The Automated Root Exudate System (ARES): a method to apply solutes at regular intervals to soils in the field.

Root exudation is a key component of nutrient and carbon dynamics in terrestrial ecosystems. Exudation rates vary widely by plant species and environmental conditions, but our understanding of how root exudates affect soil functioning is incomplete, in part because there are few viable methods to manipulate root exudates in situ. To address this, we devised the Automated Root Exudate System (ARES), which simulates increased root exudation by applying small amounts of labile solutes at regular intervals in the field. The ARES is a gravity-fed drip irrigation system comprising a reservoir bottle connected via a timer to a micro-hose irrigation grid covering c. 1 m2; 24 drip-tips are inserted into the soil to 4-cm depth to apply solutions into the rooting zone. We installed two ARES subplots within existing litter removal and control plots in a temperate deciduous woodland. We applied either an artificial root exudate solution (RE) or a procedural control solution (CP) to each subplot for 1 min day-1 during two growing seasons. To investigate the influence of root exudation on soil carbon dynamics, we measured soil respiration monthly and soil microbial biomass at the end of each growing season. The ARES applied the solutions at a rate of c. 2 L m-2 week-1 without significantly increasing soil water content. The application of RE solution had a clear effect on soil carbon dynamics, but the response varied by litter treatment. Across two growing seasons, soil respiration was 25% higher in RE compared to CP subplots in the litter removal treatment, but not in the control plots. By contrast, we observed a significant increase in microbial biomass carbon (33%) and nitrogen (26%) in RE subplots in the control litter treatment. The ARES is an effective, low-cost method to apply experimental solutions directly into the rooting zone in the field. The installation of the systems entails minimal disturbance to the soil and little maintenance is required. Although we used ARES to apply root exudate solution, the method can be used to apply many other treatments involving solute inputs at regular intervals in a wide range of ecosystems

Distinct responses of soil respiration to experimental litter manipulation in temperate woodland and tropical forest

Global change is affecting primary productivity in forests worldwide, and this, in turn, will alter long‐term carbon (C) sequestration in wooded ecosystems. On one hand, increased primary productivity, for example, in response to elevated atmospheric carbon dioxide (CO2), can result in greater inputs of organic matter to the soil, which could increase C sequestration belowground. On other hand, many of the interactions between plants and microorganisms that determine soil C dynamics are poorly characterized, and additional inputs of plant material, such as leaf litter, can result in the mineralization of soil organic matter, and the release of soil C as CO2 during so‐called “priming effects”. Until now, very few studies made direct comparison of changes in soil C dynamics in response to altered plant inputs in different wooded ecosystems. We addressed this with a cross‐continental study with litter removal and addition treatments in a temperate woodland (Wytham Woods) and lowland tropical forest (Gigante forest) to compare the consequences of increased litterfall on soil respiration in two distinct wooded ecosystems. Mean soil respiration was almost twice as high at Gigante (5.0 μmol CO2 m−2 s−1) than at Wytham (2.7 μmol CO2 m−2 s−1) but surprisingly, litter manipulation treatments had a greater and more immediate effect on soil respiration at Wytham. We measured a 30% increase in soil respiration in response to litter addition treatments at Wytham, compared to a 10% increase at Gigante. Importantly, despite higher soil respiration rates at Gigante, priming effects were stronger and more consistent at Wytham. Our results suggest that in situ priming effects in wooded ecosystems track seasonality in litterfall and soil respiration but the amount of soil C released by priming is not proportional to rates of soil respiration. Instead, priming effects may be promoted by larger inputs of organic matter combined with slower turnover rates

Drying and rewetting conditions differentially affect the mineralization of fresh plant litter and extant soil organic matter

Drought is becoming more common globally and has the potential to alter patterns of soil carbon (C) storage in terrestrial ecosystems. After an extended dry period, a pulse of soil CO2 release is commonly observed upon rewetting (the so-called ‘Birch effect’), the magnitude of which depends on soil rewetting frequency. But the source and implications of this CO2 efflux are unclear. We used a mesocosm field experiment to subject agricultural topsoil to two distinct drying and rewetting frequencies, measuring Birch effects (as 3-day cumulative CO2 efflux upon rewetting) and the overall CO2 efflux over the entire drying-rewetting cycle. We used 14C-labelled wheat straw to determine the contribution of fresh (recently incorporated) plant litter or extant soil organic matter (SOM) to these fluxes, and assessed the extent to which the amount of soil microbial biomass + K2SO4-extractable organic C (fumigated-extracted C, FEC) before rewetting determined the magnitude of Birch effect CO2 pulses. Our results showed a gradual increase in SOM-derived organic solutes within the FEC fraction, and a decrease in soil microbial biomass, under more extreme drying and rewetting conditions. But, contrary to our hypothesis, pre-wetting levels of FEC were not related to the magnitude of the Birch effects. In the longer term, rewetting frequency and temperature influenced the overall (31-day cumulative) amount of CO2–C released from SOM upon rewetting, but the overall 14CO2–C respired from fresh straw was only influenced by the rewetting frequency, with no effect of seasonal temperature differences of ∼15 °C. We conclude that the mineralization of fresh plant litter in soils is more sensitive to water limitations than extant SOM in soils under drying-rewetting conditions. Moreover, we found little evidence to support the hypothesis that the availability of microbial and soluble organic C before rewetting determined the magnitude of the Birch effects, and suggest that future work should investigate whether these short-term CO2 pulses are predominantly derived from substrate-supply mechanisms resulting from the disruption of the soil organo-mineral matrix

