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E-GEOD-16140 - Transcriptome analysis of rice (Oryza sativa cv.TW16) in relation to infection with rice tungro spherical virus (RTSV)

Status
Submitted on 17 May 2009, released on 18 May 2010, last updated on 3 May 2014
Organism
Oryza sativa Indica Group
Samples (18)
Array (1)
Protocols (32)
Description
Rice tungro disease is caused by the interaction between Rice tungro spherical virus (RTSV) and Rice tungro bacilliform virus. Infection with RTSV alone does not result in any distinctive symptoms in TW16 that is one of RTSV resistant indica rice. To elucidate the basis of asymptomatic response of rice to RTSV at the gene expression level, global gene response in RTSV-infected TN1 was detected by custom microarray. Keywords: time course, virus infection, disease response Comparison between RTSV and mock infected rice. Biological replicates: 3 control (mock), 3 RTSV-infected at each time point, independently grown and harvested at 6 to 15 days after inoculation (DAI). 1 samples prepared with whole plant 5 cm above ground and pooled from 5 plants grown under same conditons.
Experiment type
transcription profiling by array 
Contacts
Kouji Satoh, Hiroaki Kondoh, Il-Ryong Choi, Setsuko Kimura, Shoshi Kikuchi, Teresa De Leon
Citation
Single nucleotide polymorphisms in a gene for translation initiation factor (eIF4G) of rice (Oryza sativa) associated with resistance to Rice tungro spherical virus. Lee JH, Muhsin M, Atienza GA, Kwak DY, Kim SM, De Leon TB, Angeles ER, Coloquio E, Kondoh H, Satoh K, Cabunagan RC, Cabauatan PQ, Kikuchi S, Leung H, Choi IR.
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-16140.idf.txt
Sample and data relationshipE-GEOD-16140.sdrf.txt
Raw data (1)E-GEOD-16140.raw.1.zip
Processed data (1)E-GEOD-16140.processed.1.zip
Array designA-GEOD-7252.adf.txt
R ExpressionSetE-GEOD-16140.eSet.r
Links