The dark side of orange: Multiorganismic continuum dynamics within a lichen of the Atacama Desert.

Over the decades our understanding of lichens has shifted to the fact that they are multiorganismic, symbiotic microecosystems, with their complex interactions coming to the fore due to recent advances in microbiomics. Here, we present a mutualistic-parasitic continuum dynamics scenario between an orange lichen and a lichenicolous fungus from the Atacama Desert leading to the decay of the lichen's photobiont and leaving behind a black lichen thallus. Based on isolation, sequencing, and ecophysiological approaches including metabolic screenings of the symbionts, we depict consequences upon infection with the lichenicolous fungus. This spans from a loss of the lichen's photosynthetic activity and an increased roughness of its surface to an inhibition of the parietin synthesis as a shared pathway between the photobiont and the mycobiont, including a shift of secondary metabolism products. This degree of relations has rarely been documented before, although lichenicolous fungi have been studied for over 200 years, adding an additional level to the view of interactions within lichens.

Biological Soil Crust From Mesic Forests Promote a Specific Bacteria Community.

Biological soil crusts (biocrusts) harbor a diverse community of various microorganisms with microalgae as primary producers and bacteria living in close association. In mesic regions, biocrusts emerge rapidly on disturbed surface soil in forest, typically after clear-cut or windfall. It is unclear whether the bacterial community in biocrusts is similar to the community of the surrounding soil or if biocrust formation promotes a specific bacterial community. Also, many of the interactions between bacteria and algae in biocrusts are largely unknown. Through high-throughput-sequencing analysis of the bacterial community composition, correlated drivers, and the interpretation of biological interactions in a biocrust of a forest ecosystem, we show that the bacterial community in the biocrust represents a subset of the community of the neighboring soil. Bacterial families connected with degradation of large carbon molecules, like cellulose and chitin, and the bacterivore Bdellovibrio were more abundant in the biocrust compared to bulk soil. This points to a closer interaction and nutrient recycling in the biocrust compared to bulk soil. Furthermore, the bacterial richness was positively correlated with the content of mucilage producing algae. The bacteria likely profit from the mucilage sheaths of the algae, either as a carbon source or protectant from grazing or desiccation. Comparative sequence analyses revealed pronounced differences between the biocrust bacterial microbiome. It seems that the bacterial community of the biocrust is recruited from the local soil, resulting in specific bacterial communities in different geographic regions.

Stepwise redox changes alter the speciation and mobilization of phosphorus in hydromorphic soils.

Sustainable engineering and management of hydromorphic arable soils need deep knowledge about the redox-mediated interactions between nutrients and soil colloids. Consequently, we examined the redox-mediated interactions of P with metal oxides and organic carbon (OC) in toe-, mid-, and upper-slope arable soils under dynamic redox changes using geochemical (biogeochemical microcosm), spectroscopic (XANES), and molecular (quantum chemical calculations (QCC)) approaches. We controlled the redox potential (EH) in two directions i.e., 1) slowly oxidizing direction (SOD; EH increased from -286 to +564 mV); and 2) slowly reducing direction (SRD; EH decreased from +564 to -148 mV). In the SOD of all soils, P, Fe2+ and OC mobilized at EH ≤ 200 mV, due to the pH decrease from 7.2 to 4.1 and dissolution of Fe-oxyhydroxides/carbonates, as indicated by the decrease of Fe-P and Ca-P determined by P-K-edge-XANES. At EH > 200 mV, P immobilized due to the strong P binding with Fe3+ as suggested by QCC. In the SRD of mid-slope-soil, P immobilized with decreasing EH, due to pH increase and P retention by aromatic carbon and/or precipitation by carbonates, as supported by increase of organic-P and Ca-P. These findings help for management of P in arable soils.

Redox-induced mobilization of phosphorus in groundwater affected arable soil profiles.

Mobilization of phosphorus (P) in arable soils might be affected by groundwater fluctuations and the associated changes in redox potential (EH). However, the impact of systematic changes of EH on P mobilization in redoximorphic arable soils along a catena has not been studied so far. Therefore, we investigated P mobilization under different redox conditions in top- and sub-soil horizons of three groundwater affected arable soils along a slight slope (toe-, mid-, and upper-slope position) in Northern Germany using an automated biogeochemical microcosm system. The impact of pH, Al, Fe, Mn, and dissolved organic carbon (DOC) on P mobilization was also studied. The initial EH (+351 to +431 mV) and pH (6.5-7.0) decreased in all soil samples (EH = -280 mV; pH = 4.4) when creating a slurry. Thereafter, the pH increased to 7.1 and 6.4 with increasing EH in the mid-and toe-slope soil, respectively. Concentrations of dissolved P ranged between 20.8 mg L-1 under low EH in the toe slope topsoil and 0.69 mg L-1 under high EH in the toe- and mid-slop subsoil. Concentrations (mg L-1) of dissolved Fe (0.31-13.3) and DOC (92-2651) increased under low EH and decreased under high EH. The increase of P mobilization under low EH and pH in the soils might be due to the release of P via the reductive and acidic dissolution of Fe-(oxhydr)oxides and/or due to soil organic matter mineralization. The high mobilization of P under reducing conditions may increase its bioavailability; however, it may increase its loss in the soils, particularly in the toe slope profile.

