Ontology highlight
ABSTRACT:
PROVIDER: PRJNA433298 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR6679260_1.fastq.gz | Fastqsanger.gz | |||
| SRR6679260_2.fastq.gz | Fastqsanger.gz | |||
| SRR6679270_1.fastq.gz | Fastqsanger.gz | |||
| SRR6679270_2.fastq.gz | Fastqsanger.gz | |||
| SRR6679261_1.fastq.gz | Fastqsanger.gz |
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Project description:Plant growth regulators (PGRs) were commonly used in practical farming to restrict plant height and control lodging. Ethephon has been reported to shorten the internodes elongation and increase the harvestable grain yield of maize. In the present study, we characterized that internodes phenotypic responses to ethephon treatment induced should due to ethylene released inhibited the longitudinal growth of cells and promoted its the lateral growth. We used microarrays to detail the global programme of gene differentially expression underlying maize and identified distinct classes of up or down-regulated genes during this process.
2017-01-01 | GSE56062 | GEO
Project description:Despite the economic importance of grasses as food, feed and energy crops, little is known about the genes that control their cell wall synthesis, assembly and remodelling. Here we provide a detailed transcriptome analysis that allowed the identification of genes involved in grass cell wall biogenesis. Differential gene-expression profiling, using maize oligonucleotide arrays, was used to identify genes differentially expressed between an elongating internode, containing cells exhibiting primary cell wall synthesis, and an internode that had just ceased elongation and in which many cells were depositing secondary cell wall material. This is one of only few studies specifically aimed at the identification of cell wall-related genes in grasses. Analysis identified new candidate genes for a role in primary and secondary cell wall-related processes in grasses. The results suggest that many proteins involved in cell wall-related processes during normal development are also recruited during defence-related cell wall remodelling events. The data presented provide a platform for future studies in which candidate genes can be tested for involvement in cell wall processes through forward and reverse genetic-based approaches, contributing towards a better understanding of cell wall biogenesis and its regulation in grasses. The experiment consisted of six biological replicates (internode 9 and internode 13 were harvested from six maize plants). Dye-swaps were performed (in 3 slides, internode 9 RNA was labelled with Cy3 and internode 13 RNA was labelled with Cy5; in 3 other slides, internode 13 RNA was labelled with Cy3 and internode 9 RNA was labelled with Cy5).
2011-03-06 | E-GEOD-24014 | biostudies-arrayexpress
Project description:The reduced plant height and enlarged leaf angle of Sdw3 are mainly attributed to a reduction in longitudinal cell elongation in the internode and an increase in the auricle. To investigate the transcriptome changes during internode and auricle development in Sdw3 versus N18, we performed RNA sequencing analysis.
2020-07-08 | GSE127448 | GEO
Project description:Background. Carbon allocation between vegetative and reproductive tissues impacts cereal grain production. Despite their great agricultural importance, sink-source relationships have not been fully characterized at early reproductive stages in maize. Here we quantify the accumulation of non-structural carbohydrates and patterns of gene expression in the top internode of the stem and the female inflorescence of maize at the onset of grain filling (reproductive stage R1). Methods. Top internode stem and female inflorescence tissues of the Puma maize inbred line were collected at reproductive stage R1 (without pollination). The accumulation of non-structural carbohydrates was quantified by spectrophotometry. Global gene expression was evaluated in both tissues by RNA sequencing. Results. At reproductive stage R1, the maize female inflorescence accumulates non-structural carbohydrates, notably starch, at higher levels than the top internode of the stem. Gene expression analysis identified 491 genes to be differentially expressed between the female inflorescence and the stem top internode. Gene ontology classification of differentially expressed genes showed enrichment for sucrose synthesis, the light-dependent reactions of photosynthesis, and transmembrane transporters. Our results suggest that sugar transporters play a key role in sugar partitioning in the maize stem and reveal previously uncharacterized differences between the female inflorescence and the top internode of the stem at early reproductive stages.
