ArticleBiology direct2015
Horizontally transferred genes cluster spatially and metabolically.
Article in Biology direct, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed, 18 citations in OpenAlex.
- Horizontal Gene Transfer Inference: Gene Presence-Absence Outperforms Gene Trees.Molecular biology and evolution · 2025Article
- HGTree v2.0: a comprehensive database update for horizontal gene transfer (HGT) events detected by the tree-reconciliation method.Nucleic acids research · 2023Article
- Identification of core and rare species in metagenome samples based on shotgun metagenomic sequencing, Fourier transforms and spectral comparisons.ISME communications · 2021Article
- A spectrum of verticality across genes.PLoS genetics · 2020Article
- Early fate of exogenous promoters in E. coli.Nucleic acids research · 2020Article
- Ancestral Genome Estimation Reveals the History of Ecological Diversification in Agrobacterium.Genome biology and evolution · 2017Article
- Supra-operonic clusters of functionally related genes (SOCs) are a source of horizontal gene co-transfers.Scientific reports · 2017Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenomic uptake of DNA by prokaryotes often encompasses more than a single gene. In many cases, several horizontally transferred genes may be acquired together. Accordingly, we expect that horizontally transferred genes cluster spatially in the genome more often than expected if transfers were independent. Further, genes that depend on each other functionally may be unlikely to have beneficial fitness effects when taken up individually by a foreign genome. Hence, we also expect the co-acquisition of functionally related genes, resulting in the clustering of horizontally transferred genes in functional networks.
resultsAnalysing spatial and metabolic clustering of recent horizontal (or lateral) gene transfers among 21 γ-proteobacteria, we confirm both predictions. When comparing two datasets of predicted transfers that differ in their expected false-positive rate, we find that the more stringent dataset shows a stronger enrichment of clustered pairs.
conclusionsThe enrichment of interdependent metabolic genes among predicted transfers supports a biologically significant role of horizontally transferred genes in metabolic adaptation. Our results further suggest that spatial and metabolic clustering may be used as a benchmark for methods that predict recent horizontal gene transfers.
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