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An expression atlas of rice mRNAs and small RNAs
- Source :
- Nature Biotechnology. 25:473-477
- Publication Year :
- 2007
- Publisher :
- Springer Science and Business Media LLC, 2007.
-
Abstract
- Identification of all expressed transcripts in a sequenced genome is essential both for genome analysis and for realization of the goals of systems biology. We used the transcriptional profiling technology called 'massively parallel signature sequencing' to develop a comprehensive expression atlas of rice (Oryza sativa cv Nipponbare). We sequenced 46,971,553 mRNA transcripts from 22 libraries, and 2,953,855 small RNAs from 3 libraries. The data demonstrate widespread transcription throughout the genome, including sense expression of at least 25,500 annotated genes and antisense expression of nearly 9,000 annotated genes. An additional set of approximately 15,000 mRNA signatures mapped to unannotated genomic regions. The majority of the small RNA data represented lower abundance short interfering RNAs that match repetitive sequences, intergenic regions and genes. Among these, numerous clusters of highly regulated small RNAs were readily observed. We developed a genome browser (http://mpss.udel.edu/rice) for public access to the transcriptional profiling data for this important crop.
- Subjects :
- Genetics
Small RNA
Transcription, Genetic
Sequence Analysis, RNA
Sequence analysis
Biomedical Engineering
food and beverages
RNA
Oryza
Bioengineering
Genomics
Genome browser
Biology
Applied Microbiology and Biotechnology
Genome
Massively parallel signature sequencing
Gene Expression Regulation, Plant
RNA, Plant
RNA, Small Nuclear
Molecular Medicine
RNA, Messenger
Gene
Genome, Plant
Gene Library
Biotechnology
Subjects
Details
- ISSN :
- 15461696 and 10870156
- Volume :
- 25
- Database :
- OpenAIRE
- Journal :
- Nature Biotechnology
- Accession number :
- edsair.doi.dedup.....ce72c880e6b2889a29005eb202f41333