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.
32
datasets available to search
ShareScore release 0.9.0
Dataset results
32 results for “waterlogging”
Code and data for Mire microclimate: groundwater buffers temperature in waterlogged versus dry soils.
<p>Version of record of the manuscript's code and data, as accepted by the International Journal of Climatology.</p>
Changes in gene expression during germination reveal pea genotypes with either 'quiescence' or 'escape' mechanisms of waterlogging tolerance
<p>Waterlogging causes germination failure in pea (<em>Pisum sativum</em> L.). Three genotypes (BM-3, NL-2 and Kaspa) contrasting in ability to germinate in waterlogged soil were exposed to different durations of waterlogging. Whole genome RNAseq was employed to capture differentially expressing genes. The ability to germinate in waterlogged soil was associated with testa colour and testa membrane integrity as confirmed by electrical conductivity measurements. Among the most differentially regulated genes, upregulated gene tyrosine protein kinase responsible for metabolic regulation and downregulated LOX5 involved in fat metabolism indicated energy preservation in tolerant Kaspa, while in the other tolerant NL-2 subtilase family protein and PNC2 involved in protein and fat metabolism respectively showed upregulated expression suggesting energy utilization during waterlogging. By contrast, in sensitive genotype BM-3 high upregulation was recorded for the kunitz-type trypsin/protease inhibitor whose role is blocking the activity of protein metabolism leading to excessive lipid metabolism causing membrane leakage and subsequent seed damage. Pathway analyses based on gene ontologies showed seed storage protein metabolism as upregulated in tolerant genotypes and downregulated in the sensitive genotype. Understanding the tolerance mechanism provides a platform to breed for adaptation to waterlogging stress at germination in pea. </p>
Changes in gene expression during germination reveal pea genotypes with either 'quiescence' or 'escape' mechanisms of waterlogging tolerance
<p>Waterlogging causes germination failure in pea (<em>Pisum sativum</em> L.). Three genotypes (BM-3, NL-2 and Kaspa) contrasting in ability to germinate in waterlogged soil were exposed to different durations of waterlogging. Whole genome RNAseq was employed to capture differentially expressing genes. The ability to germinate in waterlogged soil was associated with testa colour and testa membrane integrity as confirmed by electrical conductivity measurements. Among the most differentially regulated genes, upregulated gene tyrosine protein kinase responsible for metabolic regulation and downregulated LOX5 involved in fat metabolism indicated energy preservation in tolerant Kaspa, while in the other tolerant NL-2 subtilase family protein and PNC2 involved in protein and fat metabolism respectively showed upregulated expression suggesting energy utilization during waterlogging. By contrast, in sensitive genotype BM-3 high upregulation was recorded for the kunitz-type trypsin/protease inhibitor whose role is blocking the activity of protein metabolism leading to excessive lipid metabolism causing membrane leakage and subsequent seed damage. Pathway analyses based on gene ontologies showed seed storage protein metabolism as upregulated in tolerant genotypes and downregulated in the sensitive genotype. Understanding the tolerance mechanism provides a platform to breed for adaptation to waterlogging stress at germination in pea. </p>
Data for the Manuscript 'Phenotypic Variation from Waterlogging in Multiple Perennial Ryegrass Varieties under Climate Change Conditions'
<p>Experimental data supporting the findings of the manuscript 'Phenotypic Variation from Waterlogging in Multiple Perennial Ryegrass Varieties under Climate Change Conditions'. This dataset will be made publicly available when the manuscript has been accepted for journal publication unless exceptional conditions become apparent. </p>
