Ontology highlight
ABSTRACT:
PROVIDER: PRJNA830822 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR18888552_1.fastq.gz | Fastqsanger.gz | |||
| SRR18888552_2.fastq.gz | Fastqsanger.gz | |||
| SRR18888553_1.fastq.gz | Fastqsanger.gz | |||
| SRR18888553_2.fastq.gz | Fastqsanger.gz | |||
| SRR18888554_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 12 |
Similar Datasets
Project description:Chemotyping dataset of n-butanol peptide extract of Solanum tuberosum ('Red potato') tuber sprout
2018-06-29 | MSV000082529 | MassIVE
Project description:Recent advances have defined some of the components of photoperiodic signalling that lead to tuberisation in potato including orthologues of FLOWERING LOCUS T (StSP6A) and CYCLING DOF FACTOR (StCDF1). The aim of the current study is to investigate the molecular basis of permissive tuber initiation under long days in Solanum tuberosum Neo-Tuberosum by comparative analysis with an obligate short day Solanum tuberosum ssp. Andigena accession. We show that the Neo-Tuberosum accession, but not the Andigena, contains alleles that encode StCDF1 proteins modified in the C-terminal region, likely to evade long day inhibition of StSP6A expression. We also identify an allele of StSP6A from the Neo-Tuberosum accession, absent in the Andigena, which is expressed under long days. Other leaf transcripts and metabolites that show different abundances in tuberising and non-tuberising samples were identified adding detail to tuberisation-associated processes. Overall, the data presented in this study highlight the subtle interplay between components of the clock-CONSTANS-StSP6A axis which collectively may interact to fine-tune the timing of tuberisation.
2013-11-01 | E-MTAB-1799 | biostudies-arrayexpress
Project description:Potato (Solanum tuberosum L) is a natural host of Potato spindle tuber viroid (PSTVd) which can cause characteristic symptoms on developing plants including stunting phenotype and distortion of leaves and tubers. PSTVd is the type species of the family Pospiviroidae, it can replicate in the nucleus and the viroid RNA moves systemically in infected plants. Its KF440-2 strain can cause severe symptoms in potato. It is not well understood how the viroid can affect host genes for successful invasion and which genes show altered expression levels upon infection. In this study, we used a high-scale method to identify differentially expressed genes in potato. We have identified defence, stress and sugar metabolism related genes having altered expression levels upon infection. Additionally, hormone pathways connected genes showed up- or down-regulation. Our primary focus is on the identification of genes which can affect tuber formation as the viroid infection can strongly influence tuber development, especially tuber shape is affected. DWARF1/DIMINUTO, Gibberellin 7-oxidase and BEL5 protein were identified and validated which showed differential expression in viroid infected tissues suggesting that gibberellin and brassinosteroid pathways have a possible role in tuber development upon PSTVd infection.
2016-02-01 | E-MTAB-3869 | biostudies-arrayexpress
Project description:Chemotyping dataset of n-butanol peptide extract of Solanum tuberosum ('Red potato') tuber sprout
2018-06-29 | MSV000082529 | GNPS
Project description:Solanum tuberosum tuber response to Phytophthora infestans
2013-06-01 | E-MTAB-4301 | biostudies-arrayexpress
Project description:Tuber bruising in tetraploid potatoes (Solanum tuberosum) is a trait of economical importance, as it affects tubers' fitness for sale. Understanding the genetic components affecting tuber bruising is a key step in developing potato lines with increased resistance to bruising. As the tetraploid setting renders genetic analyses more complex, there is still a lot to learn about this complex phenotype. Here, we used genotype by sequencing data on a panel of half-sibling populations from a breeding programme to perform a genome-wide association analysis for tuber bruising. In addition, we collected transcriptomics data to enrich the GWAS results, by performing a differential expression analysis between samples with high- and low-bruising susceptibility.
2022-11-29 | GSE208439 | GEO
Project description:Chemotyping dataset of n-butanol peptide extract of Solanum tuberosum ('Russett') tuber sprout
2018-06-29 | MSV000082530 | MassIVE
Project description:The intent was to study, from transcriptome analysis, shade and drought responses in Solanum tuberosum (potato). We performed Illumina 50 bp single-end RNA-seq in tissues of control and treated var. Spunta wild-type plants. Drought experiments also included two independent AtBBX21-overexpressing (BBX21-OE) potato lines.
2023-07-12 | E-MTAB-12771 | biostudies-arrayexpress
Project description:Summary StSP6A is a protein with sequence homology to the Arabidopsis FLOWERING LOCUS T (FT). FT is a main component of the long range flowering promoting signal or florigen that induces photoperiodic flowering under long days (LDs). In potato, short days (SDs) promote tuber induction, and wild subspecies like Solanum tuberosum ssp andigena (wild type line 7540) are strictly dependent on SDs to tuberize. StSP6A transcription is induced in leaves and stolons at early stages upon transfer to SD inductive conditions, priotr to visible solon swelling. Transgenic andigena lines over-expressing the StSP6A gene under the control of the 35S promoter are able to tuberize under LD non-inductive conditions, whereas silencing of this gene by means of an specific RNAi construct are strongly delayed in tuber induction in SD inductive conditions. This data indicate that StSP6A plays a central role in the control of tuber induction.
2011-10-06 | GSE31178 | GEO
Project description:GIGANTEA (GI) is a plant-specific, circadian clock-regulated, nuclear protein with pleiotropic functions studied in many plant species. It is involved in flowering, circadian clock control, chloroplast biogenesis, carbohydrate metabolism, stress responses and synthesis of volatiles. In potato (Solanum tuberosum L.), however, only its role in tuber initiation is reported. Based on the findings in other plant species we hypothesized that the function of GI is not restricted to tuberization in potato. To test this hypothesis we repressed the expression of a GI gene, StGI.04 in the commercial potato cultivar ‘Désirée’ and investigated the effect of repression at morphological and transcriptome level. We found that, like GI in other plant species, StGI.04 influences the expression of the key genes of circadian clock, flowering, starch synthesis and stress responses. Furthermore, we detected a novel function of a GI gene in influencing the anthocyanin synthesis and skin colour of potato tubers.
2022-03-30 | GSE189956 | GEO