Lichens Bite the Dust - A Bioweathering Scenario in the Atacama Desert.

Bioweathering mediated by microorganisms plays a significant role in biogeochemical cycles on global scales over geological timescales. Single processes induced by specific taxa have been described but could rarely be demonstrated for complex communities that dominate whole landscapes. The recently discovered grit crust of the coastal Atacama Desert, which is a transitional community between a cryptogamic ground cover and a rock-bound lithic assemblage, offers the unique chance to elucidate various bioweathering processes that occur simultaneously. Here, we present a bioweathering scenario of this biocenosis including processes such as penetration of the lithomatrix, microbial responses to wet-dry cycles, alkalinolysis, enzyme activity, and mineral re-localization. Frequently occurring fog, for example, led to a volume increase of microorganisms and the lithomatrix. This, together with pH shifts and dust accumulation, consequently results in biophysical breakdown and the formation of a terrestrial protopedon, an initial stage of pedogenesis fueled by the grit crust.

Biodiversity of Algae and Cyanobacteria in Biological Soil Crusts Collected Along a Climatic Gradient in Chile Using an Integrative Approach.

Biocrusts are associations of various prokaryotic and eukaryotic microorganisms in the top millimeters of soil, which can be found in every climate zone on Earth. They stabilize soils and introduce carbon and nitrogen into this compartment. The worldwide occurrence of biocrusts was proven by numerous studies in Europe, Africa, Asia and North America, leaving South America understudied. Using an integrative approach, which combines morphological and molecular characters (small subunit rRNA and ITS region), we examined the diversity of key biocrust photosynthetic organisms at four sites along the latitudinal climate gradient in Chile. The most northern study site was located in the Atacama Desert (arid climate), followed by open shrubland (semiarid climate), a dry forest region (Mediterranean climate) and a mixed broad leaved-coniferous forest (temperate climate) in the south. The lowest species richness was recorded in the desert (18 species), whereas the highest species richness was observed in the Mediterranean zone with (40 species). Desert biocrusts were composed exclusively of single-celled Chlorophyta algae, followed by cyanobacteria. Chlorophyta, Streptophyta and cyanobacteria dominated semiarid biocrusts, whereas Mediterranean and temperate Chilean biocrusts were composed mostly of Chlorophyta, Streptophyta and Ochrophyta. Our investigation of Chilean biocrust suggests high biodiversity of South American biocrust phototrophs.

Shifting Boundaries: Ecological and Geographical Range extension Based on Three New Species in the Cyanobacterial Genera Cyanocohniella, Oculatella, and, Aliterella.

The polyphasic approach has been widely applied in cyanobacterial taxonomy, which frequently led to additions to the species inventory. Increasing our knowledge about species and the habitats they were isolated from enables new insights into the ecology of newly established genera and species allowing speculations about the ecological niche of taxa. Here, we are describing three new species belonging to three genera that broadens the ecological amplitude and the geographical range of each of the three genera. Cyanocohniella crotaloides sp. nov. is described from sandy beach mats of the temperate island Schiermonnikoog, Netherlands, Oculatella crustae-formantes sp. nov. was isolated from biological soil crusts of the Arctic Spitsbergen, Norway, and Aliterella chasmolithica originated from granitic stones of the arid Atacama Desert, Chile. All three species could be separated from related species using molecular sequencing of the 16S rRNA gene and 16S-23S ITS gene region, the resulting secondary structures as well as p-distance analyses of the 16S-23S ITS and various microscopic techniques. The novel taxa described in this study contribute to a better understanding of the diversity of the genera Cyanocohniella, Oculatella, and Aliterella in different habitats.

Speciation and sorption of phosphorus in agricultural soil profiles of redoximorphic character.

