Ontology highlight
ABSTRACT:
PROVIDER: PRJNA780344 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR16944214_1.fastq.gz | Fastqsanger.gz | |||
| SRR16944214_2.fastq.gz | Fastqsanger.gz | |||
| SRR16944215_1.fastq.gz | Fastqsanger.gz | |||
| SRR16944215_2.fastq.gz | Fastqsanger.gz | |||
| SRR16944216_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 36 |
Similar Datasets
Project description:To obtain better insight into the underlying mechanism of melatonin in switchgrass growth, flowering and defence, we performed proteomics analyses between transgenic lines overexpressing melatonin biosynthesis genes and transgenic control (expressing only the empty vector) plants.
2021-10-12 | PXD029065 |
Project description:Transcriptome Analysis of Wild Type and Histone H1.2(MeH1.2) Transgenic Plants by RNA-seq in Cassava.The goal of this study was to compare the phenotypic and transcriptome differences between transgenic and WT plants, and to analyze how overexpression of MeH1.2 gene changed the expression patterns. MeH1.2 overexpressed transgenic cassava plant (HOE) were was made. The 2-month-old seedlings of HOE were significantly smaller and weaker than of the wild type (WT) under Murashige and Skoog (MS) medium, while, the leave leaf became yellow senescence and the number of branch root increased significantly in HOE than in WT. We found a total of 1670 down-regulated differentially expressed genes (DEGs) and 891 up-regulated DEGs in HOE leave of 2-months-old bottled seedling as indicated by RNA-seq. Many of DEGs were associated with growth metabolism and stress response, such as different amino acids metabolic genes, wound-responsive family genes and peroxidase superfamily genes. We hypothesized the overexpression of MeH1.2 may be similar to mild abiotic stress to retard the growth of HOE, the increased proline content and root-shoot ratio of HOE also support the hypothesis.
2020-07-24 | GSE154948 | GEO
Project description:Soil-borne microbes can establish compatible relationships with host plants, providing a large variety of nutritive and protective compounds in exchange for photosynthesized sugars. However, the molecular mechanisms mediating the establishment of these beneficial relationships remain unclear. Our previous genetic mapping and whole-genome resequencing studies identified a gene deletion event of a Populus trichocarpa lectin receptor-like kinase gene PtLecRLK1 in Populus deltoides that was associated with poor root colonization by the ectomycorrhizal fungus Laccaria bicolor. By introducing PtLecRLK1 into a perennial grass known to be a non-host of L. bicolor, switchgrass (Panicum virgatum L.), we found that L. bicolor colonizes ZmUbipro-PtLecRLK1 transgenic switchgrass roots, which illustrates that the introduction of PtLecRLK1 has the potential to convert a non-host to a host of L. bicolor. Furthermore, transcriptomic and proteomic analyses on inoculated transgenic switchgrass roots revealed genes/proteins overrepresented in the compatible interaction and underrepresented in the pathogenic defense pathway, consistent with the view that pathogenic defense response is downregulated during compatible interaction. Metabolomic profiling revealed that root colonization in the transgenic switchgrass was associated with an increase in N-containing metabolites and a decrease in organic acids, sugars, and aromatic hydroxycinnamate conjugates, which are often seen in the early steps of establishing compatible interactions. These studies illustrate that PtLecRLK1 is able to render a plant susceptible to colonization by the ectomycorrhizal fungus L. bicolor and shed light on engineering mycorrhizal symbiosis into a non-host to enhance plant productivity and fitness on marginal lands.
2021-08-11 | MTBLS2597 | MetaboLights
Project description:The combined heat and drought stress influence the plant growth and development. Switchgrass is an economically important crop due to the availability of high biomass with little water and nutrient requirements. Earlier reports suggested that switchgrass growth and yield highly influenced by heat and drought. The mechanism behind heat and drought stress is not fully understood in switchgrass. This study has undertaken to analyze the epigenetic modification using ChIP-Seq analysis with the activation histone mark H3K4me3. Conclusion: Our study provides the first epigenomic analysis of heat and drought response in switchgrass. This comprehensive resource will provide other epigenomic regulated information in non-model plant species.
