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The transcription unit architecture of the Escherichia coli genome.
- Source :
-
Nature biotechnology [Nat Biotechnol] 2009 Nov; Vol. 27 (11), pp. 1043-9. Date of Electronic Publication: 2009 Nov 01. - Publication Year :
- 2009
-
Abstract
- Bacterial genomes are organized by structural and functional elements, including promoters, transcription start and termination sites, open reading frames, regulatory noncoding regions, untranslated regions and transcription units. Here, we iteratively integrate high-throughput, genome-wide measurements of RNA polymerase binding locations and mRNA transcript abundance, 5' sequences and translation into proteins to determine the organizational structure of the Escherichia coli K-12 MG1655 genome. Integration of the organizational elements provides an experimentally annotated transcription unit architecture, including alternative transcription start sites, 5' untranslated region, boundaries and open reading frames of each transcription unit. A total of 4,661 transcription units were identified, representing an increase of >530% over current knowledge. This comprehensive transcription unit architecture allows for the elucidation of condition-specific uses of alternative sigma factors at the genome scale. Furthermore, the transcription unit architecture provides a foundation on which to construct genome-scale transcriptional and translational regulatory networks.
- Subjects :
- Base Sequence
Binding Sites
DNA-Directed RNA Polymerases metabolism
Gene Expression Profiling
Gene Expression Regulation, Bacterial
High-Throughput Screening Assays
Molecular Sequence Data
Open Reading Frames genetics
Transcription Initiation Site
Escherichia coli genetics
Genome, Bacterial genetics
Transcription, Genetic
Subjects
Details
- Language :
- English
- ISSN :
- 1546-1696
- Volume :
- 27
- Issue :
- 11
- Database :
- MEDLINE
- Journal :
- Nature biotechnology
- Publication Type :
- Academic Journal
- Accession number :
- 19881496
- Full Text :
- https://doi.org/10.1038/nbt.1582