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769 results for “CULTIVATE”
Data from: Continuous inbreeding affects genetic variation, phenology and reproductive strategy in ex situ cultivated Digitalis lutea
<p>Data from several experiments studying population differences between a wild and a botanic garden population and effects of different hand-pollination treatments on various traits of the short-lived perennial plant <em>Digitalis lutea</em>. Separate spreadsheets contain data on 1) genetic variation using ISSR markers, 2) effects of pollination treatments on seed number and seed mass, 3) differences in germination, 4) various traits studied in a common garden experiment, 5) effects of population and pollination treatments on pollinator visitation.</p> <p>See publication in American Journal of Botany (2022) for details.</p> <p><strong>Abstract:</strong></p> <p><strong>Premise</strong>: Ex situ cultivation is important for plant conservation, but cultivation in small populations may result in genetic changes by drift, inbreeding or unconscious selection. Repeated inbreeding potentially influences not only plant fitness, but also floral traits and interactions with pollinators, which has not yet been studied in an ex situ context.</p> <p><strong>Methods</strong>: We studied the molecular genetic variation of <em>Digitalis lutea</em> L. from a botanic garden population cultivated for 30 years, a frozen seed bank conserving the original genetic structure, and two current wild populations including the source population. In a common garden we studied the effects of experimental inbreeding and between-population crosses on performance, reproductive traits and flower visitation of plants from the garden and a wild population.</p> <p><strong>Results</strong>: Significant genetic differentiation was found between the garden population and the wild population from which the seeds had originally been gathered. After experimental selfing, inbreeding depression was only found in germination and leaf size of plants from the wild population, indicating a history of inbreeding in the smaller garden population. Moreover, garden plants flowered earlier and showed floral traits related to selfing, whereas wild plants showed traits related to attracting pollinators. Bumblebees visited more flowers of outbred than inbred plants and of wild than garden plants.</p> <p><strong>Conclusions</strong>: Our case study suggests that high levels of inbreeding during ex situ cultivation can influence reproductive traits and thus interactions with pollinators. Together with the effects of genetic erosion and unconscious selection this may affect the success of reintroductions into natural habitats.</p> <p> </p>
FIGURE. Taraxacum bulgaricum. General habit of cultivated plants from the Pirin (PRA, no. det. 30153). Scale bars = 2 cm. in A hotspot of endemism: Oreophytic Taraxacum species (Compositae, Crepidinae) in the mountains of Bulgaria
FIGURE. Taraxacum bulgaricum. General habit of cultivated plants from the Pirin (PRA, no. det. 30153). Scale bars = 2 cm.
Supplementary material 3 from: Siddique AB, Khokon AM, Unterseher M (2017) What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions. MycoKeys 20: 1-16. https://doi.org/10.3897/mycokeys.20.11265
Common OTU lists and Statistical analysis : Explanation note: This file contains detected OTUs in both methods and biodiversity analysis (GLM and t-test)
Supplementary material 2 from: Siddique AB, Khokon AM, Unterseher M (2017) What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions. MycoKeys 20: 1-16. https://doi.org/10.3897/mycokeys.20.11265
Biodiversity workflow in R : Explanation note: Bundle of files for biodiversity analysis in R. All necessary input files and a commented script of R-commands are provided.
Supplementary material 4 from: Siddique AB, Khokon AM, Unterseher M (2017) What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions. MycoKeys 20: 1-16. https://doi.org/10.3897/mycokeys.20.11265
Master data sheet : Explanation note: Spreadsheet file containing information about read abundances of operational taxonomic units (OTUs) and sample metadata. Here, data were prepared for subsequent biodiversity analysis in R.
Supplementary material 1 from: Siddique AB, Khokon AM, Unterseher M (2017) What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions. MycoKeys 20: 1-16. https://doi.org/10.3897/mycokeys.20.11265
Bioinformatics pipeline : Explanation note: This file provides all steps and commands necessary for quality filtering and demultiplexing of raw paired fastq sequences.
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>
Machine Learning Tools for Peptide Bioactivity Evaluation Implications for Cell Culture Media Optimization and the Broader Cultivated Meat Industry
Open the record for dataset details and reuse information.
Testing sunfish as zooplankton control agents for wastewater-algal cultivation: Nutrient, invertebrate, and algae data
<p>Wastewater-algal cultivation is a promising means of recovering polluting nutrients and converting them into useful algal biomass. However, open raceway ponds used for wastewater-algal cultivation are prone to contamination by zooplankton, which often severely reduces algal yields. We conducted an experiment to test the potential for bluegill sunfish to improve yields by suppressing zooplankton. We used cages to protect the fish from the paddlewheels in 230-L raceway ponds. In nine raceways, the cage surrounded the paddlewheel and fish, if present, had access to the remaining tank area. In another nine raceways, the cage was on the opposite side from the paddlewheel, and contained the fish when present. Six fishless controls were implemented across both cage placements. We filled the raceways with synthetic wastewater and local plankton, and one juvenile bluefill sunfish (aside from controls). After 19 days we sampled dissolved nutrients, algae, and invertebrates in each raceway. This dataset consists of four csv files containing data from laboratory analyses of these samples. The data include dissolved nutrients, algal dry weights, zooplankton and benthic invertebrate counts, algal biovolumes, and algal nutrient content for each of the 18 raceway ponds.</p>
FIGURE 3 in Hidden life cycle stages of the trypanosomatid Blastocrithidia triatomae Cerisola et al. 1971 (Protista: Excavata: Kinetoplastea) unveiled by a new cultivation method
FIGURE 3. Cladograms inferred from morphological (A) and 18S-rDNA (B) data to show the unambiguous separation of Blastocrithidia from Trypanosoma. Numbers associated to nodes are group contradiction frequency differences (GC) obtained from 1.000 replicates (values> 0 are considered as reliable). GenBank/NCBI accession codes are displayed right of strain names in B.
