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Oryza sativa

ABSTRACT: RNA-seq of rice leaves and suspension cultured cells and gene expression analysis

PROVIDER: PRJDB18768 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR594060.fastq.gz	Fastqsanger.gz
	DRR594061.fastq.gz	Fastqsanger.gz
	DRR594062.fastq.gz	Fastqsanger.gz
	DRR594063_1.fastq.gz	Fastqsanger.gz
	DRR594063_2.fastq.gz	Fastqsanger.gz

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Project description:This experiment was designed to identify transcribed regions of japonica subspecies of the rice genome. A series of high-density oligonucleotide tiling arrays that represent sense and antisense strands of the entire nonrepetitive sequence of all the 12 chromosomes were designed to measure genome-wide transcription. A total of 12253842 36mer oligonucleotide probes positioned every 46 nt on average were used for this purpose. The probes were synthesized via maskless photolithography at a feature density of approximately 389,000 probes per slide. The arrays were hybridized with fluorescence-labeled cDNA reverse-transcribed from equal amounts of four selected poly(A)+ RNA population (seedling root, seedling shoot, panicle, and suspension cultured cells). Keywords: tiling array, genome-wide transcription

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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.

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