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.
185
datasets available to search
ShareScore release 0.9.0
Dataset results
185 results for “plant conservation”
Genetic diversity of Horsfieldia tetratepala (Myristicaceae), an endangered plant species with extremely small populations to China: implications for its conservation
Open the record for dataset details and reuse information.
Conservation of antiviral defences in the non-vascular plant Marchantia polymorpha
GEO Series GSE241827. Marchantia polymorpha. 8 samples. Type: Expression profiling by high throughput sequencing.
Conservation and divergence of small RNA pathways in vascular plants revealed by small RNA analyses in lycophytes and ferns
GEO Series GSE98408. Psilotum nudum; Cibotium barometz; Asplenium nidus; Salvinia cucullata; Azolla caroliniana; Palhinhaea cernua; Selaginella moellendorffii; Plenasium vachellii; Microsorum cuspidatum; Equisetum ramosissimum; Cyrtomium fortunei; Angiopteris fokiensis; Diplopterygium chinense; Diplazium esculentum; Ophioglossum vulgatum; Isoetes sinensis; Dicranopteris pedata; Pteris vittata; Lygodium japonicum; Trichomanes striatum; Odontosoria chinensis; Alsophila spinulosa; Microlepia platyphylla; Salvinia molesta; Selaginella uncinata. 26 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Conserved pleiotropy of an ancient plant homeobox gene uncovered by cis-regulatory dissection
GEO Series GSE164297. Solanum lycopersicum. 6 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
A Conserved Salicylic Acid Signaling Pathway Controls Plant Immunity against Pseudomonas thought the unique TGA transcription factor in Marchantia polymorpha
GEO Series GSE300298. Marchantia polymorpha. 24 samples. Type: Expression profiling by high throughput sequencing.
Conservation and divergence of methylation patterning in plants and animals
GEO Series GSE21152. Chlamydomonas reinhardtii; Oryza sativa; Danio rerio; Arabidopsis thaliana; Ciona intestinalis; Mus musculus; Populus trichocarpa; Apis mellifera. 14 samples. Type: Methylation profiling by high throughput sequencing.
Recruitment, rewiring, and deep conservation in flowering plant gene regulation
GEO Series GSE297576. Brassica oleracea; Sorghum bicolor; Arabidopsis lyrata; Camelina sativa; Arabidopsis thaliana; Thlaspi arvense; Capsella rubella; Panicum hallii; Brachypodium distachyon. 30 samples. Type: Expression profiling by high throughput sequencing.
Characterization of imprinted genes in rice reveals regulation and imprinting conservation at some loci in plant species
GEO Series GSE113769. Oryza sativa. 15 samples. Type: Expression profiling by high throughput sequencing.
Conserved and plant-specific GCN5-containing complexes cooperate to regulate gene transcription and plant development [30d RNA-seq]
GEO Series GSE217485. Arabidopsis thaliana. 21 samples. Type: Expression profiling by high throughput sequencing.
Conserved Molecular Program for Root Development in Diverse Plants
GEO Series GSE64665. Glycine max; Oryza sativa; Zea mays; Cucumis sativus; Arabidopsis thaliana; Solanum lycopersicum; Selaginella moellendorffii. 60 samples. Type: Expression profiling by high throughput sequencing.
Genome-wide identification of mRNAs involved in potato response to drought exhibiting functional evolutionary conservation with Arabidopsis plants
GEO Series GSE97776. Solanum tuberosum. 36 samples. Type: Expression profiling by high throughput sequencing.
Conserved and plant-specific GCN5-containing complexes cooperate to regulate gene transcription and plant development [RNA-Seq]
GEO Series GSE199760. Arabidopsis thaliana. 30 samples. Type: Expression profiling by high throughput sequencing.
Identification of conserved and species-specific microRNAs in tea plant (Camellia sinensis) by deep sequencing
GEO Series GSE68267. Camellia sinensis. 1 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Figure 3 from: Di Cecco V, Di Santo M, Di Musciano M, Manzi A, Di Cecco M, Ciaschetti G, Marcantonio G, Di Martino L (2020) The Majella National Park: a case study for the conservation of plant biodiversity in the Italian Apennines. Italian Botanist 10: 1-24. https://doi.org/10.3897/italianbotanist.10.52952
Figure 3 Plants of Iris marsica grown in the Majella National Park nursery).
Figure 2 from: Di Cecco V, Di Santo M, Di Musciano M, Manzi A, Di Cecco M, Ciaschetti G, Marcantonio G, Di Martino L (2020) The Majella National Park: a case study for the conservation of plant biodiversity in the Italian Apennines. Italian Botanist 10: 1-24. https://doi.org/10.3897/italianbotanist.10.52952
Figure 2 Number of species and subspecies per family stored in the Majella Seed Bank.
Figure 1 from: Di Cecco V, Di Santo M, Di Musciano M, Manzi A, Di Cecco M, Ciaschetti G, Marcantonio G, Di Martino L (2020) The Majella National Park: a case study for the conservation of plant biodiversity in the Italian Apennines. Italian Botanist 10: 1-24. https://doi.org/10.3897/italianbotanist.10.52952
Figure 1 Geographical position of the Majella National Park.
