ArticleGenome biology2008
Horizontal gene transfer and the evolution of transcriptional regulation in Escherichia coli.
Article in Genome biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 papers.
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Who cites it
76 citing papers in PubMed, 1 citations in OpenAlex.
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- Horizontal Transfer of Bacterial Operons into Eukaryote Genomes.Genome biology and evolution · 2025Article
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- The Architecture of Metabolic Networks Constrains the Evolution of Microbial Resource Hierarchies.Molecular biology and evolution · 2023Article
- Early effects of gene duplication on the robustness and phenotypic variability of gene regulatory networks.BMC bioinformatics · 2022Article
- Bacterial plasmid-associated and chromosomal proteins have fundamentally different properties in protein interaction networks.Scientific reports · 2022Article
- Overlapping and Distinct Functions of the Paralogous PagR Regulators of Bacillus anthracis.Journal of bacteriology · 2022Article
- System Principles Governing the Organization, Architecture, Dynamics, and Evolution of Gene Regulatory Networks.Frontiers in bioengineering and biotechnology · 2022Article
- Determination of the two-component systems regulatory network reveals core and accessory regulations across Pseudomonas aeruginosa lineages.Nucleic acids research · 2021Article
- Transcription Inhibitors with XRE DNA-Binding and Cupin Signal-Sensing Domains Drive Metabolic Diversification inmSystems · 2021Article
- CoryneRegNet 7, the reference database and analysis platform for corynebacterial gene regulatory networks.Scientific data · 2020Article
16 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
backgroundMost bacterial genes were acquired by horizontal gene transfer from other bacteria instead of being inherited by continuous vertical descent from an ancient ancestor. To understand how the regulation of these acquired genes evolved, we examined the evolutionary histories of transcription factors and of regulatory interactions from the model bacterium Escherichia coli K12.
resultsAlthough most transcription factors have paralogs, these usually arose by horizontal gene transfer rather than by duplication within the E. coli lineage, as previously believed. In general, most neighbor regulators - regulators that are adjacent to genes that they regulate - were acquired by horizontal gene transfer, whereas most global regulators evolved vertically within the gamma-Proteobacteria. Neighbor regulators were often acquired together with the adjacent operon that they regulate, and so the proximity might be maintained by repeated transfers (like 'selfish operons'). Many of the as yet uncharacterized (putative) regulators have also been acquired together with adjacent genes, and so we predict that these are neighbor regulators as well. When we analyzed the histories of regulatory interactions, we found that the evolution of regulation by duplication was rare, and surprisingly, many of the regulatory interactions that are shared between paralogs result from convergent evolution. Another surprise was that horizontally transferred genes are more likely than other genes to be regulated by multiple regulators, and most of this complex regulation probably evolved after the transfer.
conclusionOur findings highlight the rapid evolution of niche-specific gene regulation in bacteria.
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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.