-2229.13167] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2023] [Accepted: 05/05/2023] [Indexed: 05/26/2023]
Abstract
Legumes maintain soil fertility thanks to their associated microbiota but are threatened by climate change that causes soil microbial community structural and functional modifications. The core microbiome associated with different chickpea and lentil genotypes was described after an unexpected climatic event. Results showed that chickpea and lentil bulk soil microbiomes varied significantly between two sampling time points, the first immediately after the rainfall and the second 2 weeks later. Rhizobia were associated with the soil of the more productive chickpea genotypes in terms of flower and fruit number. The root-associated bacteria and fungi were surveyed in lentil genotypes, considering that several parcels showed disease symptoms. The metabarcoding analysis revealed that reads related to fungal pathogens were significantly associated with one lentil genotype. A lentil core prokaryotic community common to all genotypes was identified as well as a genotype-specific one. A higher number of specific bacterial taxa and an enhanced tolerance to fungal diseases characterized a lentil landrace compared to the commercial varieties. This outcome supported the hypothesis that locally adapted landraces might have a high recruiting efficiency of beneficial soil microbes.
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Affiliation(s)
- Francesca Brescia
- Institute for Sustainable Plant ProtectionNational Research Council of ItalyTurinItaly
| | - Fabiano Sillo
- Institute for Sustainable Plant ProtectionNational Research Council of ItalyTurinItaly
| | - Elisabetta Franchi
- Eni S.p.A.R&D Environmental & Biological LaboratoriesSan Donato MilaneseItaly
| | - Ilaria Pietrini
- Eni S.p.A.R&D Environmental & Biological LaboratoriesSan Donato MilaneseItaly
| | - Vincenzo Montesano
- Institute for Sustainable Plant ProtectionNational Research Council of ItalyBernalda (MT)Italy
| | - Giovanni Marino
- Institute for Sustainable Plant ProtectionNational Research Council of ItalySesto FiorentinoItaly
| | - Matthew Haworth
- Institute for Sustainable Plant ProtectionNational Research Council of ItalySesto FiorentinoItaly
| | - Elisa Zampieri
- Institute for Sustainable Plant ProtectionNational Research Council of ItalyTurinItaly
| | - Danilo Fusini
- Eni S.p.A.R&D Environmental & Biological LaboratoriesSan Donato MilaneseItaly
| | - Martino Schillaci
- Institute for Sustainable Plant ProtectionNational Research Council of ItalyTurinItaly
| | - Roberto Papa
- Department of Agricultural, Food and Environmental SciencesPolytechnic University of MarcheAnconaItaly
| | - Chiara Santamarina
- Department of Agricultural, Food and Environmental SciencesPolytechnic University of MarcheAnconaItaly
| | - Federico Vita
- Department of Bioscience, Biotechnology and EnvironmentUniversity of Bari Aldo MoroBariItaly
| | - Walter Chitarra
- Research Centre for Viticulture and EnologyCouncil for Agricultural Research and EconomicsConeglianoItaly
| | - Luca Nerva
- Research Centre for Viticulture and EnologyCouncil for Agricultural Research and EconomicsConeglianoItaly
| | | | - Carmelo Mennone
- Azienda Pantanello, ALSIA Research Center Metapontum AgrobiosBernalda (MT)Italy
| | - Mauro Centritto
- Institute for Sustainable Plant ProtectionNational Research Council of ItalySesto FiorentinoItaly
- ENI‐CNR Water Research Center ‘Hypatia of Alexandria’ALSIA Research Center Metapontum AgrobiosBernaldaItaly
| | - Raffaella Balestrini
- Institute for Sustainable Plant ProtectionNational Research Council of ItalyTurinItaly
- ENI‐CNR Water Research Center ‘Hypatia of Alexandria’ALSIA Research Center Metapontum AgrobiosBernaldaItaly
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4
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Liu JL, Yao J, Zhou DL, Liu B, Liu H, Li M, Zhao C, Sunahara G, Duran R. Mining-related multi-resistance genes in sulfate-reducing bacteria treatment of typical karst nonferrous metal(loid) mine tailings in China. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:104753-104766. [PMID: 37707732 DOI: 10.1007/s11356-023-29203-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Accepted: 08/02/2023] [Indexed: 09/15/2023]
Abstract
Management of tailings at metal mine smelter sites can reduce the potential hazards associated with exposure to toxic metal(loid)s and residual organic flotation reagents. In addition, microbes in the tailings harboring multi-resistance genes (e.g., tolerance to multiple antimicrobial agents) can cause high rates of morbidity and global economic problems. The potential co-selection mechanisms of antibiotic resistance genes (ARGs) and metal(loid) resistance genes (MRGs) during tailings sulfate-reducing bacteria (SRB) treatment have been poorly investigated. Samples were collected from a nonferrous metal mine tailing site treated with an established SRB protocol and were analyzed for selected geochemical properties and high throughput sequencing of 16S rRNA gene barcoding. Based on the shotgun metagenomic analysis, the bacterial domain was dominant in nonferrous metal(loid)-rich tailings treated with SRB for 12 months. KEGGs related to ARGs and MRGs were detected. Thiobacillus and Sphingomonas were the main genera carrying the bacA and mexEF resistance operons, along with Sulfuricella which were also found as the main genera carrying MRGs. The SRB treatment may mediate the distribution of numerous resistance genes. KOs based on the metagenomic database indicated that ARGs (mexNW, merD, sul, and bla) and MRGs (czcABCR and copRS genes) were found on the same contig. The SRB strains (Desulfosporosinus and Desulfotomaculum), and the acidophilic strain Acidiphilium significantly contributed to the distribution of sul genes. The functional metabolic pathways related to siderophores metabolism were largely from anaerobic genera of Streptomyces and Microbacterium. The presence of arsenate reductase, metal efflux pump, and Fe transport genes indicated that SRB treatment plays a key role in the metal(loid)s transformation. Overall, our findings show that bio-treatment is an effective tool for managing ARGs/MRGs and metals in tailings that contain numerous metal(loid) contaminants.
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Affiliation(s)
- Jian-Li Liu
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China.
| | - Jun Yao
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - De-Liang Zhou
- Beijing Zhongdianyida Technology Co., Ltd, Beijing, 100190, China
| | - Bang Liu
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Houquan Liu
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Miaomiao Li
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Chenchen Zhao
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China
| | - Geoffrey Sunahara
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China
- Department of Natural Resource Sciences, McGill University, Montreal, Quebec, H9X3V9, Canada
| | - Robert Duran
- School of Water Resources and Environment and Research Center of Environmental Science and Engineering, Sino-Hungarian Joint Laboratory of Environmental Science and Health, Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing, 100083, China
- Université de Pau et des Pays de l'Adour/E2S UPPA, IPREM UMR CNRS 5254, BP 1155, 64013, Pau Cedex, France
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5
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Toffolatti SL, Davillerd Y, D’Isita I, Facchinelli C, Germinara GS, Ippolito A, Khamis Y, Kowalska J, Maddalena G, Marchand P, Marcianò D, Mihály K, Mincuzzi A, Mori N, Piancatelli S, Sándor E, Romanazzi G. Are Basic Substances a Key to Sustainable Pest and Disease Management in Agriculture? An Open Field Perspective. PLANTS (BASEL, SWITZERLAND) 2023; 12:3152. [PMID: 37687399 PMCID: PMC10490370 DOI: 10.3390/plants12173152] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2023] [Revised: 08/23/2023] [Accepted: 08/30/2023] [Indexed: 09/10/2023]
Abstract
Pathogens and pests constantly challenge food security and safety worldwide. The use of plant protection products to manage them raises concerns related to human health, the environment, and economic costs. Basic substances are active, non-toxic compounds that are not predominantly used as plant protection products but hold potential in crop protection. Basic substances' attention is rising due to their safety and cost-effectiveness. However, data on their protection levels in crop protection strategies are lacking. In this review, we critically analyzed the literature concerning the field application of known and potential basic substances for managing diseases and pests, investigating their efficacy and potential integration into plant protection programs. Case studies related to grapevine, potato, and fruit protection from pre- and post-harvest diseases and pests were considered. In specific cases, basic substances and chitosan in particular, could complement or even substitute plant protection products, either chemicals or biologicals, but their efficacy varied greatly according to various factors, including the origin of the substance, the crop, the pathogen or pest, and the timing and method of application. Therefore, a careful evaluation of the field application is needed to promote the successful use of basic substances in sustainable pest management strategies in specific contexts.
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Affiliation(s)
- Silvia Laura Toffolatti
- Dipartimento di Scienze Agrarie e Ambientali (DiSAA), Università degli Studi di Milano, Via Celoria 2, 20133 Milano, Italy; (G.M.); (D.M.)
| | - Yann Davillerd
- Institut de l’Agriculture et de l’Alimentation Biologiques (ITAB), 149 rue de BERCY, F-75012 Paris, France; (Y.D.); (P.M.)
| | - Ilaria D’Isita
- Dipartimento di Scienze Agrarie, Alimenti, Risorse Naturali e Ingegneria (DAFNE), University of Foggia, Via Napoli 25, 71122 Foggia, Italy; (I.D.); (G.S.G.)
| | - Chiara Facchinelli
- Department of Biotechnology, University of Verona, Strada le Grazie 15, 37134 Verona, Italy; (C.F.); (A.M.); (N.M.)
| | - Giacinto Salvatore Germinara
- Dipartimento di Scienze Agrarie, Alimenti, Risorse Naturali e Ingegneria (DAFNE), University of Foggia, Via Napoli 25, 71122 Foggia, Italy; (I.D.); (G.S.G.)
| | - Antonio Ippolito
- Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, Via Amendola 165/A, 70126 Bari, Italy;
| | - Youssef Khamis
- Agricultural Research Center, Plant Pathology Research Institute, 9 Gamaa St., Giza 12619, Egypt;
| | - Jolanta Kowalska
- Department of Organic Agriculture and Environmental Protection, Institute of Plant Protection–National Research Institute, Władysława Wêgorka 20, 60-318 Poznañ, Poland;
| | - Giuliana Maddalena
- Dipartimento di Scienze Agrarie e Ambientali (DiSAA), Università degli Studi di Milano, Via Celoria 2, 20133 Milano, Italy; (G.M.); (D.M.)
| | - Patrice Marchand
- Institut de l’Agriculture et de l’Alimentation Biologiques (ITAB), 149 rue de BERCY, F-75012 Paris, France; (Y.D.); (P.M.)
| | - Demetrio Marcianò
- Dipartimento di Scienze Agrarie e Ambientali (DiSAA), Università degli Studi di Milano, Via Celoria 2, 20133 Milano, Italy; (G.M.); (D.M.)
| | - Kata Mihály
- Faculty of Agricultural and Food Science and Environmental Management, Institute of Food Science, University of Debrecen, Böszörményi út 138, 4032 Debrecen, Hungary; (K.M.); (E.S.)
| | - Annamaria Mincuzzi
- Department of Biotechnology, University of Verona, Strada le Grazie 15, 37134 Verona, Italy; (C.F.); (A.M.); (N.M.)
| | - Nicola Mori
- Department of Biotechnology, University of Verona, Strada le Grazie 15, 37134 Verona, Italy; (C.F.); (A.M.); (N.M.)
| | - Simone Piancatelli
- Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, Via Brecce Bianche 10, 60131 Ancona, Italy; (S.P.); (G.R.)
| | - Erzsébet Sándor
- Faculty of Agricultural and Food Science and Environmental Management, Institute of Food Science, University of Debrecen, Böszörményi út 138, 4032 Debrecen, Hungary; (K.M.); (E.S.)
| | - Gianfranco Romanazzi
- Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, Via Brecce Bianche 10, 60131 Ancona, Italy; (S.P.); (G.R.)