Figure 1 from: Fišer Ž, Aronne G, Aavik T, Akin M, Alizoti P, Aravanopoulos F, Bacchetta G, Balant M, Ballian D, Barazani O, Bellia AF, Bernhardt N, Bou Dagher Kharrat M, Bugeja Douglas A, Burkart M, Ćalić D, Carapeto A, Carlsen T, Castro S, Colling G, Cursach J, Cvetanoska S, Cvetkoska C, Ćušterevska R, Daco L, Danova K, Dervishi A, Djukanović G, Dragićević S, Ensslin A, Evju M, Fenu G, Francisco A, Gallego PP, Galloni M, Ganea A, Gemeinholzer B, Glasnović P, Godefroid S, Goul Thomsen M, Halassy M, Helm A, Hyvärinen M, Joshi J, Kazić A, Kiehn M, Klisz M, Kool A, Koprowski M, Kövendi-Jakó A, Kříž K, Kropf M, Kull T, Lanfranco S, Lazarević P, Lazarević M, Lebel Vine M, Liepina L, Loureiro J, Lukminė D, Machon N, Meade C, Metzing D, Milanović Đ, Navarro L, Orlović S, Panis B, Pankova H, Parpan T, Pašek O, Peci D, Petanidou T, Plenk K, Puchałka R, Radosavljević I, Rankou H, Rašomavičius V, Romanciuc G, Ruotsalainen A, Šajna N, Salaj T, Sánchez-Romero C, Sarginci M, Schäfer D, Seberg O, Sharrock S, Šibík J, Šibíková M, Skarpaas O, Stanković Neđić M, Stojnic S, Surina B, Szitár K, Teofilovski A, Thoroddsen R, Tsvetkov I, Uogintas D, Van Meerbeek K, van Rooijen N, Vassiliou L, Verbylaitė R, Vergeer P, Vít P, Walczak M, Widmer A, Wiland-Szymańska J, Zdunić G, Zippel E (2021) ConservePlants: An integrated approach to conservation of threatened plants for the 21st Century. Research Ideas and Outcomes 7: e62810. https://doi.org/10.3897/rio.7.e62810
Figure 1 Species conservation word cloud.
Clonality and genetic structure of an endangered aquatic plant, Typha minima, in the French Alps: consequences for conservation
<p>Genetic data on Typha minima populations obtained with AFLP markers.</p> <p>The data was used in the article "Clonality and genetic structure of an endangered aquatic plant, Typha minima, in the French Alps: consequences for conservation, by Irène Till-Bottraud, Jacky Girel, Erwan Roussel, Delphine Rioux, Lucie Fiorese, Noémie Fort and published in Alpine Botany in 2022</p>
Figure 1 from: Kipkoech S, Melly DK, Watuma Mwema B, Mwachala G, Musili PM, Hu G, Wang Q (2019) Conservation priorities and distribution patterns of vascular plant species along environmental gradients in Aberdare ranges forest. PhytoKeys 131: 91-113. https://doi.org/10.3897/phytokeys.131.38124
Figure 1 The location of Aberdare ranges forest, (i) two sections of forest (ii) map of Kenya.
Confocal microscopy data associated with "The conserved aphid saliva chemosensory protein effector Mp10 targets plant AMSH deubiquitinases at cellular membranes to suppress pattern-triggered immunity"
<p><strong>Confocal microscopy data as described in "The conserved aphid saliva chemosensory protein effector Mp10 targets plant AMSH deubiquitinases at cellular membranes to suppress pattern-triggered immunity".</strong></p> <p> </p> <p>Data relate to Figure 2 (“Mp10 interacts with AMSH deubiquitinases in yeast and plants”) involving FLIM-FRET imaging data to determine the interaction between eGFP-tagged <em>Myzus persicae </em>Mp10 and mCherry-tagged <em>Nicotiana benthamiana </em>AMSH proteins in plant cells; and Figure 6 (“Mp10 affects the abundance and localisation of cell-surface receptor-like kinases) involving confocal microscopy showing the effect of Mp10-expression on the localisation of the GFP-tagged FLS2 receptor-kinase protein, and it’s colocalization with RFP-tagged markers of the plasma membrane and the tonoplast in plant cells.</p> <p>Constructs encoding fluorescent protein fusions were transformed into <em>Agrobacterium tumefaciens </em>GV3101, and mixed Agrobacterium cultures were infiltrated into mature leaves of <em>N. benthamiana </em>plants to co-express the desired combinations of proteins. All image data was gathered from lower epidermal leaf cells of infiltrated leaves 2-3 days post infiltration.</p> <p> </p> <p><strong>FLIM-FRET assays.