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24 results for “potato - Solanum tuberosum”
Investigating the Utility of Potato (Solanum tuberosum L.) Canopy Temperature and Leaf Greenness Responses to Water-Restriction for the Improvement of Irrigation Management Data
<p><span>Traits that rapidly respond to stress in important agricultural crops have the potential to provide growers with actionable feedback. E.g., traits that respond to water-restriction could inform irrigation systems by identifying crop water status and requirements in real-time. This would be particularly useful for potato, which is extremely susceptible to drought. We conducted two pot experiments and one field experiment to evaluate the utility of two traits, canopy temperature and leaf greenness, for informing irrigation management in potatoes. We also evaluated the efficacy of Phenospex PlantEye F500 sensors for the remote sensing of leaf greenness. We found that canopy temperatures of the cvs. Maris Piper (Spring Pot Experiment, +0.8°C; Autumn Pot Experiment, +5.3°C) and Désirée (Autumn Pot Experiment, +2.5°C) increased with water-restriction and that the canopy temperatures of Maris Piper return to baseline within three days after the resumption of well-watered conditions. We also found that these responses varied between cultivars, with predictable outcomes based on reported and corroborated drought tolerance ratings. We found inconclusive evidence of leaf greenness increasing due to water-restriction (Spring Pot Experiment, +0.8°C; Autumn Pot Experiment, +5.3°C) and found no evidence that post-drought recovery periods return this trait to baseline. However, leaf greenness measurements from the Phenospex PlantEye F500 were moderately to strongly correlated with SPAD values, suggesting this tool might be useful in the screening of drought-tolerant cultivars in the future.</span></p>
Effects of Fertigation Treatment Using a Subsurface Drip System on Spring Potato (Solanum Tuberosum L.) Growth and Yield
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Fig. 4 in Transcriptomic analysis of wound-healing in Solanum tuberosum (potato) tubers: Evidence for a stepwise induction of suberin-associated genes
Fig. 4. Transcript accumulation of genes associated with wound induced suberization. Transcript accumulation of known and putative genes encoding steps in suberin biosynthesis, from starch degradation to final assembly, over the wound-healing time course were retrieved from RNA-seq data. Heatmaps depict log2FPKM means for n = 3 biological replicates for each time point. Numbered pathway steps correspond to numbers in the suberin roadmap (Supplemental Fig. S4). Fumarase (step 63) is included as a step in the TCA pathway, but is shown in grey because its sequence did not have a corresponding PGSC gene identification number, and therefore transcript abundance could not be estimated in this study.
Fig. 6 in Transcriptomic analysis of wound-healing in Solanum tuberosum (potato) tubers: Evidence for a stepwise induction of suberin-associated genes
Fig. 6. Transcript accumulation of wound-induced CASP and GDSL genes. Transcript accumulation of known and putative CASP and GDSL genes, over the wound-healing time course were retrieved from RNA-seq data. Heatmaps depict log2FPKM means for n = 3 biological replicates for each time point.
Fig. 3. Network modules for suberin-associated metabolism genes. Expression profiles for 317 in Transcriptomic analysis of wound-healing in Solanum tuberosum (potato) tubers: Evidence for a stepwise induction of suberin-associated genes
Fig. 3. Network modules for suberin-associated metabolism genes. Expression profiles for 317 wound-induced and suberin-associated genes encompassing primary carbohydrate metabolism and the formation of suberin phenolic and aliphatic monomers were subjected to WGCNA. Genes belonging to carbohydrate (C), tricarboxylic acid cycle (TCA), shikimate pathway (S), phenolic metabolism (P), phenolic assembly (PA), fatty acid biosynthesis (FAB), fatty acid modification (FAM) and aliphatic assembly (AA) are colour-coded (see legend). (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)
Fig. 2 in Transcriptomic analysis of wound-healing in Solanum tuberosum (potato) tubers: Evidence for a stepwise induction of suberin-associated genes
Fig. 2. Gene set enrichment analysis (GSEA) of biological processes across differentially expressed genes (DEGs). Time point comparison panels represent a union parametric analysis of gene set enrichment (PAGE) of biological process (BP) categorized gene ontology (GO) terms. Nodes represent gene sets and their size represents a range from 5 to 464 genes, and edges show overlapping genes between sets, with width representing ranges from 5 to 149 genes. Blue sets are downregulated, red are up-regulated, and grey nodes denote terms that were not detected as significantly differentially regulated (i.e. enriched) at that time point comparison. Labels denote assigned node numbers that correspond to Table 1 with associated GO ID, GO term and regulation overview. (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)
Fig. 1 in Transcriptomic analysis of wound-healing in Solanum tuberosum (potato) tubers: Evidence for a stepwise induction of suberin-associated genes
Fig. 1. Global overview of the wound-healing transcriptome. A. Principle component analysis (PCA) of RNA-seq libraries. Colours represent biological replicate libraries generated from the same time point (gene log2FPKM space with scaling). B. Differentially expressed genes (DEGs) across time point comparisons. Genes were considered significantly up- or down-regulated if they met p ≤ 0.01 and |log2 (fold change)| (| LFC|) ≥ 2 significance cut-offs. Lists of significantly DEGs were generated using voom by applying these parameters with the Benjamini-Hochberg procedure to TMM-normalized HT-Seq count data. C. Venn diagram of DEGs significantly up- (red) or down-regulated (blue) over the wound-healing time course. Genes were considered significantly up- or down-regulated if they met p ≤ 0.01 and |LFC| ≥ 2 significance cut-offs. Lists of significantly DEGs were generated using voom by applying these parameters with the Benjamini-Hochberg procedure to TMM-normalized HT-Seq count data. (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)
Fig. 5 in Transcriptomic analysis of wound-healing in Solanum tuberosum (potato) tubers: Evidence for a stepwise induction of suberin-associated genes
Fig. 5. Transcript accumulation of genes associated with wound induced ABA biosynthesis and degradation. Transcript accumulation of known and putative genes encoding steps in ABA biosynthesis and degradation, over the wound-healing time course were retrieved from RNA-seq data. Heatmaps depict log2FPKM means for n = 3 biological replicates for each time point. Numbered pathway steps correspond to numbers in the ABA metabolism pathway (Supplemental Fig. 6).
