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Zea mays

ABSTRACT: Comparative transcriptome analysis of two contrasting maize inbred lines provides insights on molecular mechanisms for stalk rot resistance

PROVIDER: PRJNA633171 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11968810.fastq.gz	Fastqsanger.gz
	SRR11968811.fastq.gz	Fastqsanger.gz
	SRR11968812.fastq.gz	Fastqsanger.gz
	SRR11968813.fastq.gz	Fastqsanger.gz
	SRR11968814.fastq.gz	Fastqsanger.gz

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Gene expression of F.graminearum during maize stalk infection

Project description:Fusarium graminearum can infect maize stalk causing Gibberella stalk rot. We want to know the whole genome wide gene profiling when infecting maize stalk.

2016-02-11 | GSE53854 | GEO

Gene expression of F.graminearum during maize stalk infection

Project description:Fusarium graminearum can infect maize stalk causing Gibberella stalk rot. We want to know the whole genome wide gene profiling when infecting maize stalk. Using lasr capture microdisecction, we captured 8 time points infecting hyphae samples for maize stalk and after two-round amplification, we hybrid the aRNA to Affymetrix array.

2016-02-11 | E-GEOD-53854 | biostudies-arrayexpress

Transcriptome analysis of maize Gibberella stalk rot

Project description:Gibberella stalk rot (GSR) caused by Fusarium graminearum is one of the most devastating diseases causing significant yield loss of maize, and GSR resistance is a quantitative trait controlled by multiple genes. Although a few QTLs/resistance genes have been identified, the molecular mechanisms underlying GSR resistance remain largely unexplored. To identify potential resistance genes and to better understand the molecular mechanism of GSR resistance, a transcriptomic was conducted using two inbred lines with contrast GSR resistance, K09 (resistant) and A08 (susceptible) upon infection with F. graminearum. While substantial number of differentially expressed genes (DEGs) associated with various defense-related signaling pathways were identified between two lines, multiple hub genes likely associated with GSR resistance were pinpointed using Weighted Gene Correlation Network Analysis (WGCNA). ZmHIR3 showed strong correlation with multiple key genes.

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Expression profile of maize´s stalk challenged with the corn borer Sesamia nonagrioides

Project description:Stalk borers are major pests for some of the most important crops in the world, such as maize or rice. Plant defense mechanisms against these herbivores have been poorly investigated. The maize´s stalk responds to insect feeding activating defense genes including hormone biosynthetic-related or proteinase inhibitor transcripts. The most outstanding conclusion is that cells in the maize´s stalk undergo cell wall fortification after corn borer tunneling. We performed a gene expression profiling to identify those genes differentially expressed in maize after infestation with the corn borer S. nonagrioides. Four genetically unrelated maize inbred lines (EP39, EP42, CM151 and PB130) were infested at VT (tasseling) developmental stage with a mass of approximately 40 eggs of S. nonagrioides laid on the sheath of the main ear. Another four biological replicates per genotype were used as control. Samples for RNA extraction were harvested fifteen days after infestation.

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The transcriptomic responses of maize stalks infected with Fusarium graminearum PH-1 and Δcfem1

Project description:This experiment is to assess the changes of maize genes expression in response to Fusarium graminearum stains wild-type PH-1 and Δcfem1 mutant. F. graminearum is the major casual fungal pathogen of Gibberella stalk rot on maize.

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Project description:Transcriptomic profiles of two maize inbred lines with contrasting drought tolerance

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Genome-wide expression profiling and phenotypic evaluation of European maize inbreds at seedling stage in response to heat stress

Project description:BACKGROUND: Climate change will lead in the future to an occurrence of heat waves with a higher frequency and duration than observed today, which has the potential to cause severe damage to seedlings of temperate maize genotypes. In this study, we aimed to (I) assess phenotypic variation for heat tolerance of temperate European Flint and Dent maize inbred lines, (II) investigate the transcriptomic response of temperate maize to linearly increasing heat levels and, (III) identify genes associated with heat tolerance in a set of genotypes with contrasting heat tolerance behaviour. RESULTS: Strong phenotypic differences with respect to heat tolerance were observed between the examined maize inbred lines on a multi-trait level. We identified 607 heat responsive genes as well as 39 heat tolerance genes. CONCLUSION: Our findings indicate that individual inbred lines developed different genetic mechanisms in response to heat stress. We applied a novel statistical approach enabling the integration of multiple genotypes and stress levels in the analysis of abiotic stress expression studies.

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Project description:Maize Stalk Rot Associated Metagenome sequencing

| PRJNA1124356 | ENA

RNA-seq for two maize inbred lines

Project description:RNA-seq for two maize inbred lines

| PRJNA611589 | ENA

Transcriptome profiling of two inbred lines with distinct responses to Gibberella ear rot disease identified candidate genes for resistance in maize

Project description:Purpose: Breeding for gibberella ear rot resistance have been challenging due to the high complexity of the trait. The current study attempts to characterize defence responses to Fusarium graminearum infection in two maize inbred lines with different levels of resistance to the pathogen. Methods: RNA was extracted from developing kernels of two inbred lines, which had been either fungal (F. graminearum DAOM180378) or mock inoculated 11 days post sibcrossing, using a guanidine isothiocyanate method and ultra-centrifugation with cesium chloride. Isolated RNA was used to quantify whole genome gene expression using RNA-seq (Illumina TruSeq RNA library prep kit v2, Illumina HiSeq 2000). Paired end reads generated from RNA-seq were trimmed of adaptors and low quality reads, aligned with the B73 reference genome sequence version 2, expression levels (TPM) were computed and differential gene expression analysis were performed using CLC Genomics Workbench version 9. Results: Gene transcripts responding to fungal infection were captured by comparing gene expression levels in mock and fungal inoculated maize ears and gene ontology terms associated with significantly up-regulated gene transcripts were determined for each inbred. More genes were up regulated in the susceptible inbred relative to the resistant inbred, many of which are associated with oxidation-reduction processes potentially causing earlier programmed cell death in the susceptible inbred. Conclusions: This information helped to identify gene transcripts that were relevant in defense responses with potential applicability in routine breeding efforts and to propose an effective GER resistance mechanism.

2018-02-01 | GSE92448 | GEO

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