Mineral types and tree species determine the functional and taxonomic structures of forest soil bacterial communities

Yannick Colin (1, 2) , Océane Nicolitch-Café (1, 2) , Marie-Pierre M.-P. Turpault (2) , Stéphane Uroz (1, 2)

1 IAM - Interactions Arbres-Microorganismes
2 BEF - Unité de recherche Biogéochimie des Ecosystèmes Forestiers

Although minerals represent important soil constituents, their impact on the diversity and structure of soil microbial communities remains poorly documented. In this study, pure mineral particles with various chemistries (i.e., obsidian, apatite, and calcite) were considered. Each mineral type was conditioned in mesh bags and incubated in soil below different tree stands ( beech, coppice with standards, and Corsican pine) for 2.5 years to determine the relative impacts of mineralogy and mineral weatherability on the taxonomic and functional diversities of mineral-associated bacterial communities. After this incubation period, the minerals and the surrounding bulk soil were collected to determine mass loss and to perform soil analyses, enzymatic assays, and cultivation-dependent and -independent analyses. Notably, our 16S rRNA gene pyrosequencing analyses revealed that after the 2.5-year incubation period, the mineral-associated bacterial communities strongly differed from those of the surrounding bulk soil for all tree stands considered. When focusing only on minerals, our analyses showed that the bacterial communities associated with calcite, the less recalcitrant mineral type, significantly differed from those that colonized obsidian and apatite minerals. The cultivation-dependent analysis revealed significantly higher abundances of effective mineral-weathering bacteria on the most recalcitrant minerals (i.e., apatite and obsidian). Together, our data showed an enrichment of Betaproteobacteria and effective mineral-weathering bacteria related to the Burkholderia and Collimonas genera on the minerals, suggesting a key role for these taxa in mineral weathering and nutrient cycling in nutrient-poor forest ecosystems. IMPORTANCE Forests are usually developed on nutrient-poor and rocky soils, while nutrient-rich soils have been dedicated to agriculture. In this context, nutrient recycling and nutrient access are key processes in such environments. Deciphering how soil mineralogy influences the diversity, structure, and function of soil bacterial communities in relation to the soil conditions is crucial to better understanding the relative role of the soil bacterial communities in nutrient cycling and plant nutrition in nutrient-poor environments. The present study determined in detail the diversity and structure of bacterial communities associated with different mineral types incubated for 2.5 years in the soil under different tree species using cultivation-dependent and - independent analyses. Our data showed an enrichment of specific bacterial taxa on the minerals, specifically on the most weathered minerals, suggesting that they play key roles in mineral weathering and nutrient cycling in nutrient-poor forest ecosystems.

Mots clés: MICROORGANISMS; DIVERSITY; RHIZOSPHERE; IMPACT; MICROBIAL COMMUNITIES; FUNGAL COMMUNITIES; ECTOMYCORRHIZAL FUNGI; GRANITE OUTCROP; FINE EARTH; forest ecosystem; minerals; woodland soils; taxonomy; MYCORRHIZOSPHERE

Mots clés: écosystème forestier; communauté bactérienne; arbre; minéraux; sol de forêt; taxonomie; structure fonctionnelle

Domaines: Sciences du Vivant [q-bio]

Yannick Colin, Océane Nicolitch-Café, Marie-Pierre M.-P. Turpault, Stéphane Uroz. Mineral types and tree species determine the functional and taxonomic structures of forest soil bacterial communities. Applied and Environmental Microbiology, 2017, 83 (5), pp.e02684-16. ⟨10.1128/AEM.02684-16⟩. ⟨hal-01548673⟩