</strong></p> <p>eGFP-tagged Mp10, or eGFP-alone, was co-expressed with mCherry-tagged AMSH proteins, or mCherry fused to aquaeorin in <em>N. benthamiana</em> via agroinfiltration as described above. Lower epidermal cells of leaf sections were imaged 2-3 days after infiltration using a Leica Stellaris 8. Images were captured detecting fluorescence from eGFP (WLL laser, ex.488 nm, em 509-534 nm.) mCherry (lWLL aser, ex. 587 nm em 603-625 nm.) and chlorophyll (WLL laser, ex 587 nm. em 687-712 nm.). Regions of cells showing expression of both eGFP- and mCherry- tagged proteins but lacking chlorophyll were selected for FLIM analysis to avoid bleed through of chlorophyll fluorescence into the eGFP chanel. Fluorescence lifetime data of EGFP were collected from these regions in FLIM mode (WLL laser ex. 488nm, em 525-530 nm.), data were collected at 128x128 resolution until 1000 photons per pixel were collected for the most intense regions of the image. Instrument response function was captured using erythrosine on each day of data collection. FLIM data were analysed using Leica LASX FLIM FCS software. Fluorescence lifetime decay curves of free eGFP control samples were modelled as a 2-component exponential function, and all samples from each experimental set were modelled against the fluorescence lifetime from the corresponding control samples to derive values for fluorescent lifetime and %FRET efficiency for each image collected. %FRET efficiency was mapped to the images and phasor plots were generated for regions with the highest and lowest FRET efficiency, showing that the FRET signal was associated with a clockwise shift on the phasor plot consistent with <em>bona-fide </em>FRET. Full experimental metadata for each image set are included within the .lif files.</p> <p> </p> <p><strong>FLS2-GFP localisation experiments.</strong></p> <p>Confocal microscopy analysis was performed on a Leica TCS SP8X confocal DM6 microscope with a 63x water-immersion objective, using Leica Application Suite X (LAS X) software (3.5.7.23225). eGFP and chlorophyll signals were excited by a 488 nm Argon laser with emission, respectively, at 495–545 nm and 690-710 nm. RFP signal was excited by a 590 nm white light laser (WLL) with emission at 605–650 nm. Full experimental metadata for each image set are included within the .lif files.</p> <p> </p> <p>Leica Image Files (.lif) that contain multiple images including metadata associated with image acquisition and processing.</p> <p> </p> <p>FLIM030823.lif</p> <p>FLIM130724.lif</p> <p>FLIM140623.lif</p> <p>FLIM160623.lif</p> <p>FLIM240523.lif</p> <p>FLIM250523.lif</p> <p>Files include FLIM-FRET data as shown in Figure 2 parts D-L.</p> <p>FLIM-data-files.xlsx includes a description of the individual image filenames, and the combinations of fluorophore imaged in each.</p> <p> </p> <p>Fig6cSlFLS2-gfp_Mp10-RFP.lif</p> <p>Fig6c-SlFLS2-GFP_EV-RFP.lif</p> <p>Correspond to Figure 6 C showing co-expression of RFP-tagged Mp10 (or free RFP control) co-expressed with GFP-tagged FLS2</p> <p> </p> <p>20230828_SlFLS2-GFP_Flag-Mp10_Flag-alone_Remorin-RFP-3-3-1x.lif</p> <p>20230828_SlFLS2-GFP_Flag-Mp10_Flag-alone_Remorin-RFP-3-3-3x.lif</p> <p>20230828_SlFLS2-GFP_Flag-Mp10_Flag-alone_Remorin-RFP-4-2-3x.lif</p> <p>0230828_SlFLS2-GFP_Flag-Mp10_Flag-alone_Remorin-RFP4-2-1x.lif</p> <p>Correspond to Figure 6 D showing co-expression of FLAG-tagged Mp10 (or free FLAG control) co-expressed with GFP-tagged FLS2 together with RFP-tagged plasma membrane marker Remorin</p> <p> </p> <p>20230911_SlFLS2-GFP_Flag-Mp10_Flag-alone_StSUC4-RFP-14-5-1x.lif</p> <p>20230911_SlFLS2-GFP_Flag-Mp10_Flag-alone_StSUC4-RFP-14-5-3x.lif</p> <p>20230911_SlFLS2-GFP_Flag-Mp10_Flag-alone_StSUC4-RFP-16-1-1x.lif</p> <p>20230911_SlFLS2-GFP_Flag-Mp10_Flag-alone_StSUC4-RFP-16-1a-3x.lif</p> <p>20230911_SlFLS2-GFP_Flag-Mp10_Flag-alone_StSUC4-RFP-16-1b-1x.lif</p> <p>Correspond to Figure 6 E showing co-expression of FLAG-tagged Mp10 (or free FLAG control) co-expressed with GFP-tagged FLS2 together with RFP-tagged tonoplast marker SUC4.</p> <p> </p> <p>We are grateful to the John Innes Centre (JIC) Bioimaging Platform for training and technical support</p> <p>This work was funded by UK Research and Innovation (UKRI) Biotechnology and Biological Sciences Research Council (BBSRC) grants to SAH (BB/V008544/1 and BB/N009169/1), Additional Support was provided by the BBSRC Institute Strategy Programmes (BBS/E/J/000PR9797 and BBS/E/JI/230001B) awarded to the John Innes Centre (JIC). The JIC is grant-aided by the John Innes Foundation.</p> <p> </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.