Airborne DNA reveals predictable spatial and seasonal dynamics of fungi.

Fungi are among the most diverse and ecologically important kingdoms in life. However, the distributional ranges of fungi remain largely unknown as do the ecological mechanisms that shape their distributions1,2. To provide an integrated view of the spatial and seasonal dynamics of fungi, we implemented a globally distributed standardized aerial sampling of fungal spores3. The vast majority of operational taxonomic units were detected within only one climatic zone, and the spatiotemporal patterns of species richness and community composition were mostly explained by annual mean air temperature. Tropical regions hosted the highest fungal diversity except for lichenized, ericoid mycorrhizal and ectomycorrhizal fungi, which reached their peak diversity in temperate regions. The sensitivity in climatic responses was associated with phylogenetic relatedness, suggesting that large-scale distributions of some fungal groups are partially constrained by their ancestral niche. There was a strong phylogenetic signal in seasonal sensitivity, suggesting that some groups of fungi have retained their ancestral trait of sporulating for only a short period. Overall, our results show that the hyperdiverse kingdom of fungi follows globally highly predictable spatial and temporal dynamics, with seasonality in both species richness and community composition increasing with latitude. Our study reports patterns resembling those described for other major groups of organisms, thus making a major contribution to the long-standing debate on whether organisms with a microbial lifestyle follow the global biodiversity paradigms known for macroorganisms4,5.

Global Spore Sampling Project: A global, standardized dataset of airborne fungal DNA.

Novel methods for sampling and characterizing biodiversity hold great promise for re-evaluating patterns of life across the planet. The sampling of airborne spores with a cyclone sampler, and the sequencing of their DNA, have been suggested as an efficient and well-calibrated tool for surveying fungal diversity across various environments. Here we present data originating from the Global Spore Sampling Project, comprising 2,768 samples collected during two years at 47 outdoor locations across the world. Each sample represents fungal DNA extracted from 24 m3 of air. We applied a conservative bioinformatics pipeline that filtered out sequences that did not show strong evidence of representing a fungal species. The pipeline yielded 27,954 species-level operational taxonomic units (OTUs). Each OTU is accompanied by a probabilistic taxonomic classification, validated through comparison with expert evaluations. To examine the potential of the data for ecological analyses, we partitioned the variation in species distributions into spatial and seasonal components, showing a strong effect of the annual mean temperature on community composition.

Wide divergence of fungal communities inhabiting rocks and soils in a hyper-arid Antarctic desert.

Highly simplified microbial communities colonise rocks and soils of continental Antarctica ice-free deserts. These two habitats impose different selection pressures on organisms, yet the possible filtering effects on the diversity and composition of microbial communities have not hitherto been fully characterised. We hence compared fungal communities in rocks and soils in three localities of inner Victoria Land. We found low fungal diversity in both substrates, with a mean species richness of 28 across all samples, and significantly lower diversity in rocks than in soils. Rock and soil communities were strongly differentiated, with a multinomial species classification method identifying just three out of 328 taxa as generalists with no affinity for either substrate. Rocks were characterised by a higher abundance of lichen-forming fungi (typically Buellia, Carbonea, Pleopsidium, Lecanora, and Lecidea), possibly owing to the more protected environment and the porosity of rocks permitting photosynthetic activity. In contrast, soils were dominated by obligate yeasts (typically Naganishia and Meyerozyma), the abundances of which were correlated with edaphic factors, and the black yeast Cryomyces. Our study suggests that strong differences in selection pressures may account for the wide divergences of fungal communities in rocks and soils of inner Victoria Land.

Impacts of agricultural land use change on soil aggregate stability and physical protection of organic C.

Soil aggregate stability and soil organic carbon (SOC) physical sequestration is essential to regulation of anthropogenic climate change. However, relative knowledge remains elusive. The total SOC stock, aggregate stability, capacity of physically protected C, structure of macroaggregates and Al/Fe oxides under rice-wheat rotation (RW), rice-vegetable rotation (RV) and afforested land (AL) were analysed. We chose 1-2 mm macroaggregates for low-temperature ashing (LTA) treatment to mimic natural oxidation to assess the capacity of physically protected C. Using scanning electron microscopy, the N adsorption method, and energy dispersive spectroscopy, we explored the internal structure of macroaggregates under different land use types. All land use types could physically protect over 50% of SOC. AL showed the strongest capacity of C sequestration, followed by RW, which preserved 67.1% and 59.6% of SOC, respectively. After 5 h of LTA treatment, the amount of SOC removed from the macropores in cropland (RW and RV) was higher than that in AL. In micropores with further oxidation, AL and RW both lost only 5% of SOC. Fe oxides were more correlated with C dynamics than Al oxides. Free Fe oxides were associated with the easily oxidised organic matter. Soil aggregate stability significantly correlated with Al/Fe oxides (p < 0.05). The RW and AL had a greater soil aggregate stability than the RV owing to the relatively higher content of Al/Fe oxides. In conclusion, the conversion of RW to RV reduced the mechanical stability of soil aggregates and the capacity of C physical sequestration, while the conversion of RW to AL increased these two properties. Land use change affected C physical sequestration mainly via changes in surface area, pore development and the content of Fe oxides in macroaggregates.

