ArticleBMC genomics2012
Relative entropy differences in bacterial chromosomes, plasmids, phages and genomic islands.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 19 citations in OpenAlex.
- Compression rates of microbial genomes are associated with genome size and base composition.Genomics & informatics · 2024Article
- SourceFinder: a Machine-Learning-Based Tool for Identification of Chromosomal, Plasmid, and Bacteriophage Sequences from Assemblies.Microbiology spectrum · 2022Article
- The statistical power ofSynthetic and systems biotechnology · 2019Article
- Evolution of Genomic Base Composition: From Single Cell Microbes to Multicellular Animals.Computational and structural biotechnology journal · 2019Review
- Article
- PlasFlow: predicting plasmid sequences in metagenomic data using genome signatures.Nucleic acids research · 2018Article
- The nucleotide composition of microbial genomes indicates differential patterns of selection on core and accessory genomes.BMC genomics · 2017Article
- Article
- Extracting DNA words based on the sequence features: non-uniform distribution and integrity.Theoretical biology & medical modelling · 2016Article
- Genome expansion in bacteria: the curios case of Chlamydia trachomatis.BMC research notes · 2015Article
- An evolutionary analysis of genome expansion and pathogenicity in Escherichia coli.BMC genomics · 2014Article
- Article
Corrections and comments
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Authors and funding
6 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWe sought to assess whether the concept of relative entropy (information capacity), could aid our understanding of the process of horizontal gene transfer in microbes. We analyzed the differences in information capacity between prokaryotic chromosomes, genomic islands (GI), phages, and plasmids. Relative entropy was estimated using the Kullback-Leibler measure.
resultsRelative entropy was highest in bacterial chromosomes and had the sequence chromosomes > GI > phage > plasmid. There was an association between relative entropy and AT content in chromosomes, phages, plasmids and GIs with the strongest association being in phages. Relative entropy was also found to be lower in the obligate intracellular Mycobacterium leprae than in the related M. tuberculosis when measured on a shared set of highly conserved genes.
conclusionsWe argue that relative entropy differences reflect how plasmids, phages and GIs interact with microbial host chromosomes and that all these biological entities are, or have been, subjected to different selective pressures. The rate at which amelioration of horizontally acquired DNA occurs within the chromosome is likely to account for the small differences between chromosomes and stably incorporated GIs compared to the transient or independent replicons such as phages and plasmids.
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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.