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Kamada S, Wakabayashi R, Naganuma T. Phylogenetic Revisit to a Review on Predatory Bacteria. Microorganisms 2023; 11:1673. [PMID: 37512846 PMCID: PMC10385382 DOI: 10.3390/microorganisms11071673] [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: 05/29/2023] [Revised: 06/22/2023] [Accepted: 06/26/2023] [Indexed: 07/30/2023] Open
Abstract
Predatory bacteria, along with the biology of their predatory behavior, have attracted interest in terms of their ecological significance and industrial applications, a trend that has been even more pronounced since the comprehensive review in 2016. This mini-review does not cover research trends, such as the role of outer membrane vesicles in myxobacterial predation, but provides an overview of the classification and newly described taxa of predatory bacteria since 2016, particularly with regard to phylogenetic aspects. Among them, it is noteworthy that in 2020 there was a major phylogenetic reorganization that the taxa hosting Bdellovibrio and Myxococcus, formerly classified as Deltaproteobacteria, were proposed as the new phyla Bdellovibrionota and Myxococcota, respectively. Predatory bacteria have been reported from other phyla, especially from the candidate divisions. Predatory bacteria that prey on cyanobacteria and predatory cyanobacteria that prey on Chlorella have also been found. These are also covered in this mini-review, and trans-phylum phylogenetic trees are presented.
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Affiliation(s)
- Saki Kamada
- Graduate School of Integrated Sciences for Life, Hiroshima University, 1-4-4 Kagamiyama, Higashihiroshima 739-8528, Japan
| | - Ryoka Wakabayashi
- Graduate School of Integrated Sciences for Life, Hiroshima University, 1-4-4 Kagamiyama, Higashihiroshima 739-8528, Japan
| | - Takeshi Naganuma
- Graduate School of Integrated Sciences for Life, Hiroshima University, 1-4-4 Kagamiyama, Higashihiroshima 739-8528, Japan
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7
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Drenker C, El Mazouar D, Bücker G, Weißhaupt S, Wienke E, Koch E, Kunz S, Reineke A, Rondot Y, Linkies A. Characterization of a Disease-Suppressive Isolate of Lysobacter enzymogenes with Broad Antagonistic Activity against Bacterial, Oomycetal and Fungal Pathogens in Different Crops. PLANTS (BASEL, SWITZERLAND) 2023; 12:682. [PMID: 36771766 PMCID: PMC9920595 DOI: 10.3390/plants12030682] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 01/23/2023] [Accepted: 01/30/2023] [Indexed: 06/18/2023]
Abstract
Although synthetic pesticides play a major role in plant protection, their application needs to be reduced because of their negative impact on the environment. This applies also to copper preparations, which are used in organic farming. For this reason, alternatives with less impact on the environment are urgently needed. In this context, we evaluated eight isolates of the genus Lysobacter (mainly Lysobacter enzymogenes) for their activity against plant pathogens. In vitro, the investigated Lysobacter isolates showed broad antagonistic activity against several phytopathogenic fungi, oomycetes and bacteria. Enzyme assays revealed diverse activities for the tested isolates. The most promising L. enzymogenes isolate (LEC) was used for further detailed analyses of its efficacy and effective working concentrations. The experiments included in vitro spore and sporangia germination tests and leaf disc assays as well as ad planta growth chamber trials against Alternaria solani and Phytophthora infestans on tomato plants, Pseudoperonospora cubensis on cucumbers and Venturia inaequalis on young potted apple trees. When applied on leaves, dilutions of a culture suspension of LEC had a concentration-dependent, protective effect against the tested pathogens. In all pathosystems tested, the effective concentrations were in the range of 2.5-5% and similarly efficacious to common plant protection agents containing copper hydroxide, wettable sulphur or fenhexamid. Thus, the isolate of L. enzymogenes identified in this study exhibits a broad activity against common plant pathogens and is therefore a promising candidate for the development of a microbial biocontrol agent.
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Affiliation(s)
- Christian Drenker
- Julius Kühn-Institute (JKI), Federal Research Centre for Cultivated Plants, Institute for Biological Control, 69221 Dossenheim, Germany
| | - Doris El Mazouar
- Julius Kühn-Institute (JKI), Federal Research Centre for Cultivated Plants, Institute for Biological Control, 69221 Dossenheim, Germany
| | - Gerrit Bücker
- Julius Kühn-Institute (JKI), Federal Research Centre for Cultivated Plants, Institute for Biological Control, 69221 Dossenheim, Germany
- Department of Crop Protection, Hochschule Geisenheim University, 65366 Geisenheim, Germany
| | | | | | - Eckhard Koch
- Julius Kühn-Institute (JKI), Federal Research Centre for Cultivated Plants, Institute for Biological Control, 69221 Dossenheim, Germany
| | | | - Annette Reineke
- Department of Crop Protection, Hochschule Geisenheim University, 65366 Geisenheim, Germany
| | - Yvonne Rondot
- Department of Crop Protection, Hochschule Geisenheim University, 65366 Geisenheim, Germany
| | - Ada Linkies
- Julius Kühn-Institute (JKI), Federal Research Centre for Cultivated Plants, Institute for Biological Control, 69221 Dossenheim, Germany
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8
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Suaifan GARY, Abdel Rahman DMA, Abu-Odeh AM, Abu Jbara F, Shehadeh MB, Darwish RM. Antibiotic-Lysobacter enzymogenes proteases combination as a novel virulence attenuating therapy. PLoS One 2023; 18:e0282705. [PMID: 36893145 PMCID: PMC9997937 DOI: 10.1371/journal.pone.0282705] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2022] [Accepted: 02/17/2023] [Indexed: 03/10/2023] Open
Abstract
Minimizing antibiotic resistance is a key motivation strategy in designing and developing new and combination therapy. In this study, a combination of the antibiotics (cefixime, levofloxacin and gentamicin) with Lysobacter enzymogenes (L. enzymogenes) bioactive proteases present in the cell- free supernatant (CFS) have been investigated against the Gram-positive methicillin-sensitive Staphylococcus aureus (MSSA), methicillin-resistant Staphylococcus aureus (MRSA) and the Gram-negative Escherichia coli (E. coli O157:H7). Results indicated that L. enzymogenes CFS had maximum proteolytic activity after 11 days of incubation and higher growth inhibitory properties against MSSA and MRSA compared to E. coli (O157:H7). The combination of L. enzymogenes CFS with cefixime, gentamicin and levofloxacin at sub-MIC levels, has potentiated their bacterial inhibition capacity. Interestingly, combining cefixime with L. enzymogenes CFS restored its antibacterial activity against MRSA. The MTT assay revealed that L. enzymogenes CFS has no significant reduction in human normal skin fibroblast (CCD-1064SK) cell viability. In conclusion, L. enzymogenes bioactive proteases are natural potentiators for antimicrobials with different bacterial targets including cefixime, gentamicin and levofloxacin representing the beginning of a modern and efficient era in the battle against multidrug-resistant pathogens.
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Affiliation(s)
- Ghadeer A. R. Y. Suaifan
- Department of Pharmaceutical Sciences, School of Pharmacy, The University of Jordan, Amman, Jordan
- * E-mail: ,
| | - Diana M. A. Abdel Rahman
- Department of Pharmaceutical Sciences, School of Pharmacy, The University of Jordan, Amman, Jordan
| | - Ala’ M. Abu-Odeh
- Department of Pharmaceutical Chemistry and Pharmacognosy, School of Pharmacy, Applied Science Private University, Jordan, Amman
| | | | - Mayadah B. Shehadeh
- Department of Pharmaceutical Sciences, School of Pharmacy, The University of Jordan, Amman, Jordan
| | - Rula M. Darwish
- Department of Pharmaceutics and Pharmaceutical Biotechnology, School of Pharmacy, The University of Jordan, Amman, Jordan
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9
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Du M, Zheng M, Liu A, Wang L, Pan X, Liu J, Ran X. Effects of emerging contaminants and heavy metals on variation in bacterial communities in estuarine sediments. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 832:155118. [PMID: 35398136 DOI: 10.1016/j.scitotenv.2022.155118] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Revised: 03/19/2022] [Accepted: 04/04/2022] [Indexed: 06/14/2023]
Abstract
Emerging contaminants (ECs) and heavy metals (HMs) are universally present together in estuarine sediments; despite this, their effects on microbial communities have been widely studied separately, rather than in consort. In this study, the combined effects of ECs and HMs on microbial communities were investigated in sediments from 11 major river estuaries around the Bohai Sea, China. Proteobacteria, Bacteroidetes, and Firmicutes were the dominant phyla in the sediments. Using Shannon indices, total phosphorus and total organic carbon were shown to affect microbial community structure. Redundancy analysis of microbial variation implicated Cd and As as the greatest pollutants, followed by Mn, Fe, Zn and Cu; no impacts from galaxolide (HHCB) and tonalide (AHTN) were found. Correlation analysis demonstrated that the concentration of ECs increased the abundance of certain bacteria (e.g., Haliangium, Altererythrobacter, Gaiella and Erythrobacter), and therefore these can be used as potential contamination indicators. Shannon indices and Chao1 indices showed that there were differences in the richness and diversity of bacterial communities in the sediments of 11 rivers. The principal coordinate analysis displayed higher similarity of bacterial community composition in estuarine sediments in Liaoning province than other regions. The results can be used to predict changes in estuary ecosystems to maintain their ecological balance and health.
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Affiliation(s)
- Ming Du
- College of Environmental Science and Engineering, Qingdao University, Qingdao 266071, China
| | - Minggang Zheng
- Marine Ecology Research Center, First Institute of Oceanography, Ministry of Natural Resources, 266061 Qingdao, China
| | - Aifeng Liu
- College of Environmental Science and Engineering, Qingdao University, Qingdao 266071, China
| | - Ling Wang
- College of Environmental Science and Engineering, Qingdao University, Qingdao 266071, China.
| | - Xin Pan
- College of Environmental Science and Engineering, Qingdao University, Qingdao 266071, China
| | - Jun Liu
- Marine Ecology Research Center, First Institute of Oceanography, Ministry of Natural Resources, 266061 Qingdao, China
| | - Xiangbin Ran
- Marine Ecology Research Center, First Institute of Oceanography, Ministry of Natural Resources, 266061 Qingdao, China
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10
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Koledenkova K, Esmaeel Q, Jacquard C, Nowak J, Clément C, Ait Barka E. Plasmopara viticola the Causal Agent of Downy Mildew of Grapevine: From Its Taxonomy to Disease Management. Front Microbiol 2022; 13:889472. [PMID: 35633680 PMCID: PMC9130769 DOI: 10.3389/fmicb.2022.889472] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Accepted: 04/19/2022] [Indexed: 01/25/2023] Open
Abstract
Plasmopara viticola (P. viticola, Berk. & M. A. Curtis; Berl. & De Toni) causing grapevine downy mildew is one of the most damaging pathogens to viticulture worldwide. Since its recognition in the middle of nineteenth century, this disease has spread from America to Europe and then to all grapevine-growing countries, leading to significant economic losses due to the lack of efficient disease control. In 1885 copper was found to suppress many pathogens, and is still the most effective way to control downy mildews. During the twentieth century, contact and penetrating single-site fungicides have been developed for use against plant pathogens including downy mildews, but wide application has led to the appearance of pathogenic strains resistant to these treatments. Additionally, due to the negative environmental impact of chemical pesticides, the European Union restricted their use, triggering a rush to develop alternative tools such as resistant cultivars breeding, creation of new active ingredients, search for natural products and biocontrol agents that can be applied alone or in combination to kill the pathogen or mitigate its effect. This review summarizes data about the history, distribution, epidemiology, taxonomy, morphology, reproduction and infection mechanisms, symptoms, host-pathogen interactions, host resistance and control of the P. viticola, with a focus on sustainable methods, especially the use of biocontrol agents.