Altered litter inputs modify carbon and nitrogen storage in soil organic matter in a lowland tropical forest

Soil organic matter (SOM) in tropical forests is an important store of carbon (C) and nutrients. Although SOM storage could be affected by global changes via altered plant productivity, we know relatively little about SOM stabilisation and turnover in tropical forests compared to temperate systems. Here, we investigated changes in soil C and N within particle size fractions representing particulate organic matter (POM) and mineral-associated organic matter (MAOM) after 13 years of experimental litter removal (L−) and litter addition (L+) treatments in a lowland tropical forest. We hypothesized that reduced nitrogen (N) availability in L− plots would result in N-mining of MAOM, whereas long-term litter addition would increase POM, without altering the C:N ratio of SOM fractions. Overall, SOM-N declined more than SOM-C with litter removal, providing evidence of N-mining in the L− plots, which increased the soil C:N ratio. However, contrary to expectations, the C:N ratio increased most in the largest POM fraction, whereas the C:N ratio of MAOM remained unchanged. We did not observe the expected increases in POM with litter addition, which we attribute to rapid turnover of unprotected SOM. Measurements of ion exchange rates to assess changes in N availability and soil chemistry revealed that litter removal increased the mobility of ammonium-N and aluminium, whereas litter addition increased the mobility of nitrate-N and iron, which could indicate SOM priming in both treatments. Our study suggests that altered litter inputs affect multiple processes contributing to SOM storage and we propose potential mechanisms to inform future work

Clonal chromosomal mosaicism and loss of chromosome Y in elderly men increase vulnerability for SARS-CoV-2

The pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2, COVID-19) had an estimated overall case fatality ratio of 1.38% (pre-vaccination), being 53% higher in males and increasing exponentially with age. Among 9578 individuals diagnosed with COVID-19 in the SCOURGE study, we found 133 cases (1.42%) with detectable clonal mosaicism for chromosome alterations (mCA) and 226 males (5.08%) with acquired loss of chromosome Y (LOY). Individuals with clonal mosaic events (mCA and/or LOY) showed a 54% increase in the risk of COVID-19 lethality. LOY is associated with transcriptomic biomarkers of immune dysfunction, pro-coagulation activity and cardiovascular risk. Interferon-induced genes involved in the initial immune response to SARS-CoV-2 are also down-regulated in LOY. Thus, mCA and LOY underlie at least part of the sex-biased severity and mortality of COVID-19 in aging patients. Given its potential therapeutic and prognostic relevance, evaluation of clonal mosaicism should be implemented as biomarker of COVID-19 severity in elderly people. Among 9578 individuals diagnosed with COVID-19 in the SCOURGE study, individuals with clonal mosaic events (clonal mosaicism for chromosome alterations and/or loss of chromosome Y) showed an increased risk of COVID-19 lethality

Sequential chemical extractions of the mineral-associated soil organic matter: An integrated approach for the fractionation of organo-mineral complexes

