Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Oryza sativa japonica Transcriptome or Gene expression

ABSTRACT: 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 “Source Name” was replaced with new values. Comment[ENA_SAMPLE] contains the original SRA sample accessions.

INSTRUMENT(S): Illumina Genome Analyzer IIx

ORGANISM(S): Oryza sativa Japonica Group

SUBMITTER: Xu Chunming 

PROVIDER: E-MTAB-4372 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Nonuniform gene expression pattern detected along the longitudinal axis in the matured rice leaf.

Li Ning N   Chen Yun-Ru YR   Ding Zehong Z   Li Pinghua P   Wu Ying Y   Zhang Ai A   Yu Sheng S   Giovannoni James J JJ   Fei Zhangjun Z   Zhang Wei W   Xiang Jenny Z JZ   Xu Chunming C   Liu Bao B   Zhong Silin S  

Scientific reports 20150126

Rice (Oryza sativa) is a staple crop that supports half the world's population and an important monocot model system. Monocot leaf matures in a basipetal manner, and has a well-defined developmental gradient along the longitudinal axis. However, little is known about its transcriptional dynamics after leaf maturation. In this study, we have reconstructed a high spatial resolution transcriptome for the matured rice leaf by sectioning the leaf into seven 3-cm fragments. We have performed strand-sp  ...[more]

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