Oryza sativa
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ABSTRACT:
PROVIDER: PRJNA262775 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Lesion mimic mutants in rice are widely known as spotted leaf (spl) mutants, of which several genotypes exhibit enhanced resistance to different races of Magnaporthe grisea. Besides naturally occurring spotted leaf mutants, tissue culture-induced reverse genetic repositories also act as sources of lesion mimic mutants in rice. We systematically evaluated a large collection of Tos17 mutant panel lines, developed and maintained at the National Institute of Agrobiological Sciences, Tsukuba, Japan, for their reaction to three different races of M. grisea and identified a lesion mimic mutant, NF4050-8, that showed lesions similar to naturally occurring spl5 mutant and enhanced resistance to all three blast races tested. Microarray analysis of ~44,000 rice genes in NF4050-8 with Nipponbare as control during the progressive lesion appearance stage revealed significant up-regulation of numerous defense/pathogenesis-related genes as well as several WRKY domain-containing genes and down-regulation of haem peroxidase gene. Subsequent real-time PCR analysis of WRKY45 and PR1b genes in NF4050-8 and spl5 suggested possible constitutive activation of a defense signaling pathway downstream of Salicylic Acid (SA) but independent of NH1 in these mutant lines of rice.
2010-03-31 | GSE17791 | GEO
Project description:Lesion mimic mutants in rice are widely known as spotted leaf (spl) mutants, of which several genotypes exhibit enhanced resistance to different races of Magnaporthe grisea. Besides naturally occurring spotted leaf mutants, tissue culture-induced reverse genetic repositories also act as sources of lesion mimic mutants in rice. We systematically evaluated a large collection of Tos17 mutant panel lines, developed and maintained at the National Institute of Agrobiological Sciences, Tsukuba, Japan, for their reaction to three different races of M. grisea and identified a lesion mimic mutant, NF4050-8, that showed lesions similar to naturally occurring spl5 mutant and enhanced resistance to all three blast races tested. Microarray analysis of ~44,000 rice genes in NF4050-8 with Nipponbare as control during the progressive lesion appearance stage revealed significant up-regulation of numerous defense/pathogenesis-related genes as well as several WRKY domain-containing genes and down-regulation of haem peroxidase gene. Subsequent real-time PCR analysis of WRKY45 and PR1b genes in NF4050-8 and spl5 suggested possible constitutive activation of a defense signaling pathway downstream of Salicylic Acid (SA) but independent of NH1 in these mutant lines of rice. We used Agilent rice oligo microarrays to identify putative defense/pathogenesis-related genes. Leaf tissues of the rice genotypes Nipponbare and NF4050-8 were used in the study. Two replications of microarray experiments were carried out by hybridizing the cRNA from control and progressive lesion appearance stage on 4 x 44k microarray.
2010-06-05 | E-GEOD-17791 | biostudies-arrayexpress
Project description:Transcriptome sequencing of a rice lesion-mimic mutant, spotted leaf 33 (spl33)
| PRJEB15269 | ENA
Project description:The rice lesion mimic, spotted leaf 5 (spl5), created by γ-ray radiation, has spontaneous HR-like lesions on its leaves and shows enhanced resistance to rice blast and bacterial blight pathogens. Some genes were differentially expressed in this mutant compared with its WT control ZF802, and these genes were also associated with some important signaling pathways, such as defense response, oxidation-reduction process and stress response. We analyzed the transcriptional profiling of spl5 mutant and WT using the microarray, in order to reveal the signal pathway of SPL5 gene in regulation of disease resistance.
2014-10-02 | GSE61952 | GEO
Project description:The rice lesion mimic, spotted leaf 5 (spl5), created by M-NM-3-ray radiation, has spontaneous HR-like lesions on its leaves and shows enhanced resistance to rice blast and bacterial blight pathogens. Some genes were differentially expressed in this mutant compared with its WT control ZF802, and these genes were also associated with some important signaling pathways, such as defense response, oxidation-reduction process and stress response. We analyzed the transcriptional profiling of spl5 mutant and WT using the microarray, in order to reveal the signal pathway of SPL5 gene in regulation of disease resistance. Rice leaves were selected at lesion stages of spl5 mutant for RNA extraction and hybridization on Affymetrix microarrays. The lesions in rice leaves were belong to HR phenotype, which was one of the important reasons for rice disease resistance. In order to realize which genes were associated with the degree of lesions and mediated the disease resistance, we put the leaves of spl5 mutant into two categories, based on the degree of lesion formation: few lesions (FL), leaf area with 10-20% lesions and many lesions (ML), leaf area with 70-80% lesions.
2014-10-02 | E-GEOD-61952 | biostudies-arrayexpress
Project description:Expression profiling of a lesion mimic genotype, splNF4050-8, that confers blast resistance in rice
| PRJNA117873 | ENA
Project description:Nucleosome free measurement of 14 day old rice leaves (2nd leaf) in heat stress and recovery and dehydration stress and recovery
2016-01-01 | GSE75794 | GEO
Project description:Here, we present OryzaPG-DB, a rice proteome database based on shotgun proteogenomics, which incorporates the genomic features of experimental shotgun proteomics data. This version of the database was created from the results of 27 nanoLC-MS/MS runs on a hybrid ion trap-orbitrap mass spectrometer, which offers high accuracy for analyzing tryptic digests from undifferentiated cultured rice cells. Peptides were identified by searching the product ion spectra against the protein, cDNA, transcript and genome databases from Michigan State University, and were mapped to the rice genome. Approximately 3200 genes were covered by these peptides and 40 of them contained novel genomic features. Users can search, download or navigate the database per chromosome, gene, protein, cDNA or transcript and download the updated annotations in standard GFF3 format, with visualization in PNG format. In addition, the database scheme of OryzaPG was designed to be generic and can be reused to host similar proteogenomic information for other species. OryzaPG is the first proteogenomics-based database of the rice proteome, providing peptide-based expression profiles, together with the corresponding genomic origin, including the annotation of novelty for each peptide.
2016-07-20 | PXD004603 | JPOST Repository
Project description:In this study, we examined the transcriptome dynamics within the matured fully expanded rice leaf and used strand-specific RNA sequencing to generate a comprehensive transcriptome dataset for the mature rice leaf. The rice Nipponbare (Oryza sativa l. japonica) seedlings were grown in the greenhouse. About 20 days after planting, the fully opened 4th leaves was cut it into seven 3-cm segments, from bottom to tip and labeled as sections 1 to 7, respectively. The tissues were immediately frozen in liquid nitrogen for total RNA extraction. Two biological replicates were collected for each section. Note: All samples in SRA were assigned the same sample accession (SRS685294). 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.
2015-08-16 | E-MTAB-4372 | biostudies-arrayexpress
Project description:The RNA-seq data was generated to identify the genes that are expressed in rice leaf sheath
2020-03-01 | E-MTAB-8353 | biostudies-arrayexpress