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.
179
datasets available to search
ShareScore release 0.9.0
Dataset results
179 results for “Rhizosphere”
Metabolomics dataset for disentangling plant and environment-mediated drivers of active rhizosphere 1 bacterial community dynamics during short-term drought
Open the record for dataset details and reuse information.
Data from: Controlled irrigation suppresses methane emissions by reshaping the rhizosphere microbiomes in rice
Open the record for dataset details and reuse information.
Vegetation variables and rhizosphere bacterial communities from ten paired sites in southwestern Finland, 2021
Open the record for dataset details and reuse information.
Soil properties and plant functional traits have different importance in shaping rhizosphere soil bacterial and fungal communities in a meadow steppe
Open the record for dataset details and reuse information.
Plant-microbe interactions derive the rhizosphere microbial assembly and nitrogen cycling in a subtropical forest
Open the record for dataset details and reuse information.
Phages enhance both phytopathogen density control and rhizosphere microbiome suppressiveness
Open the record for dataset details and reuse information.
Mycorrhiza: Saprotroph interactions and carbon cycling in the rhizosphere
Open the record for dataset details and reuse information.
Mycorrhiza-dependent drivers of the positive rhizosphere effects on the temperature sensitivity of soil microbial respiration in subtropical forests
Open the record for dataset details and reuse information.
Resprouting ability differs among plant functional groups along a soil acidification gradient in a meadow: A rhizosphere perspective
Open the record for dataset details and reuse information.
Data from: Contrasting effects of rhizosphere and sediment microbiota on seagrass performance in response to a simulated marine heatwave
Open the record for dataset details and reuse information.
Differential effects of tree species identity on rhizospheric bacterial and fungal community richness and composition across multiple trace element-contaminated sites
Open the record for dataset details and reuse information.
Interactive effects of rhizospheric soil microbes and litter on the growth of the invasive hyperaccumulator Bidens pilosa in cadmium-contaminated soil
Open the record for dataset details and reuse information.
Root functional traits determine the magnitude of the rhizosphere priming effect among eight tree species
Open the record for dataset details and reuse information.
Streptomyces pathogen suppressive activity in plant communities varying in diversity:Plant host and plant diversity effects on rhizosphere microbial community composition, diversity, structure, and function.
Effects of plant host and plant community diversity on soil rhizosphere microbial community composition, diversity, structure, and function were explored in long-term experimental plots. Soil samples were collected from the rhizosphere of one of 4 target plants species (Andropogon gerardii, Schizachyrium scoparium, Lespedeza capitata, or Lupinus perennis) growing in 1, 4, 8, 16, or 32-species plots. Pathogen-suppressive activities of soil streptomycetes were determined for every sample. In addition, soil metagenomic analyses were performed targeting bacterial or streptomycete communities. Soil edaphic characteristics were determined for every sample. Analyses consider both the effects of plant host and plant community diversity on microbial community structure and function, and the relationships of diverse taxa with plant host, plant community diversity, and soil edaphic characteristics.
Data from: Differential impacts of nitrogen addition on rhizosphere and bulk-soil carbon sequestration in an alpine shrubland
<p><span><span>1. Due to complex root-soil interactions, the responses of carbon (C) dynamics in the rhizosphere to elevated nitrogen (N) deposition may be different from those in bulk soil. However, the potentially different response of C dynamics in the rhizosphere and bulk soils and their contributions to soil C sequestration under N deposition is still not elucidated.</span></span></p> <p><span><span>2. We conducted an N addition experiment in an alpine shrubland dominated by <i>Sibiraea angustata</i> located on the eastern Qinghai-Tibet Plateau (QTP). We measured the soil organic C (SOC) contents and density fractions in the rhizosphere and bulk soils in the top 15 cm of mineral soil and then employed a numerical model based on the rhizosphere extent to evaluate how the rhizosphere modulates soil C sequestration under N addition. We also measured the microbial gene abundance and C-acquisition enzyme activities to assess microbial community responses to N addition.</span></span></p> <p><span><span>3. The results showed that nitrogen addition had opposite effects on the rhizosphere and bulk-soil C stocks. Specifically, N addition decreased the rhizosphere SOC content through increasing bacterial abundance, β-glucosidase activity, and thus accelerating the loss of free light fraction C (FLF-C). However, N addition increased the bulk-soil C content, which was corresponding with the reduced oxidase activities and the accelerated accumulation of heavy fraction C (HF-C) under N addition. Numerical model analysis showed that the decrease induced by N addition in rhizosphere SOC stock ranged from 0.11 to 3.01 kg C m<sup>-2</sup> as root exudation diffusion distance extended from 0.5 mm to 2 mm, while the corresponding increase in the bulk-soil C stock ranged from 1.91 to 4.08 kg C m<sup>-2</sup>. By synthesizing the dynamics of the SOC stocks in these two soil compartments under N addition, the SOC stock at the ecosystem level exhibited an increase in range of 0.73-2.44 kg C m<sup>-2</sup>.</span></span></p> <p><span><span>4. <i>Synthesis</i> Our results suggest that alpine shrublands on the eastern QTP have great potential for soil C sequestration under N deposition, and the magnitude of the sequestration would depend closely on the responses of rhizosphere microbial C processes and the rhizosphere extent. Our results highlight the importance of integrating rhizosphere processes into land surface models to accurately predict ecosystem functions in the background of elevated N deposition.</span></span></p>
