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Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions

The cultivation of soilless tomato in greenhouses has increased considerably, but little is known about the assembly of the root microbiome compared to plants grown in soil. To obtain such information, we constructed an assay in which we traced the bacterial and fungal communities by amplicon-based...

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Autores principales: Anzalone, Alice, Mosca, Alexandros, Dimaria, Giulio, Nicotra, Daniele, Tessitori, Matilde, Privitera, Grete Francesca, Pulvirenti, Alfredo, Leonardi, Cherubino, Catara, Vittoria
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9369415/
https://www.ncbi.nlm.nih.gov/pubmed/35955951
http://dx.doi.org/10.3390/ijms23158820
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author Anzalone, Alice
Mosca, Alexandros
Dimaria, Giulio
Nicotra, Daniele
Tessitori, Matilde
Privitera, Grete Francesca
Pulvirenti, Alfredo
Leonardi, Cherubino
Catara, Vittoria
author_facet Anzalone, Alice
Mosca, Alexandros
Dimaria, Giulio
Nicotra, Daniele
Tessitori, Matilde
Privitera, Grete Francesca
Pulvirenti, Alfredo
Leonardi, Cherubino
Catara, Vittoria
author_sort Anzalone, Alice
collection PubMed
description The cultivation of soilless tomato in greenhouses has increased considerably, but little is known about the assembly of the root microbiome compared to plants grown in soil. To obtain such information, we constructed an assay in which we traced the bacterial and fungal communities by amplicon-based metagenomics during the cultivation chain from nursery to greenhouse. In the greenhouse, the plants were transplanted either into agricultural soil or into coconut fiber bags (soilless). At the phylum level, bacterial and fungal communities were primarily constituted in all microhabitats by Proteobacteria and Ascomycota, respectively. The results showed that the tomato rhizosphere microbiome was shaped by the substrate or soil in which the plants were grown. The microbiome was different particularly in terms of the bacterial communities. In agriculture, enrichment has been observed in putative biological control bacteria of the genera Pseudomonas and Bacillus and in potential phytopathogenic fungi. Overall, the study describes the different shaping of microbial communities in the two cultivation methods.
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spelling pubmed-93694152022-08-12 Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions Anzalone, Alice Mosca, Alexandros Dimaria, Giulio Nicotra, Daniele Tessitori, Matilde Privitera, Grete Francesca Pulvirenti, Alfredo Leonardi, Cherubino Catara, Vittoria Int J Mol Sci Article The cultivation of soilless tomato in greenhouses has increased considerably, but little is known about the assembly of the root microbiome compared to plants grown in soil. To obtain such information, we constructed an assay in which we traced the bacterial and fungal communities by amplicon-based metagenomics during the cultivation chain from nursery to greenhouse. In the greenhouse, the plants were transplanted either into agricultural soil or into coconut fiber bags (soilless). At the phylum level, bacterial and fungal communities were primarily constituted in all microhabitats by Proteobacteria and Ascomycota, respectively. The results showed that the tomato rhizosphere microbiome was shaped by the substrate or soil in which the plants were grown. The microbiome was different particularly in terms of the bacterial communities. In agriculture, enrichment has been observed in putative biological control bacteria of the genera Pseudomonas and Bacillus and in potential phytopathogenic fungi. Overall, the study describes the different shaping of microbial communities in the two cultivation methods. MDPI 2022-08-08 /pmc/articles/PMC9369415/ /pubmed/35955951 http://dx.doi.org/10.3390/ijms23158820 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Anzalone, Alice
Mosca, Alexandros
Dimaria, Giulio
Nicotra, Daniele
Tessitori, Matilde
Privitera, Grete Francesca
Pulvirenti, Alfredo
Leonardi, Cherubino
Catara, Vittoria
Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions
title Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions
title_full Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions
title_fullStr Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions
title_full_unstemmed Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions
title_short Soil and Soilless Tomato Cultivation Promote Different Microbial Communities That Provide New Models for Future Crop Interventions
title_sort soil and soilless tomato cultivation promote different microbial communities that provide new models for future crop interventions
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9369415/
https://www.ncbi.nlm.nih.gov/pubmed/35955951
http://dx.doi.org/10.3390/ijms23158820
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