Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Soil texture analysis revisited: Removal of organic matter matters more than ever.

ABSTRACT: Exact estimates of soil clay (<2 ?m) and silt (2-20 ?m) contents are crucial as these size fractions impact key soil functions, and as pedotransfer concepts based on clay and silt contents are becoming increasingly abundant. We examined the effect of removing soil organic matter (SOM) by H2O2 before soil dispersion and determination of clay and silt. Soil samples with gradients in SOM were retrieved from three long-term field experiments each with uniform soil mineralogy and texture. For soils with less than 2 g C 100 g-1 minerals, clay estimates were little affected by SOM. Above this threshold, underestimation of clay increased dramatically with increasing SOM content. Silt contents were systematically overestimated when SOM was not removed; no lower SOM threshold was found for silt, but the overestimation was more pronounced for finer textured soils. When exact estimates of soil particles <20 ?m are needed, SOM should always be removed before soil dispersion.

SUBMITTER: Jensen JL

PROVIDER: S-EPMC5436882 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Soil texture analysis revisited: Removal of organic matter matters more than ever.

Jensen Johannes Lund JL Schjønning Per P Watts Christopher W CW Christensen Bent T BT Munkholm Lars J LJ

PloS one 20170518 5

Exact estimates of soil clay (<2 μm) and silt (2-20 μm) contents are crucial as these size fractions impact key soil functions, and as pedotransfer concepts based on clay and silt contents are becoming increasingly abundant. We examined the effect of removing soil organic matter (SOM) by H2O2 before soil dispersion and determination of clay and silt. Soil samples with gradients in SOM were retrieved from three long-term field experiments each with uniform soil mineralogy and texture. For soils w ...[more]

PMID: 28542416

Similar Datasets

The soil organic matter decomposition mechanisms in ectomycorrhizal fungi are tuned for liberating soil organic nitrogen

Project description:Many trees form ectomycorrhizal symbiosis with fungi. During symbiosis, the tree roots supply sugar to the fungi in exchange for nitrogen, and this process is critical for the nitrogen and carbon cycles in forest ecosystems. However, the extents to which ectomycorrhizal fungi can liberate nitrogen and modify the soil organic matter and the mechanisms by which they do so remain unclear since they have lost many enzymes for litter decomposition that were present in their free-living, saprotrophic ancestors. Using time-series spectroscopy and transcriptomics, we examined the ability of two ectomycorrhizal fungi from two independently evolved ectomycorrhizal lineages to mobilize soil organic nitrogen. Both species oxidized the organic matter and accessed the organic nitrogen. The expression of those events was controlled by the availability of glucose and inorganic nitrogen. Despite those similarities, the decomposition mechanisms, including the type of genes involved as well as the patterns of their expression, differed markedly between the two species. Our results suggest that in agreement with their diverse evolutionary origins, ectomycorrhizal fungi use different decomposition mechanisms to access organic nitrogen entrapped in soil organic matter. The timing and magnitude of the expression of the decomposition activity can be controlled by the below-ground nitrogen quality and the above-ground carbon supply.

2018-11-30 | GSE110485 | GEO

Abiotic Bromination of Soil Organic Matter.

Project description:Biogeochemical transformations of plant-derived soil organic matter (SOM) involve complex abiotic and microbially mediated reactions. One such reaction is halogenation, which occurs naturally in the soil environment and has been associated with enzymatic activity of decomposer organisms. Building on a recent finding that naturally produced organobromine is ubiquitous in SOM, we hypothesized that inorganic bromide could be subject to abiotic oxidations resulting in bromination of SOM. Through lab-based degradation treatments of plant material and soil humus, we have shown that abiotic bromination of particulate organic matter occurs in the presence of a range of inorganic oxidants, including hydrogen peroxide and assorted forms of ferric iron, producing both aliphatic and aromatic forms of organobromine. Bromination of oak and pine litter is limited primarily by bromide concentration. Fresh plant material is more susceptible to bromination than decayed litter and soil humus, due to a labile pool of mainly aliphatic compounds that break down during early stages of SOM formation. As the first evidence of abiotic bromination of particulate SOM, this study identifies a mechanistic source of the natural organobromine in humic substances and the soil organic horizon. Formation of organobromine through oxidative treatments of plant material also provides insights into the relative stability of aromatic and aliphatic components of SOM.

| S-EPMC4950848 | biostudies-literature

Biogeography and organic matter removal shape long-term effects of timber harvesting on forest soil microbial communities.