Resilience of rhizosphere microbial predators and their prey communities after an extreme heat event
<div class="WordSection1"> <ul> <li><span>Climate change is known to disrupt aboveground food chains when the various trophic layers respond differently to warming. However, little is known about belowground food chains involving microbial preys and their predators. Here, we study how climate warming- induced heat shocks influence resistance (change immediately after a disturbance) and resilience (ability to recover back to pre-disturbance levels) in rhizosphere microbial communities.</span></li> <li><span>We used three species of rhizosphere protists as microbial predators and six different rhizosphere bacterial communities as their prey. Protist species and bacterial communities were extracted from <i>Centaurea stoebe – </i>a range-expanding plant species in the Northern Europe. We then examined the temporal dynamics of protists and bacterial communities after an extreme heat event for several generations with sufficient recovery periods. We hypothesized that bacterial community resistance and resilience after the extreme heat event would be higher particularly when extreme heat effects would negatively affect their predators. </span></li> <li><span>Our results show that prey community biomass was strongly reduced after the extreme heat event and persisted with lower biomass throughout the recovery period. Opposite to what was expected, predators showed negligible changes in their density after the same heat event. However, abundances of the three predators varied markedly in their temporal dynamics independent of the extreme heat event. Extreme heat event further increased the inactive density of one of the predators, whereas another predator showed a decline in its body size owing to extreme heat event. Bacterial community resistance and resilience after the extreme heat event were independent of predators, although species-specific effects of predators on bacterial community resilience were different only in the last week of recovery. Predator resilience (based on active predator density) also varied among the three predators but converged over time. </span></li> <li><span><span>Our results highlight that extreme heat events can be more detrimental to microbial prey communities than microbial predators when microbial predators can exhibit thermal acclimation (e.g. change in body size or become inactive) to overcome heat stress. Such thermal acclimation may promote predator resilience after extreme heat events. </span></span></li> </ul> </div> <p> </p>
Carbon allocation to the rhizosphere is affected by drought and nitrogen addition
<p>Photosynthetic carbon (C) allocated below-ground can be shared with mycorrhizal fungi in exchange for nutrients, but also added into soil as rhizodeposits that potentially increases plant nutrient supply by supporting microbial nutrient mineralization from organic matter. How water and nitrogen (N) availabilities affect plant C allocation to the rhizosphere, including both arbuscular mycorrhizal fungi (AMF) symbionts and rhizodeposits, remains largely unknown.</p> <p>We used a <sup>13</sup>CO<sub>2</sub> pulse labelling experiment to assess effects of drought and N addition on below-ground allocation of C to soils and roots (quantified as excess <sup>13</sup>C) and tested their relationships with AMF colonization in an Australian grassland. We also examined relationships between AMF and previously reported root respiration and decomposition of rhizodeposits in this study.</p> <p>We found that drought decreased the absolute amount of excess <sup>13</sup>C allocated to both soils and roots, likely due to less photosynthetic C fixation. In contrast, proportionally more excess <sup>13</sup>C was allocated to soils but less to root biomass with drought, suggesting that relatively more C was allocated to rhizodeposits and to AMF hyphal growth and extension. However, N addition reversed drought effects on below-ground C allocation by retaining proportionally more excess <sup>13</sup>C in roots and less in soils, congruent with higher soil N and phosphorus availabilities, root biomass, and number of root tips compared to drought without N addition. This suggests that alleviation of nutrient limitation promoted plants to expend relatively more C on root growth and root trait adjustment, but less C on rhizodeposition and mycorrhizal symbiosis.</p> <p><i>Synthesis</i>. Mycorrhizal colonization related negatively to rhizodeposit decomposition rate but positively to both excess <sup>13</sup>C in root biomass and root respiration, suggesting a possible tradeoff in C allocation between mycorrhizal symbiosis and rhizodeposition. We conclude that below-ground C allocation in this grassland can be mediated by mycorrhizal colonization and is strongly affected by water and nutrient availability.</p>
Data from: Whole-genome duplication and host genotype affect rhizosphere microbial communities
