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Research article - Peer-reviewed, 2022

Land-use intensification differentially affects bacterial, fungal and protist communities and decreases microbiome network complexity

Romdhane, Sana; Spor, Ayme; Banerjee, Samiran; Breuil, Marie-Christine; Bru, David; Chabbi, Abad; Hallin, Sara; van der Heijden, Marcel G. A.; Saghai, Aurelien; Philippot, Laurent

Abstract

Background Soil microbial communities are major drivers of cycling of soil nutrients that sustain plant growth and productivity. Yet, a holistic understanding of the impact of land-use intensification on the soil microbiome is still poorly understood. Here, we used a field experiment to investigate the long-term consequences of changes in land-use intensity based on cropping frequency (continuous cropping, alternating cropping with a temporary grassland, perennial grassland) on bacterial, protist and fungal communities as well as on their co-occurrence networks. Results We showed that land use has a major impact on the structure and composition of bacterial, protist and fungal communities. Grassland and arable cropping differed markedly with many taxa differentiating between both land use types. The smallest differences in the microbiome were observed between temporary grassland and continuous cropping, which suggests lasting effects of the cropping system preceding the temporary grasslands. Land-use intensity also affected the bacterial co-occurrence networks with increased complexity in the perennial grassland comparing to the other land-use systems. Similarly, co-occurrence networks within microbial groups showed a higher connectivity in the perennial grasslands. Protists, particularly Rhizaria, dominated in soil microbial associations, as they showed a higher number of connections than bacteria and fungi in all land uses. Conclusions Our findings provide evidence of legacy effects of prior land use on the composition of the soil microbiome. Whatever the land use, network analyses highlighted the importance of protists as a key element of the soil microbiome that should be considered in future work. Altogether, this work provides a holistic perspective of the differential responses of various microbial groups and of their associations to agricultural intensification.

Keywords

Land-use intensification; Microbial communities; Networks

Published in

Environmental Microbiome
2022, volume: 17, number: 1, article number: 1
Publisher: BMC

Authors' information

Romdhane, Sana
AgroSup Dijon
Spor, Ayme
AgroSup Dijon
Banerjee, Samiran
Swiss Federal Research Station Agroscope
Banerjee, Samiran
North Dakota State University Fargo
Breuil, Marie-Christine
AgroSup Dijon
Bru, David
AgroSup Dijon
Chabbi, Abad
CNRS - Institute of Ecology and Environment (INEE)
Chabbi, Abad
INRAE
Swedish University of Agricultural Sciences, Department of Forest Mycology and Plant Pathology
van der Heijden, Marcel G. A.
University of Zurich
van der Heijden, Marcel G. A.
Swiss Federal Research Station Agroscope
Swedish University of Agricultural Sciences, Department of Forest Mycology and Plant Pathology
Philippot, Laurent
AgroSup Dijon

UKÄ Subject classification

Microbiology

Publication Identifiers

DOI: https://doi.org/10.1186/s40793-021-00396-9

URI (permanent link to this page)

https://res.slu.se/id/publ/115518