Geometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scale

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dc.contributor.authorBernardo, Pauline
dc.contributor.authorCharles-Dominique, Tristan
dc.contributor.authorBarakat, Mohamed
dc.contributor.authorOrtet, Philippe
dc.contributor.authorHarkins, Gordon William
dc.date.accessioned2018-01-03T12:31:46Z
dc.date.available2018-01-03T12:31:46Z
dc.date.issued2018
dc.description.abstractDisease emergence events regularly result from human activities such as agriculture, which frequently brings large populations of genetically uniform hosts into contact with potential pathogens. Although viruses cause nearly 50% of emerging plant diseases, there is little systematic information about virus distribution across agro-ecological interfaces and large gaps in understanding of virus diversity in nature. Here we applied a novel landscape-scale geometagenomics approach to examine relationships between agricultural land use and distributions of plantassociated viruses in two Mediterranean-climate biodiversity hotspots (Western Cape region of South Africa and Rhône river delta region of France). In total, we analysed 1725 geo-referenced plant samples collected over two years from 4.5 × 4.5 km2 grids spanning farmlands and adjacent uncultivated vegetation. We found substantial virus prevalence (25.8–35.7%) in all ecosystems, but prevalence and identified family-level virus diversity were greatest in cultivated areas, with some virus families displaying strong agricultural associations. Our survey revealed 94 previously unknown virus species, primarily from uncultivated plants. This is the first effort to systematically evaluate plant-associated viromes across broad agro-ecological interfaces. Our findings indicate that agriculture substantially influences plant virus distributions and highlight the extent of current ignorance about the diversity and roles of viruses in nature.en_US
dc.identifier.citationBernardo, P. et al. (2017). Geometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scale. The ISME Journal, 12: 173–184en_US
dc.identifier.issn1751-7362
dc.identifier.urihttp://dx.doi.org/10.1038/ismej.2017.155
dc.identifier.urihttp://hdl.handle.net/10566/3341
dc.language.isoenen_US
dc.privacy.showsubmitterFALSE
dc.publisherNature Publishing Groupen_US
dc.rightsThis work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http:// creativecommons.org/licenses/by/4.0/
dc.status.ispeerreviewedTRUE
dc.subjectGeometagenomicsen_US
dc.subjectPlant virusesen_US
dc.subjectEcosystemen_US
dc.subjectBiodiversity hotspotsen_US
dc.subjectAgricultural landen_US
dc.titleGeometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scaleen_US
dc.typeArticleen_US

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