ArticlePLoS biology2005
Evolutionary origins of genomic repertoires in bacteria.
Article in PLoS biology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 172 papers.
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Who cites it
172 citing papers in PubMed, 345 citations in OpenAlex.
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- Parameter Estimation and Species Tree Rooting Using ALE and GeneRax.Genome biology and evolution · 2023Article
- Conjugative plasmids inhibit extracellular electron transfer inFrontiers in microbiology · 2023Article
- Horizontal gene transfer and adaptive evolution in bacteria.Nature reviews. Microbiology · 2022Review
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- Evolutionary Pathways and Trajectories in Antibiotic Resistance.Clinical microbiology reviews · 2021Article
- Gene Duplications Are At Least 50 Times Less Frequent than Gene Transfers in Prokaryotic Genomes.Genome biology and evolution · 2021Article
- Coxiella burnetii and Related Tick Endosymbionts Evolved from Pathogenic Ancestors.Genome biology and evolution · 2021Article
- CRISPR-Cas systems restrict horizontal gene transfer in Pseudomonas aeruginosa.The ISME journal · 2021Article
- Identification of Clinically RelevantPathogens (Basel, Switzerland) · 2020Article
- Should Networks Supplant Tree Building?Microorganisms · 2020Review
- Article
112 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Explaining the diversity of gene repertoires has been a major problem in modern evolutionary biology. In eukaryotes, this diversity is believed to result mainly from gene duplication and loss, but in prokaryotes, lateral gene transfer (LGT) can also contribute substantially to genome contents. To determine the histories of gene inventories, we conducted an exhaustive analysis of gene phylogenies for all gene families in a widely sampled group, the gamma-Proteobacteria. We show that, although these bacterial genomes display striking differences in gene repertoires, most gene families having representatives in several species have congruent histories. Other than the few vast multigene families, gene duplication has contributed relatively little to the contents of these genomes; instead, LGT, over time, provides most of the diversity in genomic repertoires. Most such acquired genes are lost, but the majority of those that persist in genomes are transmitted strictly vertically. Although our analyses are limited to the gamma-Proteobacteria, these results resolve a long-standing paradox-i.e., the ability to make robust phylogenetic inferences in light of substantial LGT.
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