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116 results for “root stress”
Flume Experiment Testing the Impact of Artificial Streambank Roots on Velocity, Reynold's Shear Stress, and Turbulent Kinetic Energy using an Acoustic Doppler Profiler
The data published here is expected to accompany one publicly available dissertation (Chapter 4 of dissertation) and one separate journal publication. Once published and available online, the metadata will be updated with the relevant article information. The journal article/dissertation will have additional information regarding the published datasets and the methods used to collect the data. All data collected from these studies, and the accompanying Acoustic Doppler Profiler MATLAB files, are presented here. Journal Article title: Impact of Flexible and Rigid Artificial Roots on Stream Hydrodynamics
Raw data: Diversity in root architecture of durum wheat at stem elongation under drought stress
<p>Raw data on above and below ground traits from a greenhouse drought stress experiment with six durum wheat varieties performed at Tuscia University, Viterbo, Italy. Measurements were performed at stem elongation stage; recorded traits: plant shoot length, dry weight, number of leaves and tillers; total root length, root surface area, mean diameter, volume, number of tips, forks, crossings, root dry weight and root angle. Root measurments were performed on the whole root system and the topsoil area (upper 5 cm). </p>
Phenotypic diversity of root architecture and genotypic variation in durum wheat under salt stress
<p>Supplementary data consists of Principal Components values for traits detected under salt and control conditions (S1); Markers' locations onto the durum wheat reference genome associated with QTL (S2); Markers associated with genes from NCBI database (S4); PCR results and alleles distribrution</p>
Manhattan and QQ plots of GWAS on salt stress responses in root system architecture parameters of wild tomato (S. pimpinellifolium)
<p>The population of +/2 200 accessions of wild tomato was screened with the protocol described <a href="https://www.protocols.io/view/studying-root-system-architecture-changes-in-tomat-2mqgc5w">here</a> with the only exception that the plants were transferred 4 days after germination (rather than 3 - described in the protocol). The images were analyzed using the <a href="https://smartroot.github.io/">SmartRoot</a> for days 0, 1, 2, 3, and 4 after transfer to treatment plates (0 or 100 mM NaCl, 1/4 MS, 0.5% sucrose, 0.1% MES, 1% Dashin agar). The data analysis was performed as described <a href="https://rpubs.com/mjulkowska/BIGpimp_RSA_salt">here</a>, while the pareto front calculations were done according to Chandrasekhar & Julkowska paper (<a href="https://www.biorxiv.org/content/10.1101/2021.08.12.456185v1">preprint here</a>). The GWAS was performed using the ASReml script similar to <a href="https://onlinelibrary.wiley.com/doi/10.1111/tpj.15310">Awlia et al. (2021)</a>. The raw GWAS outputs can be found <a href="https://zenodo.org/badge/DOI/10.5281/zenodo.5856310.svg">here</a>. This dataset represents Manhattan plots and QQ plots made out of the data. </p>
Haplotype analysis of GWAS candidates identified for root:shoot ratio changes under salt stress in Arabidopsis
<p>The haplotype analysis was performed on 7 loci identified through GWAS by Magdalena Julkowska, while she was a PostDoc at KAUST, Saudi Arabia, workin in the lab of Dr. Mark Tester.</p>
Lateral Root Development in Two Tomato Accessions under Salt Stress
<p>The images of growing tomato seedlings were collected using SPIRO setup by Maryam Rahmati-Ishka every 30 minutes. However, as our automated script did not work for quantifying the lateral roots, Magda Julkowska traced the roots manually - for images collected every 60 minutes. </p> <p>The data was collected over 4 experiments, for two tomato genotypes: M248 - S. pimpinellifolium - wild tomato - salt tolerant - maintains the LR emergence under salt stress; and LA1511 - S. lycopersicum - cultivated tomato - salt tolerant - maintains the LR elongation under salt stress. </p>
GWAS on salt stress responses in root system architecture parameters of wild tomato (S. pimpinellifolium)
<p>The population of +/2 200 accessions of wild tomato was screened with the protocol described <a href="https://www.protocols.io/view/studying-root-system-architecture-changes-in-tomat-2mqgc5w">here</a> with the only exception that the plants were transferred 4 days after germination (rather than 3 - described in the protocol). The images were analyzed using the <a href="https://smartroot.github.io/">SmartRoot</a> for days 0, 1, 2, 3, and 4 after transfer to treatment plates (0 or 100 mM NaCl, 1/4 MS, 0.5% sucrose, 0.1% MES, 1% Dashin agar). The data analysis was performed as described <a href="https://rpubs.com/mjulkowska/BIGpimp_RSA_salt">here</a>, while the pareto front calculations were done according to Chandrasekhar & Julkowska paper (<a href="https://www.biorxiv.org/content/10.1101/2021.08.12.456185v1">preprint here</a>). The GWAS was performed using the ASReml script similar to <a href="https://onlinelibrary.wiley.com/doi/10.1111/tpj.15310">Awlia et al. (2021)</a>. </p>