Controlled drainage is considered as a soil management tool to improve water supply to crops and reduce nutrient losses from fields; however, its closure may affect phosphorus (P) mobilization in soil. To assess the P mobilization potential, three soil profiles with redoximorphic features were selected along a slight hill in Northern Germany. Soil samples from three depths of each profile were characterized for basic properties, total element content, oxalate- and dithionite-extractable pedogenic Al, Fe and Mn (hydr)oxides, P pools (sequential extraction), P species [P K-edge X-ray absorption near-edge structure (XANES) spectroscopy] and P sorption behavior. In topsoil (~ 10 cm depth), labile P (H2O-P + resin-P + NaHCO3-P) accounted for 26-32% of total P (Pt). Phosphorus K-edge XANES revealed that up to 49% of Pt was bound to Al and/or Fe (hydr)oxides, but sequential fractionation indicated that > 30% of this P was occluded within sesquioxide aggregates. A low binding capacity for P was demonstrated by P sorption capacity and low Kf coefficients (20-33 [Formula: see text]) of the Freundlich equation. In the subsoil layers (~ 30 and ~ 65 cm depth), higher proportions of Al- and Fe-bound P along with other characteristics suggested that all profiles might be prone to P mobilization/leaching risk under reducing conditions even if the degree of P saturation (DPS) of a profile under oxic conditions was < 25%. The results suggest that a closure of the controlled drainage may pose a risk of increased P mobilization, but this needs to be compared with the risk of uncontrolled drainage and P losses to avoid P leaching into the aquatic ecosystem.

Desert breath-How fog promotes a novel type of soil biocenosis, forming the coastal Atacama Desert's living skin.

The Atacama Desert is the driest non-polar desert on Earth, presenting precarious conditions for biological activity. In the arid coastal belt, life is restricted to areas with fog events that cause almost daily wet-dry cycles. In such an area, we discovered a hitherto unknown and unique ground covering biocenosis dominated by lichens, fungi, and algae attached to grit-sized (~6 mm) quartz and granitoid stones. Comparable biocenosis forming a kind of a layer on top of soil and rock surfaces in general is summarized as cryptogamic ground covers (CGC) in literature. In contrast to known CGC from arid environments to which frequent cyclic wetting events are lethal, in the Atacama Desert every fog event is answered by photosynthetic activity of the soil community and thus considered as the desert's breath. Photosynthesis of the new CGC type is activated by the lowest amount of water known for such a community worldwide thus enabling the unique biocenosis to fulfill a variety of ecosystem services. In a considerable portion of the coastal Atacama Desert, it protects the soil from sporadically occurring splash erosion and contributes to the accumulation of soil carbon and nitrogen as well as soil formation through bio-weathering. The structure and function of the new CGC type are discussed, and we suggest the name grit-crust. We conclude that this type of CGC can be expected in all non-polar fog deserts of the world and may resemble the cryptogam communities that shaped ancient Earth. It may thus represent a relevant player in current and ancient biogeochemical cycling.

Water availability shapes edaphic and lithic cyanobacterial communities in the Atacama Desert.

In the Atacama Desert, cyanobacteria grow on various substrates such as soils (edaphic) and quartz or granitoid stones (lithic). Both edaphic and lithic cyanobacterial communities have been described but no comparison between both communities of the same locality has yet been undertaken. In the present study, we compared both cyanobacterial communities along a precipitation gradient ranging from the arid National Park Pan de Azúcar (PA), which resembles a large fog oasis in the Atacama Desert extending to the semiarid Santa Gracia Natural Reserve (SG) further south, as well as along a precipitation gradient within PA. Various microscopic techniques, as well as culturing and partial 16S rRNA sequencing, were applied to identify 21 cyanobacterial species; the diversity was found to decline as precipitation levels decreased. Additionally, under increasing xeric stress, lithic community species composition showed higher divergence from the surrounding edaphic community, resulting in indigenous hypolithic and chasmoendolithic cyanobacterial communities. We conclude that rain and fog water, respectively, cause contrasting trends regarding cyanobacterial species richness in the edaphic and lithic microhabitats.

Ecophysiology and phylogeny of new terricolous and epiphytic chlorolichens in a fog oasis of the Atacama Desert.

The Atacama Desert is one of the driest and probably oldest deserts on Earth where only a few extremophile organisms are able to survive. This study investigated two terricolous and two epiphytic lichens from the fog oasis "Las Lomitas" within the National Park Pan de Azúcar which represents a refugium for a few vascular desert plants and many lichens that can thrive on fog and dew alone. Ecophysiological measurements and climate records were combined with molecular data of the mycobiont, their green algal photobionts and lichenicolous fungi to gain information about the ecology of lichens within the fog oasis. Phylogenetic and morphological investigations led to the identification and description of the new lichen species Acarospora conafii sp. nov. as well as the lichenicolous fungi that accompanied them and revealed the trebouxioid character of all lichen photobionts. Their photosynthetic responses were compared during natural scenarios such as reactivation by high air humidity and in situ fog events to elucidate the activation strategies of this lichen community. Epiphytic lichens showed photosynthetic activity that was rapidly induced by fog and high relative air humidity whereas terricolous lichens were only activated by fog.

Phosphorus transformations in plant-based and bio-waste materials induced by pyrolysis.

