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Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots

Banerjee, Samiran; Walder, Florian; Büchi, Lucie; Meyer, Marcel; Held, Alain Y; Gattinger, Andreas; Keller, Thomas; Charles, Raphael and van der Heijden, Marcel G. A. (2019) Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots. The ISME journal, 13 (7), pp. 1722-1736.

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Document available online at: https://www.nature.com/articles/s41396-019-0383-2


Root-associated microbes play a key role in plant performance and productivity, making them important players in agroecosystems. So far, very few studies have assessed the impact of different farming systems on the root microbiota and it is still unclear whether agricultural intensification influences the structure and complexity of microbial communities. We investigated the impact of conventional, no-till, and organic farming on wheat root fungal communities using PacBio SMRT sequencing on samples collected from 60 farmlands in Switzerland. Organic farming harbored a much more complex fungal network with significantly higher connectivity than conventional and no till farming systems. The abundance of keystone taxa was the highest under organic farming where agricultural intensification was the lowest. We also found a strong negative association (R2 = 0.366; P < 0.0001) between agricultural intensification and root fungal network connectivity. The occurrence of keystone taxa was best explained by soil phosphorus levels, bulk density, pH, and mycorrhizal colonization.
The majority of keystone taxa are known to form arbuscular mycorrhizal associations with plants and belong to the orders Glomerales, Paraglomerales, and Diversisporales. Supporting this, the abundance of mycorrhizal fungi in roots and soils was also significantly higher under organic farming. To our knowledge, this is the first study to report mycorrhizal keystone taxa for agroecosystems, and we demonstrate that agricultural intensification reduces network complexity and the abundance of keystone taxa in the root microbiome.

EPrint Type:Journal paper
Keywords:microbiome, ecological production, conservation agriculture, conventional tillage
Agrovoc keywords:
ecological production
conservation agriculture
conventional tillage
Subjects: Soil > Soil quality > Soil biology
Research affiliation: Switzerland > Agroscope
Switzerland > FiBL - Research Institute of Organic Agriculture Switzerland > Soil > Soil quality
UK > Other organizations
Deposited By: Charles, Dr. Raphaël
ID Code:37708
Deposited On:30 Sep 2021 13:16
Last Modified:30 Sep 2021 13:16
Document Language:English
Refereed:Peer-reviewed and accepted

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