Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop
Rootstocks are the link between the soil and scion in grapevines, can provide tolerance to abiotic and biotic stresses, and regulate yield and grape quality. The vascular system of grapevine rootstocks in nurseries is still an underexplored niche for research, despite its potential for hosting beneficial and pathogenic microorganisms. The purpose of this study was to investigate the changes in the composition of fungal communities in 110 Richter and 41 Berlandieri rootstocks at four stages of the grapevine propagation process. Taxonomic analysis revealed that the fungal community predominantly consisted of phylum Ascomycota in all stages of the propagation process. The alphadiversity of fungal communities differed among sampling times for both rootstocks, with richness and fungal diversity in the vascular system decreasing through the propagation process. The core microbiome was composed of the genera Cadophora, Cladosporium, Penicillium and Alternaria in both rootstocks, while the pathogenic genus Neofusicoccum was identified as a persistent taxon throughout the propagation process. FUNguild analysis showed that the relative abundance of plant pathogens associated with trunk diseases increased towards the last stage in nurseries. Fungal communities in the vascular system of grapevine rootstocks differed between the different stages of the propagation process in nurseries. Numerous genera associated with potential biocontrol activity and grapevine trunk diseases were identified. Understanding the large diversity of fungi in the rootstock vascular tissue and the interactions between fungal microbiota and grapevine will help to develop sustainable strategies for grapevine protection.
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Molecular Diversity Preservation International
2022-04-20
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Subjects: | Culture-independent analysis, Fungal microbiome, Grapevine nursery, Grapevine trunk diseases, High-throughput amplicon sequencing, Vitis vinifera, |
Online Access: | http://hdl.handle.net/10261/296482 http://dx.doi.org/10.13039/501100011033 |
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dig-icvv-es-10261-2964822023-03-03T02:41:36Z Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop Gramaje, David Eichmeier, Ales Spetik, Milan Carbone, María Julia Bujanda, Rebeca Vallance, Jessica Rey, Patrice Ministry of Education, Youth and Sports (Czech Republic) Ministerio de Ciencia, Innovación y Universidades (España) Agencia Estatal de Investigación (España) Culture-independent analysis Fungal microbiome Grapevine nursery Grapevine trunk diseases High-throughput amplicon sequencing Vitis vinifera Rootstocks are the link between the soil and scion in grapevines, can provide tolerance to abiotic and biotic stresses, and regulate yield and grape quality. The vascular system of grapevine rootstocks in nurseries is still an underexplored niche for research, despite its potential for hosting beneficial and pathogenic microorganisms. The purpose of this study was to investigate the changes in the composition of fungal communities in 110 Richter and 41 Berlandieri rootstocks at four stages of the grapevine propagation process. Taxonomic analysis revealed that the fungal community predominantly consisted of phylum Ascomycota in all stages of the propagation process. The alphadiversity of fungal communities differed among sampling times for both rootstocks, with richness and fungal diversity in the vascular system decreasing through the propagation process. The core microbiome was composed of the genera Cadophora, Cladosporium, Penicillium and Alternaria in both rootstocks, while the pathogenic genus Neofusicoccum was identified as a persistent taxon throughout the propagation process. FUNguild analysis showed that the relative abundance of plant pathogens associated with trunk diseases increased towards the last stage in nurseries. Fungal communities in the vascular system of grapevine rootstocks differed between the different stages of the propagation process in nurseries. Numerous genera associated with potential biocontrol activity and grapevine trunk diseases were identified. Understanding the large diversity of fungi in the rootstock vascular tissue and the interactions between fungal microbiota and grapevine will help to develop sustainable strategies for grapevine protection. This work has been partially supported by Ministerstvo Školství, Mládeže a Tělovýchovy (CZ.02.1.01./0.0/0.0/16_017/0002334) and the “José Castillejo” program (CAS 18/00065). D. Gramaje was supported by the Ramón y Cajal Program, Spanish Government (RYC-2017-23098). We thank M. Maldonado-González and M. Andrés-Sodupe for the technical support. 2023-03-02T12:50:13Z 2023-03-02T12:50:13Z 2022-04-20 2023-03-02T12:50:13Z artículo doi: 10.3390/jof8050421 e-issn: 2309-608X Journal of Fungi 8(5): 421 (2022) http://hdl.handle.net/10261/296482 10.3390/jof8050421 http://dx.doi.org/10.13039/501100011033 #PLACEHOLDER_PARENT_METADATA_VALUE# info:eu-repo/grantAgreement/AEI//RYC-2017-23098 Publisher's version http://dx.doi.org/10.3390/jof8050421 Sí open Molecular Diversity Preservation International |