a b s t r a c t Long-term stabilisation of soil organic matter (SOM) largely depends on its interaction with the active mineral components of soils. SOM may become associated with the mineral active surfaces through a wide variety of linkages, with different strength. Thus, fractionation procedures capable of assessing the strength through which mineral-associated SOM is stabilised can be very useful. This paper presents a soil organo-mineral fractionation method (henceforth, SOF) that essentially resumes the work of classical pedologists, who aimed to quantify the different modes through which organic compounds are bound to the mineral matrix using sequential extractions with chemical reagents (0.1 M sodium tetraborate, 0.1 M sodium pyrophosphate, 0.1 M sodium hydroxide, 0.1 M sodium hydroxide after sodium dithionite pretreatment, and 0.1 M sodium hydroxide after hydrofluoric acid pretreatment). We added a previous extraction with 0.5 M potassium sulfate to remove soluble organic compounds, and a weak acid attack with 0.33 M sulfuric acid to destroy possible SOM-occluding carbonate films, which are often assumed to contribute to SOM stability in calcareous soils. The proposed sequence is applied only to the organomineral complexes (<20 mm), after the removal of the particulate organic matter (POM) by ultrasonic dispersion and wet sieving. We tested the SOF method on four contrasting soils: two Haplic Calcisols (under crop and forest) and two Humic Cambisols (under forest and pasture), with organic C (OC) contents ranging from 1.8 to 3.4% and pH from 3.9 to 8.0. Our results showed that the mineral-associated SOM represents the largest SOM fraction (67e72% of the total organic C content), and that a substantial part of it is weakly associated with the mineral matrix, as it can be extracted by sodium tetraborate or sodium pyrophosphate. While the sodium tetraborate extract was the main fraction in acid soils, the sodium pyrophosphate extract was the main fraction in calcareous soils, thus highlighting the role of Ca in SOM stability. In contrast, our results suggest a small role of carbonate precipitation in the stabilisation of SOM < 20 mm. The sodium hydroxide extractions after both the sodium dithionite and HF treatments released little SOM in the studied soils, but the remaining (insoluble) residue accounted for 15e30% of total OC, and deserves further study. The SOF method can be a valuable tool for splitting mineral-associated SOM into different fractions regarding their proneness for extraction, and its thoroughness may prove most useful for comparative studies about SOM stabilisation

Microbial growth rate measurements reveal that land-use abandonment promotes a fungal dominance of SOM decomposition in grazed Mediterranean ecosystems

The present study investigated the effects of land-use abandonment on the soil decomposer community of two grazed Mediterranean ecosystems (an annual grassland with scattered holm oaks and a low-density shrubland). To test the influence of grazing abandonment, a set of plots within each site were fenced and kept undisturbed during 4-5 years, during which above-ground plant community structure was monitored. After that, soil samples were collected from grazed and abandoned plots corresponding to the three different soil conditions: away from ("grass") and below tree canopies ("oak") within the annual grassland, and from the shrubland ("shrub"). Soil samples were split into two different layers (0-5 and 5-15 cm) and then analyzed for saprotrophic fungal (acetate into ergosterol incorporation) and bacterial (leucine incorporation) growth rates. Ergosterol content (as a fungal biomass estimator) and a standard set of soil chemistry variables were also measured. After 5 years of grazing exclusion, saprotrophic fungal growth rate clearly increased in both grass and oak surface layers whereas bacterial growth rate was not altered. This translated into significantly higher fungal-to-bacterial (F/B) growth rate ratios within the ungrazed plots. Similar trends were observed for the shrub soils after 4 years of exclusion. On the contrary, abandonment of grazing had negligible effects on the ergosterol content, as well as on the soil chemical variables (soil organic carbon, total N, C/N ratio, and pH), in all the three soil conditions assessed. These results indicated a shift toward a more fungal-dominated decomposer activity in soils following cessation of grazing and highlighted the sensitivity of the microbial growth rate parameters to changes associated with land use. Moreover, there were evidences of a faster fungal biomass turnover in the ungrazed plots, which would reflect an accelerated, though not bigger, fungal channel in soil organic matter mineralization

Assessing nitrous oxide emissions in time and space with minimal uncertainty using static chambers and eddy covariance from a temperate grassland

Where nitrogen input from fertilizer application exceeds plant demands, hotspots of microbially produced nitrous oxide (N2O) can exhibit disproportionately high rates of emissions relative to longer periods of time, known as hot moments. Hotspots and hot moments of N2O are sensitive to changes in agricultural management and weather, making it difficult to accurately quantify N2O emissions. This study investigates the spatial and temporal variability of N2O emissions using both static chambers (CH) and eddy covariance (EC) techniques, measured at a grassland site subject to four fertilizer applications of calcium ammonium nitrate (CAN) in 2019. Daily mean CH emissions were calculated using the arithmetic method and Bayesian statistics to explicitly account for the log-normal distribution of the dataset. N2O fluxes measured by CH and EC were most comparable when flux measurements were > 115 N2O-N µg m − 2 hr −1, and EC and CH measurements showed spatial and temporal alignment when CH n ≥ 15. Where n ≤ 5, the Bayesian method produced large uncertainties due to the difficulty of fitting an arithmetic mean from a log-normally distributed data set with few flux measurements. Annual EC fluxes, gap-filled using a multi-variate linear model, showed a strong correlation with measured flux values (R 2 = 0.92). Annual cumulative fluxes by EC were higher (3.35 [± 0.5] kg N ha−1) than CH using the arithmetic (2.98 [± 0.17] kg N ha−1) and Bayesian method (3.13 [± 0.24] kg N ha−1), which quantified emission factors of 1.46%, 1.30% and 1.36%, respectively. This study implies that a large sample size and frequent CH flux measurements are necessary for comparison with EC fluxes and that Bayesian statistics are an appropriate method for estimating realistic means and ranges of uncertainty for CH flux data sets