2021-09-11 | GSE181998 | GEO
Project description:The length of internodes is critical in determining the height of the castor plant (Ricinus communis L.), and is closely associated with internode elongation. However, the exact mechanisms underlying internode elongation, particularly in the main stem of the castor plant, remain uncertain. To investigate further, we conducted a study using the dwarf castor variety 071113, comparing it with the homologous high-stalk Zhuansihao as a control. Our research included cytological observation, physiological measurement, transcriptome sequencing, and metabolic determination. By integrating these findings, we discovered that the dwarf 071113 undergoes earlier main stem lignification development and has a more active lignin synthesis pathway in internode intermediate development. The plant hormone IAA also plays a role in this process. Furthermore, potential enzymes and regulators have been identified, including the auxin influx carrier AUX1 LAX, auxin response protein IAA13, ARF3, auxin-responsive protein SAUR50, peroxidase, and EXPs that regulate cell cycle, cell wall synthesis, as well as growth and development, were also. Based on these findings, we developed a model for castor internode elongation and gained a better understanding of the dwarfing mechanism of the 071113 variety. Our work lays a theoretical foundation for the future breeding of dwarf castor varieties.
2024-01-31 | GSE242985 | GEO
Project description:Plant height is a critical constituent of plant architecture. Rice (Oryza sativa) plants have the potential to undergo rapid internodal elongation, which determines plant height. A number of physiological studies have proved that gibberellin is involved in internode elongation. Leucine-rich repeat receptor-like kinases (LRR-RLKs) are the largest subfamily of transmembrane receptor-like kinases in plants. Plant LRR-RLKs play important functions in mediating a variety of cellular processes and regulating responses to environmental signals. LRK1, a PSK receptor homolog, is a member of the LRR-RLK family. In the present study, differences in ectopic expression of LRK1 were consistent with extent of rice internode elongation. Analyses of gene expression demonstrated that LRK1 restricts gibberellin responsiveness during the internode elongation process by down-regulation of the gibberellin biosynthetic gene, ent-KAURENE OXIDASE (OsKO2).
2012-02-12 | GSE35729 | GEO
Project description:Plant height is a critical constituent of plant architecture. Rice (Oryza sativa) plants have the potential to undergo rapid internodal elongation, which determines plant height. A number of physiological studies have proved that gibberellin is involved in internode elongation. Leucine-rich repeat receptor-like kinases (LRR-RLKs) are the largest subfamily of transmembrane receptor-like kinases in plants. Plant LRR-RLKs play important functions in mediating a variety of cellular processes and regulating responses to environmental signals. LRK1, a PSK receptor homolog, is a member of the LRR-RLK family. In the present study, differences in ectopic expression of LRK1 were consistent with extent of rice internode elongation. Analyses of gene expression demonstrated that LRK1 restricts gibberellin responsiveness during the internode elongation process by down-regulation of the gibberellin biosynthetic gene, ent-KAURENE OXIDASE (OsKO2). Leaf tissues of 6-week-old LRK1 060615 transgenic rice and control 9311 rice (10 plants each) were selected.
2012-02-12 | E-GEOD-35729 | biostudies-arrayexpress
Project description:Stem internodes of grasses function in mechanical support, transport, and, in some species are a major sink organ for carbon in the form of cell wall polymers. To establish the rice elongating internode as a model for secondary cell wall development, we conducted cell wall composition, proteomic and metabolomic analyses of the second rice internode at booting stage. We measured major secondary cell wall components along eight segments of an elongating internode. Cellulose, lignin, and xylose increase as a percentage of cell wall material from the younger to the older internode segments, indicating active cell wall synthesis. With the whole elongating internode, we measured peptides via liquid-chromatography mass spectrometry (LC-MS) following trypsin digestion of size fractionated proteins. This identified a total of 3249 protein groups with at least two unique peptides, including many glycosyltransferases, acyltransferases, glycohyrolases, cell wall-localized proteins, and protein kinases that have or may have functions in cell wall biosynthesis or remodeling. In addition, GO over-representation analysis and KO pathway analysis indicate many proteins involved in biosynthetic processes, especially the synthesis of secondary metabolites such as phenylpropanoids, flavonoids, and tepenoids. Therefore, we also used LC-MS to measure methanol-extracted secondary metabolites from the whole internode at the elongation stage and three post-elongation stages, and from leaf and root at the second post-elongation stage. The results indicate secondary metabolites in stems are distinct from those of roots and leaves, and show different profiles during stem development. This study fills a void of knowledge of proteomics and metabolomics data for grass stems, especially of rice, and provides baseline knowledge for more detailed studies of cell wall synthesis and other biological processes during internode development. This and future work is aimed at optimizing stem development and cell wall composition of grasses to improve agronomic properties and biofuel production.
2017-08-04 | PXD003676 | Pride