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Culture-independent analysis Fungal microbiome Grapevine nursery Grapevine trunk diseases High-throughput amplicon sequencing Vitis vinifera Culture-independent analysis Fungal microbiome Grapevine nursery Grapevine trunk diseases High-throughput amplicon sequencing Vitis vinifera |
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Culture-independent analysis Fungal microbiome Grapevine nursery Grapevine trunk diseases High-throughput amplicon sequencing Vitis vinifera Culture-independent analysis Fungal microbiome Grapevine nursery Grapevine trunk diseases High-throughput amplicon sequencing Vitis vinifera Gramaje, David Eichmeier, Ales Spetik, Milan Carbone, María Julia Bujanda, Rebeca Vallance, Jessica Rey, Patrice Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop |
description |
Rootstocks are the link between the soil and scion in grapevines, can provide tolerance to abiotic and biotic stresses, and regulate yield and grape quality. The vascular system of grapevine rootstocks in nurseries is still an underexplored niche for research, despite its potential for hosting beneficial and pathogenic microorganisms. The purpose of this study was to investigate the changes in the composition of fungal communities in 110 Richter and 41 Berlandieri rootstocks at four stages of the grapevine propagation process. Taxonomic analysis revealed that the fungal community predominantly consisted of phylum Ascomycota in all stages of the propagation process. The alphadiversity of fungal communities differed among sampling times for both rootstocks, with richness and fungal diversity in the vascular system decreasing through the propagation process. The core microbiome was composed of the genera Cadophora, Cladosporium, Penicillium and Alternaria in both rootstocks, while the pathogenic genus Neofusicoccum was identified as a persistent taxon throughout the propagation process. FUNguild analysis showed that the relative abundance of plant pathogens associated with trunk diseases increased towards the last stage in nurseries. Fungal communities in the vascular system of grapevine rootstocks differed between the different stages of the propagation process in nurseries. Numerous genera associated with potential biocontrol activity and grapevine trunk diseases were identified. Understanding the large diversity of fungi in the rootstock vascular tissue and the interactions between fungal microbiota and grapevine will help to develop sustainable strategies for grapevine protection. |
author2 |
Ministry of Education, Youth and Sports (Czech Republic) |
author_facet |
Ministry of Education, Youth and Sports (Czech Republic) Gramaje, David Eichmeier, Ales Spetik, Milan Carbone, María Julia Bujanda, Rebeca Vallance, Jessica Rey, Patrice |
format |
artículo |
topic_facet |
Culture-independent analysis Fungal microbiome Grapevine nursery Grapevine trunk diseases High-throughput amplicon sequencing Vitis vinifera |
author |
Gramaje, David Eichmeier, Ales Spetik, Milan Carbone, María Julia Bujanda, Rebeca Vallance, Jessica Rey, Patrice |
author_sort |
Gramaje, David |
title |
Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop |
title_short |
Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop |
title_full |
Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop |
title_fullStr |
Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop |
title_full_unstemmed |
Exploring the Temporal Dynamics of the Fungal Microbiome in Rootstocks, the Lesser-Known Half of the Grapevine Crop |
title_sort |
exploring the temporal dynamics of the fungal microbiome in rootstocks, the lesser-known half of the grapevine crop |
publisher |
Molecular Diversity Preservation International |
publishDate |
2022-04-20 |
url |
http://hdl.handle.net/10261/296482 http://dx.doi.org/10.13039/501100011033 |
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