<p>The composition of microbial communities found in association with plants is influenced by host phenotype and genotype. Yet, the ways in which specific genetic architectures of host plants shape microbiomes is unknown. Genome duplication events are common in the evolutionary history of plants, influence many important plant traits, and, thus, they may affect associated microbial communities. Using experimentally induced whole genome duplication (WGD), we tested the effect of WGD on rhizosphere bacterial communities in<i> Arabidopsis thaliana</i>. We performed 16S rRNA amplicon sequencing to characterize differences between microbiomes associated with specific host genetic backgrounds (Columbia <i>vs</i>. Landsberg) and ploidy levels (diploid <i>vs</i>. tetraploid). We modeled relative abundances of bacterial taxa using the Dirichlet and multinomial distributions via a hierarchical Bayesian approach. We found that host genetic background and ploidy level affected rhizosphere community composition. We then tested to what extent microbiomes derived from a specific genetic background or ploidy level affected plant performance by inoculating sterile seedlings with microbial communities harvested from a prior generation. We found a negative effect of the tetraploid Columbia microbiome on growth of all four plant genetic backgrounds. These findings suggest an interplay between host genetic architecture and bacterial community assembly with potential ramifications for host fitness. Moreover, we uncovered an intriguing role of ploidy-level for shaping plant microbiomes. Given the prevalence of ploidy-level variation in both wild and managed plant populations, the effects on microbiomes of this aspect of host genetic architecture could be a widespread driver of differences in plant microbiomes.</p>
Data from: Plant mutualisms with rhizosphere microbiota in introduced versus native ranges
The performance of introduced plants can be limited by the availability of soil mutualists outside their native range, but how interactions with mutualists differ between ranges is largely unknown. If mutualists are absent, incompatible or parasitic, plants may compensate by investing more in root biomass, adapting to be more selective or by maximizing the benefits associated with the mutualists available. We tested these hypotheses using seven non-agricultural species of Trifolium naturalized in New Zealand (NZ). We grew seeds from two native (Spain, UK) and one introduced (NZ) provenance of each species in glasshouse pots inoculated with rhizosphere microbiota collected from conspecifics in each region. We compared how plant biomass, degree of colonization by rhizobia and arbuscular mycorrhizal fungi (AMF), and the growth benefit associated with each mutualist differed between provenances (native and introduced populations) when grown with soil microbiota from each region. We also tested whether the growth benefit of colonization by mutualists was correlated with the extent to which alien plants were distributed in the introduced range. Rhizobia colonization was generally lower among introduced relative to native provenances. In NZ soils, 9% of all plants lacked rhizobia and 16% hosted parasitic nodules, whereas in native-range soils, there was no evidence of parasitism and all but one plant hosted rhizobia. Growth rates as a factor of rhizobia colonization were always highest when plants were grown in soil from their home range. Colonization by AMF was similar for all provenances in all soils but for four out of seven species grown in NZ soils, the level of AMF colonization was negatively correlated with growth rate. In general, introduced provenances did not compensate for lower growth rates or lower mutualist associations by decreasing shoot–root ratios. Synthesis. Despite differences between introduced and native provenances in their associations with soil mutualists and substantial evidence of parasitism in the introduced range, neither level of colonization by mutualists nor the growth benefit associated with colonization was correlated with the extent of species' distributions in the introduced range, suggesting mutualist associations are not predictive of invasion success for these species.
Plant responses to diversity-driven selection and associated rhizosphere microbial communities
<p><b>1.</b> Plant diversity loss can alter plant interactions and rhizosphere microbial communities. These altered interactions in turn exert diversity-driven selection pressures to which plants may respond with phenotypic changes. Diverse plant communities may favour the survival and fitness of individuals with traits that avoid competition. Conversely monocultures may accumulate species-specific pests favouring greater investment in defence traits. Yet it is unknown how altered plant rhizosphere interactions influence the plant diversity-driven selection for altered plant phenotypes. <b>2.</b> We tested for plant diversity-driven selection on plant aboveground traits and how these traits are modified by their rhizosphere microbial communities after 11 years in experimental plant monocultures and mixtures. Plants propagated from monocultures or mixtures were grown in combination with their 'home' vs. 'away' arbuscular mycorrhizal fungi (AMF) or non-AMF microbes in two separate experiments using five and eight plant species respectively. We hypothesized plants in monocultures may be selected for better defence and better performance in association with rhizosphere microbial communities compared with plants in mixtures. <b>3.</b> Monoculture and mixture plants significantly differed in their aboveground phenotypes. As predicted, plant traits related to defence (greater leaf mass per area and leaf dry matter content, reduced leaf damage) were more pronounced in monoculture plants in both experiments. Effects of the rhizosphere microbial communities, which generally enhanced plant growth, tended to be species-specific. Significant three-way interactions between diversity-driven selection, AMF treatment and plant species showed that home vs. away effects could be positive or negative, depending on plant species. <b>4.</b> We conclude that long-term differences in plant diversity lead to selection for altered plant phenotypes. Such differences may be further modified in association with the AMF microbial communities derived from the different plant diversity treatments, but often outcomes are species-specific. This suggests that plant species differ in their capacity to respond to diversity loss and associated changes in rhizosphere microbial communities, making it complicated to predict community-level responses to such loss.</p>
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.