ArticleGenome biology2006
Analysis of gene expression in operons of Streptomyces coelicolor.
Article in Genome biology, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 44 citations in OpenAlex.
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- Moraxella catarrhalis AcrAB-OprM efflux pump contributes to antimicrobial resistance and is enhanced during cold shock response.Antimicrobial agents and chemotherapy · 2015Article
- Changes in activity of metabolic and regulatory pathways during germination of S. coelicolor.BMC genomics · 2014Article
- A comparison of key aspects of gene regulation in Streptomyces coelicolor and Escherichia coli using nucleotide-resolution transcription maps produced in parallel by global and differential RNA sequencing.Molecular microbiology · 2014Article
- Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.PLoS computational biology · 2012Article
- Binding Motifs in Bacterial Gene Promoters Modulate Transcriptional Effects of Global Regulators CRP and ArcA.Gene regulation and systems biology · 2012Article
- Bacterial transcriptomics: what is beyond the RNA horiz-ome?Nature reviews. Microbiology · 2011Review
- Properties of CsnR, the transcriptional repressor of the chitosanase gene, csnA, of Streptomyces lividans.Journal of bacteriology · 2011Article
- Enhanced expression of recX in Mycobacterium tuberculosis owing to a promoter internal to recA.Tuberculosis (Edinburgh, Scotland) · 2011Article
- WebGeSTer DB--a transcription terminator database.Nucleic acids research · 2011Article
- Regulation of a novel gene cluster involved in secondary metabolite production in Streptomyces coelicolor.Journal of bacteriology · 2010Article
- Development and application of versatile high density microarrays for genome-wide analysis of Streptomyces coelicolor: characterization of the HspR regulon.Genome biology · 2009Article
- Predicted transcription factor binding sites as predictors of operons in Escherichia coli and Streptomyces coelicolor.BMC genomics · 2008Article
- New pleiotropic effects of eliminating a rare tRNA from Streptomyces coelicolor, revealed by combined proteomic and transcriptomic analysis of liquid cultures.BMC genomics · 2007Article
- Transcriptome dynamics-based operon prediction and verification in Streptomyces coelicolor.Nucleic acids research · 2007Article
- A predicted operon map for Mycobacterium tuberculosis.Nucleic acids research · 2007Article
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Authors and funding
4 authors at 3 institutions in 1 country.
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Abstract
backgroundRecent studies have shown that microarray-derived gene-expression data are useful for operon prediction. However, it is apparent that genes within an operon do not conform to the simple notion that they have equal levels of expression.
resultsTo investigate the relative transcript levels of intra-operonic genes, we have used a Z-score approach to normalize the expression levels of all genes within an operon to expression of the first gene of that operon. Here we demonstrate that there is a general downward trend in expression from the first to the last gene in Streptomyces coelicolor operons, in contrast to what we observe in Escherichia coli. Combining transcription-factor binding-site prediction with the identification of operonic genes that exhibited higher transcript levels than the first gene of the same operon enabled the discovery of putative internal promoters. The presence of transcription terminators and abundance of putative transcriptional control sequences in S. coelicolor operons are also described.
conclusionHere we have demonstrated a polarity of expression in operons of S. coelicolor not seen in E. coli, bringing caution to those that apply operon prediction strategies based on E. coli 'equal-expression' to divergent species. We speculate that this general difference in transcription behavior could reflect the contrasting lifestyles of the two organisms and, in the case of Streptomyces, might also be influenced by its high G+C content genome. Identification of putative internal promoters, previously thought to cause problems in operon prediction strategies, has also been enabled.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.