Fig. 7 in Transcriptomic analysis of wound-healing in Solanum tuberosum (potato) tubers: Evidence for a stepwise induction of suberin-associated genes
Fig. 7. RT-qPCR validation of select wound-induced genes. Gene expression values for 14 genes from RT-qPCR (ΔΔCq) and RNA-seq (CPM) analyses were normalized to 0 dpw values, then log2-transformed to generate log2 (foldchange) values. Pearson's correlation coefficients were calculated for log2 (foldchange) values from the two experimental procedures, with α = 0.05 (Supplemental Table 9). The 95% confidence interval was calculated and plotted as 95% confidence bands.
Transcriptome profiling of potato (Solanum tuberosum L.) responses to root-knot nematode (Meloidogyne javanica) infection during a compatible interaction
<p>Supplementary data</p>
Data from: Investigating human repeatability of a computer vision based task to identify meristems on a potato plant (Solanum tuberosum)
<p>Labelled training data in artificial intelligence (AI) is used to teach so-called 'supervised learning models'. However, such data may contain error or bias, which can impact model prediction accuracy. Thus, obtaining accurate training data is of high importance. In applications of AI, such as in classification and detection problems, raw training data is not always made available in published research. Likewise, the process of obtaining labelled data is not always documented well enough to enable reproducibility. This training data set captures a repeatability exercise in AI training data collection for a task that is difficult for humans to perform, delineating a bounding box in a two-dimensional image of a growing apical meristem in potato plants.</p>
Data from: Investigating human repeatability of a computer vision based task to identify meristems on a potato plant (Solanum tuberosum)
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RNA-Seq of allotetraploid wild potato Solanum acaule and autotetraploid potato Solanum tuberosum cv. Atlantic
GEO Series GSE268611. Solanum tuberosum; Solanum acaule. 12 samples. Type: Expression profiling by high throughput sequencing.
Light spectrum modulates stress and defense gene expression in potato (Solanum tuberosum L.) shoot tips during post-cryopreservation recovery
GEO Series GSE262492. Solanum tuberosum. 12 samples. Type: Expression profiling by high throughput sequencing.
Identification and characterization of miRNAome in root, stem, leaf and tuber developmental stages of potato (Solanum tuberosum L.) by high-throughput sequencing
GEO Series GSE52599. Solanum tuberosum. 7 samples. Type: Non-coding RNA profiling by high throughput sequencing.
mRNA transcription profile of potato (Solanum tuberosum L.) in response to explant cutting
GEO Series GSE123037. Solanum tuberosum. 2 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome Analyses Reveal Molecular Responses of Three Potato (Solanum tuberosum L.) Cultivars to Cold Stress
GEO Series GSE291340. Solanum tuberosum. 6 samples. Type: Expression profiling by high throughput sequencing.
The nitrogen responsive transcriptome in potato (Solanum tuberosum L.) reveals significant gene regulatory motifs
GEO Series GSE75926. Solanum tuberosum. 48 samples. Type: Expression profiling by high throughput sequencing.
mRNA transcription profile of potato (Solanum tuberosum L.) exposed to ultrasound during different stages of in vitro plantlet development
GEO Series GSE123176. Solanum tuberosum. 10 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome profiles of contrasting potato (Solanum tuberosum L.) genotypes under water stress
GEO Series GSE140083. Solanum tuberosum. 24 samples. Type: Expression profiling by high throughput sequencing.
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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.