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Affiliation(s)
- Kseniia Koledenkova
- Université de Reims Champagne Ardenne, RIBP EA4707 USC INRAE 1488, SFR Condorcet FR CNRS 3417, Reims, France
| | - Qassim Esmaeel
- Université de Reims Champagne Ardenne, RIBP EA4707 USC INRAE 1488, SFR Condorcet FR CNRS 3417, Reims, France
| | - Cédric Jacquard
- Université de Reims Champagne Ardenne, RIBP EA4707 USC INRAE 1488, SFR Condorcet FR CNRS 3417, Reims, France
| | - Jerzy Nowak
- School of Plant and Environmental Sciences, Virginia Polytechnic Institute and State University, Saunders Hall, Blacksburg, VA, United States
| | - Christophe Clément
- Université de Reims Champagne Ardenne, RIBP EA4707 USC INRAE 1488, SFR Condorcet FR CNRS 3417, Reims, France
| | - Essaid Ait Barka
- Université de Reims Champagne Ardenne, RIBP EA4707 USC INRAE 1488, SFR Condorcet FR CNRS 3417, Reims, France
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11
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Patteson JB, Putz AT, Tao L, Simke WC, Bryant LH, Britt RD, Li B. Biosynthesis of fluopsin C, a copper-containing antibiotic from Pseudomonas aeruginosa. Science 2021; 374:1005-1009. [PMID: 34793213 PMCID: PMC8939262 DOI: 10.1126/science.abj6749] [Citation(s) in RCA: 35] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Metal-binding natural products contribute to metal acquisition and bacterial virulence, but their roles in metal stress response are underexplored. We show that a five-enzyme pathway in Pseudomonas aeruginosa synthesizes a small-molecule copper complex, fluopsin C, in response to elevated copper concentrations. Fluopsin C is a broad-spectrum antibiotic that contains a copper ion chelated by two minimal thiohydroxamates. Biosynthesis of the thiohydroxamate begins with cysteine and requires two lyases, two iron-dependent enzymes, and a methyltransferase. The iron-dependent enzymes remove the carboxyl group and the α carbon from cysteine through decarboxylation, N-hydroxylation, and methylene excision. Conservation of the pathway in P. aeruginosa and other bacteria suggests a common role for fluopsin C in the copper stress response, which involves fusing copper into an antibiotic against other microbes.
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Affiliation(s)
- Jon B. Patteson
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Andrew T. Putz
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Lizhi Tao
- Department of Chemistry, University of California, Davis, Davis, CA, USA
| | - William C. Simke
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - L. Henry Bryant
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - R. David Britt
- Department of Chemistry, University of California, Davis, Davis, CA, USA
| | - Bo Li
- Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
- Department of Microbiology and Immunology, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
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12
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Romanazzi G, Mancini V, Foglia R, Marcolini D, Kavari M, Piancatelli S. Use of Chitosan and Other Natural Compounds Alone or in Different Strategies with Copper Hydroxide for Control of Grapevine Downy Mildew. PLANT DISEASE 2021; 105:3261-3268. [PMID: 33206016 DOI: 10.1094/pdis-06-20-1268-re] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Grapevine downy mildew (GDM) is one of the most serious diseases of grapevines. Limitations to the use of copper-based products in organic agriculture according to the European Union (EU) regulation EU/2002/473 and the later EU Commission implementing regulation 2018/1981 have promoted a search for alternatives. This 5-year field trial evaluated the effectiveness of several strategies against GDM using different chitosan-based formulations and application rates in comparison with other natural compounds applied individually or with copper hydroxide. Trials were performed in commercial vineyards with different environmental conditions and grapevine cultivars. For the natural compounds applied as individual treatments, a 0.5%/0.8% chitosan formulation provided the best protection against GDM; the other compounds and formulations were less effective. When copper hydroxide use was halved by combining it with the natural compounds according to three different strategies, the GDM incidence, severity, and McKinney index were reduced, particularly for copper hydroxide applied in combination with the 0.5%/0.8% chitosan formulation. The 0.5%/0.8% chitosan formulation alone and with copper hydroxide provided good protection against GDM during both high-pressure and low-pressure disease seasons. Therefore, chitosan represents a good alternative to copper formulations for the control of GDM and both organic and integrated disease management.
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Affiliation(s)
- Gianfranco Romanazzi
- Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, Via Brecce Bianche, 60131 Ancona, Italy
| | - Valeria Mancini
- Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, Via Brecce Bianche, 60131 Ancona, Italy
| | - Renzo Foglia
- Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, Via Brecce Bianche, 60131 Ancona, Italy
| | - Diego Marcolini
- Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, Via Brecce Bianche, 60131 Ancona, Italy
| | | | - Simone Piancatelli
- Department of Agricultural, Food and Environmental Sciences, Marche Polytechnic University, Via Brecce Bianche, 60131 Ancona, Italy
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13
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Bejarano A, Perazzolli M, Pertot I, Puopolo G. The Perception of Rhizosphere Bacterial Communication Signals Leads to Transcriptome Reprogramming in Lysobacter capsici AZ78, a Plant Beneficial Bacterium. Front Microbiol 2021; 12:725403. [PMID: 34489914 PMCID: PMC8416617 DOI: 10.3389/fmicb.2021.725403] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2021] [Accepted: 07/21/2021] [Indexed: 12/13/2022] Open
Abstract
The rhizosphere is a dynamic region governed by complex microbial interactions where diffusible communication signals produced by bacteria continuously shape the gene expression patterns of individual species and regulate fundamental traits for adaptation to the rhizosphere environment. Lysobacter spp. are common bacterial inhabitants of the rhizosphere and have been frequently associated with soil disease suppressiveness. However, little is known about their ecology and how diffusible communication signals might affect their behavior in the rhizosphere. To shed light on the aspects determining rhizosphere competence and functioning of Lysobacter spp., we carried out a functional and transcriptome analysis on the plant beneficial bacterium Lysobacter capsici AZ78 (AZ78) grown in the presence of the most common diffusible communication signals released by rhizosphere bacteria. Mining the genome of AZ78 and other Lysobacter spp. showed that Lysobacter spp. share genes involved in the production and perception of diffusible signal factors, indole, diffusible factors, and N-acyl-homoserine lactones. Most of the tested diffusible communication signals (i.e., indole and glyoxylic acid) influenced the ability of AZ78 to inhibit the growth of the phytopathogenic oomycete Pythium ultimum and the Gram-positive bacterium Rhodococcus fascians. Moreover, RNA-Seq analysis revealed that nearly 21% of all genes in AZ78 genome were modulated by diffusible communication signals. 13-Methyltetradecanoic acid, glyoxylic acid, and 2,3-butanedione positively influenced the expression of genes related to type IV pilus, which might enable AZ78 to rapidly colonize the rhizosphere. Moreover, glyoxylic acid and 2,3-butanedione downregulated tRNA genes, possibly as a result of the elicitation of biological stress responses. On its behalf, indole downregulated genes related to type IV pilus and the heat-stable antifungal factor, which might result in impairment of twitching motility and antibiotic production in AZ78. These results show that diffusible communication signals may affect the ecology of Lysobacter spp. in the rhizosphere and suggest that diffusible communication signals might be used to foster rhizosphere colonization and functioning of plant beneficial bacteria belonging to the genus Lysobacter.
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Affiliation(s)
- Ana Bejarano
- Center of Agriculture, Food, Environment, University of Trento, San Michele all'Adige, Italy.,Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy
| | - Michele Perazzolli
- Center of Agriculture, Food, Environment, University of Trento, San Michele all'Adige, Italy.,Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy
| | - Ilaria Pertot
- Center of Agriculture, Food, Environment, University of Trento, San Michele all'Adige, Italy.,Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy
| | - Gerardo Puopolo
- Center of Agriculture, Food, Environment, University of Trento, San Michele all'Adige, Italy.,Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy
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14
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Shen X, Wang B, Yang N, Zhang L, Shen D, Wu H, Dong Y, Niu B, Chou SH, Puopolo G, Fan J, Qian G. Lysobacter enzymogenes antagonizes soilborne bacteria using the type IV secretion system. Environ Microbiol 2021; 23:4673-4688. [PMID: 34227200 DOI: 10.1111/1462-2920.15662] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2021] [Accepted: 07/03/2021] [Indexed: 12/23/2022]
Abstract
Soil microbiome comprises numerous microbial species that continuously interact with each other. Among the modes of diverse interactions, cell-cell killing may play a key role in shaping the microbiome composition. Bacteria deploy various secretion systems to fend off other microorganisms and Type IV Secretion System (T4SS) in pathogenic bacteria was shown to function as a contact-dependent, inter-bacterial killing system only recently. The present study investigated the role played by T4SS in the killing behaviour of the soilborne biocontrol bacterium Lysobacter enzymogenes OH11. Results showed that L. enzymogenes OH11 genome encompasses genes encoding all the components of T4SS and effectors potentially involved in inter-bacterial killing system. Generation of knock-out mutants revealed that L. enzymogenes OH11 uses T4SS as the main contact-dependent weapon against other soilborne bacteria. The T4SS-mediated killing behaviour of L. enzymogenes OH11 decreased the antibacterial and antifungal activity of two Pseudomonas spp. but at the same time, protected carrot from infection by Pectobacterium carotovorum. Overall, this study showed for the first time the involvement of T4SS in the killing behaviour of L. enzymogenes and its impact on the multiple interactions occurring in the soil microbiome.
