Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: The transcriptome of KJ201-infected rice, MoHTR1 deletion mutant-infected rice, and NLS deletion mutant-infected rice

PROVIDER: PRJNA1103247 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28775230_1.fastq.gz	Fastqsanger.gz
	SRR28775230_2.fastq.gz	Fastqsanger.gz
	SRR28775231_1.fastq.gz	Fastqsanger.gz
	SRR28775231_2.fastq.gz	Fastqsanger.gz
	SRR28775232_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Regulation of gene expression during formation of nodule-like structures (NLS) in rice roots

Project description:Several studies have shown that plant hormones play key roles during legume-rhizobia symbiosis. For instance, auxins can induce formation of nodule-like structures (NLS) on legume roots in the absence of rhizobia. Furthermore, these NLS can be colonized by nitrogen-fixing bacteria, which favor nitrogen fixation compared to regular roots and subsequently increase plant yield. Interestingly, auxin also induces similar NLS in cereal roots. While several genetic studies have identified plant genes controlling NLS formation in legumes, no studies have investigated the genes involved in NLS formation in cereals. In this study, we performed a comprehensive RNA sequencing experiment to identify genes differentially expressed during NLS formation in rice at different stages and identified several promising genes for control of NLS based on their biological and molecular functions.

2019-01-01 | GSE92835 | GEO

Project description:To compare the transcriptome of NPB-KJ201 and Pizt-KJ201

| PRJNA637691 | ENA

Dual RNA-seq of Xanthomonas oryzae pv. oryzicola infecting rice

Project description:In this study, using a novel dual RNA-seq approach we monitored the global transcriptional changes in real time of Xanthomonas oryzae pv. oryzicola and rice during infection. Our transcriptome maps of Xoc strains infecting rice provide mechanistic insights into the bacterias adaptive responses to the host niche, with modulation of central metabolism being an important signature. The study also uncovers that infected rice responds by substantial alteration of the cell wall, stress and structural proteins.

2019-03-29 | GSE126994 | GEO

RNA-Sequencing of 2,4-D treated Brachypodium distachyon roots containing NLS

Project description:In this study we treated Brachypodium distachyon roots with synthetic auxin, 2,4-D, to induce nodule-like structures (NLS) and performed RNA-seq to assess transcriptome changes during NLS formation.

2018-04-22 | GSE97940 | GEO

Mesangiospermae

Project description:Striga infected rice transcriptome

| PRJDB3897 | ENA

Transcription profiling of rice plants infected by rice blast fungus

Project description:To investigate plant-fungus interactions in early stage of infection, we analyzed response of rice against Magnaporthe grisea infection deficient mutants. In M. grisea, Mgb1 and Mst12 are essential for development of infection structures. Deletion of MGB1 results in defect in appresorium formation, and MST12, in penetration peg development. Analysis of gene expression profiles in rice by microarray revealed the mutant-specific and R gene dependent gene expression, strongly suggesting that gene-for-gene interaction commences before the penetration into rice cell. Experiment Overall Design: Agilent rice oligo microarray was used to investigate the gene expression profiling in rice plants infected with Guy11, Mgb1 and Mst12. Total RNAs were isolated from fourth leaves at 24 and 48 hpi. Agilent rice DNA chips were used according to the manufactureâs protocol. After hybridization, arrays were scanned using an Agilent Microarray Scanner, and Feature Extraction version 9.1 was used for image analysis and data extraction. Signal intensities derived from inoculated leaved were compared with that of mock-inoculated leaves. In each treatment, the experiment was performed independently three times.

2008-06-16 | E-GEOD-9450 | biostudies-arrayexpress

RNAseq analyses of pathogenic Burkholderia glumae under in vitro and in vivo conditions

Project description:We analyzed B. glumae transcriptome from infected rice tissue using an RNAseq technique. To identify unique expression of B. glumae genes within rice tissues, we compared in vivo transcriptome data of B. glumae to in vitro data. To accomplish this, we analyzed differentially expressed genes (DEGs) and identified 2,906 transcripts that were significantly altered.

2014-08-21 | GSE56958 | GEO

Effect of overexpression of the rice WRKY transcription factor OsWRKY53 or its phospho-mimicking mutant on rice leaves 48 h after either mock treatment or the rice blast fungus Magnaporthe Oryzae infection

Project description:Analysis of transgenic rice plants overexpressing the rice WRKY transcription factor OsWRKY53 or its phospho-mimicking mutant (OsWRKY53SD). Results provide insight into the roles of OsWRKY53 and its phosphorylation in the basal defense signaling against the rice blast fungus. Expression profiling in wild-type, OsWRKY53- or its phospho-mimicking mutant-overexpressing rice leaves infected with or without Magnaporthe Oryzae was analyzed using one-color method with four biological replicates.

2013-08-31 | E-GEOD-48500 | biostudies-arrayexpress

Transcriptome analysis of rice stripe virus-infected rice

Project description:Rice stripe virus (RSV) is one of the major virus diseases of rice in East Asia. Rice plants infected with RSV usually show symptoms such as chlorotic leaf stripes, weakness and senescence of leaves, and dwarfism. In order to characterize the host response to RSV infection at the gene expression level, the changes in transcriptome profiles of RSV-infected rice were monitored at three, six, nine, twelve, and fifteen days after inoculation by a rice oligomicroarray. The microarray data indicated that 1. transcription, translation and protein processing machineries were activated, 2. chloroplasts were disintegrated, and mitochondrion function was activated, 3. genes for transporters and cell wall synthesis were suppressed, and 4. the expression levels of pathogenesis-related genes were changed by RSV infection. Concurrent observation of symptom development, virus accumulation and transcriptome profiles in RSV-infected plants indicates that RSV symptoms are caused by unbalanced activities of organelles, suppression of cell elongation, and uncontrolled water transport, while translation activity of host cells may be increased in correlation with RSV propagation. Keywords: time course, virus infection, disease response

2009-09-01 | GSE12681 | GEO

Influence of Cochliobolus miyabeanus and silicon on gene expression in rice leaves (Oryza sativa L.)

Project description:Although Cochliobolus miyabeanus is an important fungal leaf pathogen on rice plants worldwide, it is largely neglected by molecular plant phytopathologists. To shed new light on the molecular and genetic basis of the rice M-bM-^@M-^S C. miyabeanus interaction, we compared the transcriptome of rice leaves 12h post inoculation to uninfected leaves. Even though usable sources of resistance against brown spot disease caused by C. miyabeanus are scarce, silicon application emerges as a sustainable protection strategy. Many articles report the beneficial effect of silicon on brown spot resistance. however the underlying mechanisms remain largely unclear. The influence of silicon application on the transcriptome of healthy and infected rice leaves 12hpi was compared as well in an attempt to disentangle the modulation of silicon-induced brown spot resistance. Comparison between C. miyabeanus- and mock-infected rice leaves 12h post inoculation. This study consist of a 2 x 2 factorial design (infected and non-infected; untreated and silicon-treated) in three biological replicates.

2014-02-25 | E-GEOD-55330 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data