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Oryza sativa Japonica Group

ABSTRACT: Whole genome shotgun sequencing for the study on rice blast resistance

PROVIDER: PRJDB17049 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR515525_1.fastq.gz	Fastqsanger.gz
	DRR515525_2.fastq.gz	Fastqsanger.gz
	DRR515526_1.fastq.gz	Fastqsanger.gz
	DRR515526_2.fastq.gz	Fastqsanger.gz

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Oryza sativa Japonica Group

Project description:Transcriptome study of rice early response to rice blast fungus

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Oryza sativa Japonica Group transcriptome sequencing

Project description:Phosphate starvation/sufficient rice seedling, root or shoot Pi-starvation or Pi-sufficient stresses responsible rice genes, including previously unannotated genes were identified by Illumina mRNA-seq technology. 53 million reads from Pi-starvation or Pi-sufficient root or shoot tissues were uniquely mapped to the rice genome, and these included 40574 RAP3 transcripts in root and 39748 RAP3 transcripts in shoot. We compared our mRNA-seq expression data with that from Rice 44K oligomicroarray, and about 95.5% (root) and 95.4% (shoot) transcripts supported by the array were confirmed expression both by the array and by mRNA-seq, Moreover, 11888 (root) and 11098 (shoot) RAP genes which were not supported by array, were evidenced expression with mRNA-seq. Furthermore, we discovered 8590 (root) and 8193 (shoot) previously unannotated transcripts upon Pi-starvation and/or Pi-sufficient.

2012-01-06 | E-MTAB-4302 | biostudies-arrayexpress

Transcriptome analysis of rice (Oryza sativa) infected with blast fungus (Magnaporthe oryzae)

Project description:Rice blast is one of the most serious diseases and is caused by Magnaporthe grisea. SHZ-2, an indica cultivar with broad spectrum resistance to multiple races of the blast pathogen, was crossed to TXZ-13, a blast susceptible but high-quality variety, to produce one BC3 line, BC10 line, which showed strong to moderate blast resistance over eight cropping seasons in the field. In this study, we compared the transcription between blast-resistant and -susceptive lines by custom microarray. Keywords: time course, blast infection, disease response Comparison between blast- and mock-infected rice. Biological replicates: 3 control (mock) and 3 blast-infected at each time point, independently grown and harvested at 24 and 48 hours after inoculation. Each sample was prepared with whole plant 5 cm above ground and was pooled from 5 plants grown under the same conditions.

2011-05-31 | E-GEOD-16470 | biostudies-arrayexpress

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Oryza Sativa and Magnaporthe Grisea LongSAGE

Project description:LongSAGE library in this series are from 'Whole Genome Analysis of Pathogen-Host Recognition and Subsequent Responses in the Rice Blast Patho-System' project. This work is supported by NSF-PGRP #0115642. Keywords: other

2004-11-08 | GSE1924 | GEO

Oryza sativa Japonica Group

Project description:A single functional blast resistance gene Pi54 activates complex defense mechanism in Rice

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2004-11-07 | E-GEOD-1924 | biostudies-arrayexpress

Oryza sativa Japonica Group

Project description:Below ground attack by root knot nematode Meloidogyne graminicola predisposes rice to blast disease

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Oryza sativa japonica Transcriptome or Gene expression

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

Oryza sativa japonica Transcriptome or Gene expression

Project description:In this study, we investigated novel rice genes that are expressed in aleurone cells by RNA-seq. RNA-seq was performed on four samples: a control sample, and samples treated with ABA, GA, and a mixture of the two hormones.

2013-11-14 | E-MTAB-4443 | biostudies-arrayexpress

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