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.
125
datasets available to search
ShareScore release 0.9.0
Dataset results
125 results for “Cassava”
Alignments and ML trees of cassava brown streak virus and Ugandana cassava brown streak virus polyprotein nucleotide sequences
<p>Alignments of full and nearly full polyprotein-length nucleotide sequences from GenBank for the two ipomoviruses that cause cassava brown streak disease, in fasta format. Separate alignments for 67 cassava brown streak virus sequences and 81 Ugandan cassava brown streak virus sequences are provided, as well as a combined alignment of 148 sequences. Alignments were created with MUSCLE and then modified by eye in AliView.</p> <p>Also, two tree files (in nexus) format are supplied, resulting from a maximum likelihood analysis with IQTree on each of the two single-species datasets. Support for nodes with aLRT and 100 actual bootstrap replicates are provided (aLRT/bootstrap).</p>
Large structural variations in the haplotype-resolved African cassava genome
<p>Cassava TME7 haplotype resolved assemblies and annotation</p> <p> </p> <p>ABSTRACT:</p> <p>Cassava (<em>Manihot esculenta</em> Crantz, 2n=36) is a global food security crop. Cassava has a highly heterozygous genome, high genetic load, and genotype-dependent asynchronous flowering. It is typically propagated by stem cuttings and any genetic variation between haplotypes, including large structural variations, is preserved by such clonal propagation. Traditional genome assembly approaches generate a collapsed haplotype representation of the genome. In highly heterozygous plants, this results in artifacts and an oversimplification of heterozygous regions. We used a combination of Pacific Biosciences (PacBio), Illumina, and Hi-C to resolve each haplotype of the genome of a farmer-preferred cassava line, TME7 (Oko-iyawo). PacBio reads were assembled using the FALCON suite. Phase switch errors were corrected using FALCON-Phase and Hi-C read data. The ultra-long-range information from Hi-C sequencing was also used for scaffolding. Comparison of the two phases revealed more than 5,000 large haplotype-specific structural variants affecting over 8 Mb, including insertions and deletions spanning thousands of base pairs. The potential of these variants to affect allele specific expression was further explored. RNA-seq data from 11 different tissue types were mapped against the scaffolded haploid assembly and gene expression data are incorporated into our existing easy-to-use web-based interface to facilitate use by the broader plant science community. These two assemblies provide an excellent means to study the effects of heterozygosity, haplotype-specific structural variation, gene hemizygosity, and allele specific gene expression contributing to important agricultural traits and further our understanding of the genetics and domestication of cassava.</p>
Data for Water deficit and potassium affect carbon isotope composition in cassava bulk leaf material and extracted carbohydrates
<p>This repository contains data and scripts to reproduce results that are presented in the manuscript: Van Laere, J., Merckx, R., Hood-Nowotny, R., Dercon, G. (2023) Water deficit and potassium affect carbon isotope composition in cassava bulk leaf material and extracted carbohydrates. <em>Front. Plant Sci</em>. 14:1222558 doi: 10.3389/fpls.2023.1222558</p>
Morphological and physiological characteristics of cassava genotypes on dry-land of ultisol soil in Indonesia
<p>This data showed the characterization of morphological and physiological characters of some cassava genotypes in Indonesia that were collected from some areas in Indonesia and now, planting in the IPB Germplasm Farm Collection at Bogor Regency, Indonesia. We have more than 50 genotypes collections. </p>
Dataset: Cassava Sciences, Inc. (SAVA) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Data: Linking CRISPR-Cas9 interference in cassava to the evolution of editing-resistant geminiviruses
<p>Dataset of raw SMRT sequence data and processed data including alignments of virus sequences edited using CRISPR-Cas9 technology in cassava plants.</p> <p> </p>
Figure 2 in Resistance of cassava genotypes to Vatiga manihotae (Drake 1922) (Hemiptera: Tingidae)
Figure 2 Ordination diagram representing the first axis of the principal components for the variables concerning the biology of Vatiga manihotae on different cassava genotypes. Genotypes: MEcu 72; Santa Helena; Col 22; Cl 02 Clone 02; Cl 33 Clone 33.