Project description:The growing demand for renewable, carbon-neutral materials and energy is leading to intensified forest land-use. The long-term ecological challenges associated with maintaining soil fertility in managed forests are not yet known, in part due to the complexity of soil microbial communities and the heterogeneity of forest soils. This study determined the long-term effects of timber harvesting, accompanied by varied organic matter (OM) removal, on bacterial and fungal soil populations in 11- to 17-year-old reforested coniferous plantations at 18 sites across North America. Analysis of highly replicated 16 S rRNA gene and ITS region pyrotag libraries and shotgun metagenomes demonstrated consistent changes in microbial communities in harvested plots that included the expansion of desiccation- and heat-tolerant organisms and decline in diversity of ectomycorrhizal fungi. However, the majority of taxa, including the most abundant and cosmopolitan groups, were unaffected by harvesting. Shifts in microbial populations that corresponded to increased temperature and soil dryness were moderated by OM retention, which also selected for sub-populations of fungal decomposers. Biogeographical differences in the distribution of taxa as well as local edaphic and environmental conditions produced substantial variation in the effects of harvesting. This extensive molecular-based investigation of forest soil advances our understanding of forest disturbance and lays the foundation for monitoring long-term impacts of timber harvesting.

| S-EPMC5649165 | biostudies-literature

Particulate organic matter as a functional soil component for persistent soil organic carbon.

Project description:The largest terrestrial organic carbon pool, carbon in soils, is regulated by an intricate connection between plant carbon inputs, microbial activity, and the soil matrix. This is manifested by how microorganisms, the key players in transforming plant-derived carbon into soil organic carbon, are controlled by the physical arrangement of organic and inorganic soil particles. Here we conduct an incubation of isotopically labelled litter to study effects of soil structure on the fate of litter-derived organic matter. While microbial activity and fungal growth is enhanced in the coarser-textured soil, we show that occlusion of organic matter into aggregates and formation of organo-mineral associations occur concurrently on fresh litter surfaces regardless of soil structure. These two mechanisms-the two most prominent processes contributing to the persistence of organic matter-occur directly at plant-soil interfaces, where surfaces of litter constitute a nucleus in the build-up of soil carbon persistence. We extend the notion of plant litter, i.e., particulate organic matter, from solely an easily available and labile carbon substrate, to a functional component at which persistence of soil carbon is directly determined.

| S-EPMC8257601 | biostudies-literature

Biogas residue parameterization for soil organic matter modeling.

Project description:A variety of biogas residues (BGRs) have been used as organic fertilizer in agriculture. The use of these residues affects the storage of soil organic matter (SOM). In most cases, SOM changes can only be determined in long-term observations. Therefore, predictive modeling can be an efficient alternative, provided that the parameters required by the model are known for the considered BGRs. This study was conducted as a first approach to estimating the organic matter (OM) turnover parameters of BGRs for process modeling. We used carbon mineralization data from six BGRs from an incubation experiment, representing a range of substrate inputs, to calculate a turnover coefficient k controlling the velocity of fresh organic matter (FOM) decay and a synthesis coefficient ? describing the SOM creation from FOM. An SOM turnover model was applied in inverse mode to identify both parameters. In a second step, we related the parameters k and ? to chemical properties of the corresponding BGRs using a linear regression model and applied them to a long-term scenario simulation. According to the results of the incubation experiment, the k values ranged between 0.28 and 0.58 d-1 depending on the chemical composition of the FOM. The estimated ? values ranged between 0.8 and 0.89. The best linear relationship of k was found to occur with pH (R2 = 0.863). Parameter ? is related to the Ct/Norg ratio (R2 = 0.696). Long-term scenario simulations emphasized the necessity of specific k and ? values related to the chemical properties for each BGR. However, further research is needed to validate and improve these preliminary results.

| S-EPMC6185722 | biostudies-literature

Data for dynamics analysis of soil dissolved organic matter. Long term amendment effect.

Project description:The data presented here are related to the research paper entitled "Spectral characteristics of soil dissolved organic matter: long-term effects of exogenous organic matter on soil organic matter and spatial-temporal changes" (Musadji et al., 2020). Fluorescence Excitation-Emission Matrixes and DOC content of 39 suction cup soil solutions are given for a control and an urban green waste compost amended soil sampled in spring and autumn. Principal component analysis (PCA) was used to identify possible spatial-temporal trends and to emphasize the long term effect of organic amendment on soil organic matter quality.

| S-EPMC6831716 | biostudies-literature

The soil organic matter decomposition mechanisms in ectomycorrhizal fungi are tuned for liberating soil organic nitrogen.

| S-EPMC6461840 | biostudies-literature

Soil organic matter stoichiometry as indicator for peatland degradation.

