ArticleBMC genomics2010
Relationship between operon preference and functional properties of persistent genes in bacterial genomes.
Article in BMC genomics, 2010. 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, 37 citations in OpenAlex.
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- Horizontal Gene Transfer of Genes Encoding Copper-Containing Membrane-Bound Monooxygenase (CuMMO) and Soluble Di-iron Monooxygenase (SDIMO) in Ethane- and Propane-OxidizingApplied and environmental microbiology · 2021Article
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- Prediction and large-scale analysis of primary operons in plastids reveals unique genetic features in the evolution of chloroplasts.Nucleic acids research · 2019Article
- Cold plasma effect on the proteome of Pseudomonas aeruginosa - Role for bacterioferritin.PloS one · 2018Article
- The urea carboxylase and allophanate hydrolase activities of urea amidolyase are functionally independent.Protein science : a publication of the Protein Society · 2016Article
- The rnc Gene Promotes Exopolysaccharide Synthesis and Represses the vicRKX Gene Expressions via MicroRNA-Size Small RNAs in Streptococcus mutans.Frontiers in microbiology · 2016Article
- A Transcriptome Map of Actinobacillus pleuropneumoniae at Single-Nucleotide Resolution Using Deep RNA-Seq.PloS one · 2016Article
- Article
- Modulation of Biofilm Exopolysaccharides by the Streptococcus mutans vicX Gene.Frontiers in microbiology · 2015Article
- Missing genes, multiple ORFs, and C-to-U type RNA editing in Acrasis kona (Heterolobosea, Excavata) mitochondrial DNA.Genome biology and evolution · 2014Article
- Genomics of the proteorhodopsin-containing marine flavobacterium Dokdonia sp. strain MED134.Applied and environmental microbiology · 2011Article
- Parallel evolution of transcriptome architecture during genome reorganization.Genome research · 2011Article
- Modeling and comparing the organization of circular genomes.Bioinformatics (Oxford, England) · 2011Article
- Gene duplications in prokaryotes can be associated with environmental adaptation.BMC genomics · 2010Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenes in bacteria may be organised into operons, leading to strict co-expression of the genes that participate in the same operon. However, comparisons between different bacterial genomes have shown that much of the operon structure is dynamic on an evolutionary time scale. This indicates that there are opposing effects influencing the tendency for operon formation, and these effects may be reflected in properties like evolutionary rate, complex formation, metabolic pathways and gene fusion.
resultsWe have used multi-species protein-protein comparisons to generate a high-quality set of genes that are persistent in bacterial genomes (i.e. they have close to universal distribution). We have analysed these genes with respect to operon participation and important functional properties, including evolutionary rate and protein-protein interactions.
conclusionsGenes for ribosomal proteins show a very slow rate of evolution. This is consistent with a strong tendency for the genes to participate in operons and for their proteins to be involved in essential and well defined complexes. Persistent genes for non-ribosomal proteins can be separated into two classes according to tendency to participate in operons. Those with a strong tendency for operon participation make proteins with fewer interaction partners that seem to participate in relatively static complexes and possibly linear pathways. Genes with a weak tendency for operon participation tend to produce proteins with more interaction partners, but possibly in more dynamic complexes and convergent pathways. Genes that are not regulated through operons are therefore more evolutionary constrained than the corresponding operon-associated genes and will on average evolve more slowly.
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