Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
45
datasets available to search
ShareScore release 0.9.0
Dataset results
45 results for “Root exudates”
Images of the work entitled "The spatial distribution of rhizosphere microbial activities under drought: water availability is more important than root-hair controlled exudation"
<p>These images are the images of zymography, <sup>14</sup>C imaging and neutron radiography of the work entitled "The spatial distribution of rhizosphere microbial activities under drought: water availability is more important than root-hair controlled exudation". Raw data on optimal water conditions were partially overlapping with the data of Bilyera et al., 2021, Soil Biology and Biochemistry, 162, 108426.</p>
dataset of the work entitled "The spatial distribution of rhizosphere microbial activities under drought: water availability is more important than root-hair controlled exudation"
<p>This is the dataset of the enzyme kinetics, and other biochemical properties obtained from zymography, <sup>14</sup>C images and water images of the work entitled "The spatial distribution of rhizosphere microbial activities under drought: water availability is more important than root-hair controlled exudation". </p>
DRAM raw annotations for "Cover Crop Root Exudates Impact Soil Microbiome Functional Trajectories in Agricultural Soils" Seitz et al 2024
<p>Additional File 5: <span>Raw DRAM MAG annotations. </span></p>
Data from: Light and substrate composition control root exudation rates at the initial stages of soilless lettuce cultivation
<p>This archive contains raw and processed research data for a publication "<em><strong>Light and substrate composition control root exudation rates at the initial stages of soilles lettuce cultivation</strong></em>" by de Haas et al. The sample identifiers are consistent with the ones used in the publication.</p>
Dataset for: Root exudates simultaneously form and disrupt soil organo-mineral associations
<p>Dataset for the publication:</p> <p>Shabtai, I.A., Hafner, B.D., Schweizer, S.A. <em>et al.</em> Root exudates simultaneously form and disrupt soil organo-mineral associations. <em>Commun Earth Environ</em> <strong>5</strong>, 699 (2024). https://doi.org/10.1038/s43247-024-01879-6</p>
Passive permeability controls synthesis for the allelochemical sorgoleone in sorghum root exudate
<p>Input structures for a manuscript, along with selected output data and structures. This directory structure contains a cut-down copy of the directories used to generate the simulation data and the analysis. In order to make this fit into the 50GB Zenodo limit, it was constructed with the following tar command: tar -zcvf sorgoleonepermeability.tar.gz --exclude="*BAK" --exclude="*#" --exclude="*log" --exclude="*xsc" --exclude="*coor" --exclude="*vel" --exclude="*[0-9].out" --exclude="*old" --exclude="*dcd" --exclude="*tmp" --exclude="*ppm" --exclude="*png" --exclude="*pdf" --exclude="*catchy*" --exclude="*svg" --exclude="*restart*" --exclude="*history" --exclude="core.*" --exclude="FFTW_NAMD*" --exclude="*avi" --exclude="*mp4" sorgoleone-permeability, which intentionally excludes large files. The full dataset that includes trajectories is available upon request.</p> <p>The data is split into two directories initially "<strong>build</strong>" and "<strong>Simulations</strong>"</p> <ul> <li>"<strong>build</strong>" directory is the part where initial system for unbiased and biased simulation were build using "<strong>resolvate.tcl</strong>" and "<strong>smd-single-build-system.tcl</strong>" respectively.</li> <li>"<strong>Simulations</strong>" directory has the different namd files for running unbiased simulation, steered molecular dynamics and replica exchange umbrella sampling.</li> </ul> <p>The folder structure was generated using "<strong>gendirs*.py</strong>".<br> The unbiased simulations were run using "<strong>run.namd</strong>".<br> Steered molecular dynamics namd files were with name "<strong>step*.namd</strong>" and colvars configuration file are named "<strong>step*.conf</strong>".<br> <br> Replica exchange moleuclar dynamics (REUS) system was generated using "<strong>buildreplicas*.tcl</strong>".<br> Replica windows size and force constant were written into a namd configuration file using "<strong>reus-genscript*.py</strong>".<br> REUS general configuration file containing the parameters and forcefield is named as "<strong>base.namd</strong>".<br> Colvars for leaflet exchange REUS are in "<strong>replicadistZcolvars.conf</strong>".<br> Colvars for absorption into water REUS are in "<strong>replicadistcoordNumclovar.conf</strong>".<br> Colvars for absorption into organic phase REUS are in "<strong>replica-blob-run4.conf</strong>"</p> <p>Umbrella sampling is performed with "<strong>umbrella.namd</strong>".</p> <p>For visualizing trajectories in VMD "<strong>load*.tcl</strong>" scripts were used.</p>
Fig. 2 in Formation and exudation of biphenyl and dibenzofuran phytoalexins by roots of the apple rootstock M26 grown in apple replant disease soil
Fig. 2. Biphenyl and dibenzofuran formation and exudation in roots of the apple rootstock M26. Values are means of five biological replicates ± s.d.; different letters indicate significant difference between variants as assessed by Tukey test (P <0.01; n = 5). A, total phytoalexins in medium (M), roots (R) and shoots (S) of yeast extracttreated and control plantlets cultured in vitro; B, total phytoalexins inside roots (ARD vs γARD) and outside roots of ARD soilgrown plants in a dipping experiment; total exuded is the sum of the amounts of rhizoplane, rhizosphere soil and bulk soils; C, total phytoalexins inside roots (ARD vs γARD) and outside roots (surrounding water phase) of ARD soil-grown plants in a soilhydroponic hybrid experiment; total exuded is the sum of the amounts of two collection intervals indicated.
