ArticlePloS one2016
Transcription Factors Exhibit Differential Conservation in Bacteria with Reduced Genomes.
Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
12 citing papers in PubMed, 21 citations in OpenAlex.
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- Microbial adaptation to different environmental conditions: molecular perspective of evolved genetic and cellular systems.Archives of microbiology · 2022Review
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- Gene Regulatory Network Inference and Gene Module Regulating Virulence inFrontiers in microbiology · 2022Article
- Identifying Genes Devoted to the Cell Death Process in the Gene Regulatory Network ofFrontiers in microbiology · 2021Article
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- Determination and Dissection of DNA-Binding Specificity for theInternational journal of molecular sciences · 2020Article
- Trends in Symbiont-Induced Host Cellular Differentiation.Results and problems in cell differentiation · 2020Article
- Investigating the Role of FlhF Identifies Novel Interactions With Genes Involved in Flagellar Synthesis inFrontiers in microbiology · 2020Article
- Reconstruction of Transcription Control Networks in Mollicutes by High-Throughput Identification of Promoters.Frontiers in microbiology · 2016Article
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
The description of transcriptional regulatory networks has been pivotal in the understanding of operating principles under which organisms respond and adapt to varying conditions. While the study of the topology and dynamics of these networks has been the subject of considerable work, the investigation of the evolution of their topology, as a result of the adaptation of organisms to different environmental conditions, has received little attention. In this work, we study the evolution of transcriptional regulatory networks in bacteria from a genome reduction perspective, which manifests itself as the loss of genes at different degrees. We used the transcriptional regulatory network of Escherichia coli as a reference to compare 113 smaller, phylogenetically-related γ-proteobacteria, including 19 genomes of symbionts. We found that the type of regulatory action exerted by transcription factors, as genomes get progressively smaller, correlates well with their degree of conservation, with dual regulators being more conserved than repressors and activators in conditions of extreme reduction. In addition, we found that the preponderant conservation of dual regulators might be due to their role as both global regulators and nucleoid-associated proteins. We summarize our results in a conceptual model of how each TF type is gradually lost as genomes become smaller and give a rationale for the order in which this phenomenon occurs.
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Registered trials
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.