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Affiliation(s)
- Xi Shen
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
| | - Bingxin Wang
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
| | - Nianda Yang
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
| | - Lulu Zhang
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
| | - Danyu Shen
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
| | - Huijun Wu
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
| | - Ying Dong
- College of Life Science, Northeast Forestry University, Harbin, 150040, China
| | - Ben Niu
- College of Life Science, Northeast Forestry University, Harbin, 150040, China
| | - Shan-Ho Chou
- Institute of Biochemistry, and NCHU Agricultural Biotechnology Center, National Chung Hsing University, Taichung, Taiwan
| | - Gerardo Puopolo
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via E. Mach 1, San Michele all'Adige, 38098, Italy.,Center Agriculture Food Environment (C3A), University of Trento, Via E. Mach 1, San Michele all'Adige, 38098, Italy
| | - Jiaqin Fan
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
| | - Guoliang Qian
- College of Plant Protection (Laboratory of Plant Immunity; Key Laboratory of Integrated Management of Crop Diseases and Pests), Nanjing Agricultural University, Nanjing, 210095, China
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15
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Brescia F, Vlassi A, Bejarano A, Seidl B, Marchetti-Deschmann M, Schuhmacher R, Puopolo G. Characterisation of the Antibiotic Profile of Lysobacter capsici AZ78, an Effective Biological Control Agent of Plant Pathogenic Microorganisms. Microorganisms 2021; 9:microorganisms9061320. [PMID: 34204563 PMCID: PMC8235233 DOI: 10.3390/microorganisms9061320] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2021] [Revised: 06/12/2021] [Accepted: 06/15/2021] [Indexed: 02/08/2023] Open
Abstract
Determining the mode of action of microbial biocontrol agents plays a key role in their development and registration as commercial biopesticides. The biocontrol rhizobacterium Lysobacter capsici AZ78 (AZ78) is able to inhibit a vast array of plant pathogenic oomycetes and Gram-positive bacteria due to the release of antimicrobial secondary metabolites. A combination of MALDI-qTOF-MSI and UHPLC-HRMS/M was applied to finely dissect the AZ78 metabolome and identify the main secondary metabolites involved in the inhibition of plant pathogenic microorganisms. Under nutritionally limited conditions, MALDI-qTOF-MSI revealed that AZ78 is able to release a relevant number of antimicrobial secondary metabolites belonging to the families of 2,5-diketopiperazines, cyclic lipodepsipeptides, macrolactones and macrolides. In vitro tests confirmed the presence of secondary metabolites toxic against Pythium ultimum and Rhodococcus fascians in AZ78 cell-free extracts. Subsequently, UHPLC-HRMS/MS was used to confirm the results achieved with MALDI-qTOF-MSI and investigate for further putative antimicrobial secondary metabolites known to be produced by Lysobacter spp. This technique confirmed the presence of several 2,5-diketopiperazines in AZ78 cell-free extracts and provided the first evidence of the production of the cyclic depsipeptide WAP-8294A2 in a member of L. capsici species. Moreover, UHPLC-HRMS/MS confirmed the presence of dihydromaltophilin/Heat Stable Antifungal Factor (HSAF) in AZ78 cell-free extracts. Due to the production of HSAF by AZ78, cell-free supernatants were effective in controlling Plasmopara viticola on grapevine leaf disks after exposure to high temperatures. Overall, our work determined the main secondary metabolites involved in the biocontrol activity of AZ78 against plant pathogenic oomycetes and Gram-positive bacteria. These results might be useful for the future development of this bacterial strain as the active ingredient of a microbial biopesticide that might contribute to a reduction in the chemical input in agriculture.
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Affiliation(s)
- Francesca Brescia
- Research and Innovation Centre, Department of Sustainable Agro-Ecosystems and Bioresources, Fondazione Edmund Mach, 38098 San Michele all’Adige, Italy; (F.B.); (A.B.)
- Department of Agricultural, Forest and Food Sciences (DISAFA), University of Torino, Largo Paolo Braccini 2, 10095 Grugliasco, Torino, Italy
| | - Anthi Vlassi
- Department of Agrobiotechnology (IFA-Tulln), Institute of Bioanalytics and Agro-Metabolomics, University of Natural Resources and Life Sciences Vienna (BOKU), 3430 Tulln, Austria; (A.V.); (B.S.); (R.S.)
| | - Ana Bejarano
- Research and Innovation Centre, Department of Sustainable Agro-Ecosystems and Bioresources, Fondazione Edmund Mach, 38098 San Michele all’Adige, Italy; (F.B.); (A.B.)
- Center of Agriculture, Food, Environment, University of Trento, 38098 San Michele all’Adige, Italy
| | - Bernard Seidl
- Department of Agrobiotechnology (IFA-Tulln), Institute of Bioanalytics and Agro-Metabolomics, University of Natural Resources and Life Sciences Vienna (BOKU), 3430 Tulln, Austria; (A.V.); (B.S.); (R.S.)
| | - Martina Marchetti-Deschmann
- Institute of Chemical Technologies and Analytics, TU Wien (Vienna University of Technology), 1060 Vienna, Austria;
| | - Rainer Schuhmacher
- Department of Agrobiotechnology (IFA-Tulln), Institute of Bioanalytics and Agro-Metabolomics, University of Natural Resources and Life Sciences Vienna (BOKU), 3430 Tulln, Austria; (A.V.); (B.S.); (R.S.)
| | - Gerardo Puopolo
- Research and Innovation Centre, Department of Sustainable Agro-Ecosystems and Bioresources, Fondazione Edmund Mach, 38098 San Michele all’Adige, Italy; (F.B.); (A.B.)
- Center of Agriculture, Food, Environment, University of Trento, 38098 San Michele all’Adige, Italy
- Correspondence:
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16
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Conte A, Chiaberge S, Pedron F, Barbafieri M, Petruzzelli G, Vocciante M, Franchi E, Pietrini I. Dealing with complex contamination: A novel approach with a combined bio-phytoremediation strategy and effective analytical techniques. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 288:112381. [PMID: 33823438 DOI: 10.1016/j.jenvman.2021.112381] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2020] [Revised: 02/08/2021] [Accepted: 03/11/2021] [Indexed: 05/16/2023]
Abstract
Phytoremediation is a sustainable technology capable of efficiently removing low or moderate contamination. However, complex pollution conditions can drastically reduce efficiency, as plants can show themselves sensitive to organic contaminants, growing slowly and thus impairing metals' absorption. In cases where the action of indigenous bacteria degrading hydrocarbons and promoting plant growth is not sufficient, more sophisticated strategies are necessary. This investigation aims to evaluate the effectiveness of a train of technologies that sees advanced phytoremediation in combination with other biological approaches to remediate soil from a disused industrial area contaminated by N-containing compounds, alkyl aromatic hydrocarbons, copper, and nickel. In particular, a stepwise procedure was used with a pre-treatment (landfarming and bioaugmentation), significantly affecting the soil's fertility, increasing germinability up to 85%, and allowing the plants to extract the metals adequately. Furthermore, with EDTA as a mobilizing agent, nickel absorption has increased up to 36% in Helianthus annuus and up to 88% in Zea mays. For copper, an increase of up to 262% in Helianthus annuus and up to 202% in Zea Mays was obtained. Analysis through Fourier-Transform Ion Cyclotron Resonance Mass Spectrometry highlighted the biodegradation of some of the N-containing compounds recording, after phytoremediation, a decrease of up to almost 90%. Metagenomic analysis of the soil showed a typical microbial population of oxidizing hydrocarbon strains with a prevalence of the Nocardiaceae family (43%). The results obtained appear to confirm the usefulness of the approach developed, and the employed cutting-edge analytical techniques allowed a top-notch characterization of the remediation scenario.
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Affiliation(s)
- Alessandro Conte
- Eni S.p.A, Decarbonization and Environmental R&D, Via Maritano 26, 20097, S. Donato Milanese(MI), Italy
| | - Stefano Chiaberge
- Eni S.p.A., Renewable Energy and Environmental R&D, Via Fauser 4, 28100, Novara, Italy
| | - Francesca Pedron
- Institute of Research on Terrestrial Ecosystem, National Council of Research, Via Moruzzi 1, 56124, Pisa, Italy
| | - Meri Barbafieri
- Institute of Research on Terrestrial Ecosystem, National Council of Research, Via Moruzzi 1, 56124, Pisa, Italy
| | - Gianniantonio Petruzzelli
- Institute of Research on Terrestrial Ecosystem, National Council of Research, Via Moruzzi 1, 56124, Pisa, Italy
| | - Marco Vocciante
- DCCI, Dipartimento di Chimica e Chimica Industriale, Università degli Studi di Genova, Via Dodecaneso 31, 16146, Genova, Italy
| | - Elisabetta Franchi
- Eni S.p.A, Decarbonization and Environmental R&D, Via Maritano 26, 20097, S. Donato Milanese(MI), Italy
| | - Ilaria Pietrini
- Eni S.p.A, Decarbonization and Environmental R&D, Via Maritano 26, 20097, S. Donato Milanese(MI), Italy.
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17
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Selection of plant growth promoting rhizobacteria sharing suitable features to be commercially developed as biostimulant products. Microbiol Res 2020; 245:126672. [PMID: 33418398 DOI: 10.1016/j.micres.2020.126672] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2020] [Revised: 12/05/2020] [Accepted: 12/11/2020] [Indexed: 12/11/2022]
Abstract
Plant biostimulants (PBs) are an eco-friendly alternative to chemical fertilisers because of their minimal or null impact on human health and environment, while ensuring optimal nutrient uptake and increase of crop yield, quality and tolerance to abiotic stress. Although there is an increasing interest on microbial biostimulants, the optimal procedure to select and develop them as commercial products is still not well defined. This work proposes and validates a procedure to select the best plant growth promoting rhizobacteria (PGPR) as potential active ingredients of commercial PBs. The stepwise screening strategy was designed based on literature analysis and consists of six steps: (i) determination of the target crop and commercial strategy, (ii) selection of growth media for the isolation of microbial candidates, (iii) screening for traits giving major agronomical advantages, (iv) screening for traits related to product development, (v) characterisation of the mode of action of PGPR and (vi) assessment of plant growth efficacy. The strategy was validated using a case study: PGPR combined with humic acids to be applied on tomato plants. Among 200 bacterial strains isolated from tomato rhizosphere, 39 % were able to grow in presence of humic acids and shared the ability to solubilise phosphate. After the screening for traits related to product development, only 6 % of initial bacterial strains were sharing traits suitable for the further development as potential PBs. In fact, the selected bacterial strains were able to produce high cell mass and tolerated drought, aspects important for the mass production and formulation. These bacterial strains were not able to produce antibiotics, establish pathogenic interaction with plants and did not belong to bacterial species associated to human, animal and plant diseases. Most importantly, five of the selected bacterial strains were able to promote tomato seedling vigour in experiments carried out in vitro. These bacterial strains were furtherly characterised for their ability to colonize effectively tomato plant roots, produce phytohormones and solubilise soil minerals. This characterisation led to the selection of two candidates that showed the ability to promote tomato plant growth in experiments carried out in greenhouse conditions. Overall, this work provides a flow diagram for the selection of PGPR candidates to be successfully developed and commercialized as PBs. The validation of the flow diagram led to the selection of two bacterial strains belonging to Pantoea and Pseudomonas genera, potential active ingredients of new commercial PBs.
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18
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Demanèche S, Mirabel L, Abbe O, Eberst JB, Souche JL. A New Active Substance Derived from Lyzed Willaertia magna C2c Maky Cells to Fight Grapevine Downy Mildew. PLANTS (BASEL, SWITZERLAND) 2020; 9:E1013. [PMID: 32796580 PMCID: PMC7463879 DOI: 10.3390/plants9081013] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/10/2020] [Revised: 08/07/2020] [Accepted: 08/10/2020] [Indexed: 11/17/2022]
Abstract
Downy mildew of grapevine is one of the most destructive grapevine diseases worldwide. Nowadays, downy mildew control relies almost exclusively on the use of chemical pesticides, including copper products, which are efficient but controversial due to their environmental toxicity. Natural plant protection products have become important solutions in the quest for the sustainable production of food and pest management. However, most biocontrol agents currently on the market, such as biofungicides or elicitors, have a limited efficacy; thus, they cannot replace chemical compounds in full. Our innovation is a natural active substance, which is a lysate of the amoeba Willaertia magna C2c Maky. This active substance is not only able to elicit grapevine defenses, but it also demonstrates direct fungicidal activity against Plasmopara viticola. The efficacy of this new natural substance was demonstrated both in a greenhouse and in a field. The amoeba lysate provided up to 77% protection to grapevine bunches in the field in a natural and safe way.
