ArticleMolecular biology and evolution2021
Evidence for Selection in the Abundant Accessory Gene Content of a Prokaryote Pangenome.
Article in Molecular biology and evolution, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed, 52 citations in OpenAlex.
- How the social lives of bacteria affect their pangenome.Essays in biochemistry · 2026Review
- Article
- Epistasis and co-adaptation in bacterial genome evolution.Nature reviews. Genetics · 2026Review
- Mobile Genetic Elements as Key Drivers of Bacterial Evolution and Adaptation in Agroecosystems.Microbial ecology · 2026Review
- Genomic variants distinguish Pseudomonas aeruginosa from cystic fibrosis sputum and bloodstream infection.BMC infectious diseases · 2026Article
- Dissemination dynamics of colistin resistance genes mcr-9 and mcr-10 across diverse Inc plasmid backbones.Communications medicine · 2025Article
- A phylogenetic approach to comparative genomics.Nature reviews. Genetics · 2025Review
- Unraveling the genetic traits and functional diversity of the pan-genome in Pantoea dispersa.BMC genomics · 2025Article
- Persistent, Private, and Mobile Genes: A Model for Gene Dynamics in Evolving Pangenomes.Molecular biology and evolution · 2025Article
- Habitat-specificity in SAR11 is associated with a few genes under high selection.The ISME journal · 2025Article
- Chromosomal capture of beneficial genes drives plasmids toward ecological redundancy.The ISME journal · 2025Article
- Current Approaches in Genome Assembly of Human Fungal Pathogens.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Pan-genomics: Insight into the Functional Genome, Applications, Advancements, and Challenges.Current genomics · 2025Review
- The complete catalog of antimicrobial resistance secondary active transporters inComputational and structural biotechnology journal · 2024Article
- Article
- Cofitness network connectivity determines a fuzzy essential zone in open bacterial pangenome.mLife · 2024Article
- Genome-based assessment of antimicrobial resistance reveals the lineage specificity of resistance and resistance gene profiles inMicrobiology spectrum · 2024Article
- Contingency, repeatability, and predictability in the evolution of a prokaryotic pangenome.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Comparison of gene clustering criteria reveals intrinsic uncertainty in pangenome analyses.Genome biology · 2023Article
- Human Pangenomics: Promises and Challenges of a Distributed Genomic Reference.Life (Basel, Switzerland) · 2023Review
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
A pangenome is the complete set of genes (core and accessory) present in a phylogenetic clade. We hypothesize that a pangenome's accessory gene content is structured and maintained by selection. To test this hypothesis, we interrogated the genomes of 40 Pseudomonas species for statistically significant coincident (i.e., co-occurring/avoiding) gene patterns. We found that 86.7% of common accessory genes are involved in ≥1 coincident relationship. Further, genes that co-occur and/or avoid each other-but are not vertically inherited-are more likely to share functional categories, are more likely to be simultaneously transcribed, and are more likely to produce interacting proteins, than would be expected by chance. These results are not due to coincident genes being adjacent to one another on the chromosome. Together, these findings suggest that the accessory genome is structured into sets of genes that function together within a given strain. Given the similarity of the Pseudomonas pangenome with open pangenomes of other prokaryotic species, we speculate that these results are generalizable.
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