Text-fig. 3. Examples of plant macrofossil assemblages from post-evaporitic sections. a: bedding plane from Ciabòt Cagna covered by impressions of plant parts, with dominance of leaves of cf. Oleinites liguricus M.SACHSE, MCEA-P05038. b: waterloggedcompressed seeds of Toddalia latisiliquata (R.LUDW.) H.-J.GREGOR sieved out of a bulk sediment sample from Pollenzo, MGPTPU141033. c: millimeter-sized, waterlogged-compressed seeds of Sambucus pulchella C.REID et E.REID with abundant cracks, probably formed during both diagenesis and extraction of the fossils (bulk sediment sample from Ciabòt Cagna), MGPT- in Late Messinian Flora From The Post-Evaporitic Deposits Of The Piedmont Basin (Northwest Italy)
Text-fig. 3. Examples of plant macrofossil assemblages from post-evaporitic sections. a: bedding plane from Ciabòt Cagna covered by impressions of plant parts, with dominance of leaves of cf. Oleinites liguricus M.SACHSE, MCEA-P05038. b: waterloggedcompressed seeds of Toddalia latisiliquata (R.LUDW.) H.-J.GREGOR sieved out of a bulk sediment sample from Pollenzo, MGPTPU141033. c: millimeter-sized, waterlogged-compressed seeds of Sambucus pulchella C.REID et E.REID with abundant cracks, probably formed during both diagenesis and extraction of the fossils (bulk sediment sample from Ciabòt Cagna), MGPT-
Fig. 7 in Tolerance of Capsicum frutescens L. (Solanales: Solanaceae) to the duration of waterlogging and impact on the post-waterlogging and recovery periods
Fig. 7 - The relationship between total leaf area, root length, and recovery period (A, B). Measurements were taken at the end of the recovery period (30 days after the most prolonged duration of flooding). The relationship between the number of flowers and the reproductive period was determined ten days after the recovery period ended (C). The relationship between fresh-weight fruit and the harvest period was determined 31 days after the recovery period ended (D). / Relazione tra area fogliare totale, lunghezza delle radici e periodo di recupero (A, B). Le misure sono state effettuate alla fine del periodo di recupero (30 giorni dopo la durata più prolungata dell'inondazione). La relazione tra il numero di fiori e il periodo riproduttivo è stata determinata dieci giorni dopo la fine del periodo di recupero (C). La relazione tra il peso fresco dei frutti e il periodo di raccolta è stata determinata 31 giorni dopo la fine del periodo di recupero (D).
Fig. 6 in Tolerance of Capsicum frutescens L. (Solanales: Solanaceae) to the duration of waterlogging and impact on the post-waterlogging and recovery periods
Fig. 6 - Shoot biomass (A) and root biomass (B) after waterlogging and the end of the recovery period. Means and standard errors were based on five replications. Bars with different letters under the same category indicated a significant difference (p ≤ 0,05) with a paired t-test. C-AW: control after waterlogging, C-ER: control of the end recovery period, AW: after waterlogging, ER: the end of the recovery period. / Biomassa dei germogli (A) e delle radici (B) dopo il ristagno d'acqua e al termine del periodo di recupero. Le medie e gli errori standard si basano su cinque repliche. Le barre con lettere diverse sotto la stessa categoria indicano una differenza significativa (p ≤ 0,05) con un t-test a coppie. C-AW: controllo dopo il ristagno idrico, C-ER: controllo alla fine del periodo di recupero, AW: dopo il ristagno idrico, ER: alla fine del periodo di recupero.
Fig. 5 in Tolerance of Capsicum frutescens L. (Solanales: Solanaceae) to the duration of waterlogging and impact on the post-waterlogging and recovery periods
Fig. 5 - Relationship between shoot biomass and root biomass with waterlogging duration. Measurements were made after the flooding ended. Shoot biomass in control (A), Shoot biomass in waterlogging duration treatment (B). Root biomass in control (C), root biomass in the waterlogging duration treatment (B). / Relazione tra la biomassa dei germogli e la biomassa delle radici con la durata del ristagno idrico. Le misurazioni sono state effettuate dopo la fine dell'allagamento. Biomassa dei germogli nel controllo (A), biomassa dei germogli nel trattamento di durata crescente del ristagno idrico (B). Biomassa radicale nel controllo (C), biomassa radicale nel trattamento di durata crescente del ristagno idrico (B).
