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Plant genetic effects on microbial hubs impact host fitness in repeated field trials

hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
hal.structure.identifierUniversity of Chicago
dc.contributor.authorBRACHI, Benjamin
hal.structure.identifierAustrian Academy of Sciences [OeAW]
hal.structure.identifierGregor Mendel Institute of Molecular Plant Biology [GMI]
dc.contributor.authorFILIAULT, Daniele
hal.structure.identifierUniversity of Chicago
dc.contributor.authorWHITEHURST, Hannah
hal.structure.identifierUniversity of Chicago
dc.contributor.authorDARME, Paul
hal.structure.identifierUniversity of Chicago
dc.contributor.authorLE GARS, Pierre
hal.structure.identifierUniversity of Chicago
dc.contributor.authorLE MENTEC, Marine
hal.structure.identifierUniversity of Chicago
dc.contributor.authorMORTON, Timothy
hal.structure.identifierGregor Mendel Institute of Molecular Plant Biology [GMI]
dc.contributor.authorKERDAFFREC, Envel
hal.structure.identifierGregor Mendel Institute of Molecular Plant Biology [GMI]
dc.contributor.authorRABANAL, Fernando A.
hal.structure.identifierUniversity of Chicago
dc.contributor.authorANASTASIO, Alison
hal.structure.identifierJohn Innes Center [JIC]
dc.contributor.authorBOX, Mathew
hal.structure.identifierJohn Innes Center [JIC]
dc.contributor.authorDUNCAN, Susan
hal.structure.identifierUniversity of Chicago
hal.structure.identifierChinese Academy of Sciences [Beijing] [CAS]
dc.contributor.authorHUANG, Feng
hal.structure.identifierUniversity of Chicago
dc.contributor.authorLEFF, Riley
hal.structure.identifierGregor Mendel Institute of Molecular Plant Biology [GMI]
dc.contributor.authorNOVIKOVA, Polina
hal.structure.identifierUniversity of Chicago
dc.contributor.authorPERISIN, Matthew
hal.structure.identifierChiba University
dc.contributor.authorTSUCHIMATSU, Takashi
hal.structure.identifierUniversity of Chicago
dc.contributor.authorWOOLLEY, Roderick
hal.structure.identifierJohn Innes Center [JIC]
dc.contributor.authorDEAN, Caroline
hal.structure.identifierGregor Mendel Institute of Molecular Plant Biology [GMI]
dc.contributor.authorNORDBORG, Magnus
hal.structure.identifierMid Sweden University
dc.contributor.authorHOLM, Svante
hal.structure.identifierUniversity of Chicago
hal.structure.identifierNew York University [New York] [NYU]
dc.contributor.authorBERGELSON, Joy
dc.date.issued2022-07-22
dc.identifier.issn0027-8424
dc.description.abstractEnAlthough complex interactions between hosts and microbial associates are increasingly well documented, we still know little about how and why hosts shape microbial communities in nature. In addition, host genetic effects on microbial communities vary widely depending on the environment, obscuring conclusions about which microbes are impacted and which plant functions are important. We characterized the leaf microbiota of 200 Arabidopsis thaliana genotypes in eight field experiments and detected consistent host effects on specific, broadly distributed microbial species (operational taxonomic unit [OTUs]). Host genetic effects disproportionately influenced central ecological hubs, with heritability of particular OTUs declining with their distance from the nearest hub within the microbial network. These host effects could reflect either OTUs preferentially associating with specific genotypes or differential microbial success within them. Host genetics associated with microbial hubs explained over 10% of the variation in lifetime seed production among host genotypes across sites and years. We successfully cultured one of these microbial hubs and demonstrated its growth-promoting effects on plants in sterile conditions. Finally, genome-wide association mapping identified many putatively causal genes with small effects on the relative abundance of microbial hubs across sites and years, and these genes were enriched for those involved in the synthesis of specialized metabolites, auxins, and the immune system. Using untargeted metabolomics, we corroborate the consistent association between variation in specialized metabolites and microbial hubs across field sites. Together, our results reveal that host genetic variation impacts the microbial communities in consistent ways across environments and that these effects contribute to fitness variation among host genotypes.
dc.language.isoen
dc.publisherNational Academy of Sciences
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/
dc.subject.enArabidopsis thaliana
dc.subject.engenome-wide association study
dc.subject.enmicrobiome
dc.subject.enfitness
dc.subject.enmicrobial hubs
dc.title.enPlant genetic effects on microbial hubs impact host fitness in repeated field trials
dc.typeArticle de revue
dc.identifier.doi10.1073/pnas.2201285119/-/DCSupplemental
dc.subject.halSciences de l'environnement
bordeaux.journalProceedings of the National Academy of Sciences of the United States of America
bordeaux.page1-12
bordeaux.volume119
bordeaux.issue30
bordeaux.peerReviewedoui
hal.identifierhal-03778825
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-03778825v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Proceedings%20of%20the%20National%20Academy%20of%20Sciences%20of%20the%20United%20States%20of%20America&rft.date=2022-07-22&rft.volume=119&rft.issue=30&rft.spage=1-12&rft.epage=1-12&rft.eissn=0027-8424&rft.issn=0027-8424&rft.au=BRACHI,%20Benjamin&FILIAULT,%20Daniele&WHITEHURST,%20Hannah&DARME,%20Paul&LE%20GARS,%20Pierre&rft.genre=article


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