Figure 1 in Resistance of cassava genotypes to Vatiga manihotae (Drake 1922) (Hemiptera: Tingidae)
Figure 1 Relation between specific fertility (mx) and survival rate (lx) of Vatiga manihotae on five genotypes of cassava (T: 25 ± 2°C; Photophase: 14 hours).
Fig. 4 in Occurrence of Bondar's Nesting Whitefly, Paraleyrodes bondari (Hemiptera: Aleyrodidae), on cassava in Uganda
Fig. 4. Bayesian consensus phylogeny based on partial mitochondrial cytochrome oxidase 1 gene sequences. Haplotype sequence of Paraleyrodes bondari recovered in this study is shown in red. Posterior probabilities are noted above each node.
Data for Stable isotope composition of long and short term carbon pools can screen drought tolerance in cassava
<p>This repository contains data and scripts to reproduce results that are presented in the article: Van Laere, J., Martinez Maya, M.A., Selvaraj M.G., Becerra Lopez-Lavalle, L.A., Guzman, D., Casas, J.A., Merckx, R., Hood-Nowotny, R., Dercon, G. (2024)<strong> Stable isotope composition of long and short term carbon pools can screen drought tolerance in cassava</strong>. <em>Field Crops Research. </em>https://doi.org/10.1016/j.fcr.2024.109586</p>
Agronomic response and profitability of applying fractional doses of NPK fertilizer on cassava (Manihot esculenta Crantz) in Beni and Lubero territory, Democratic Republic of the Congo
Open the record for dataset details and reuse information.
Yield and Quality Response of Cassava (Manihot esculenta Crantz) to Nitrogen and Potassium Fertilizer Rates at Arba Minch, Southern Ethiopia
<p><em>Cassava (Manihot esculenta Crentz), is a major staple food crop of the people in most parts of Africa, and plays an important role in terms of food security, employment and income generation for farm families. It is one of important root crops in Ethiopian diet; however there is no research work has been done on rate of nitrogen and potassium fertilizer. Rate of N and K fertilizer are the major factor in determining the quality and quantities of cassava. Thus, this experiment was carried on the influence </em><em>of nitrogen and potassium</em><em> fertilizer rate on yield and qualities of </em><em>cassava </em><em>at Arba Minch. Four levels of N (0, 46, 92 and 138 kg N ha<sup>−1</sup>) and three levels of K (0, 60, and 120 kg K ha<sup>−1</sup>) were arranged in factorial combination in a randomized complete block design (RCBD) with three replications. The results revealed that the main effects of nitrogen fertilizer rates influences all the studied parameters, while the main effect of potassium affects number of tubers per plant and tuber diameter. Interaction effect of N and K influences fresh tuber yield of cassava. The highest fresh tuber yield of cassava was achieved from the combination of 92 kg Nha<sup>-1</sup> with application of 0 kg K ha<sup>−1</sup>, whereas the lowest fresh tuber yield of cassava was obtained from the combination of 0 kg N ha<sup>−1</sup> with 0 kg K ha<sup>−1</sup>. The economic analysis showed that higher net benefit and marginal rate of return were obtained from the application of 92 kg N ha<sup>−1</sup> with 0 kg K ha<sup>−1</sup>. In order to prevent excessive production costs, the use of 92 kg Nha<sup>-1</sup> combined with the application of 0 kg K ha<sup>−1</sup> is recommended. </em></p>
Analysis of the root diameter distribution from time series images of real and simulated Cassava root systems
