Expression data from rice lesion mimic mutant spotted leaf 5 (spl5)
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ABSTRACT:
ORGANISM(S): Oryza sativa
PROVIDER: GSE61952 | GEO | 2014/10/02
SECONDARY ACCESSION(S): PRJNA262775
REPOSITORIES: GEO
Similar Datasets
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: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:WRKY45-overexpressing (WRKY45-ox) rice plants are extremely resistant to rice blast and bacterial leaf-blight diseases. To search for the genes that are potentially responsible for the strong resistance, we performed genome-wide gene expression analysis in WRKY45-ox rice. A microarray analysis using Agilent rice oligo microarray for approximately 42,000 rice genes identified 1,664 genes that are upregulated in WRKY45-ox rice compared with non-transformant rice cv. Nipponbare (NB). Analysis of the genes with altered expression in WRKY45-ox rice by a Gene ontology program (Agri GO; http://bioinfo.cau.edu.cn/agriGO/) revealed that several genes in the biosynthetic pathway for diterpenoid phytoalexins, for which anti-blast fungus activities have been reported, were upregulated in WRKY45-ox rice.
2013-12-31 | GSE48202 | GEO
Project description:WRKY45-overexpressing (WRKY45-ox) rice plants are extremely resistant to rice blast and bacterial leaf-blight diseases. To search for the genes that are potentially responsible for the strong resistance, we performed genome-wide gene expression analysis in WRKY45-ox rice. A microarray analysis using Agilent rice oligo microarray for approximately 42,000 rice genes identified 1,664 genes that are upregulated in WRKY45-ox rice compared with non-transformant rice cv. Nipponbare (NB). Analysis of the genes with altered expression in WRKY45-ox rice by a Gene ontology program (Agri GO; http://bioinfo.cau.edu.cn/agriGO/) revealed that several genes in the biosynthetic pathway for diterpenoid phytoalexins, for which anti-blast fungus activities have been reported, were upregulated in WRKY45-ox rice. Nipponbare rice (Oryza sativa) and WRKY45-ox rice were analyzed in three biological replicates.
2013-12-31 | E-GEOD-48202 | biostudies-arrayexpress
Project description:Fourth leaves of rice seedlings (4.5 leaf stage) grown in hydroponic culture were inoculated with rice blast fungus and gene expression profiles were analyzed by microarray. Fourth leaves of the two isogenic lines of rice cv Nipponbare (blast-resistance gene: Pia or its mutant, pia) were inoculated with rice blast fungus, P91-15B, carrying avirulence gene, AvrPia. Total RNA was isolated, labeled with cy3, and probed with agilent rice oligoarray (4x44).
2015-04-01 | E-GEOD-62893 | biostudies-arrayexpress
Project description:Fourth leaves of rice seedlings (4.5 leaf stage) grown in hydroponic culture were inoculated with rice blast fungus and gene expression profiles were analyzed by microarray. Fourth leaves of the two isogenic lines of rice cv Nipponbare (blast-resistance gene: Pish or its mutant, pish) were inoculated with rice blast fungus, Kyu77-07A, carrying avirulence gene, AvrPish. Total RNA was isolated, labeled with cy3, and probed with agilent rice oligoarray (4x44).
2015-04-01 | E-GEOD-62894 | biostudies-arrayexpress
Project description:Pls4 is a gene encoding a β -ketoacyl carrier protein reductase (KAR), which is mainly involved in biological processes such as cell membrane formation. However，the role of pls4 in rice sheath blight remains unclear. Our preliminary studies showed that rice pls4 mutants were highly susceptive to sheath blight in early development stage, and insensitive in adulthood. To explore the role of this gene in the occurrence of rice sheath blight, we compared the transcriptome profiles of rice pls4 mutant and wild-type by RNA-seq. The results showed that, 2569 differentially expressed genes (DEGs), and down-regulated genes were significantly enriched in defense response related biological stress. The expression pattern significantly changed in genes related to pattern-triggered immunity (PTI) and effector-triggered immunity (ETI), which were the main two innate immunity pathways in plants. The chitinase-related genes were mainly down-regulated, while both the disease-related genes and the related genes of the WRKY gene family were significantly up-regulated. Furthermore, 467 genes had significantly alternative splicing (AS) events. Among them, intron retention (IR) affected the gene expression levels and functions in vitamin B6 (VB6) metabolism pathway, which was related to sheath blight. This suggested that IR played an important role in sheath blight resistance of mutant pls4. In conclusion, these studies suggested that pls4 might be involved in the biological stress process of sheath blight by DEGs and the fine-tuning of IR, which would provide a molecular basis for the study of rice sheath blight resistance.
2022-05-27 | GSE203661 | GEO
Project description:Crop breeding for board-spectrum disease resistance is the most profitable strategy to control diseases. However, knowledge on genes and mechanism of board-spectrum resistance is very limited. We fund a rice mutant ebr1 (enhanced blight and blast resistance 1) showed broad-spectrum resistance to both bacterial Xanthomonas oryzae pv. oryzae and fungal Magnaporthe oryzae associated with spontaneous programmed cell death (PCD), autoimmunity activation and stunting. EBR1 is located at the chromosome centromere and encodes a previously unknown RING-type protein with E3 ubiquitin ligase activity. Extensive yeast two-hybrid screening identified one EIP (EBR1-interacting) protein, EIP1, which belongs to the BAG (Bcl-2 associated athanogene) family that have been associated with stress responses and modulation of cell death.cross kingdoms. We showed that EIP1 is a specially target of EBR1 and is a key player activating PCD and immunity including the salicylic acid and jasmonate defense pathways in rice. Its function is suppressed EBR1-mediated degradation through ubiquitination. EIP1-RNAi could restore the PCD and disease resistance phenotypes of ebr1, while EIP1 overexpression caused strong PCD and enhanced resistance to rice pathogens likely ebr1. Together, our study reveals a unique E3 ligase-BAD protein module that orchestrates autoimmunity and trade-off between defense and growth in rice.
2016-11-17 | GSE81108 | GEO
Project description:Yield loss in crop plants due to biotic stresses is a major problem and pyramiding of R genes is often suggested for sustained and durable resistance against target pests. Information is available for single R gene interaction in rice and other crop plants, but not much data is available for multiple R gene interaction against multiple pathogens/pests. In this study we carried out transcriptional analysis of two rice lines introgressed with either R gene against bacterial blight and gall midge or, against bacterial blight and fungal blast. The gene expression changes were investigated through microarray and the expression pattern upon co-infection with multiple pathogens was analyzed to study the synergistic effect of R gene mediated defense responses as well as to explore the possibility of any antagonism between the R genes as defense pathway employed due to R gene mediated resistance varies as per the attacking pathogen/pest. Keywords: Expression profiling by array
2019-02-01 | GSE110088 | GEO