FIGURE 1 in Hidden life cycle stages of the trypanosomatid Blastocrithidia triatomae Cerisola et al. 1971 (Protista: Excavata: Kinetoplastea) unveiled by a new cultivation method
FIGURE 1. Ontogeny of main stages found in B. triatomae in MBT medium. (A, B, C) Epimastigotes. (D, E, F) Epimastigotes originating scleromastigotes. G. Scleromastigotes dividing. (H, I) Scleromastigotes differentiation into epimastigotes. (J, K) Epimastigotes differentiation into sinemastigotes. (L, M) Sinemastigotes. Legends: f—flagellum, k—kinetoplast, n—nucleus. Bar = 10µm.
FIGURE 2 in Hidden life cycle stages of the trypanosomatid Blastocrithidia triatomae Cerisola et al. 1971 (Protista: Excavata: Kinetoplastea) unveiled by a new cultivation method
FIGURE 2. Scanning electron microscopy of B. triatomae culture stages. A. epimastigote with curled flagellum (arrow). (B, C, D) Straphangers. Arrow indicates a sinemastigote (B, C); arrowhead shows a scleromastigote (B, D); asterisk shows scleromastigote bacillus-like stages (B, D). Note the disposition of these stages on the epimastigote flagellum, suggesting its ontogenesis (arrowhead). (E, F, G) Microepimastigotogenesis. Bacillus-like emitting an axial projection (E) and posterior flagellum (F). G. process in a more advanced stage. H. Binary division originating epimastigotes-like. I. Scleromastigotes in division. Note the cytoplasmic projections connecting the cells (arrowhead). Bars: (A, C, D, G, H) = 5µm; B = 2µm; (E, F, I) 1µm.
Cultivating Flavor: Unveiling the Impact of Lactobacillus Delbrueckii Subsp. Bulgaricus and Bean Sprouts (Phaseolus Vulgarison) on Fermentation Arabica and Robusta Coffee
<p>This material has presented on 2nd International Conference on Advance Research in Agriculture and Food 2023 in October 25, 2023.</p>
Genome assemblies and annotations of wild grape V. davidii Föex (0940) and a cultivated grape V. vinifera L. Manicure Finger
<p>We newly sequenced genome of a wild grape (V. davidii (0940) (namely Vd)and a somatic of Manicure Finger (namely MF), and constructed phase-resolved genomes using Hi-C and HiFi reads.</p> <p>MF_hap1.fa.gz</p> <p>#Sequence of haplotype 1 from the MF genome</p> <p>MF_hap1.gff3.gz</p> <p>#Annotation of haplotype 1 from the MF genome</p> <p>MF_hap2.fa.gz</p> <p>#Sequence of haplotype 2 from the MF genome</p> <p>MF_hap2.gff3.gz</p> <p>#Annotation of haplotype 2 from the MF genome</p> <p>Vd_hap1.fa.gz</p> <p>#Sequence of haplotype 1 from the Vd genome</p> <p>Vd_hap1.gff3.gz</p> <p>#Annotation of haplotype 1 from the Vd genome</p> <p>Vd_hap2.fa.gz</p> <p>#Sequence of haplotype 2 from the Vd genome</p> <p>Vd_hap2.gff3.gz</p> <p>#Annotation of haplotype 2 from the Vd genome</p> <p> </p> <p> </p>
FIGURE 18. Hyperlasion aliens Mohrig, 2004 in Black fungus gnats (Diptera: Sciaridae) found in association with cultivated plants and mushrooms in Australia, with notes on cosmopolitan pest species and biosecurity interceptions
FIGURE 18. Hyperlasion aliens Mohrig, 2004 (specimen from Papua New Guinea). A. Hypopygium. B. Flagellomere 3–5. C. Male.
FIGURE 17 in Black fungus gnats (Diptera: Sciaridae) found in association with cultivated plants and mushrooms in Australia, with notes on cosmopolitan pest species and biosecurity interceptions
FIGURE 17. Scatopsciara atomaria (Zetterstedt, 1851). A. Hypopygium. B. Flagellomeres 4–6. C. Palpus. D. Fore tibia.
FIGURE 16 in Black fungus gnats (Diptera: Sciaridae) found in association with cultivated plants and mushrooms in Australia, with notes on cosmopolitan pest species and biosecurity interceptions
FIGURE 16. Bradysia strenua (winnertz, 1867). A. Left side of the hypopygium in ventral view. B. Gonostylus. C. 4th flagellomere. D. Scutellum.
FIGURE 15 in Black fungus gnats (Diptera: Sciaridae) found in association with cultivated plants and mushrooms in Australia, with notes on cosmopolitan pest species and biosecurity interceptions
FIGURE 15. Corynoptera concinna (winnertz, 1867). A. Hypopygium. B. Basal segments of antenna. C. Fore tibia.
FIGURE 14 in Black fungus gnats (Diptera: Sciaridae) found in association with cultivated plants and mushrooms in Australia, with notes on cosmopolitan pest species and biosecurity interceptions
FIGURE 14. Bradysia spatitergum (Hardy, 1956). A. Hypopygium, ventral side. B. Hypopygium, dorsal side. C. Flagellomeres 3–5.
FIGURE 13 in Black fungus gnats (Diptera: Sciaridae) found in association with cultivated plants and mushrooms in Australia, with notes on cosmopolitan pest species and biosecurity interceptions
FIGURE 13. Bradysia pallipes (Fabricius, 1787); (specimen from Australia). A. Hypopygium (left half in ventral view).
ScienceDex guides
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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.