ArticleJournal of bacteriology2009
Trends in prokaryotic evolution revealed by comparison of closely related bacterial and archaeal genomes.
Article in Journal of bacteriology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 99 papers.
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Who cites it
99 citing papers in PubMed.
- Why did some viruses evolve to be giants while others did not?Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Sarand: exploring antimicrobial resistance gene neighbourhoods in complex metagenomic assembly graphs.NAR genomics and bioinformatics · 2026Article
- The heterogeneous selection landscape of genome evolution in prokaryotes.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Article
- The heterogeneous selection landscape of genome evolution in prokaryotes.Research square · 2025Article
- Global genomic and antimicrobial resistance profiling of Neisseria gonorrhoeae: Insights from whole genome sequencing and minimum inhibitory concentration analysis.PLoS neglected tropical diseases · 2025Article
- Evolution of gene order in prokaryotes is driven primarily by gene gain and loss.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Evolution of gene order in prokaryotes is driven primarily by gene gain and loss.bioRxiv : the preprint server for biology · 2025Article
- Principles of Molecular Evolution: Concepts from Non-equilibrium Thermodynamics for the Multilevel Theory of Learning.Journal of molecular evolution · 2024Article
- Long range segmentation of prokaryotic genomes by gene age and functionality.Nucleic acids research · 2024Article
- Evaluating the Safety ofMicroorganisms · 2024Article
- Long range segmentation of prokaryotic genomes by gene age and functionality.bioRxiv : the preprint server for biology · 2024Article
- Article
- Genomic Diversity and Chromosomal Rearrangements inInternational journal of molecular sciences · 2022Article
- Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans.Microbiome · 2022Article
- Thermodynamics of evolution and the origin of life.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Comparative Genome Analysis of 'Frontiers in microbiology · 2022Article
- Evolution of Microbial Genomics: Conceptual Shifts over a Quarter Century.Trends in microbiology · 2021Review
- Weak selection on synonymous codons substantially inflatesProceedings of the National Academy of Sciences of the United States of America · 2021Article
- Article
39 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors.
Funding
Abstract
In order to explore microevolutionary trends in bacteria and archaea, we constructed a data set of 41 alignable tight genome clusters (ATGCs). We show that the ratio of the medians of nonsynonymous to synonymous substitution rates (dN/dS) that is used as a measure of the purifying selection pressure on protein sequences is a stable characteristic of the ATGCs. In agreement with previous findings, parasitic bacteria, notwithstanding the sometimes dramatic genome shrinkage caused by gene loss, are typically subjected to relatively weak purifying selection, presumably owing to relatively small effective population sizes and frequent bottlenecks. However, no evidence of genome streamlining caused by strong selective pressure was found in any of the ATGCs. On the contrary, a significant positive correlation between the genome size, as well as gene size, and selective pressure was observed, although a variety of free-living prokaryotes with very close selective pressures span nearly the entire range of genome sizes. In addition, we examined the connections between the sequence evolution rate and other genomic features. Although gene order changes much faster than protein sequences during the evolution of prokaryotes, a strong positive correlation was observed between the "rearrangement distance" and the amino acid distance, suggesting that at least some of the events leading to genome rearrangement are subjected to the same type of selective constraints as the evolution of amino acid sequences.
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