<p>The data was collected, simulated and analyzed in the framework of the CassavaStore project (a collaboration between IBG-2, Forschungszentrum Jülich, Germany and different institution from Thailand; for details see <a href="https://www.international-bioeconomy.org/cassavastore_eng">https://www.international-bioeconomy.org/cassavastore_eng</a>). Aim of this project is to get a better understanding of storage root development in cassava (<em>Manihot esculenta</em> Crantz) in order to optimize cassava growth with respect to variety breeding and growth management. The storage root is one of the main providers of starch in Thailand and therefore of high economic importance. Monitoring the formation of storage roots over time via quantification of the root diameter distribution of excavated root systems was one of the key aspects addressed in this project. To measure the diameters a software was developed that identifies roots in RGB images and analyzes the diameters along each identified root automatically. The published data contains 1) analyzed images from cassava roots that were acquired in a video box; 2) simulated virtual root model images with known root diameter distributions that were used to validate the analysis approach; 3) a description of the data and the folder structure.</p>
Quantitative assessment of trace and macro element compositions of Cassava (Manihot esculenta) storage roots enriched with Β-Carotene as influenced by genotypes and growing locations
Cassava's important mineral contents depends on some factors, including genetic and growing locational factors. The study aimed to evaluate the influence of genotype and growing locations on the mineral concentrations in yellow-fleshed cassava root genotypes. Twenty-five pipeline yellow-fleshed cassava genotypes and three white-fleshed varieties (check samples) were planted at five different experimental fields for two seasons, each representing the major agroecological zones in Nigeria. Standard laboratory protocols were employed in the sampling to ensure zero contamination, and the trace and macro elements were determined using the inductively coupled plasma optical emission spectroscopic method (ICPOES). The trace and macro elements identified in all the genotypes and varieties investigated were Fe, Mn, B, Cu, Mo, Co, Ni, Zn, and Al; Ca, Mg, Na, K. P, and S respectively. Genotype and growing location had a highly significant (p < 0.05) effect on all the trace elements except Ti and Cr. However, there was no interactive effect between genotype and growing location on all the trace elements except for Pb and Zn. Among the explanatory variables, the variable growing location was the most influential on macro and trace elements. Conclusively, genotypes 01/1442 and 01/1273 have outstanding trace and macro element concentrations.
Fig. 1 in A tribute to Dr. Anthony C. Bellotti and his contributions to cassava entomology
Fig. 1. Dr. Anthony C. "Tony" Bellotti, 1937–2013. Photo courtesy of CIAT, Cali, Colombia.
AgMIP's Global Gridded Crop Model Intercomparison (GGCMI) phase 1 output data set: LPJ-GUESS cassava
<p>This is model output from LPJ-GUESS for cassava as part of AgMIP's Global Gridded Crop Model Intercomparison (GGCMI) phase 1 output data set.</p> <p>The data have been generated following the modeling protocol of Elliott et al. (2015) and has been used to evaluate the models (Müller et al., 2017). A data description paper has been published in Scientific Data (Müller et al. 2019).