Fig. 4 in Tolerance of Capsicum frutescens L. (Solanales: Solanaceae) to the duration of waterlogging and impact on the post-waterlogging and recovery periods
Fig. 4 - The pattern of plant height (A) and number of leaves (B) during waterlogging and recovery period. Initial: before waterlogging treatment, AW-1d: after waterlogging one day, AW-3d: after waterlogging three days, AW-10d: after waterlogging ten days, R1: one-week recovery period, R2: two-week recovery period, R3: threeweek recovery period, R4: four-week recovery period, ER: end of the recovery period. / Andamento dell'altezza delle piante (A) e del numero di foglie (B) durante il periodo di ristagno idrico e di recupero. Iniziale: prima del trattamento di ristagno idrico, AW-1d: dopo un giorno di ristagno idrico, AW-3d: dopo tre giorni di ristagno idrico, AW-10d: dopo dieci giorni di ristagno idrico, R1: periodo di recupero di una settimana, R2: periodo di recupero di due settimane, R3: periodo di recupero di tre settimane, R4: periodo di recupero di quattro settimane, ER: fine del periodo di recupero.
Fig. 1 in Tolerance of Capsicum frutescens L. (Solanales: Solanaceae) to the duration of waterlogging and impact on the post-waterlogging and recovery periods
Fig. 1 - Plant response after waterlogging and the end of the recovery period. Stomata opened at the control (A), stomata closed after waterlogging AW (B), stomata opened at ER (C), there was no hypertrophic lenticels formation at the control (D), a whitish color marked the early formation of hypertrophic lenticels after waterlogging AW at the base of the stems that were flooded for three days (E), the development of hypertrophic lenticels on the seventh day of waterlogging (F), and adventitious root formation on the ninth day of waterlogging (G). The scale bars (yellow line) in D, E, F, and G are 5 cm. / Risposta delle piante dopo il ristagno d'acqua e alla fine del periodo di recupero. Gli stomi si sono aperti al controllo (A), gli stomi si sono chiusi dopo il periodo di ristagno idrico AW (B), gli stomi si sono aperti ER (C), non c'è stata formazione di lenticelle ipertrofiche al controllo (D), il colore biancastro ha indicato la formazione precoce di lenticelle ipertrofiche dopo il periodo di ristagno idrico AW alla base degli steli sommersi per tre giorni (E), lo sviluppo di lenticelle ipertrofiche al settimo giorno di ristagno idrico (F) e la formazione di radici avventizie al nono giorno di ristagno idrico (G). Le barre di scala (linea gialla) in D, E, F e G sono di 5 cm.
Fig. 3 in Tolerance of Capsicum frutescens L. (Solanales: Solanaceae) to the duration of waterlogging and impact on the post-waterlogging and recovery periods
Fig. 3 - The content of total chlorophyll (A) and carotenoids (B) after waterlogging and the end of the recovery period. Means and standard errors were based on five replications. Bars with different letters under the same category indicated a significant difference (p ≤ 0,05) with a paired t-test. C-AW: control after waterlogging, C-ER: control of the end recovery period, AW: after waterlogging, ER: the end of the recovery period. / Contenuto di clorofilla totale (A) e carotenoidi (B) dopo il ristagno idrico e al termine del periodo di recupero. Le medie e gli errori standard si basano su cinque repliche. Le barre con lettere diverse sotto la stessa categoria indicano una differenza significativa (p ≤ 0,05) con un t-test a coppie. C-AW: controllo dopo il ristagno idrico, C-ER: controllo alla fine del periodo di recupero, AW: dopo il ristagno idrico, ER: alla fine del periodo di recupero.
Fig. 2 in Tolerance of Capsicum frutescens L. (Solanales: Solanaceae) to the duration of waterlogging and impact on the post-waterlogging and recovery periods
Fig. 2 - Relationship between total chlorophyll and carotenoid content with waterlogging duration. Measurements were made after the flooding ended. Total chlorophyll in control (not waterlogging) (A), and waterlogging duration treatment (B). Carotenoid content in control (C), and the treatment with increasing waterlogging duration (D). / Relazione tra il contenuto di clorofilla totale e carotenoidi con la durata del ristagno idrico. Le misurazioni sono state effettuate dopo la fine del periodo di allagamento. Clorofilla totale nel controllo (senza ristagno d'acqua) (A) e nel trattamento con l'aumento della durata del ristagno idrico (B). Contenuto di carotenoidi nel controllo (C) e nel trattamento con l'aumento della durata del ristagno idrico (D).