Is negative density-dependent reproduction regulated by density-induced stress in root voles? Two field experiments
<p>Density dependence in reproduction plays an important role in stabilising population dynamics via immediate negative feedback from population density to reproductive output. Although previous studies have shown that negative density-dependent reproduction is associated with strong spacing behaviour and social interaction between individuals, the proximal mechanism for generating negative density-dependent reproduction remains unclear. In this study, we investigated the effects of density-induced stress on reproduction in root voles. Enclosed Founder populations were established by introducing six (low density) and 30 (high density) adults per sex into per enclosure (four enclosures per density in total) during the breeding season from April to July 2012 and from May to August 2015. Faecal corticosterone metabolite (FCM) levels, reproductive traits (recruitment rate and the proportion of reproductively active indivuduals), and founder population numbers were measured following repeated live-trapping in both years. The number of founders was negatively associated with recruitment rates and the proportion of reproductively active indivuduals, displaying a negative density-dependent reproduction. FCM level was positively associated with the number of founders. The number of founder females directly affected the proportion of reproductive females , and directly and indirectly through their FCM levels affected the recruitment rate; the effect of the number of male founders on the proportion of reproductive males was mediated by their FCM level. Our results showed that density-induced stress negatively affected reproductive traits and that density-induced stress is one ecological factor generating negative density-dependent reproduction.</p>
Data from: Glutaredoxin regulation of primary root growth confers early drought stress tolerance in pearl millet
<p><span>Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat- and drought-tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet's early root system features a single fast-growing primary root which we hypothesize is an adaptation to the Sahelian climate. Using crop modelling, we demonstrate that early drought stress is an important constraint in agrosystems in the Sahel where pearl millet was domesticated. Furthermore, we show that increased pearl millet primary root growth is correlated with increased early water stress tolerance in field conditions. Genetics including GWAS and QTL approaches identify genomic regions controlling this key root trait. Combining gene expression data, re-sequencing and re-annotation of one of these genomic regions identified a glutaredoxin-encoding gene <em>PgGRXC9</em> as the candidate stress resilience root growth regulator. Functional characterization of its closest <em>Arabidopsis</em> homolog <em>AtROXY19</em> revealed a novel role for this glutaredoxin (GRX) gene clade in regulating cell elongation. In summary, our study suggests a conserved function for GRX genes in conferring root cell elongation and enhancing resilience of pearl millet to its Sahelian environment. </span></p>
Rainfall seasonality shapes belowground root trait dynamics in an Amazonian tropical rainforest: A test of the stress-dominance hypothesis
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Is negative density-dependent reproduction regulated by density-induced stress in root voles? Two field experiments
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Data from: Glutaredoxin regulation of primary root growth confers early drought stress tolerance in pearl millet
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Experimental evidence root-associated microbes mediate seagrass response to environmental stress
<ol> <li>Below-ground microbiota play an important role in mediating environmental conditions with important consequences for plant performance. Microorganisms involved in plant-soil interactions may be associated with roots or bulk-soil; however, the relative influence of these below-ground microbial assemblages on plant performance is poorly known, particularly for marine plants. </li> <li>We separately manipulated the root and sediment microbial assemblages of the seagrass <em>Zostera muelleri</em> in a fully factorial experiment to determine how these assemblages determined plant response (e.g., growth) to nutrient enrichment, a major stressor in marine systems. </li> <li>Under ambient nutrient conditions, seagrass growth was maintained regardless