Strategies are needed to increase the sustainability of phosphorus (P) fertiliser management in agriculture. This paper reports on the potential of pyrolysis treatment to recycle P from renewable materials previously regarded as wastes. The study used K-edge X-ray absorption near-edge structure (XANES) spectroscopy to examine chemical forms of P in the waste feedstock materials and corresponding biochars (pyrolysis at 480-500 °C) of four ligno-cellulosic, plant-based residues and five relatively P-rich livestock and water-treatment by-products, to acquire information on changes in potential P fertiliser value. Pyrolysis enriched P in the biochars by factors of 1.3-4.3, thus offering wide-ranging P fertiliser potential. XANES spectroscopy revealed hydroxyapatite (HAP) as one of the dominant chemical P compounds in the feedstocks, ranging from 14% (rice husks) to 98% (animal bone) of total P. For most materials, pyrolysis increased the proportion of HAP, and pyrophosphates were generated in several cases. These alterations possibly lead to diversity in the P solubility characteristics of the biochars if used as soil amendments; this is an important property of environmentally sound P fertilisers.

Effects of soil mineral matrix on the analysis of plant- and soil-derived polysaccharides after acid hydrolysis.

RATIONALE: The efficiency of extraction procedures for the determination of organic compounds in soil may be affected by the presence of the mineral phase. Our aim was to analyse the magnitude of such an effect on both total polysaccharide content and (13)C-isotopic signature of the polysaccharides. METHODS: After acid hydrolysis of (13)C-labelled wheat, soil and a mixture of these, sugars were quantified and analysed isotopically. Measured values were compared with theoretical contents. RESULTS: No matrix effect was apparent for total sugar-C content of the mixture. However, a matrix effect was observed for the contribution of (13)C-labelled wheat sugars. For the soil+plant mixture (13)C-labelled wheat sugar contribution was overestimated. Soil-derived sugar-C contribution to the mixture was underestimated. CONCLUSIONS: Studies using stable isotopes to follow the fate of added plant-derived compounds in soil need to take into account matrix effects. Further studies have to elaborate on correction procedures and/or the development of extraction procedures to overcome the influence of matrix effects and/or acid hydrolysis extraction on sugar-C contents.

Microbial utilisation of biochar-derived carbon.

Whilst largely considered an inert material, biochar has been documented to contain a small yet significant fraction of microbially available labile organic carbon (C). Biochar addition to soil has also been reported to alter soil microbial community structure, and to both stimulate and retard the decomposition of native soil organic matter (SOM). We conducted a short-term incubation experiment using two (13)C-labelled biochars produced from wheat or eucalypt shoots, which were incorporated in an aridic arenosol to examine the fate of the labile fraction of biochar-C through the microbial community. This was achieved using compound specific isotopic analysis (CSIA) of phospholipid fatty acids (PLFAs). A proportion of the biologically-available fraction of both biochars was rapidly (within three days) utilised by gram positive bacteria. There was a sharp peak in CO2 evolution shortly after biochar addition, resulting from rapid turnover of labile C components in biochars and through positive priming of native SOM. Our results demonstrate that this CO2 evolution was at least partially microbially mediated, and that biochar application to soil can cause significant and rapid changes in the soil microbial community; likely due to addition of labile C and increases in soil pH.

Effect of 13C enrichment and sugar type on analysis of sugars by gas chromatography/combustion/isotope ratio mass spectrometry.

RATIONALE: The objective of this investigation was to test gas-chromatographic compound-specific analysis for studies on the isotopic composition of (13)C-enriched sugar molecules. The effects of (13)C enrichment and type of sugar (C5, C6) will provide valuable information on isotopic correction for future studies employing (13)C-enriched sugars. METHODS: Five sugar solutions of xylose, mannose and glucose with (13)C enrichments ranging between 1.1 and 1.5 atom-% were prepared. The (13)C enrichments of the initial sugars were measured by elemental analyser/isotope ratio mass spectrometry (EA/IRMS); (13)C enrichments for derivatised sugars were obtained by gas chromatography/combustion/IRMS (GC/C/IRMS). RESULTS: The linear relationships between the (13)C enrichments of the initial sugars and the values for the derivatised sugars were sugar-type dependent. Corrections for GC/C/IRMS values took into account the kinetic isotope effect (KIE) of the derivatising agent associated with the coefficient (K(d)) and a newly introduced second coefficient (K(c)) associated with the KIE of the sugar. While K(d) was constant, K(c) varied with sugar type. During derivatisation acetate groups with (12)C and sugars with more (13)C reacted faster. CONCLUSIONS: Coefficients for the specific ranges of (13)C enrichments under study have to be assessed and the reactions of different sugar types have to be taken into account to avoid underestimation of (13)C enrichment of up to 9% (C5) or overestimation of up to 4% (C6).