Fig. 1 in Formation and exudation of biphenyl and dibenzofuran phytoalexins by roots of the apple rootstock M26 grown in apple replant disease soil
Fig. 1. GC-MS chromatogram for detection and quantification of biphenyl and dibenzofuran phytoalexins in roots of the apple rootstock M26. IS, internal standard for relative quantification of biphenyls and dibenzofurans. Numbers above the chemical structures refer to the compound numbers in Table 1. Compounds whose peaks are labeled by stars of the same color have identical molecular masses (labeled below the structures). Their deduced general structures are labeled by stars of the corresponding colors.
Fig. 3 in Formation and exudation of biphenyl and dibenzofuran phytoalexins by roots of the apple rootstock M26 grown in apple replant disease soil
Fig. 3. Heatmaps of total phytoalexins and phytoalexin exudation rates determined in three types of experiments. Red to green represents low to high values. #, not detected; blank, value lower than threshold (10 μg g 1 dry wt).
Fig. 4 in Formation and exudation of biphenyl and dibenzofuran phytoalexins by roots of the apple rootstock M26 grown in apple replant disease soil
Fig. 4. Established pathway of aucuparin biosynthesis and proposed pathway of dibenzofuran biosynthesis. Enzymes previously characterized are indicated in blue and enzymes not yet detected are marked in red. Solid and broken arrows represent experimentally proved and proposed reactions, respectively. BIS, biphenyl synthase; B4H, biphenyl-4-hydroxylase; OMT, O-methyltransferase; CYP_H, cytochrome P450 hydroxylase; CYP_C, cytochrome p450 cyclase.
Data from: The Automated Root Exudate System (ARES): a method to apply solutes at regular intervals to soils in the field
Open the record for dataset details and reuse information.
Data from: Density and root exudates mediate Arabidopsis response to copper
Open the record for dataset details and reuse information.
Nitrogen fixation and crop productivity enhancements codriven by intercrop root exudates and key rhizosphere bacteria
Open the record for dataset details and reuse information.
Increasing flavonoid concentrations in root exudates enhance associations between arbuscular mycorrhizal fungi and an invasive plant
<p>Many invasive plants have enhanced mutualistic arbuscular mycorrhizal (AM) fungal associations, however, mechanisms underlying differences in AM fungal associations between introduced and native populations of invasive plants have not been explored. Here we test the hypothesis that variation in root exudate chemicals in invasive populations affects AM fungal colonization and then impacts plant performance. We examined flavonoids (quercetin and quercitrin) in root exudates of native and introduced populations of the invasive plant <em>Triadica sebifera</em> and tested their effects on AM fungi and plant performance. We found that plants from introduced populations had higher concentrations of quercetin in root exudates, greater AM fungal colonization and higher biomass. Applying root exudates more strongly increased AM fungal colonization of target plants and AM fungal spore germination when exudate donors were from introduced populations. The role of root exudate chemicals was further confirmed by decreased AM fungal colonization when activated charcoal was added into soil. Moreover, addition of quercetin into soil increased AM fungal colonization, indicating quercetin might be a key chemical signal stimulating AM fungal associations. Together these results suggest genetic differences in root exudate flavonoids play an important role in enhancing AM fungal associations and invasive plants' performance, thus considering root exudate chemicals is critical to unveiling mechanisms governing shifting plant-soil microbe interactions during plant invasions.</p>
Data from: Root biomass and exudates link plant diversity with soil bacterial and fungal biomass
Plant diversity has been shown to determine the composition and functioning of soil biota. Although root-derived organic inputs are discussed as the main drivers of soil communities, experimental evidence is scarce. While there is some evidence that higher root biomass at high plant diversity increases substrate availability for soil biota, several studies have speculated that the quantity and diversity of root inputs into the soil, i.e. though root exudates, drive plant diversity effects on soil biota. Here we used a microcosm experiment to study the role of plant species richness on the biomass of soil bacteria and fungi as well as fungal-to-bacterial ratio via root biomass and root exudates. Plant diversity significantly increased shoot biomass, root biomass, the amount of root exudates, bacterial biomass, and fungal biomass. Fungal biomass increased most with increasing plant diversity resulting in a significant shift in the fungal-to-bacterial biomass ratio at high plant diversity. Fungal biomass increased significantly with plant diversity-induced increases in root biomass and the amount of root exudates. These results suggest that plant diversity enhances soil microbial biomass, particularly soil fungi, by increasing root-derived organic inputs.
Phosphorous starved Maize plant root exudate strigolactone and rhizosphere microbes
Open the record for dataset details and reuse information.
Effects of tree species on root exudation and mineralization of organic acids in a tropical forest
Open the record for dataset details and reuse information.
Data from: Root biomass and exudates link plant diversity with soil bacterial and fungal biomass
Open the record for dataset details and reuse information.
Increasing flavonoid concentrations in root exudates enhance associations between arbuscular mycorrhizal fungi and an invasive plant
Open the record for dataset details and reuse information.
Differential gene expression of endosphere and soil Bacillus mycoides isolate in response to root exudates using RNA sequencing
GEO Series GSE98148. Bacillus mycoides. 4 samples. Type: Expression profiling by high throughput sequencing.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.