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Expression data from rice lesion mimic mutant spotted leaf 5 (spl5)

ABSTRACT: 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.

ORGANISM(S): Oryza sativa

SUBMITTER: JIN BIN

PROVIDER: E-GEOD-61952 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Expression data from rice lesion mimic mutant spotted leaf 5 (spl5)

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

Expression profiling of a lesion mimic genotype, splNF4050-8, that confers blast resistance in rice

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

Expression profiling of a lesion mimic genotype, splNF4050-8, that confers blast resistance in rice

2010-03-31 | GSE17791 | GEO

Systems genetics reveals a transcriptional network associated with susceptibility in the maize-gray leaf spot pathosystem

Project description:Background: Maize plants developed typical gray leaf spot disease (GLS) symptoms initiating at the lower leaves and progressing to upper leaves through the season. Leaf material was collected at 77 days after planting, at which stage there were a large number of GLS disease necrotic lesions on lower leaves (8% surface area on average determined by digital image analysis), but very few lesions and only at chlorotic stage on leaves above the ear (average of 0.2% lesion surface area). Method:To collect material that reflected a difference between C.zeina infected B73 leaves and control B73 leaf material, samples were collected from two lower GLS infected leaves (second and third leaf internode below ear) , and two upper leaves with minimal GLS symptoms (second and third internode above ear), respectively. The two lower leaves from each plant were pooled prior to RNA extraction, and the two upper leaves from each plant were pooled prior to RNA extraction. Upper and lower leaf samples from three maize B73 plants were subjected to RNA sequencing individually. The three maize plants were selected randomly as one plant per row from three rows of ten B73 plants each. Result: A systems genetics strategy revealed regions on the maize genome underlying co-expression of genes in susceptible and resistance responses, including a set of 100 genes common to the susceptible response of sub-tropical and temperate maize.

2016-10-15 | GSE81344 | GEO

Gene expression in rice leaves (Pia) in response to inoculation with rice blast fungus

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

Gene expression in rice leaves (Pish) in response to inoculation with rice blast fungus

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

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 – 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.

2014-02-25 | GSE55330 | GEO

Transcriptional profiling of indica rice cultivar IET8585 (Ajaya) infected with bacterial leaf blight pathogen (Xoo)

Project description:An indica rice cultivar IET8585 (Ajaya), resists diverse races of the Xanthomonas oryzae pv oryzae (Xoo) pathogen attack, and is often cultivated as bacterial leaf blight (blb) resistant check in India. Earlier we reported a recessive blb resistance gene mapped to the long arm of chromosome 5 in IET8585. To further understand the mechanism of recessive and durable resistance response, two indica rice genotypes namely, i) IET8585 (Ajaya), a disease resistant indica veriety from India and ii) IR24, a bacterial leaf blight disease susceptible genotype were selected for this study. We used the 22K rice Oligoarray from Agilent technologies to study the transcript profile in the leaves of the two contrasting rice genotypes under inoculated and un-inoculated conditions during seedling stage. Keywords: Bacterial leaf blight disease resistance mechanism

2007-10-29 | GSE6244 | GEO

affy_riz_2011_7-: Transcriptomic analysis of rice leaves challenged with virulent and avirulent Xoo strains

Project description:affy_riz_2011_7 - affy_riz_2011_7 - The Bacterial Leaf Blight disease of rice is due to Xanthomonas oryzae pv. oryzae. As for many pathogenic bacteria, it relies on a type 3 secretion system (TTSS) that is devoted to the injection of type 3 effectors (T3Es) into the eukaryotic host cell. These proteins are meant to suppress host basal defense responses and/or mimic some host regulatory function promoting bacterial survey in the plant. During an incompatible interaction, T3Es may act as Avr proteins and stimulate Effector-Triggered-Immunity. We aim at evaluating the transcriptomic response of rice leaves challenged with avirulent strains of Xoo BAI3 and MAI1 on resistant lines IR64 and IRBB4 versus the reference susceptible rice line Nipponbare. In addition, we investigated the transcriptomic response of rice leaves upon inoculation of an XoohrcC mutant strain affected in the production of a functional TTSS.-The goal of the experiment is to characterize the rice leaf transcriptome response, upon the inoculation of susceptible and resistant rice leaves 24 hours post-infection. To that end, the experimental design includes the inoculation of susceptible Nipponbare rice leaves with Xoo strains BAI3 (race A1) and MAI1 (race A3), that will be compared to the response of resistant lines IRBB4 and IR64 rice lines. In addition, Nipponbare rice leaves will also be challenged with the BAI3hrcC mutant that is affected in the production of a functional TTSS.

2012-10-15 | GSE34192 | GEO

Transcriptome analysis of rice ABA deficient mutant Osaba1-1 and wild-type before and 72h after Xanthomonas oryzae pv. oryzae (Xoo) infection

Project description:ABA deficient mutant Osaba1-1 exhibits great resistance to Xanthomonas oryzae pv. oryzae (Xoo) infection. To investigate gene expression profile changes at whole genome level between Osaba1-1 and wild-type (Nipponbare) rice during Xoo infection, we employed microarray expression profiling as a discovery platform. Osaba1-1 and wild-type rice plants about 6.5 leaf stage were used in this experiment. For Xoo inoculation, tips (about 3cm) of the fifth and sixth fully expanded leaves were cut off, and then immersed into Xoo (PXO99 strain) inoculum (suspended in sterile distilled water containing 10mM MgCl2, OD≈0.5) immediately for about fifteen seconds. Inoculated rice leaves were collected (approximately 2 cm leaf fragment from the inoculation site) at 0h and 72h post inoculation. Three independent replicate samples were collected at each time point for microarray.

2015-05-15 | E-GEOD-63337 | biostudies-arrayexpress

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