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Similar processes but different environmental filters for soil bacterial and fungal community composition turnover on a broad spatial scale.

ABSTRACT: Spatial scaling of microorganisms has been demonstrated over the last decade. However, the processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined and ranked. Here, we compared bacterial and fungal community composition turnovers through a biogeographical approach on the same soil sampling design at a broad spatial scale (area range: 13300 to 31000 km2): i) to examine their spatial structuring; ii) to investigate the relative importance of environmental selection and spatial autocorrelation in determining their community composition turnover; and iii) to identify and rank the relevant environmental filters and scales involved in their spatial variations. Molecular fingerprinting of soil bacterial and fungal communities was performed on 413 soils from four French regions of contrasting environmental heterogeneity (Landes

SUBMITTER: Chemidlin Prevost-Boure N

PROVIDER: S-EPMC4218796 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature

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Similar processes but different environmental filters for soil bacterial and fungal community composition turnover on a broad spatial scale.

Chemidlin Prévost-Bouré Nicolas N Dequiedt Samuel S Thioulouse Jean J Lelièvre Mélanie M Saby Nicolas P A NP Jolivet Claudy C Arrouays Dominique D Plassart Pierre P Lemanceau Philippe P Ranjard Lionel L

PloS one 20141103 11

Spatial scaling of microorganisms has been demonstrated over the last decade. However, the processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined and ranked. Here, we compared bacterial and fungal community composition turnovers through a biogeographical approach on the same soil sampling design at a broad spatial scale (area range: 13300 to 31000 km2): i) to examine their spatial structuring; ii) to investigate the relati ...[more]

PMID: 25365044

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Project description:Quantification of different processes affecting the assembly of ecological communities remains challenging, especially in species-rich communities. While the role of environmental filtering has generally been well established, fewer studies have experimentally shown how other ecological assembly processes, such as biotic filtering, structure species-rich communities. Here, we studied the relative roles of biotic and environmental filtering in the colonization of wood-inhabiting fungi, a species-rich, highly interactive, and environment-sensitive group of species. We conducted a field experiment where we simulated colonization with inoculations of nine fungal species in habitat patches (i.e., logs) with varying biotic and abiotic conditions. We characterized the local resident communities before the inoculations and the colonization success of the inoculated species after one and two years using DNA metabarcoding. We asked what determined the colonization success of the inoculated species by comparing the predictive performance of alternative models. These models included either only abiotic environmental predictors (i.e., physical log properties) or additionally different aspects of the resident fungal communities (i.e., resident fungal species richness, community composition, and DNA amount) as biotic predictors. While all nine species successfully colonized the logs, the rate of success and the factors explaining their colonization success varied among species. The colonization success of four of the inoculated species was explained mostly by the abiotic environmental variables, while the colonization success of three species was additionally explained by the resident communities. The influential biotic predictors varied from the presence of individual species to the collective presence of multiple species. Finally, for two of the inoculated species, all the models showed poor predictive performance. Our results indicate how environmental and biotic filtering may jointly structure species-rich communities. Overall, the results show that species vary idiosyncratically in their response to biotic and environmental factors, highlighting the need to consider the complexity of species-level responses when predicting community-level changes.

Project description:Soil microorganisms play vital roles in energy flow and soil nutrient cycling and, thus, are important for crop production. A detailed understanding of the complex responses of microbial communities to diverse organic manure and chemical fertilizers (CFs) is crucial for agroecosystem sustainability. However, little is known about the response of soil fungal communities and soil nutrients to manure and CFs, especially under double-rice cropping systems. In this study, we investigated the effects of the application of combined manure and CFs to various fertilization strategies, such as no N fertilizer (Neg-CF); 100% chemical fertilizer (Pos-CF); 60% cattle manure (CM) + 40% CF (high-CM); 30% CM + 70% CF (low-CM); 60% poultry manure (PM) + 40% CF (high-PM), and 30% PM + 70% CF (low-PM) on soil fungal communities' structure and diversity, soil environmental variables, and rice yield. Results showed that synthetic fertilizer plus manure addition significantly increased the soil fertility and rice grain yield compared to sole CFs' application. Moreover, the addition of manure significantly changed the soil fungal community structure and increased the relative abundance of fungi such as phyla Ascomycota, Basidiomycota, Mortierellomycota, and Rozellomycota. The relative abundances dramatically differed at each taxonomic level, especially between manured and non-manured regimes. Principal coordinates analysis (PCoA) exhibited greater impacts of the addition of manure amendments than CFs on fungal community distributions. Redundancy analysis showed that the dominant fungal phyla were positively correlated with soil pH, soil organic C (SOC), total N, and microbial biomass C, and the fungal community structure was strongly affected by SOC. Network analysis explored positive relationships between microorganisms and could increase their adaptability in relevant environments. In addition, the structural equation model (SEM) shows the relationship between microbial biomass, soil nutrients, and rice grain yield. The SEM showed that soil nutrient contents and their availability directly affect rice grain yield, while soil fungi indirectly affect grain yield through microbial biomass production and nutrient levels. Our results suggest that manure application combined with CFs altered soil biochemical traits and soil fungal community structure and counteracted some of the adverse effects of the synthetic fertilizer. Overall, the findings of this research suggest that the integrated application of CF and manure is a better approach for improving soil health and rice yield.

Dataset Information

Similar processes but different environmental filters for soil bacterial and fungal community composition turnover on a broad spatial scale.

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Similar processes but different environmental filters for soil bacterial and fungal community composition turnover on a broad spatial scale.

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