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Affiliation(s)
- Sandrine Demanèche
- R&D Department, Amoéba, 69680 Chassieu, France; (L.M.); (O.A.); (J.-B.E.); (J.-L.S.)
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Cutiño-Jiménez AM, Menck CFM, Cambas YT, Díaz-Pérez JC. Protein signatures to identify the different genera within the Xanthomonadaceae family. Braz J Microbiol 2020; 51:1515-1526. [PMID: 32488841 DOI: 10.1007/s42770-020-00304-2] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2020] [Accepted: 05/18/2020] [Indexed: 11/26/2022] Open
Abstract
The Xanthomonadaceae family comprises the genera Xanthomonas and Xylella, which include plant pathogenic species that affect economically important crops. The family also includes the plant growth-promoting bacteria Pseudomonas geniculata and Stenotrophomonas rhizophila, and some other species with biotechnological, medical, and environmental relevance. Previous work identified molecular signatures that helped to understand the evolutionary placement of this family within gamma-proteobacteria. In the present study, we investigated whether insertions identified in highly conserved proteins may also be used as molecular markers for taxonomic classification and identification of members within the Xanthomonadaceae family. Four housekeeping proteins (DNA repair and replication-related and protein translation enzymes) were selected. The insertions allowed discriminating phytopathogenic and plant growth-promoting groups within this family, and also amino acid sequences of these insertions allowed distinguishing different genera and, eventually, species as well as pathovars. Moreover, insertions in the proteins MutS and DNA polymerase III (subunit alpha) are conserved in Xylella fastidiosa, but signatures in DNA ligase NAD-dependent and Valyl tRNA synthetase distinguish particular subspecies within the genus. The genus Stenotrophomonas and Pseudomonas geniculata could be distinguishable based on the insertions in MutS, DNA polymerase III (subunit alpha), and Valyl tRNA synthetase, although insertion in DNA ligase NAD-dependent discriminates these bacteria at the species level. All these insertions differentiate species and pathovars within Xanthomonas. Thus, the insertions presented support evolutionary demarcation within Xanthomonadaceae and provide tools for the fast identification in the field of these bacteria with agricultural, environmental, and economic relevance.
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Affiliation(s)
- Ania Margarita Cutiño-Jiménez
- Centre of Studies for Industrial Biotechnology (CEBI), Faculty of Natural and Exact Sciences, University of Oriente, Ave. Patricio Lumumba s/n., Reparto Jiménez, CP 90500, Santiago de Cuba, Cuba.
| | - Carlos Frederico Martins Menck
- Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Prof. Lineu Prestes, 1374, São Paulo, SP, 05508-000, Brazil
| | - Yusdiel Torres Cambas
- Department of Biology and Geography, Faculty of Natural and Exact Sciences, University of Oriente, Ave. Patricio Lumumba s/n., Reparto Jiménez, CP 90500, Santiago de Cuba, Cuba
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20
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Cimmino A, Bejarano A, Masi M, Puopolo G, Evidente A. Isolation of 2,5-diketopiperazines from Lysobacter capsici AZ78 with activity against Rhodococcus fascians. Nat Prod Res 2020; 35:4969-4977. [PMID: 32352330 DOI: 10.1080/14786419.2020.1756803] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Inhibitory activity of the biocontrol bacterial strain Lysobacter capsici AZ78 is related to the production of cyclo(l-Pro-l-Tyr), a 2,5-diketopiperazine with in vitro and in vivo toxic activity against Phytophthora infestans and Plasmopara viticola. Further investigation of culture filtrate organic extracts showed its ability to produce other 2,5-diketopiperazines. They were isolated and identified by spectroscopic (1H NMR and ESIMS) and physic (specific optical rotation) methods as cyclo(l-Pro-l-Val), cyclo(d-Pro-d-Phe), cyclo(l-Pro-l-Leu), and cyclo(d-Pro-l-Tyr). When tested against the phytopathogenic Gram-positive bacterium Rhodococcus fascians LMG 3605, cyclo(l-Pro-l-Val) showed a toxic activity similar to chloramphenicol at a comparable concentration. Overall, these data suggest that 2,5-diketopiperazines represent a class of metabolites characterizing the metabolome of L. capsici AZ78. Furthermore, the toxic activity showed by cyclo(l-Pro-l-Val) against R. fascians LMG 3605 broaden the spectrum activity of 2,5-diketopiperazines against phytopathogenic microorganisms enforcing their potential development as biopesticides.[Formula: see text].
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Affiliation(s)
- Alessio Cimmino
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario Monte S. Angelo, Napoli, Italy
| | - Ana Bejarano
- Center of Agriculture, Food, Environment, University of Trento, San Michele all'Adige, San Michele all'Adige, Italy
| | - Marco Masi
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario Monte S. Angelo, Napoli, Italy
| | - Gerardo Puopolo
- Center of Agriculture, Food, Environment, University of Trento, San Michele all'Adige, San Michele all'Adige, Italy.,Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, San Michele all'Adige, Italy
| | - Antonio Evidente
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario Monte S. Angelo, Napoli, Italy
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21
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Brescia F, Marchetti-Deschmann M, Musetti R, Perazzolli M, Pertot I, Puopolo G. The rhizosphere signature on the cell motility, biofilm formation and secondary metabolite production of a plant-associated Lysobacter strain. Microbiol Res 2020; 234:126424. [PMID: 32036275 DOI: 10.1016/j.micres.2020.126424] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Revised: 01/10/2020] [Accepted: 01/26/2020] [Indexed: 12/15/2022]
Abstract
Lysobacter spp. are common bacterial inhabitants of the rhizosphere of diverse plant species. However, the impact of the rhizosphere conditions on their physiology is still relatively understudied. To provide clues on the behaviour of Lysobacter spp. in this ecological niche, we investigated the physiology of L. capsici AZ78 (AZ78), a biocontrol strain isolated from tobacco rhizosphere, on a common synthetic growth medium (LBA) and on a growth medium containing components of the plant rhizosphere (RMA). The presence of a halo surrounding the AZ78 colony on RMA was a first visible effect related to differences in growth medium composition and it corresponded to the formation of a large outer ring. The lower quantity of nutrients available in RMA as compared with LBA was associated to a higher expression of a gene encoding cAMP-receptor-like protein (Clp), responsible for cell motility and biofilm formation regulation. AZ78 cells on RMA were motile, equipped with cell surface appendages and organised in small groups embedded in a dense layer of fibrils. Metabolic profiling by mass spectrometry imaging revealed increased diversity of analytes produced by AZ78 on RMA as compared with LBA. In particular, putative cyclic lipodepsipeptides, polycyclic tetramate macrolactams, cyclic macrolactams and other putative secondary metabolites with antibiotic activity were identified. Overall, the results obtained in this study shed a light on AZ78 potential to thrive in the rhizosphere by its ability to move, form biofilm and release secondary metabolites.
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Affiliation(s)
- Francesca Brescia
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via E. Mach 1, 38010, San Michele all'Adige, Italy; PhD school in Agricultural Science and Biotechnology, Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, Udine, Italy
| | - Martina Marchetti-Deschmann
- Institute of Chemical Technologies and Analytics, TU Wien (Vienna University of Technology), Vienna, 1060, Austria
| | - Rita Musetti
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, Udine, 33100, Italy
| | - Michele Perazzolli
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via E. Mach 1, 38010, San Michele all'Adige, Italy; Center Agriculture Food Environment (C3A), University of Trento, Via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Ilaria Pertot
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via E. Mach 1, 38010, San Michele all'Adige, Italy; Center Agriculture Food Environment (C3A), University of Trento, Via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Gerardo Puopolo
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via E. Mach 1, 38010, San Michele all'Adige, Italy; Center Agriculture Food Environment (C3A), University of Trento, Via E. Mach 1, 38010, San Michele all'Adige, Italy.
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22
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Bruisson S, Zufferey M, L'Haridon F, Trutmann E, Anand A, Dutartre A, De Vrieze M, Weisskopf L. Endophytes and Epiphytes From the Grapevine Leaf Microbiome as Potential Biocontrol Agents Against Phytopathogens. Front Microbiol 2019; 10:2726. [PMID: 31849878 PMCID: PMC6895011 DOI: 10.3389/fmicb.2019.02726] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2019] [Accepted: 11/08/2019] [Indexed: 01/31/2023] Open
Abstract
Plants harbor diverse microbial communities that colonize both below-ground and above-ground organs. Some bacterial members of these rhizosphere and phyllosphere microbial communities have been shown to contribute to plant defenses against pathogens. In this study, we characterize the pathogen-inhibiting potential of 78 bacterial isolates retrieved from endophytic and epiphytic communities living in the leaves of three grapevine cultivars. We selected two economically relevant pathogens, the fungus Botrytis cinerea causing gray mold and the oomycete Phytophthora infestans, which we used as a surrogate for Plasmopara viticola causing downy mildew. Our results showed that epiphytic isolates were phylogenetically more diverse than endophytic isolates, the latter mostly consisting of Bacillus and Staphylococcus strains, but that mycelial inhibition of both pathogens through bacterial diffusible metabolites was more widespread among endophytes than among epiphytes. Six closely related Bacillus strains induced strong inhibition (>60%) of Botrytis cinerea mycelial growth. Among these, five led to significant perturbation in spore germination, ranging from full inhibition to reduction in germination rate and germ tube length. Different types of spore developmental anomalies were observed for different strains, suggesting multiple active compounds with different modes of action on this pathogen. Compared with B. cinerea, the oomycete P. infestans was inhibited in its mycelial growth by a higher number and more diverse group of isolates, including many Bacillus but also Variovorax, Pantoea, Staphylococcus, Herbaspirillum, or Sphingomonas strains. Beyond mycelial growth, both zoospore and sporangia germination were strongly perturbed upon exposure to cells or cell-free filtrates of selected isolates. Moreover, three strains (all epiphytes) inhibited the pathogen's growth via the emission of volatile compounds. The comparison of the volatile profiles of two of these active strains with those of two phylogenetically closely related, inactive strains led to the identification of molecules possibly involved in the observed volatile-mediated pathogen growth inhibition, including trimethylpyrazine, dihydrochalcone, and L-dihydroxanthurenic acid. This work demonstrates that grapevine leaves are a rich source of bacterial antagonists with strong inhibition potential against two pathogens of high economical relevance. It further suggests that combining diffusible metabolite-secreting endophytes with volatile-emitting epiphytes might be a promising multi-layer strategy for biological control of above-ground pathogens.