</p> <p>References:</p> <p>Elliott J, Müller C, Deryng D, Chryssanthacopoulos J, Boote KJ, Büchner M, Foster I, Glotter M, Heinke J, Iizumi T, Izaurralde RC, Mueller ND, Ray DK, Rosenzweig C, Ruane AC, and Sheffield J. 2015, The Global Gridded Crop Model intercomparison: data and modeling protocols for Phase 1 (v1.0). Geosci. Model Dev. 8, 261-277, doi:10.5194/gmd-8-261-2015</p> <p>Müller C, Elliott J, Chryssanthacopoulos J, Arneth A, Balkovic J, Ciais P, Deryng D, Folberth C, Glotter M, Hoek S, Iizumi T, Izaurralde RC, Jones C, Khabarov N, Lawrence P, Liu W, Olin S, Pugh TAM, Ray DK, Reddy A, Rosenzweig C, Ruane AC, Sakurai G, Schmid E, Skalsky R, Song CX, Wang X, de Wit A, and Yang H. 2017, Global gridded crop model evaluation: benchmarking, skills, deficiencies and implications, Geosci. Model Dev., 10, 1403-1422, doi: 10.5194/gmd-10-1403-2017</p> <p>Müller C, Elliott J, Kelly D, Arneth A, Balkovic J, Ciais P, Deryng D, Folberth C, Hoek S, Izaurralde RC, Jones CD, Khabarov N, Lawrence P, Liu W, Olin S, Pugh TAM, Reddy A, Rosenzweig C, Ruane AC, Sakurai G, Schmid E, Skalsky R, Wang X, de Wit A, and Yang H. 2019, The Global Gridded Crop Model Intercomparison phase 1 simulation dataset, Scientific Data, 6, 50, doi: 10.1038/s41597-019-0023-8</p>
AgMIP's Global Gridded Crop Model Intercomparison (GGCMI) phase 1 output data set: LPJmL cassava
<p>This is model output from LPJmL for cassava as part of AgMIP's Global Gridded Crop Model Intercomparison (GGCMI) phase 1 output data set.</p> <p>The data have been generated following the modeling protocol of Elliott et al. (2015) and has been used to evaluate the models (Müller et al., 2017). A data description paper has been published in Scientific Data (Müller et al. 2019).</p> <p>References:</p> <p>Elliott J, Müller C, Deryng D, Chryssanthacopoulos J, Boote KJ, Büchner M, Foster I, Glotter M, Heinke J, Iizumi T, Izaurralde RC, Mueller ND, Ray DK, Rosenzweig C, Ruane AC, and Sheffield J. 2015, The Global Gridded Crop Model intercomparison: data and modeling protocols for Phase 1 (v1.0). Geosci. Model Dev. 8, 261-277, doi:10.5194/gmd-8-261-2015</p> <p>Müller C, Elliott J, Chryssanthacopoulos J, Arneth A, Balkovic J, Ciais P, Deryng D, Folberth C, Glotter M, Hoek S, Iizumi T, Izaurralde RC, Jones C, Khabarov N, Lawrence P, Liu W, Olin S, Pugh TAM, Ray DK, Reddy A, Rosenzweig C, Ruane AC, Sakurai G, Schmid E, Skalsky R, Song CX, Wang X, de Wit A, and Yang H. 2017, Global gridded crop model evaluation: benchmarking, skills, deficiencies and implications, Geosci. Model Dev., 10, 1403-1422, doi: 10.5194/gmd-10-1403-2017</p> <p>Müller C, Elliott J, Kelly D, Arneth A, Balkovic J, Ciais P, Deryng D, Folberth C, Hoek S, Izaurralde RC, Jones CD, Khabarov N, Lawrence P, Liu W, Olin S, Pugh TAM, Reddy A, Rosenzweig C, Ruane AC, Sakurai G, Schmid E, Skalsky R, Wang X, de Wit A, and Yang H. 2019, The Global Gridded Crop Model Intercomparison phase 1 simulation dataset, Scientific Data, 6, 50, doi: 10.1038/s41597-019-0023-8</p>
Fig. 3. P in Occurrence of Bondar's Nesting Whitefly, Paraleyrodes bondari (Hemiptera: Aleyrodidae), on cassava in Uganda
Fig. 3. P. bondari adults underneath waxy mass on cassava leaf.
Fig. 2 in Occurrence of Bondar's Nesting Whitefly, Paraleyrodes bondari (Hemiptera: Aleyrodidae), on cassava in Uganda
Fig. 2. Waxy mass on the undersurface of cassava leaf due to P. bondari infestation.
Genome-wide comparison reveals large structural variants in the cassava landraces Authors
<p><span>Structural variants (SVs) are critical for plant genomic diversity and phenotypic variation. This study investigates a large, 9.7 Mbp highly repetitive segment on chromosome 12 of <em><span>TMEB117</span></em>, a region not previously characterized in cassava. We aim to explore its presence and variability across multiple cassava landraces, providing insights into its genomic significance and potential implications.</span></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.