Use of phytoremediated sediments dredged in maritime port as plant nursery growing media.

We evaluated the potential of a phytoremediated sediment (TR) dredged from maritime port as peat-free growth substrate for seven ornamental plants, in comparison with an untreated sediment (NT), in a greenhouse experiment. The studied plants were Quercus ilex, Photinia x fraseri, Viburnum tinus, Cistus albidus, Raphiolepis indica, Westringia fruticosa and Teucrium fruticans. Plant growth was monitored for ten months, and the changes in the physico-chemical properties, toxicity, microbial biomass and enzyme activities involved in the C, P and N cycles were also monitored during the plant growth period. The results showed that the studied ornamental plants could grow on both NT and TR sediments, but that the growth was higher on TR sediment. The plant growth induced changes in the sediment chemical functional groups, with clear separation between NT and TR sediments for each of the studied plant. Microbial biomass and enzyme activities significantly increased during the plant growth, more in TR than in NT sediment. Toxicity was detected in NT sediments during the plant growth whereas it was not observed in NT sediments during the whole growth period. We concluded that phytoremediation converted the dredged maritime sediments into suitable substrates for growing ornamental plants, and that the re-use by plant nursery industry can be a sustainable management and valorization for remediated sediments.

Biodiversity of phototrophic biofilms dwelling on monumental fountains.

Among the stone monumental assets, artistic fountains are particularly affected by microbial colonization due to constant contact with water, giving rise to biodegradation processes related with physical-chemical and aesthetical alterations. In this paper, we make an overview of reported biodiversity of the phototrophic patina developed in various fountains of Italy and Spain. The microbial composition of four fountains (two from Florence, Italy and two from Granada, Spain) was investigated using traditional and/or molecular techniques. The results indicated many common similarities with regard the phototrophic biodiversity for all the investigated fountains. Automated ribosomal RNA intergenic spacer analysis (ARISA), a molecular fingerprint tool, was used to examine the eubacterial and cyanobacterial community for two of the investigated fountains. The principal component analysis of ARISA profiles strengthens the results obtained by traditional methods and revealed separate clusters, as a consequence of the differences of micro-environmental conditions for each fountain.

Rock weathering creates oases of life in a high Arctic desert.

During primary colonization of rock substrates by plants, mineral weathering is strongly accelerated under plant roots, but little is known on how it affects soil ecosystem development before plant establishment. Here we show that rock mineral weathering mediated by chemolithoautotrophic bacteria is associated to plant community formation in sites recently released by permanent glacier ice cover in the Midtre Lovénbreen glacier moraine (78 degrees 53'N), Svalbard. Increased soil fertility fosters growth of prokaryotes and plants at the boundary between sites of intense bacterial mediated chemolithotrophic iron-sulfur oxidation and pH decrease, and the common moraine substrate where carbon and nitrogen are fixed by cyanobacteria. Microbial iron oxidizing activity determines acidity and corresponding fertility gradients, where water retention, cation exchange capacity and nutrient availability are increased. This fertilization is enabled by abundant mineral nutrients and reduced forms of iron and sulfur in pyrite minerals within a conglomerate type of moraine rock. Such an interaction between microorganisms and moraine minerals determines a peculiar, not yet described model for soil genesis and plant ecosystem formation with potential past and present analogues in other harsh environments with similar geochemical settings.

Use of ecosystem information to improve soil organic carbon mapping of a Mediterranean island.

Detailed maps of soil C are needed to guide sustainable soil uses and management decisions. The quality of soil C maps of Italian Mediterranean areas may be improved and the sampling density reduced using secondary data related to the nature of the ecosystem. The current study was conducted to determine: (i) the improvements obtainable in mapping soil C over a Mediterranean island by using ecosystem features and (ii) the effect of different sampling densities on the map accuracy. This work relied on field sampling (n=164) of soil properties measured over the island of Pianosa (Central Italy). Statistical analysis assessing the relationship between soil properties and ecosystem features revealed that the conceptual model of ecosystems defined on the basis of environmental features such as vegetation cover, land use, and soil type was mainly related to the variation of soil organic carbon (OC) content and to the type of Mediterranean environment. The distribution of ecosystems was used to improve the accuracy of soil OC maps obtainable by a simple interpolation approach (ordinary kriging). Substantial improvement was obtained by: (i) stratification into ecosystem types and (ii) applying locally calibrated regressions to satellite imagery that introduced both inter-ecosystem and intra-ecosystem information linked to vegetation features. This study showed that interpolation methods using information on ecosystem distribution can produce accurate maps of soil OC in Mediterranean environments, mostly because of the linkage between soil OC and vegetation types, which are spatially fragmented and heterogeneous.