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Affiliation(s)
| | - Mónica Zufferey
- Department of Biology, University of Fribourg, Fribourg, Switzerland
| | | | - Eva Trutmann
- Department of Biology, University of Fribourg, Fribourg, Switzerland
| | - Abhishek Anand
- Department of Biology, University of Fribourg, Fribourg, Switzerland
| | - Agnès Dutartre
- Department of Biology, University of Fribourg, Fribourg, Switzerland
| | - Mout De Vrieze
- Department of Biology, University of Fribourg, Fribourg, Switzerland
| | - Laure Weisskopf
- Department of Biology, University of Fribourg, Fribourg, Switzerland
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23
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Fu L, Li H, Wei L, Yang J, Liu Q, Wang Y, Wang X, Ji G. Antifungal and Biocontrol Evaluation of Four Lysobacter Strains Against Clubroot Disease. Indian J Microbiol 2018; 58:353-359. [PMID: 30013280 DOI: 10.1007/s12088-018-0716-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2017] [Accepted: 03/06/2018] [Indexed: 10/17/2022] Open
Abstract
The effect of crude extract (Ce), seed coating agent (SCA) and whole bacterial broth culture (WBC) of Lysobacter strains was evaluated against the causal agent of clubroot formation in Cruciferous vegetables. The ability of four Lysobacter strains (L. antibioticus 6-B-1, L. antibioticus 6-T-4, L. antibioticus 13-B-1 and L. capsici ZST1-2) inhibited Plasmodiophora brassicae of resting spores and disease. Application of WBC of four Lysobacter strains inhibited clubroot disease, indicating that the disease suppression was due to antifungal compounds produced by the biocontrol bacterium in the culture. Development of clubroot on Chinese cabbage was inhibited when the WBC and SCA were applied before P. brassicae inoculation. Crude extract (Ce) of culture filtrate was effective in arresting the germination of resting spores of P. brassicae on slides. However, Lysobacter strains differed in their biocontrol effects, the strain L. capsci ZST1-2 recorded a high level of disease limiting effect.
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Affiliation(s)
- Lina Fu
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
| | - Hanmei Li
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
| | - Lanfang Wei
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
| | - Jun Yang
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
| | - Qi Liu
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
| | - Yating Wang
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
| | - Xing Wang
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
| | - Guanghai Ji
- Key Laboratory of Agriculture Biodiversity for Plant Disease Management Under the Ministry of Education, Yunnan Agricultural University, Kunming, 650201 People's Republic of China
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24
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Thuerig B, James EE, Schärer HJ, Langat MK, Mulholland DA, Treutwein J, Kleeberg I, Ludwig M, Jayarajah P, Giovannini O, Markellou E, Tamm L. Reducing copper use in the environment: the use of larixol and larixyl acetate to treat downy mildew caused by Plasmopara viticola in viticulture. PEST MANAGEMENT SCIENCE 2018; 74:477-488. [PMID: 28905481 DOI: 10.1002/ps.4733] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2017] [Revised: 08/23/2017] [Accepted: 09/08/2017] [Indexed: 05/14/2023]
Abstract
BACKGROUND Plant extracts might provide sustainable alternatives to copper fungicides, which are still widely used despite their unfavourable ecotoxicological profile. Larch bark extract and its constituents, larixyl acetate and larixol, have been shown to be effective against grapevine downy mildew (Plasmopara viticola) under semi-controlled conditions. The aim of this study was to reduce the gap between innovation and the registration of a marketable product, namely to develop scalable extraction processes and to evaluate and optimise the performance of larch extracts under different conditions. RESULTS Toxicologically and technically acceptable solvents like ethanol were used to extract the active compounds larixyl acetate and larixol from bark in sufficient amounts and their combined concentration could be increased by up to 39% by purification steps. The combined concentration of larixyl acetate and larixol from larch turpentine could be increased by up to 66%. The Minimal Inhibitory Concentration (MIC100 ) against P. viticola in vitro (6-23 µg mL-1 ) and the Effective Concentration (EC50 ) in planta under semi-controlled conditions (0.2-0.4 mg mL-1 ) were promising compared with other plant extracts. In vineyards, efficacies of larch extracts reached up to 68% in a stand-alone strategy and 84% in low-copper strategies. CONCLUSION Larch extracts represent valid candidates for copper reduction in organic vineyards, and their development into a sustainable plant protection product might be feasible. © 2017 Society of Chemical Industry.
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Affiliation(s)
- Barbara Thuerig
- Research Institute of Organic Agriculture FiBL, Frick, Switzerland
| | - Emily E James
- Natural Products Research Group, Department of Chemistry, University of Surrey, UK
| | | | - Moses K Langat
- Natural Products Research Group, Department of Chemistry, University of Surrey, UK
| | - Dulcie A Mulholland
- Natural Products Research Group, Department of Chemistry, University of Surrey, UK
| | | | | | - Mathias Ludwig
- Research Institute of Organic Agriculture FiBL, Frick, Switzerland
| | - Praveen Jayarajah
- Natural Products Research Group, Department of Chemistry, University of Surrey, UK
| | - Oscar Giovannini
- Fondazione Edmund Mach di San Michele all'Adige FEM, S. Michele all'Adige, Italy
| | | | - Lucius Tamm
- Research Institute of Organic Agriculture FiBL, Frick, Switzerland
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25
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Puopolo G, Tomada S, Pertot I. The impact of the omics era on the knowledge and use of Lysobacter species to control phytopathogenic micro-organisms. J Appl Microbiol 2017; 124:15-27. [PMID: 28992371 DOI: 10.1111/jam.13607] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2017] [Revised: 10/03/2017] [Accepted: 10/03/2017] [Indexed: 01/19/2023]
Abstract
Omics technologies have had a tremendous impact on underinvestigated genera of plant disease biocontrol agents such as Lysobacter. Strong evidence of the association between Lysobacter spp. and the rhizosphere has been obtained through culture-independent methods, which has also contributed towards highlighting the relationship between Lysobacter abundance and soil suppressiveness. It is conceivable that the role played by Lysobacter spp. in soil suppressiveness is related to their ability to produce an impressive array of lytic enzymes and antibiotics. Indeed, genomics has revealed that biocontrol Lysobacter strains share a vast number of genes involved in antagonism activities, and the molecular pathways underlying how Lysobacter spp. interact with the environment and other micro-organisms have been depicted through transcriptomic analysis. Furthermore, omics technologies shed light on the regulatory pathways governing cell motility and the biosynthesis of antibiotics. Overall, the results achieved so far through omics technologies confirm that the genus Lysobacter is a valuable source of novel biocontrol agents, paving the way for studies aimed at making their application in field conditions more reliable.
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Affiliation(s)
- G Puopolo
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), San Michele all'Adige, Italy
| | - S Tomada
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), San Michele all'Adige, Italy.,Department of Agricultural, Food, Environmental and Animal Sciences, PhD School in Agricultural Science and Biotechnology, University of Udine, Udine, Italy
| | - I Pertot
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), San Michele all'Adige, Italy.,Center Agriculture Food Environment, University of Trento, San Michele all'Adige, Italy
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26
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Tomada S, Sonego P, Moretto M, Engelen K, Pertot I, Perazzolli M, Puopolo G. Dual RNA-Seq of Lysobacter capsici
AZ78 - Phytophthora infestans
interaction shows the implementation of attack strategies by the bacterium and unsuccessful oomycete defense responses. Environ Microbiol 2017; 19:4113-4125. [DOI: 10.1111/1462-2920.13861] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Revised: 07/14/2017] [Accepted: 07/17/2017] [Indexed: 01/03/2023]
Affiliation(s)
- Selena Tomada
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre; Fondazione Edmund Mach (FEM); San Michele all'Adige Italy
- Agricultural Science and Biotechnology, Department of Agricultural, Food, Environmental and Animal Sciences; University of Udine; Udine Italy
| | - Paolo Sonego
- Department of Computational Biology, Research and Innovation Centre; Fondazione Edmund Mach (FEM); San Michele all'Adige Italy
| | - Marco Moretto
- Department of Computational Biology, Research and Innovation Centre; Fondazione Edmund Mach (FEM); San Michele all'Adige Italy
| | - Kristof Engelen
- Department of Computational Biology, Research and Innovation Centre; Fondazione Edmund Mach (FEM); San Michele all'Adige Italy
| | - Ilaria Pertot
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre; Fondazione Edmund Mach (FEM); San Michele all'Adige Italy
- Center Agriculture Food Environment; University of Trento; San Michele all'Adige Italy
| | - Michele Perazzolli
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre; Fondazione Edmund Mach (FEM); San Michele all'Adige Italy
| | - Gerardo Puopolo
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre; Fondazione Edmund Mach (FEM); San Michele all'Adige Italy
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27
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Lazazzara V, Perazzolli M, Pertot I, Biasioli F, Puopolo G, Cappellin L. Growth media affect the volatilome and antimicrobial activity against Phytophthora infestans in four Lysobacter type strains. Microbiol Res 2017; 201:52-62. [PMID: 28602402 DOI: 10.1016/j.micres.2017.04.015] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2017] [Revised: 04/22/2017] [Accepted: 04/27/2017] [Indexed: 10/19/2022]
Abstract
Bacterial volatile organic compounds (VOCs) play important ecological roles in soil microbial interactions. Lysobacter spp. are key determinants of soil suppressiveness against phytopathogens and the production of non-volatile antimicrobial metabolites has been extensively characterised. However, the chemical composition and antagonistic properties of the Lysobacter volatilome have been poorly investigated. In this work, VOC emission profiles of four Lysobacter type strains grown on a sugar-rich and a protein-rich medium were analysed using solid-phase microextraction gas chromatography-mass spectrometry and proton transfer reaction-time of flight-mass spectrometry. Lysobacter antibioticus, L. capsici, L. enzymogenes and L. gummosus type strains were recognised according to their volatilome assessed using both headspace mass spectrometry methods Moreover, the chemical profiles and functional properties of the Lysobacter volatilome differed according to the growth medium, and a protein-rich substrate maximised the toxic effect of the four Lysobacter type strains against Phytophthora infestans. Antagonistic (pyrazines, pyrrole and decanal) and non-antagonistic (delta-hexalactone and ethanol) VOCs against Ph. infestans or putative plant growth stimulator compounds (acetoin and indole) were mainly emitted by Lysobacter type strains grown on protein- and sugar-rich media respectively. Thus nutrient availability under soil conditions could affect the aggressiveness of Lysobacter spp. and possibly optimise interactions of these bacterial species with the other soil inhabitants.
