Microbial communities in local and transplanted soils along a latitudinal gradient

Factors shaping community structure of soil microbiota have been intensively studied; however, the pattern in community composition and structure of soil microbiota at large geographical scales and factors regulating its metabolic activity remains poorly understood. Here, we used a field transplantation experiments to investigate the effects of substrate and climatic conditions on basal soil respiration, microbial biomass C and diversity of soil microbiota by comparing local and transplanted soils along a latitudinal gradient. Soil samples collected in April 2008 at donor site (Sokolov, Czech Republic) in Central Europe were gamma-ray sterilized and transplanted to receptor sites in Europe and the USA in May and early June 2008. Soil samples were taken in June 2009 after one year of exposure and immediately prepared for laboratory analysis. Basal soil respiration in local soils increased from 22 to 42 mg CO2-C kg-1 h-1 with latitude while basal soil respiration in transplanted soils decreased with latitude from 32 to 19 mg CO2-C kg-1 h-1. The microbial biomass C in both transplanted and local soils decreased with latitude. Content of fungal and bacterial phospholipid fatty acids increased nearly twice with latitude in local soils. Shannon diversity index of fungal community decreased from 2.5 to 1.2 along the latitudinal gradient in transplanted soils while local soils increased from 0.9 to 2.4 with latitude. Based on our results, microbial activity is driven mainly by changes of the soil substrate along latitudinal and climatic gradients while microbial biomass is driven more by global climatic factors itself. The diversity of soil microbial communities is mostly affected by latitudinal and climatic factors while community structure is mostly shaped by substrate quality

Ecological changes in historically polluted soils: Metal(loid) bioaccumulation in microarthropods and their impact on community structure

International audienceSoil pollution by persistent metal(loid)s present environmental and sanitary risks. While the effects of metal(loid)s on vegetation and macrofauna have been widely studied, their impact on microarthropods (millimetre scale) and their bioaccumulation capacity have been less investigated. However, microarthropods provide important ecosystem services, contributing in particular to soil organic matter dynamics. This study focussed on the impact of metal(loid) pollution on the structure and distribution of microarthropod communities and their potential to bioaccumulate lead (Pb). Soil samples were collected from a contaminated historical site with a strong horizontal and vertical gradient of Pb concentrations. Microarthropods were extracted using the Berlese method. The field experiments showed that microarthropods were present even in extremely polluted soils (30,000 mg Pb kg− 1). However, while microarthropod abundance increased with increasing soil C/N content (R2 = 0.79), richness decreased with increasing pollution. A shift in the community structure from an oribatid-to a springtail-dominated community was observed in less polluted soils (R2 = 0.68). In addition, Pb bioamplification occurred in microarthropods, with higher Pb concentrations in predators than in detritivorous microarthropods. Finally, the importance of feeding and reproductive ecological traits as potentially relevant descriptors of springtail community structures was highlighted. This study demonstrates the interest of microarthropod communities with different trophic levels and ecological features for evaluating the global environmental impact of metal(loid) pollution on soil biological quality

Temporal response of soil prokaryotic communities to acidification and alkalization under laboratory conditions

Soil pH plays an important role in shaping the structure and diversity of prokaryotic community. Altered pH regimes may change prokaryotic community composition by selecting species or groups with different ecological strategies to optimize their fitness. However, it remains unresolved whether prokaryotic communities exhibit deterministic (phylogenetically conserved) or stochastic (phylogenetically overdispersed) responses to pH. In this study we investigated the responses of greenhouse gas emissions and prokaryotic community structure to pH using three-month incubation experiments by adjusting an artificial pH gradient from 4.5 to 8.5. We found decreasing OTUs richness after three months of incubation. Phylogenetic clustering of the prokaryotic community was observed at earlier incubation times whereas greater phylogenetic distance of the prokaryotic community was found at later incubation time. Our results evidenced differential responses of various soil bacterial taxa to the changes in pH. Relative abundances of bacterial phyla and classes of main ecological groups of soil prokaryotes, oligotrophs and copiotrophs, changed significantly along an artificial pH gradient at various incubation times. Relative abundance of Acidobacteria significantly increased with pH at the start of experiment, while opposite trend was observed after 90 days of incubation. In contrast, the relative abundance of Bacteroidetes showed opposite response as Acidobacteria to elevated pH gradient during various incubation time. Methane emissions increased with pH as well as with incubation time, but carbon dioxide and nitrous oxide only increased with incubation time

Functional and phylogenetic response of soil prokaryotic community under an artificial moisture gradient

Moisture is recognized as a key factor shaping the structure of soil microbial community and its function in soil ecosystem. However, the temporal response patterns of soil microbes under various moisture regimes remain poorly understood. Therefore, the main objective of our study was to reveal how moisture regulates prokaryotic community structure, diversity, phylogenetic structure and finally how moisture regulates greenhouse gas emissions, as an indicator of microbial community function. We monitored prokaryotic community in soil incubated under an artificial moisture gradient for three months. We observed robust effects of both moisture gradient and incubation time on increased greenhouse gas emissions (methane, carbon dioxide and nitrous oxide). Furthermore, the moisture gradient as well as the incubation time exerted significant effects on species turnover of the soil prokaryotic community. In contrast, the artificial moisture gradient did not show any significant effects on prokaryotic alpha diversity. Alpha diversity of the soil prokaryotic community decreased significantly with incubation time. Different community assembly patterns were observed (based on both the mean nearest relatedness index (NRI) and nearest taxon index (NTI)). The mean NRI exhibited the dominance of stochastic factors, while the NTI indicated the dominance of deterministic factors. The prokaryotic communities in soils with less moisture tended to be controlled by stochastic factors, while prokaryotes in soils with higher moisture (60%) were controlled by deterministic factors. Relative abundances of oligotrophs and copiotrophs did not change significantly along the artificial moisture gradient, while the relative abundances of some prokaryotic taxa did vary significantly along the artificial moisture gradient