Supplementary material for article: A database driven excavation of a waterlogged Neolithic settlement. The case of Küssnacht-Immensee Dorfplatz (Switzerland).
<p>These are all necessary data to produce 3D models of the excavated Neolithic waterlogged site of Küsnacht-Immensee Dorfplatz in the Canton Schwyz in Switzerland. Sediment deposits and find amounts are given as tables for GIS use in the txt-files. The codes for the semiquantitative description of the sediment are explained in the codes-pdf. The database model for the data acquisition of the sediment deposits and finds is given as accdb. Piles and horizontal wooden elements are given in the excel-file. </p> <p>Sediment profile photographies and the readymade 3D-model are given separately in 10.5281/zenodo.6536246.</p>
Rice productivity along waterlogging gradient in Indonesian peatlands (EPIC-IIASA model outputs)
<p>[1] The spatially explicit modelled water table depth data (WTBL, in m) were produced for a total of ten waterlogging intensity scenarios (WetScen) in Indonesian peatlands using the Environmental Policy Integrated Climate-based modelling framework EPIC-IIASA. The WetScen scenarios 1 to 10 represent a gradient from water-logged to deeply drained soils. The dataset provides monthly WTBL series simulated between 2001 and 2010 at 0.25×0.25 arc-deg spatial resolution across all Indonesia peatland soils (<a href="https://doi.org/10.5281/zenodo.6997968">https://doi.org/10.5281/zenodo.6997968</a>). This data brings harmonized groundwater regime data in large-scale agricultural modelling to allow assessing the impact of peatland rewetting on rice productivity in Indonesia. These data were prepared as a part of the RESTORE+ project, separately for two rice growing seasons (seasons 1 and 2) and rice double-cropping on mineral (miner) and shallow peat soils (peat) with a depth of less than 1 m.</p> <p>[2] The spatially explicit datasets of annual rice yield (YLDG in tDM/ha) and monthly root zone soil water content (RZSW, in mm) were simulated at 0.25×0.25° spatial resolution following the waterlogging scenarios described above. The datasets explore (a) two nutrient management, namely the good agricultural practice (GAP) and management that was back-calibrated against statistically reported regional yields (BackCalc), (b) two rice seasons (season 1 and 2) plus a double-cropping system, and (c) ten waterlogging scenarios (WetScen) in all peatland grids with soils suitable for rice production, i.e., all mineral soils (miner) and soils with the shallow peat material (peat). The simulations were carried out from 2001 to 2010, consistently with the scenario data and modelling framework described above. This database was created as a part of the RESTORE+ project. The details are described in a separate document (see <a href="https://doi.org/10.5281/zenodo.7355835">https://doi.org/10.5281/zenodo.7355835</a>).</p>
Assessing pre‐plant nitrogen sources and waterlogging on corn growth and yield
Open the record for dataset details and reuse information.
A 3-dimensional animation of a Kompolti root section revealing the aerenchyma 9-days post waterlogging.
<p>A three-dimensional animation of a root section from cultivar ‘Kompolti’ revealing the aerenchyma 9 d post-waterlogging. Aerenchyma are shown in blue and the whole root section in white. The images were obtained by X-ray Computed Tomography scanning of the root section. The resolution was 11 µm, and the animation was created using the program Volume Graphics Studio Max® 3.01.</p>
Rapid systemic responses of Arabidopsis to waterlogging stress are mediated by the ROS wave
GEO Series GSE225407. Arabidopsis thaliana. 30 samples. Type: Expression profiling by high throughput sequencing.
Elucidation of the molecular responses to waterlogging in Sesbania cannabina roots
GEO Series GSE92670. Sesbania cannabina. 6 samples. Type: Expression profiling by high throughput sequencing.
Development of gene expression signatures for 4 days of waterlogging stress in Arabidopsis thaliana Col-0 plants
GEO Series GSE64070. Arabidopsis; Arabidopsis thaliana. 4 samples. Type: Expression profiling by array.
Transcriptional analysis in multiple barley varieties identifies signatures of waterlogging response
GEO Series GSE220532. Hordeum vulgare. 30 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.