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Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil

BACKGROUND: Elevated carbon dioxide concentrations (eCO(2)), one of the main causes of climate change, have several consequences for both vine and cover crops in vineyards and potentially also for the soil microbiome. Hence soil samples were taken from a vineyard free-air CO(2) enrichment (VineyardF...

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Autores principales: Rosado-Porto, David, Ratering, Stefan, Wohlfahrt, Yvette, Schneider, Bellinda, Glatt, Andrea, Schnell, Sylvia
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9942357/
https://www.ncbi.nlm.nih.gov/pubmed/36809988
http://dx.doi.org/10.1186/s12866-023-02781-5
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author Rosado-Porto, David
Ratering, Stefan
Wohlfahrt, Yvette
Schneider, Bellinda
Glatt, Andrea
Schnell, Sylvia
author_facet Rosado-Porto, David
Ratering, Stefan
Wohlfahrt, Yvette
Schneider, Bellinda
Glatt, Andrea
Schnell, Sylvia
author_sort Rosado-Porto, David
collection PubMed
description BACKGROUND: Elevated carbon dioxide concentrations (eCO(2)), one of the main causes of climate change, have several consequences for both vine and cover crops in vineyards and potentially also for the soil microbiome. Hence soil samples were taken from a vineyard free-air CO(2) enrichment (VineyardFACE) study in Geisenheim and examined for possible changes in the soil active bacterial composition (cDNA of 16S rRNA) using a metabarcoding approach. Soil samples were taken from the areas between the rows of vines with and without cover cropping from plots exposed to either eCO(2) or ambient CO(2) (aCO(2)). RESULTS: Diversity indices and redundancy analysis (RDA) demonstrated that eCO(2) changed the active soil bacterial diversity in grapevine soil with cover crops (p-value 0.007). In contrast, the bacterial composition in bare soil was unaffected. In addition, the microbial soil respiration (p-values 0.04—0.003) and the ammonium concentration (p-value 0.003) were significantly different in the samples where cover crops were present and exposed to eCO(2). Moreover, under eCO(2) conditions, qPCR results showed a significant decrease in 16S rRNA copy numbers and transcripts for enzymes involved in N(2) fixation and NO(2)(−) reduction were observed using qPCR. Co-occurrence analysis revealed a shift in the number, strength, and patterns of microbial interactions under eCO(2) conditions, mainly represented by a reduction in the number of interacting ASVs and the number of interactions. CONCLUSIONS: The results of this study demonstrate that eCO(2) concentrations changed the active soil bacterial composition, which could have future influence on both soil properties and wine quality. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12866-023-02781-5.
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spelling pubmed-99423572023-02-22 Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil Rosado-Porto, David Ratering, Stefan Wohlfahrt, Yvette Schneider, Bellinda Glatt, Andrea Schnell, Sylvia BMC Microbiol Research BACKGROUND: Elevated carbon dioxide concentrations (eCO(2)), one of the main causes of climate change, have several consequences for both vine and cover crops in vineyards and potentially also for the soil microbiome. Hence soil samples were taken from a vineyard free-air CO(2) enrichment (VineyardFACE) study in Geisenheim and examined for possible changes in the soil active bacterial composition (cDNA of 16S rRNA) using a metabarcoding approach. Soil samples were taken from the areas between the rows of vines with and without cover cropping from plots exposed to either eCO(2) or ambient CO(2) (aCO(2)). RESULTS: Diversity indices and redundancy analysis (RDA) demonstrated that eCO(2) changed the active soil bacterial diversity in grapevine soil with cover crops (p-value 0.007). In contrast, the bacterial composition in bare soil was unaffected. In addition, the microbial soil respiration (p-values 0.04—0.003) and the ammonium concentration (p-value 0.003) were significantly different in the samples where cover crops were present and exposed to eCO(2). Moreover, under eCO(2) conditions, qPCR results showed a significant decrease in 16S rRNA copy numbers and transcripts for enzymes involved in N(2) fixation and NO(2)(−) reduction were observed using qPCR. Co-occurrence analysis revealed a shift in the number, strength, and patterns of microbial interactions under eCO(2) conditions, mainly represented by a reduction in the number of interacting ASVs and the number of interactions. CONCLUSIONS: The results of this study demonstrate that eCO(2) concentrations changed the active soil bacterial composition, which could have future influence on both soil properties and wine quality. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12866-023-02781-5. BioMed Central 2023-02-21 /pmc/articles/PMC9942357/ /pubmed/36809988 http://dx.doi.org/10.1186/s12866-023-02781-5 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Rosado-Porto, David
Ratering, Stefan
Wohlfahrt, Yvette
Schneider, Bellinda
Glatt, Andrea
Schnell, Sylvia
Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil
title Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil
title_full Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil
title_fullStr Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil
title_full_unstemmed Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil
title_short Elevated atmospheric CO(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil
title_sort elevated atmospheric co(2) concentrations caused a shift of the metabolically active microbiome in vineyard soil
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9942357/
https://www.ncbi.nlm.nih.gov/pubmed/36809988
http://dx.doi.org/10.1186/s12866-023-02781-5
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