Oryza sativa
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA291391 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Bacterial panicle blight caused by the bacterium Burkholderia glumae is an emerging disease of rice in the United States. Not much is known about this disease, the disease cycle or any source of disease resistance. To understand the interaction between rice and Burkholderia glumae, we used transcriptomics via next-generation sequencing (RNA-Seq) and bioinformatics to identify differentially expressed transcripts between resistant and susceptible interactions and formulate a model for rice resistance to the disease. There was a total of 36 tissue samples that included 2 rice genotypes (CL 151 and CL 161) à 2 treatment groups (water control and bacterium inoculated) à 3 time points à 3 biological replicates. Note: Samples in SRA were assigned the same sample accession. This is incorrect as there are different samples, hence âSource Nameâ was replaced with new values. Comment[ENA_SAMPLE] contains the original SRA sample accessions.
2012-09-18 | E-MTAB-4406 | biostudies-arrayexpress
Project description:Differential expression for rice-gall midge interaction
| PRJNA128459 | ENA
Project description:Fairy rings are zones of stimulated grass growth by the interaction between the fungi and the plant. In the previous research, we reported the identification of the “fairy”, 2-azahypoxanthine (AHX), produced by the fairy ring-forming fungus and the mechanism of its growth-promoting activity using DNA microarray. We discovered AOH, a common metabolite of AHX in plants. We investigate expression profiling of rice seedlings treated with AHX or AOH for the mechanism of their growth-promoting activity.
2014-01-01 | GSE38844 | GEO
Project description:Fairy rings are zones of stimulated grass growth by the interaction between the fungi and the plant. In the previous research, we reported the identification of the “fairy”, ICAproduced by the fairy ring-forming fungus and the mechanism of its growth-inhibiting activity using DNA microarray. We invetigate expression profiling of rice seedlings treated with ICA for the mechanism of its growth-inhibiting activity.
2019-07-26 | GSE100899 | GEO
Project description:Rice tungro disease is caused by the interaction between Rice tungro spherical virus (RTSV) and Rice tungro bacilliform virus. Infection with RTSV alone does not result in any distinctive symptoms in Taichung Native 1 (TN1) that is one of RTSV susceptive indica rice cultivar. To elucidate the basis of asymptomatic response of rice to RTSV at the gene expression level, global gene response in RTSV-infected TN1 was detected by custom microarray. Keywords: time course, virus infection, disease response
2009-12-07 | GSE16141 | GEO
Project description:Rice is one of the most important global food crops, and is also a model organism for cereal research 31 . Complete genome sequencing of rice, together with advances in transcriptomics and proteomics, has had a dramatic impact on plant growth and 5 breeding programs 32 . Genomic analysis of DNA methylation in rice has revealed methylation patterns associated with gene bodies and promoters, and the occurrence of high levels of DNA methylation in the centromeric domain 33 . A genome-wide investigation of acetylation in rice revealed that H3K9ac and H3K27ac are mainly enriched at transcription start sites associated with active transcription 34 . Furthermore, global proteome analysis has shown that phosphorylation and succinylation are involved in diverse cellular and metabolic processes 35, 36 . However, despite these considerable advances in our knowledge, additional large-scale analysis of the lysine acetylome in rice is expected to identify many more Kac sites and acetylated proteins in this improtant crop plant. In this study, affinity enrichment and high-resolution LC-MS/MS were used for large-scale analysis of the lysine acetylome in rice variety Nipponbare. In total, 1353 lysine acetylation sites were detected in 866 protein groups in rice seedlings. Proteomic analysis showed that Kac occurs in proteins involved in diverse biological processes with varied cellular functions and subcellular localization.
2017-11-13 | PXD004870 | Pride
Project description:Rice tungro disease is caused by the interaction between Rice tungro spherical virus (RTSV) and Rice tungro bacilliform virus. Infection with RTSV alone does not result in any distinctive symptoms in TW16 that is one of RTSV resistant indica rice. To elucidate the basis of asymptomatic response of rice to RTSV at the gene expression level, global gene response in RTSV-infected TN1 was detected by custom microarray. Keywords: time course, virus infection, disease response
2009-12-07 | GSE16140 | GEO
Project description:Fairy rings are zones of stimulated grass growth by the interaction between the fungi and the plant. In the previous research, we reported the identification of the M-bM-^@M-^\fairyM-bM-^@M-^], 2-azahypoxanthine (AHX), produced by the fairy ring-forming fungus and the mechanism of its growth-promoting activity using DNA microarray. We discovered AOH, a common metabolite of AHX in plants. We investigate expression profiling of rice seedlings treated with AHX or AOH for the mechanism of their growth-promoting activity. Three-condition experiment, control vs. AHX-treated rice (50 and 200 mM) and AOH-treated rice (50 and 200 mM).
2014-01-01 | E-GEOD-38844 | biostudies-arrayexpress
Project description:In this study, we analyzed the early response of two rice cultivars to infection by RSV (Rice stripe virus) and its carrier at the transcriptome level using next-generation deep-sequencing techniques. We investigated the alteration in gene expression between a disease-resistant cultivar and a susceptible cultivar before and after inoculation with RSV by co-culturing with Laodelphax striatellus for 48 h. Our study provides insight at the molecular level into the mechanism of development of rice stripe disease, which contributes to our understanding of the rice-RSV interaction.
2013-08-21 | E-MTAB-4392 | biostudies-arrayexpress
Project description:To understand the dynamics and global gene reprogramming in the early response to mechanical wounding in rice, the transcriptional response to mechanical injury was analyzed. A time-course experiment revealed the highly dynamic nature of the wound response in rice. Mechanical wounding triggered extensive gene expression reprogramming in the locally wounded leaf, affecting various physiological processes, including defense mechanisms and potentially tissue repair and regeneration. The rice response to mechanical wounding displayed both differences and similarities compared to the response to jasmonate treatment. These results highlight the importance of early JA signaling in response to mechanical stress in rice. This analysis provides an overview of the global transcriptional response to mechanical stress in rice, offering valuable insights for future studies on rice's response to injury, insect attack, and abiotic stresses.
2024-10-21 | GSE279814 | GEO