Mycorrhizal association of common European tree species shapes biomass and metabolic activity of bacterial and fungal communities in soil

Recent studies have revealed effects of various tree species on soil physical and chemical properties. However, effects of various tree species on composition and activity of soil microbiota and the relevant controls remain poorly understood. We evaluated the influence of tree species associated with two different mycorrhizal types, ectomycorrhiza (EcM) and arbuscular mycorrhiza (AM), on growth, biomass and metabolic activity of soil fungal and bacterial communities using common garden tree species experiments throughout Denmark. The soil microbial communities differed between six European tree species as well as between EcM (beech, lime, oak and spruce) and AM (ash and maple) tree species. The EcM tree species had higher fungal biomass, fungal growth and bacterial biomass, while AM species showed higher bacterial growth. The results indicated that microbial community composition and functioning differed between groups of tree species with distinct litter qualities that generate soil C/N ratio and soil pH differences. The mycorrhizal association only partly explained litter quality and soil microbial species differences since lime was more similar to AM tree species. In addition, our results indicated that tree species-mediated soil pH and C/N ratio were the most important variables shaping microbial communities with a positive effect on bacterial and a negative effect on fungal growth rates. The results suggest that tree species-mediated microbial community composition and activity may be important drivers of the different vertical soil C distribution previously observed in AM and EcM tree species.Comment: Authors Accepted Manuscrip

Tree species effects on topsoil carbon stock and concentration are mediated by tree species type, mycorrhizal association, and N-fixing ability at the global scale

Selection of appropriate tree species is an important forest management decision that may affect sequestration of carbon (C) in soil. However, information about tree species effects on soil C stocks at the global scale remains unclear. Here, we quantitatively synthesized 850 observations from field studies that were conducted in a common garden or monoculture plantations to assess how tree species type (broadleaf vs. conifer), mycorrhizal association (arbuscular mycorrhizal (AM) vs. ectomycorrhizal (ECM)), and N-fixing ability (N-fixing vs. non-N-fixing), directly and indirectly, affect topsoil (with a median depth of 10 cm) C concentration and stock, and how such effects were influenced by environmental factors such as geographical location and climate. We found that (1) tree species type, mycorrhizal association, and N-fixing ability were all important factors affecting soil C, with lower forest floor C stocks under broadleaved (44%), AM (39%), or N-fixing (28%) trees respectively, but higher mineral soil C concentration (11%, 22%, and 156%) and stock (9%, 10%, and 6%) under broadleaved, AM, and N-fixing trees respectively; (2) tree species type, mycorrhizal association, and N-fixing ability affected forest floor C stock and mineral soil C concentration and stock directly or indirectly through impacting soil properties such as microbial biomass C and nitrogen; (3) tree species effects on mineral soil C concentration and stock were mediated by latitude, MAT, MAP, and forest stand age. These results reveal how tree species and their specific traits influence forest floor C stock and mineral soil C concentration and stock at a global scale. Insights into the underlying mechanisms of tree species effects found in our study would be useful to inform tree species selection in forest management or afforestation aiming to sequester more atmospheric C in soil for mitigation of climate change.Comment: Authors Accepted Manuscrip

Tree species traits and mycorrhizal association shape soil microbial communities via litter quality and species mediated soil properties

Soils harbor a vast diversity of soil microbiota, which play a crucial role in key ecosystem processes such as litter transformation and mineralization, but how complex plant-soil interactions shape the diversity and composition of soil microbiota remains elusive. We performed amplicon sequencing of DNA isolated from mineral topsoil of six common European trees planted in multi-site common garden monoculture stands of broadleaved maple and ash associated with arbuscular mycorrhiza (AM), broadleaved beech, lime and oak associated with ectomycorrhizal fungi (ECM) and coniferous spruce associated with ECM. The main aim of this study was to evaluate the effects of tree species identity, traits and mycorrhizal associations on diversity, community structure, cohesion, and shift in the relative abundance of taxonomic and functional groups of soil bacteria, fungi and nematodes. Our results revealed that soils beneath broadleaved trees hosted higher OTU richness of bacteria, fungi, and nematodes than under Norway spruce. Broadleaved tree species associated with AM fungi showed higher cohesion of bacterial and fungal communities than broadleaved trees associated with ECM fungi, but the cohesion of nematode communities was higher under trees associated with ECM fungi than under trees associated with AM fungi. Copiotrophic bacteria, fungal saprotrophs and bacterivorous nematodes were associated with ash, maple and lime having high soil pH, and high litter decomposition indices, while oligotrophic bacteria, ectomycorrhizal fungi and fungivorous nematodes were associated with beech, oak and Norway spruce that had low soil pH and low litter decomposition indices. Tree species associated with AM fungi had a high proportion of copiotrophic bacteria and saprotrophic fungi while trees associated with ECM fungi showed a high relative abundance of oligotrophic bacteria, ECM fungi and fungivorous nematodes. The different abundances of these functional groups support the more inorganic nutrient economy of AM tree species vs the more organic dominated nutrient economy of ECM tree species. The bacterial community was indirectly affected by litter quality via soil properties, while the fungal community was directly affected by litter quality and tree species. The functional groups of nematodes mirrored the communities of bacteria and fungi, thereby indicating the main and active groups of the tree species-specific microbial communities. Our study suggested that tree species identity, traits, and mycorrhizal association substantially shape microbial communities via a direct effect of litter chemistry as well as via litter-mediated soil properties