Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood

ABSTRACT Fungal-bacterial interactions play a key role in the functioning of many ecosystems. Thus, understanding their interactive dynamics is of central importance for gaining predictive knowledge on ecosystem functioning. However, it is challenging to disentangle the mechanisms behind species ass...

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Autores principales:	Iñaki Odriozola, Nerea Abrego, Vojtěch Tláskal, Petra Zrůstová, Daniel Morais, Tomáš Větrovský, Otso Ovaskainen, Petr Baldrian
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2021
Materias:	biotic interactions co-occurrence cross-validation conditional cross-validation fungal-bacterial interactions HMSC Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/e681837af3be4052b9bcf59b94aad045
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spelling	oai:doaj.org-article:e681837af3be4052b9bcf59b94aad0452021-12-02T18:20:19ZFungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood10.1128/mSystems.01017-202379-5077https://doaj.org/article/e681837af3be4052b9bcf59b94aad0452021-02-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSystems.01017-20https://doaj.org/toc/2379-5077ABSTRACT Fungal-bacterial interactions play a key role in the functioning of many ecosystems. Thus, understanding their interactive dynamics is of central importance for gaining predictive knowledge on ecosystem functioning. However, it is challenging to disentangle the mechanisms behind species associations from observed co-occurrence patterns, and little is known about the directionality of such interactions. Here, we applied joint species distribution modeling to high-throughput sequencing data on co-occurring fungal and bacterial communities in deadwood to ask whether fungal and bacterial co-occurrences result from shared habitat use (i.e., deadwood’s properties) or whether there are fungal-bacterial interactive associations after habitat characteristics are taken into account. Moreover, we tested the hypothesis that the interactions are mainly modulated through fungal communities influencing bacterial communities. For that, we quantified how much the predictive power of the joint species distribution models for bacterial and fungal community improved when accounting for the other community. Our results show that fungi and bacteria form tight association networks (i.e., some species pairs co-occur more frequently and other species pairs co-occur less frequently than expected by chance) in deadwood that include common (or opposite) responses to the environment as well as (potentially) biotic interactions. Additionally, we show that information about the fungal occurrences and abundances increased the power to predict the bacterial abundances substantially, whereas information about the bacterial occurrences and abundances increased the power to predict the fungal abundances much less. Our results suggest that fungal communities may mainly affect bacteria in deadwood. IMPORTANCE Understanding the interactive dynamics between fungal and bacterial communities is important to gain predictive knowledge on ecosystem functioning. However, little is known about the mechanisms behind fungal-bacterial associations and the directionality of species interactions. Applying joint species distribution modeling to high-throughput sequencing data on co-occurring fungal-bacterial communities in deadwood, we found evidence that nonrandom fungal-bacterial associations derive from shared habitat use as well as (potentially) biotic interactions. Importantly, the combination of cross-validations and conditional cross-validations helped us to answer the question about the directionality of the biotic interactions, providing evidence that suggests that fungal communities may mainly affect bacteria in deadwood. Our modeling approach may help gain insight into the directionality of interactions between different components of the microbiome in other environments.Iñaki OdriozolaNerea AbregoVojtěch TláskalPetra ZrůstováDaniel MoraisTomáš VětrovskýOtso OvaskainenPetr BaldrianAmerican Society for Microbiologyarticlebiotic interactionsco-occurrencecross-validationconditional cross-validationfungal-bacterial interactionsHMSCMicrobiologyQR1-502ENmSystems, Vol 6, Iss 1 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	biotic interactions co-occurrence cross-validation conditional cross-validation fungal-bacterial interactions HMSC Microbiology QR1-502
spellingShingle	biotic interactions co-occurrence cross-validation conditional cross-validation fungal-bacterial interactions HMSC Microbiology QR1-502 Iñaki Odriozola Nerea Abrego Vojtěch Tláskal Petra Zrůstová Daniel Morais Tomáš Větrovský Otso Ovaskainen Petr Baldrian Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
description	ABSTRACT Fungal-bacterial interactions play a key role in the functioning of many ecosystems. Thus, understanding their interactive dynamics is of central importance for gaining predictive knowledge on ecosystem functioning. However, it is challenging to disentangle the mechanisms behind species associations from observed co-occurrence patterns, and little is known about the directionality of such interactions. Here, we applied joint species distribution modeling to high-throughput sequencing data on co-occurring fungal and bacterial communities in deadwood to ask whether fungal and bacterial co-occurrences result from shared habitat use (i.e., deadwood’s properties) or whether there are fungal-bacterial interactive associations after habitat characteristics are taken into account. Moreover, we tested the hypothesis that the interactions are mainly modulated through fungal communities influencing bacterial communities. For that, we quantified how much the predictive power of the joint species distribution models for bacterial and fungal community improved when accounting for the other community. Our results show that fungi and bacteria form tight association networks (i.e., some species pairs co-occur more frequently and other species pairs co-occur less frequently than expected by chance) in deadwood that include common (or opposite) responses to the environment as well as (potentially) biotic interactions. Additionally, we show that information about the fungal occurrences and abundances increased the power to predict the bacterial abundances substantially, whereas information about the bacterial occurrences and abundances increased the power to predict the fungal abundances much less. Our results suggest that fungal communities may mainly affect bacteria in deadwood. IMPORTANCE Understanding the interactive dynamics between fungal and bacterial communities is important to gain predictive knowledge on ecosystem functioning. However, little is known about the mechanisms behind fungal-bacterial associations and the directionality of species interactions. Applying joint species distribution modeling to high-throughput sequencing data on co-occurring fungal-bacterial communities in deadwood, we found evidence that nonrandom fungal-bacterial associations derive from shared habitat use as well as (potentially) biotic interactions. Importantly, the combination of cross-validations and conditional cross-validations helped us to answer the question about the directionality of the biotic interactions, providing evidence that suggests that fungal communities may mainly affect bacteria in deadwood. Our modeling approach may help gain insight into the directionality of interactions between different components of the microbiome in other environments.
format	article
author	Iñaki Odriozola Nerea Abrego Vojtěch Tláskal Petra Zrůstová Daniel Morais Tomáš Větrovský Otso Ovaskainen Petr Baldrian
author_facet	Iñaki Odriozola Nerea Abrego Vojtěch Tláskal Petra Zrůstová Daniel Morais Tomáš Větrovský Otso Ovaskainen Petr Baldrian
author_sort	Iñaki Odriozola
title	Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
title_short	Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
title_full	Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
title_fullStr	Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
title_full_unstemmed	Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
title_sort	fungal communities are important determinants of bacterial community composition in deadwood
publisher	American Society for Microbiology
publishDate	2021
url	https://doaj.org/article/e681837af3be4052b9bcf59b94aad045
work_keys_str_mv	AT inakiodriozola fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood AT nereaabrego fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood AT vojtechtlaskal fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood AT petrazrustova fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood AT danielmorais fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood AT tomasvetrovsky fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood AT otsoovaskainen fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood AT petrbaldrian fungalcommunitiesareimportantdeterminantsofbacterialcommunitycompositionindeadwood
_version_	1718378188202049536

Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood

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