Project description:Peatlands accumulate organic matter (OM) under anaerobic conditions. After drainage for forestry or agriculture, microbial respiration and peat oxidation induce OM losses and change the stoichiometry of the remaining organic material. Here, we (i) evaluate whether land use (cropland CL, grassland GL, forest FL, natural peatland NL) is associated with different peat stoichiometry, (ii) study how peat stoichiometry changes with OM content and (iii) infer the fate of nitrogen upon soil degradation. Organic C and soil N were measured for 1310 samples from 48 sites in Switzerland, and H and O for 1165. The soil OM content and C/N ratio were most sensitive to land use and are hence best suited as indicators for peatland degradation. OM contents (CL < GL < FL < NL), H/C, O/C, C/N ratios, and OM oxidation states were significantly different between land use types in top- and subsoils. With decreasing bulk OM content, C was relatively depleted while H and particularly N were higher. The data suggest very high N mobilization rates from strongly decomposed peat in agricultural topsoil. A comparison to peat C and N from mostly intact peatlands of the Northern hemisphere reveals that agriculture and, to a lesser extent, forestry induce a progressed state of soil degradation.

| S-EPMC7203203 | biostudies-literature

Soil pathogen-aphid interactions under differences in soil organic matter and mineral fertilizer.

Project description:There is increasing evidence showing that microbes can influence plant-insect interactions. In addition, various studies have shown that aboveground pathogens can alter the interactions between plants and insects. However, little is known about the role of soil-borne pathogens in plant-insect interactions. It is also not known how environmental conditions, that steer the performance of soil-borne pathogens, might influence these microbe-plant-insect interactions. Here, we studied effects of the soil-borne pathogen Rhizoctonia solani on aphids (Sitobion avenae) using wheat (Triticum aestivum) as a host. In a greenhouse experiment, we tested how different levels of soil organic matter (SOM) and fertilizer addition influence the interactions between plants and aphids. To examine the influence of the existing soil microbiome on the pathogen effects, we used both unsterilized field soil and sterilized field soil. In unsterilized soil with low SOM content, R. solani addition had a negative effect on aphid biomass, whereas it enhanced aphid biomass in soil with high SOM content. In sterilized soil, however, aphid biomass was enhanced by R. solani addition and by high SOM content. Plant biomass was enhanced by fertilizer addition, but only when SOM content was low, or in the absence of R. solani. We conclude that belowground pathogens influence aphid performance and that the effect of soil pathogens on aphids can be more positive in the absence of a soil microbiome. This implies that experiments studying the effect of pathogens under sterile conditions might not represent realistic interactions. Moreover, pathogen-plant-aphid interactions can be more positive for aphids under high SOM conditions. We recommend that soil conditions should be taken into account in the study of microbe-plant-insect interactions.

| S-EPMC5560682 | biostudies-literature

Removal of Copper (II) by Biochar Mediated by Dissolved Organic Matter.

Project description:The effects of humic acid (HA) and fulvic acid (FA) on Cu2+ adsorption on biochar were investigated, with mechanisms confirmed by excitation-emission matrix spectroscopy, Fourier transform infrared spectroscopy, and scanning electron microscopy. HA loading enhanced Cu2+ adsorption on biochar, with the maximum enhancement of 55.0% occurring at an HA loading of 100?mg-C/L. The adsorbed HA introduced many additional functional groups to biochar, thus enhancing Cu2+ adsorption, which decreased at HA concentrations >100?mg-C/L due to self-association of HA at high loading concentrations. In contrast, FA loading caused no enhancement on Cu2+ adsorption on biochar. FA was adsorbed through H-bonding with the functional groups of biochar, which set up a competition with Cu2+ for adsorption on biochar. The functional groups occupied by adsorbed FA were offset by the newly introduced functional groups of FA, thus there was no net increase in the amount of Cu2+ adsorption upon FA loading. These findings imply that, because of the enhanced adsorption of HA-loaded biochar, the amount of Cu2+ immobilized would increase by 28.2% for mature compost and 31.9% for fresh compost if there exist interaction between biochar and HA compared with the amounts immobilized by non-interactive HA and biochar.

| S-EPMC5541037 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data