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Affiliation(s)
- Valentina Lazazzara
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via Mach 1, 38010 San Michele all'Adige, Italy; Centre for Analytical Chemistry, Department of Agrobiotechnology (IFA-Tulln), University of Natural Resources and Life Sciences, Vienna (BOKU), Konrad-Lorenz-Straße 20, 3430 Tulln an der Donau, Austria
| | - Michele Perazzolli
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via Mach 1, 38010 San Michele all'Adige, Italy
| | - Ilaria Pertot
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via Mach 1, 38010 San Michele all'Adige, Italy; Centre Agriculture Food Environment, University of Trento, Via Mach 1, 38010 San Michele all'Adige, Italy
| | - Franco Biasioli
- Department of Food Quality and Nutrition, Research and Innovation Centre, Fondazione Edmund Mach, Via Mach 1, 38010 San Michele all'Adige, Italy
| | - Gerardo Puopolo
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach, Via Mach 1, 38010 San Michele all'Adige, Italy.
| | - Luca Cappellin
- Department of Food Quality and Nutrition, Research and Innovation Centre, Fondazione Edmund Mach, Via Mach 1, 38010 San Michele all'Adige, Italy
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28
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Tomada S, Puopolo G, Perazzolli M, Musetti R, Loi N, Pertot I. Pea Broth Enhances the Biocontrol Efficacy of Lysobacter capsici AZ78 by Triggering Cell Motility Associated with Biogenesis of Type IV Pilus. Front Microbiol 2016; 7:1136. [PMID: 27507963 PMCID: PMC4960238 DOI: 10.3389/fmicb.2016.01136] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2016] [Accepted: 07/07/2016] [Indexed: 12/18/2022] Open
Abstract
Bacterial cells can display different types of motility, due to the presence of external appendages such as flagella and type IV pili. To date, little information on the mechanisms involved in the motility of the Lysobacter species has been available. Recently, L. capsici AZ78, a biocontrol agent of phytopathogenic oomycetes, showed the ability to move on jellified pea broth. Pea broth medium improved also the biocontrol activity of L. capsici AZ78 against Plasmopara viticola under greenhouse conditions. Noteworthy, the quantity of pea residues remaining on grapevine leaves fostered cell motility in L. capsici AZ78. Based on these results, this unusual motility related to the composition of the growth medium was investigated in bacterial strains belonging to several Lysobacter species. The six L. capsici strains tested developed dendrite-like colonies when grown on jellified pea broth, while the development of dendrite-like colonies was not recorded in the media commonly used in motility assays. To determine the presence of genes responsible for biogenesis of the flagellum and type IV pili, the genome of L. capsici AZ78 was mined. Genes encoding structural components and regulatory factors of type IV pili were upregulated in L. capsici AZ78 cells grown on the above-mentioned medium, as compared with the other tested media. These results provide new insight into the motility mechanism of L. capsici members and the role of type IV pili and pea compounds on the epiphytic fitness and biocontrol features of L. capsici AZ78.
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Affiliation(s)
- Selena Tomada
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy; Agricultural Science and Biotechnology Program, Department of Agricultural, Food, Environmental, and Animal Sciences, University of UdineUdine, Italy
| | - Gerardo Puopolo
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Michele Perazzolli
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Rita Musetti
- Department of Agricultural, Food, Environmental, and Animal Sciences, University of Udine Udine, Italy
| | - Nazia Loi
- Department of Agricultural, Food, Environmental, and Animal Sciences, University of Udine Udine, Italy
| | - Ilaria Pertot
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
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29
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Romanazzi G, Mancini V, Feliziani E, Servili A, Endeshaw S, Neri D. Impact of Alternative Fungicides on Grape Downy Mildew Control and Vine Growth and Development. PLANT DISEASE 2016; 100:739-748. [PMID: 30688627 DOI: 10.1094/pdis-05-15-0564-re] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Grapevine downy mildew (GDM) is one of the most serious diseases of grapevines. With limitations in the use of copper-based products imposed for organic agriculture by the European Union, research for alternatives is encouraged. The aim of this research was to follow a 2-year trial to evaluate the control of GDM using some alternative compounds, and to determine their effects on shoot growth, plant photosynthesis, and grape quality and quantity. Under low disease pressure, Bordeaux mixture, copper hydroxide, laminarin combined with low copper, and 0.5 and 0.8% chitosan had the lowest GDM incidence, reduced on leaves by 96, 95, 75, 56, and 81%, respectively, compared with the untreated control in the last survey. With high disease pressure, Bordeaux mixture, laminarin combined with Saccharomyces extracts, and 0.5 and 0.8% chitosan had the lowest GDM incidence, reduced on grape by 86, 37, 66, and 75%, respectively, compared with the untreated control in the survey of mid-July. Chitosan at 0.8% lowered net photosynthesis, due to reduced stomatal conductance, leaf area, and dry weight, with no negative effects observed on the quantity of the grape berries and the quality parameters of their juice. Among the alternatives to copper, chitosan provided the best GDM protection and reduced the vigor of the vegetation, inducing physiological changes without negative effects on grape production.
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Affiliation(s)
- Gianfranco Romanazzi
- Department of Agricultural, Food, and Environmental Sciences, Marche Polytechnic University, 60131 Ancona, Italy
| | - Valeria Mancini
- Department of Agricultural, Food, and Environmental Sciences, Marche Polytechnic University, 60131 Ancona, Italy
| | - Erica Feliziani
- Department of Agricultural, Food, and Environmental Sciences, Marche Polytechnic University, 60131 Ancona, Italy
| | - Andrea Servili
- Department of Agricultural, Food, and Environmental Sciences, Marche Polytechnic University, 60131 Ancona, Italy
| | - Solomon Endeshaw
- Department of Agricultural, Food, and Environmental Sciences, Marche Polytechnic University, 60131 Ancona, Italy
| | - Davide Neri
- Department of Agricultural, Food, and Environmental Sciences, Marche Polytechnic University, 60131 Ancona, Italy
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Puopolo G, Tomada S, Sonego P, Moretto M, Engelen K, Perazzolli M, Pertot I. The Lysobacter capsici AZ78 Genome Has a Gene Pool Enabling it to Interact Successfully with Phytopathogenic Microorganisms and Environmental Factors. Front Microbiol 2016; 7:96. [PMID: 26903975 PMCID: PMC4742617 DOI: 10.3389/fmicb.2016.00096] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2015] [Accepted: 01/18/2016] [Indexed: 01/26/2023] Open
Abstract
Lysobacter capsici AZ78 has considerable potential for biocontrol of phytopathogenic microorganisms. However, lack of information about genetic cues regarding its biological characteristics may slow down its exploitation as a biofungicide. In order to obtain a comprehensive overview of genetic features, the L. capsici AZ78 genome was sequenced, annotated and compared with the phylogenetically related pathogens Stenotrophomonas malthophilia K729a and Xanthomonas campestris pv. campestris ATCC 33913. Whole genome comparison, supported by functional analysis, indicated that L. capsici AZ78 has a larger number of genes responsible for interaction with phytopathogens and environmental stress than S. malthophilia K729a and X. c. pv. campestris ATCC 33913. Genes involved in the production of antibiotics, lytic enzymes and siderophores were specific for L. capsici AZ78, as well as genes involved in resistance to antibiotics, environmental stressors, fungicides and heavy metals. The L. capsici AZ78 genome did not encompass genes involved in infection of humans and plants included in the S. malthophilia K729a and X. c. pv. campestris ATCC 33913 genomes, respectively. The L. capsici AZ78 genome provides a genetic framework for detailed analysis of other L. capsici members and the development of novel biofungicides based on this bacterial strain.
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Affiliation(s)
- Gerardo Puopolo
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Selena Tomada
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy; Department of Agricultural and Environmental Science (DISA), PhD School of Agricultural Science and Biotechnology, University of UdineUdine, Italy
| | - Paolo Sonego
- Department of Computational Biology, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Marco Moretto
- Department of Computational Biology, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Kristof Engelen
- Department of Computational Biology, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Michele Perazzolli
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
| | - Ilaria Pertot
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach San Michele all'Adige, Italy
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Cappelletti M, Perazzolli M, Antonielli L, Nesler A, Torboli E, Bianchedi PL, Pindo M, Puopolo G, Pertot I. Leaf Treatments with a Protein-Based Resistance Inducer Partially Modify Phyllosphere Microbial Communities of Grapevine. FRONTIERS IN PLANT SCIENCE 2016; 7:1053. [PMID: 27486468 PMCID: PMC4949236 DOI: 10.3389/fpls.2016.01053] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2016] [Accepted: 07/05/2016] [Indexed: 05/20/2023]
Abstract
Protein derivatives and carbohydrates can stimulate plant growth, increase stress tolerance, and activate plant defense mechanisms. However, these molecules can also act as a nutritional substrate for microbial communities living on the plant phyllosphere and possibly affect their biocontrol activity against pathogens. We investigated the mechanisms of action of a protein derivative (nutrient broth, NB) against grapevine downy mildew, specifically focusing on the effects of foliar treatments on plant defense stimulation and on the composition and biocontrol features of the phyllosphere microbial populations. NB reduced downy mildew symptoms and induced the expression of defense-related genes in greenhouse- and in vitro-grown plants, indicating the activation of grapevine resistance mechanisms. Furthermore, NB increased the number of culturable phyllosphere bacteria and altered the composition of bacterial and fungal populations on leaves of greenhouse-grown plants. Although, NB-induced changes on microbial populations were affected by the structure of indigenous communities originally residing on grapevine leaves, degrees of disease reduction and defense gene modulation were consistent among the experiments. Thus, modifications in the structure of phyllosphere populations caused by NB application could partially contribute to downy mildew control by competition for space or other biocontrol strategies. Particularly, changes in the abundance of phyllosphere microorganisms may provide a contribution to resistance induction, partially affecting the hormone-mediated signaling pathways involved. Modifying phyllosphere populations by increasing natural biocontrol agents with the application of selected nutritional factors can open new opportunities in terms of sustainable plant protection strategies.
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Affiliation(s)
- Martina Cappelletti
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy
- Department of Agricultural and Environmental Sciences, University of UdineUdine, Italy
| | - Michele Perazzolli
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy
- *Correspondence: Michele Perazzolli
| | - Livio Antonielli
- Bioresources Unit, Department of Health and Environment, Austrian Institute of TechnologyTulln and der Donau, Austria
| | - Andrea Nesler
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy
| | - Esmeralda Torboli
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy
| | - Pier L. Bianchedi
- Technology Transfer Center, Fondazione Edmund MachSan Michele all'Adige, Italy
| | - Massimo Pindo
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy
| | - Gerardo Puopolo
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy
| | - Ilaria Pertot
- Department of Sustainable Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund MachSan Michele all'Adige, Italy
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Segarra G, Puopolo G, Porcel-Rodríguez E, Giovannini O, Pertot I. Monitoring Lysobacter capsici AZ78 using strain specific qPCR reveals the importance of the formulation for its survival in vineyards. FEMS Microbiol Lett 2015; 363:fnv243. [PMID: 26691736 DOI: 10.1093/femsle/fnv243] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/16/2015] [Indexed: 11/12/2022] Open
Abstract
Survival in the phyllosphere is a critical feature for biofungicides based on non-spore forming bacteria. Moreover, knowledge of their persistence on plants is important to design effective formulations and application techniques. With this scope, the aim of this work was to develop a specific method to monitor the fate in the environment of Lysobacter capsici AZ78, a biocontrol agent of Plasmopara viticola, and to evaluate the contribution of formulation in its persistence on grapevine leaves. A strain-specific primer pair derived from REP-PCR fingerprinting was used in quantitative PCR experiments to track the evolution of L. capsici AZ78 population in vineyards. The population reached between 5 and 6 log10 cells gram of leaf(-1) after application and decreased by more than 100 times in one week. Multiple regression analysis showed that unfavourable temperature was the main environmental factor correlating with the decrease of L. capsici AZ78 persistence on grapevine leaves. Importantly, the use of formulation additives protected L. capsici AZ78 against environmental factors and improved its persistence on the leaves by more than 10 times compared to nude cells. Formulation and the knowledge about the persistence of L. capsici AZ78 in vineyards will be useful to develop commercial biofungicides for foliar application.
