A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field

Plant associated microbial communities have recently received a lot of attention because thought to play a fundamental role in plant health and development. Focusing on cultivated crops, optimized farming practices must consider the role of these communities when aiming at reducing the impact of pat...

Descripción completa

Detalles Bibliográficos
Autores principales: Schiro, Gabriele, Colangeli, Pierluigi, Müller, Marina E. H.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6746991/
https://www.ncbi.nlm.nih.gov/pubmed/31552005
http://dx.doi.org/10.3389/fmicb.2019.02095
_version_ 1783451798498967552
author Schiro, Gabriele
Colangeli, Pierluigi
Müller, Marina E. H.
author_facet Schiro, Gabriele
Colangeli, Pierluigi
Müller, Marina E. H.
author_sort Schiro, Gabriele
collection PubMed
description Plant associated microbial communities have recently received a lot of attention because thought to play a fundamental role in plant health and development. Focusing on cultivated crops, optimized farming practices must consider the role of these communities when aiming at reducing the impact of pathogens and increasing yields. Typical inhabitants of plant’s phyllosphere are bacteria and microscopic fungi, some of them pathogenic for the plant and dangerous for the consumers, due to the production of toxins. In order to efficiently manage the microbiome, the natural drivers regulating community assembly must be clearly understood. In our study we investigated the within field variation of the phyllosphere mycobiome of wheat ears by metabarcoding of the fungal internal transcribed sequence 1 (ITS1). We selected a field characterized by a high topographic heterogeneity, which is reflected in differences in plant productivity and fitness across it. Samples were taken from 30 sampling points laid across the field where data-loggers were placed, measuring the productivity driven under canopy microclimate. The microclimatic conditions were tested as a source of potential environmental variance. Further independent spatial structures were tested using spatial eigenvector maps (MEMs). Results show considerable differences in the phyllosphere composition across the field. The local under canopy environmental conditions at each point were strong predictors of the community composition. Independent spatial effects given by the geographical position of the sampling points showed also a weaker but significant effect. Moreover we observed different spatial responses from different fungal phyla, with results resembling those described in studies done at a regional scale. This study is the first one to investigate the spatial variation of the phyllosphere mycobiome of a commercial crop within the same field. It contributes to the study of the epidemiology and community assembly dynamics of wheat phyllosphere fungi, showing how in-field community variations are the results of different environmental and spatial processes acting simultaneously. It also shows how heterogeneous fields are a smart and useful system to investigate the ecological mechanisms regulating plant microbiome composition.
format Online
Article
Text
id pubmed-6746991
institution National Center for Biotechnology Information
language English
publishDate 2019
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-67469912019-09-24 A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field Schiro, Gabriele Colangeli, Pierluigi Müller, Marina E. H. Front Microbiol Microbiology Plant associated microbial communities have recently received a lot of attention because thought to play a fundamental role in plant health and development. Focusing on cultivated crops, optimized farming practices must consider the role of these communities when aiming at reducing the impact of pathogens and increasing yields. Typical inhabitants of plant’s phyllosphere are bacteria and microscopic fungi, some of them pathogenic for the plant and dangerous for the consumers, due to the production of toxins. In order to efficiently manage the microbiome, the natural drivers regulating community assembly must be clearly understood. In our study we investigated the within field variation of the phyllosphere mycobiome of wheat ears by metabarcoding of the fungal internal transcribed sequence 1 (ITS1). We selected a field characterized by a high topographic heterogeneity, which is reflected in differences in plant productivity and fitness across it. Samples were taken from 30 sampling points laid across the field where data-loggers were placed, measuring the productivity driven under canopy microclimate. The microclimatic conditions were tested as a source of potential environmental variance. Further independent spatial structures were tested using spatial eigenvector maps (MEMs). Results show considerable differences in the phyllosphere composition across the field. The local under canopy environmental conditions at each point were strong predictors of the community composition. Independent spatial effects given by the geographical position of the sampling points showed also a weaker but significant effect. Moreover we observed different spatial responses from different fungal phyla, with results resembling those described in studies done at a regional scale. This study is the first one to investigate the spatial variation of the phyllosphere mycobiome of a commercial crop within the same field. It contributes to the study of the epidemiology and community assembly dynamics of wheat phyllosphere fungi, showing how in-field community variations are the results of different environmental and spatial processes acting simultaneously. It also shows how heterogeneous fields are a smart and useful system to investigate the ecological mechanisms regulating plant microbiome composition. Frontiers Media S.A. 2019-09-10 /pmc/articles/PMC6746991/ /pubmed/31552005 http://dx.doi.org/10.3389/fmicb.2019.02095 Text en Copyright © 2019 Schiro, Colangeli and Müller. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Schiro, Gabriele
Colangeli, Pierluigi
Müller, Marina E. H.
A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field
title A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field
title_full A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field
title_fullStr A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field
title_full_unstemmed A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field
title_short A Metabarcoding Analysis of the Mycobiome of Wheat Ears Across a Topographically Heterogeneous Field
title_sort metabarcoding analysis of the mycobiome of wheat ears across a topographically heterogeneous field
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6746991/
https://www.ncbi.nlm.nih.gov/pubmed/31552005
http://dx.doi.org/10.3389/fmicb.2019.02095
work_keys_str_mv AT schirogabriele ametabarcodinganalysisofthemycobiomeofwheatearsacrossatopographicallyheterogeneousfield
AT colangelipierluigi ametabarcodinganalysisofthemycobiomeofwheatearsacrossatopographicallyheterogeneousfield
AT mullermarinaeh ametabarcodinganalysisofthemycobiomeofwheatearsacrossatopographicallyheterogeneousfield
AT schirogabriele metabarcodinganalysisofthemycobiomeofwheatearsacrossatopographicallyheterogeneousfield
AT colangelipierluigi metabarcodinganalysisofthemycobiomeofwheatearsacrossatopographicallyheterogeneousfield
AT mullermarinaeh metabarcodinganalysisofthemycobiomeofwheatearsacrossatopographicallyheterogeneousfield