of root microbial assemblage disruption. Under high nutrient stress, however, seagrasses with disrupted root microbiota had reduced growth, whereas growth was maintained in seagrasses with an intact root microbiota. Disruption of bulk-sediment microbiota did not affect seagrass growth. Nutrient elevation was correlated to enhanced abundances of several putatively beneficial microbial taxa (e.g. sulfide-oxidizing Beggiatoaceae and denitrifying <em>Geofilum rubicundum</em>) associated with roots. </li> <li> <em>Synthesis</em>: Our results suggest that under ambient nutrient conditions, microorganisms play a reduced role in influencing plant performance, but under more stressful conditions positive plant-root microorganism interactions strengthened. These results are among the first to experimentally determine that interactions between marine plants and the root-associated microbiota are key drivers of seagrass performance under human-induced environmental changes. This suggests that as in terrestrial systems, marine plant resilience depends on the stress-mitigating functions of their root-associated microbiota and disturbance to those plant-microbiota interactions can be deleterious for plant performance. Improving our understanding of these plant-microorganism interactions may be critical for understanding the functioning and resilience of threatened marine plants and developing more effective restoration strategies for them.</li> </ol>
Fig. 8 in Drought stress induces biosynthesis of flavonoids in leaves and saikosaponins in roots of Bupleurum chinense DC
Fig. 8. Effects of drought stress on expression of key enzyme genes. A: HMGR; B: IPPI; C: FPS; D: SS; E: SE; F: β-AS; G: P450-7; H: P450-12; I: UGT-8. Shown are the means ± standard deviation (n = 3). The asterisk indicates a significant difference (p <0.05) between drought-stressed and control plants (Duncan's single-factor variance analysis).
Fig. 7 in Drought stress induces biosynthesis of flavonoids in leaves and saikosaponins in roots of Bupleurum chinense DC
Fig. 7. Changes in saikosaponin content under drought stress. (A) Total saikosaponin content. (B) SS-a content. (C) SS-d content. (D) SS-c content. (E) SS-e content. (F) SS-f content. Shown are the means ± standard deviation (n = 9). The asterisk indicates a significant difference (p <0.05) between drought-stressed and control plants (Duncan's single-factor variance analysis).
Fig. 4 in Drought stress induces biosynthesis of flavonoids in leaves and saikosaponins in roots of Bupleurum chinense DC
Fig. 4. Effects of drought stress on activities of SOD, POD, and CAT. (A) Changes in SOD activity. (B) Changes in POD activity. (C) Changes in CAT activity. Shown are the means ± standard deviation (n = 3). The asterisk indicates a significant difference (p <0.05) between drought-stressed and control plants (Duncan's singlefactor variance analysis).
Fig. 5 in Drought stress induces biosynthesis of flavonoids in leaves and saikosaponins in roots of Bupleurum chinense DC
Fig. 5. Changes in flavonoid content under drought stress. (A) Rutin content. (B) Quercetin content. (C) Kaempferol content. (D) Isorhamnetin content. Shown are the means ± standard deviation (n = 9). The asterisk indicates a significant difference (p <0.05) between drought-stressed and control plants (Duncan's single-factor variance analysis).
Fig. 2 in Drought stress induces biosynthesis of flavonoids in leaves and saikosaponins in roots of Bupleurum chinense DC
Fig. 2. Changes in soil water content. Shown are the means ± standard deviation (n = 8). The asterisk indicates a significant difference (p <0.05) between drought-stressed and control plants (Duncan's Single-factor variance analysis).
Fig. 3 in Drought stress induces biosynthesis of flavonoids in leaves and saikosaponins in roots of Bupleurum chinense DC
Fig. 3. Changes in concentrations of malondialdehyde (MDA) and osmoregulatory substances during drought stress. (A) Soluble protein content. (B) Proline content. (C) Soluble sugar content. (D) MDA contents. Shown are expressed the means ± standard deviation (n = 3). The asterisk indicates a significant difference (p <0.05) between drought-stressed and control plants (Duncan's single-factor variance analysis).
Fig. 6 in Drought stress induces biosynthesis of flavonoids in leaves and saikosaponins in roots of Bupleurum chinense DC
Fig. 6. Effects of drought stress on expression of flavonoid biosynthesis key enzyme genes. A: C4H; B: 4CL; C: IFS; D: F3H; E: DFR. Shown are the means ± standard deviation (n = 3). The asterisk indicates a significant difference (p <0.05) between drought-stressed and control plants (Duncan's single-factor variance analysis).
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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)
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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.