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Affiliation(s)
- Guillem Segarra
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via Edmund Mach 1, 38010 San Michele all'Adige, Trento, Italy
| | - Gerardo Puopolo
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via Edmund Mach 1, 38010 San Michele all'Adige, Trento, Italy
| | - Elena Porcel-Rodríguez
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via Edmund Mach 1, 38010 San Michele all'Adige, Trento, Italy
| | - Oscar Giovannini
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via Edmund Mach 1, 38010 San Michele all'Adige, Trento, Italy
| | - Ilaria Pertot
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via Edmund Mach 1, 38010 San Michele all'Adige, Trento, Italy
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Stepwise flow diagram for the development of formulations of non spore-forming bacteria against foliar pathogens: The case of Lysobacter capsici AZ78. J Biotechnol 2015; 216:56-64. [DOI: 10.1016/j.jbiotec.2015.10.004] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2015] [Revised: 09/25/2015] [Accepted: 10/06/2015] [Indexed: 11/21/2022]
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Gómez Expósito R, Postma J, Raaijmakers JM, De Bruijn I. Diversity and Activity of Lysobacter Species from Disease Suppressive Soils. Front Microbiol 2015; 6:1243. [PMID: 26635735 PMCID: PMC4644931 DOI: 10.3389/fmicb.2015.01243] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2015] [Accepted: 10/26/2015] [Indexed: 02/05/2023] Open
Abstract
The genus Lysobacter includes several species that produce a range of extracellular enzymes and other metabolites with activity against bacteria, fungi, oomycetes, and nematodes. Lysobacter species were found to be more abundant in soil suppressive against the fungal root pathogen Rhizoctonia solani, but their actual role in disease suppression is still unclear. Here, the antifungal and plant growth-promoting activities of 18 Lysobacter strains, including 11 strains from Rhizoctonia-suppressive soils, were studied both in vitro and in vivo. Based on 16S rRNA sequencing, the Lysobacter strains from the Rhizoctonia-suppressive soil belonged to the four species Lysobacter antibioticus, Lysobacter capsici, Lysobacter enzymogenes, and Lysobacter gummosus. Most strains showed strong in vitro activity against R. solani and several other pathogens, including Pythium ultimum, Aspergillus niger, Fusarium oxysporum, and Xanthomonas campestris. When the Lysobacter strains were introduced into soil, however, no significant and consistent suppression of R. solani damping-off disease of sugar beet and cauliflower was observed. Subsequent bioassays further revealed that none of the Lysobacter strains was able to promote growth of sugar beet, cauliflower, onion, and Arabidopsis thaliana, either directly or via volatile compounds. The lack of in vivo activity is most likely attributed to poor colonization of the rhizosphere by the introduced Lysobacter strains. In conclusion, our results demonstrated that Lysobacter species have strong antagonistic activities against a range of pathogens, making them an important source for putative new enzymes and antimicrobial compounds. However, their potential role in R. solani disease suppressive soil could not be confirmed. In-depth omics'-based analyses will be needed to shed more light on the potential contribution of Lysobacter species to the collective activities of microbial consortia in disease suppressive soils.
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Affiliation(s)
- Ruth Gómez Expósito
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW) Wageningen, Netherlands ; Laboratory of Phytopathology, Wageningen University and Research Centre Wageningen, Netherlands
| | - Joeke Postma
- Plant Research International, Wageningen University and Research Centre Wageningen, Netherlands
| | - Jos M Raaijmakers
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW) Wageningen, Netherlands
| | - Irene De Bruijn
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW) Wageningen, Netherlands
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Seccareccia I, Kost C, Nett M. Quantitative Analysis of Lysobacter Predation. Appl Environ Microbiol 2015; 81:7098-105. [PMID: 26231654 PMCID: PMC4579460 DOI: 10.1128/aem.01781-15] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Accepted: 07/28/2015] [Indexed: 02/01/2023] Open
Abstract
Bacteria of the genus Lysobacter are considered to be facultative predators that use a feeding strategy similar to that of myxobacteria. Experimental data supporting this assumption, however, are scarce. Therefore, the predatory activities of three Lysobacter species were tested in the prey spot plate assay and in the lawn predation assay, which are commonly used to analyze myxobacterial predation. Surprisingly, only one of the tested Lysobacter species showed predatory behavior in the two assays. This result suggested that not all Lysobacter strains are predatory or, alternatively, that the assays were not appropriate for determining the predatory potential of this bacterial group. To differentiate between the two scenarios, predation was tested in a CFU-based bioassay. For this purpose, defined numbers of Lysobacter cells were mixed together with potential prey bacteria featuring phenotypic markers, such as distinctive pigmentation or antibiotic resistance. After 24 h, cocultivated cells were streaked out on agar plates and sizes of bacterial populations were individually determined by counting the respective colonies. Using the CFU-based predation assay, we observed that Lysobacter spp. strongly antagonized other bacteria under nutrient-deficient conditions. Simultaneously, the Lysobacter population was increasing, which together with the killing of the cocultured bacteria indicated predation. Variation of the predator/prey ratio revealed that all three Lysobacter species tested needed to outnumber their prey for efficient predation, suggesting that they exclusively practiced group predation. In summary, the CFU-based predation assay not only enabled the quantification of prey killing and consumption by Lysobacter spp. but also provided insights into their mode of predation.
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Affiliation(s)
- Ivana Seccareccia
- Secondary Metabolism of Predatory Bacteria Junior Research Group, Leibniz Institute for Natural Product Research and Infection Biology, Hans-Knöll-Institute, Jena, Germany
| | - Christian Kost
- Experimental Ecology and Evolution Research Group, Max Planck Institute for Chemical Ecology, Jena, Germany
| | - Markus Nett
- Secondary Metabolism of Predatory Bacteria Junior Research Group, Leibniz Institute for Natural Product Research and Infection Biology, Hans-Knöll-Institute, Jena, Germany
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Resilience of the natural phyllosphere microbiota of the grapevine to chemical and biological pesticides. Appl Environ Microbiol 2015; 80:3585-96. [PMID: 24682305 DOI: 10.1128/aem.00415-14] [Citation(s) in RCA: 110] [Impact Index Per Article: 12.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
The phyllosphere is colonized by complex microbial communities, which are adapted to the harsh habitat. Although the role and ecology of nonpathogenic microorganisms of the phyllosphere are only partially understood, leaf microbiota could have a beneficial role in plant growth and health. Pesticides and biocontrol agents are frequently applied to grapevines, but the impact on nontarget microorganisms of the phyllosphere has been marginally considered. In this study, we investigated the effect of a chemical fungicide (penconazole) and a biological control agent (Lysobacter capsici AZ78) on the leaf microbiota of the grapevine at three locations. Amplicons of the 16S rRNA gene and of the internal transcribed spacer were sequenced for bacterial and fungal identification, respectively. Pyrosequencing analysis revealed that the richness and diversity of bacterial and fungal populations were only minimally affected by the chemical and biological treatments tested, and they mainly differed according to grapevine locations. Indigenous microbial communities of the phyllosphere are adapted to environmental and biotic factors in the areas where the grapevines are grown, and they are resilient to the treatments tested. The biocontrol properties of phyllosphere communities against downy mildew differed among grapevine locations and were not affected by treatments, suggesting that biocontrol communities could be improved with agronomic practices to enrich beneficial populations in vineyards.
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Puopolo G, Cimmino A, Palmieri MC, Giovannini O, Evidente A, Pertot I. Lysobacter capsici AZ78 produces cyclo(L-Pro-L-Tyr), a 2,5-diketopiperazine with toxic activity against sporangia of Phytophthora infestans and Plasmopara viticola. J Appl Microbiol 2014; 117:1168-80. [PMID: 25066530 DOI: 10.1111/jam.12611] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2014] [Revised: 07/10/2014] [Accepted: 07/24/2014] [Indexed: 01/13/2023]
Abstract
AIMS To investigate low molecular weight compounds produced in vitro by Lysobacter capsici AZ78 and their toxic activity against sporangia of plant pathogenic oomycetes. METHODS AND RESULTS Assays carried out in vitro showed that L. capsici AZ78 drastically inhibits the growth of plant pathogenic oomycetes. Accordingly, the preventive application of culture filtrates of L. capsici AZ78 on grapevine and tomato plants reduced the infections, respectively, caused by Plasmopara (Pl.) viticola and Phytophthora infestans. The subsequent chemical analysis of the culture filtrates of L. capsici AZ78 by spectroscopic (essentially 1D and 2D (1)H NMR and (13)C NMR and ESI MS spectra) and optical methods led to the identification of the 2,5-diketopiperazine cyclo(L-Pro-L-Tyr) that inhibited the development of P. infestans sporangia in vitro and on tomato leaves. Furthermore, a genomic region with high sequence identity with genes coding for a hybrid polyketide synthase and nonribosomal peptide synthetase was detected in L. capsici AZ78. CONCLUSIONS Lysobacter capsici AZ78 produces cyclo(L-Pro-L-Tyr) in vitro that was effective in killing the sporangia of P. infestans and Pl. viticola in vitro. Moreover, this low molecular weight compound prevents the occurrence of late blight lesions when applied on tomato leaves. SIGNIFICANCE AND IMPACT OF THE STUDY The application of L. capsici AZ78 cells or its own culture filtrates effectively controls both P. infestans and Pl. viticola. Cyclo(L-Pro-L-Tyr) produced by L. capsici AZ78 is toxic against sporangia of both these oomycetes. These data enforce the potential in the use of Lysobacter members for the control of plant pathogenic oomycetes and provide the basis for the development of new low-impact fungicides based on cyclo(L-Pro-L-Tyr).
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Affiliation(s)
- G Puopolo
- Department of Sustainable Agro-Ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), S. Michele all'Adige (TN), Italy
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Perazzolli M, Antonielli L, Storari M, Puopolo G, Pancher M, Giovannini O, Pindo M, Pertot I. Resilience of the natural phyllosphere microbiota of the grapevine to chemical and biological pesticides. Appl Environ Microbiol 2014. [PMID: 24682305 DOI: 10.1128/aem.00415-00411] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/28/2023] Open
Abstract
The phyllosphere is colonized by complex microbial communities, which are adapted to the harsh habitat. Although the role and ecology of nonpathogenic microorganisms of the phyllosphere are only partially understood, leaf microbiota could have a beneficial role in plant growth and health. Pesticides and biocontrol agents are frequently applied to grapevines, but the impact on nontarget microorganisms of the phyllosphere has been marginally considered. In this study, we investigated the effect of a chemical fungicide (penconazole) and a biological control agent (Lysobacter capsici AZ78) on the leaf microbiota of the grapevine at three locations. Amplicons of the 16S rRNA gene and of the internal transcribed spacer were sequenced for bacterial and fungal identification, respectively. Pyrosequencing analysis revealed that the richness and diversity of bacterial and fungal populations were only minimally affected by the chemical and biological treatments tested, and they mainly differed according to grapevine locations. Indigenous microbial communities of the phyllosphere are adapted to environmental and biotic factors in the areas where the grapevines are grown, and they are resilient to the treatments tested. The biocontrol properties of phyllosphere communities against downy mildew differed among grapevine locations and were not affected by treatments, suggesting that biocontrol communities could be improved with agronomic practices to enrich beneficial populations in vineyards.
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39
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Draft Genome Sequence of Lysobacter capsici AZ78, a Bacterium Antagonistic to Plant-Pathogenic Oomycetes. GENOME ANNOUNCEMENTS 2014; 2:2/2/e00325-14. [PMID: 24762937 PMCID: PMC3999494 DOI: 10.1128/genomea.00325-14] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Lysobacter capsici AZ78, isolated from tobacco rhizosphere, effectively controls Phytophthora infestans and Plasmopara viticola on tomato and grapevine plants, respectively. We report the first draft genome sequence of the L. capsici species.
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