2023-07-23 | GSE196295 | GEO
Project description:gnp07_regeneome_cuc2 - cuc2 - CUC2 is expressed in meristem. It permits to create organs boundaries. It is also expressed in leave margins. Is there a mecanism meristem like in leave margins? - To compare wt and cuc2 leaf margins. And compare teeth and hollow inside the arabidopsis leaf margin.
2012-06-01 | GSE30260 | GEO
Project description:gnp07_regeneome_cuc2 - cuc2 - CUC2 is expressed in meristem. It permits to create organs boundaries. It is also expressed in leave margins. Is there a mecanism meristem like in leave margins? - To compare wt and cuc2 leaf margins. And compare teeth and hollow inside the arabidopsis leaf margin. 8 dye-swap - tissue comparison,wt vs mutant comparison
2012-05-31 | E-GEOD-30260 | biostudies-arrayexpress
Project description:The most effective method of micro-propagation for clonal replicates for switchgrass seed production is from the axillary buds of the lower nodes. We hypothesized that buds and nodes from low and high tillering lines from an inbred population will aid in identifying genes important for the different tillering habits of these plants. Since tiller number is directly correlated with biomass yields, identifying genes associated with high tillering trait will provide valuable biomarkers for marker-assisted selection and for QTL mapping of tillering trait in switchgrass. First-generation switchgrass inbred lines derived from selfing a parental genotype M-^QNL94 LYE 16x13M-^R, which was selected from the Oklahoma State University northern lowland breeding population in 2007 was used in this study. The NL94/298 inbred line produced fewer tillers than NL94/145. Stems of the high tillering line had 2-3 phytomers, while the low tillering line had 1-2 phytomers. Eight other inbred lines from this population that showed similar phenotypes as NL94/145 or NL94/298 and similar genotypes based on 380 genomic SSR marker profiles were selected for this study. Individual stems from these nine lines each for high and low tillering habit were harvested from field growing plants in the Agronomy field plots, Stillwater. Vegetative buds from first phytomer and node regions from second phytomer were cut out using a sharp scalpel under a dissection scope and immediately frozen in liquid nitrogen for transcriptomics analysis.
2014-01-14 | E-MTAB-1899 | biostudies-arrayexpress
Project description:Purpose: Increasing biomass yield and quality of feedstock have been a recent interest in switchgrass research. Despite the economic importance of switchgrass, increasing temperature and water deficit are limiting factors to the cultivation of bioenergy crops in the semi-arid areas. The effect of individual drought or heat stress has been studied separately in switchgrass. However, there is relatively limited or no report on the molecular basis of combined abiotic stress tolerance in switchgrass particularly the combination of drought and heat stress. We used RNA-Seq approaches to elucidate the transcriptome changes of switchgrass in response to drought and high temperatures simultaneously. Method: We conducted solely drought treatment in switchgrass plant Alamo AP13 by withholding water after 45 days of growing. For the combination of drought and heat effect, heat treatment (35 °C/25 °C day/night) was imposed after 72 h of the initiation of drought. Samples were collected at 0 h, 72 h, 96 h, 120 h, 144 h, and 168 h after treatment imposition, total RNA was extracted, and RNA-Seq conducted. Results:Out of total 32,190 genes, we identified 3,912, as DT responsive genes, 2,339 and 4,635 as , heat (HT) and drought and heat (DTHT) responsive genes, respectively. There were 209, 106, and 220 transcription factors (TFs) differentially expressed under DT, HT and DTHT respectively Conclusion: Through RNA-Seq analysis, we have identified unique and overlapping genes in response to DT and combined DTHT stress in switchgrass. The combination of DT and HT stress may affect the photosynthetic machinery and phenylpropanoid pathway of switchgrass which negatively impacts lignin synthesis and biomass production of switchgrass. The biological function of genes identified particularly in response to DTHT stress could further be confirmed by techniques such as single point mutation or RNAi.
2022-03-31 | GSE174278 | GEO