Abstract
Horizontal gene transfer (HGT) has long been recognized as a principal force in the evolution of genomes1. Genome sequences of Archaea and Bacteria have revealed the existence of genes whose similarity to loci in distantly related organisms is explained most parsimoniously by HGT events2,3,4. In most multicellular organisms, such genetic fixation can occur only in the germ line. Therefore, it is notable that the publication of the human genome reports 113 incidents of direct HGT between bacteria and vertebrates5, without any apparent occurrence in evolutionary intermediates, that is, non-vertebrate eukaryotes. Phylogenetic analysis arguably provides the most objective approach for determining the occurrence and directionality of HGT6,7. Here we report a phylogenetic analysis of 28 proposed HGT genes, whose presence in the human genome had been confirmed by polymerase chain reaction (PCR)5. The results indicate that most putative HGT genes are present in more anciently derived eukaryotes (many such sequences available in non-vertebrate EST databases) and can be explained in terms of descent through common ancestry. They are, therefore, unlikely to be examples of direct HGT from bacteria to vertebrates.
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References
Gray, M. W. The endosymbiont hypothesis revisited. Int. Rev. Cytol. 141, 233–357 (1992).
Nelson, K. E. et al. Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima. Nature 399, 323–329 (1999).
Ruepp, A. et al. The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum. Nature 407, 508–513 (2000).
Doolittle, W. F. Phylogenetic classification and the universal tree. Science 284, 2124–2128 (1999).
International Human Genome Sequencing Consortium. Initial sequencing and analysis of the human genome. Nature 409, 860–921 (2001).
Smith, M. W., Feng, D.-F. & Doolittle, R. F. Evolution by acquisition: the case for horizontal gene transfers. Trends Biochem. 17, 489–493 (1992).
Logsdon, J. M. Jr & Faguy, D. M. Evolutionary genomics: Thermotoga heats up lateral gene transfer. Curr. Biol. 9, R747–R751 (1999).
Brunner, H. G., Nelen, M., Breakefield, X. O., Ropers, H. H. & van Oost, B. B. A. Abnormal behavior associated with a point mutation in the structural gene for monoamine oxidase A. Science 262, 578–580 (1993).
Cases, O. et al. Aggressive behavior and altered amounts of brain serotonin and norepinephrine in mice lacking MAOA. Science 268, 1763–1766 (1995).
Deckert, J. et al. Excess of high activity monoamine oxidase A gene promoter alleles in female patients with panic disorder. Hum. Mol. Genet. 8, 621–624 (1999).
Brown, J. R. & Doolittle, W. F. Archaea and the prokaryote–eukaryote transition. Microbiol. Mol. Biol. Rev. 61, 456–502 (1997).
Kyrpides, N. C. & Olsen, G. J. Archaeal and bacterial hyperthermophiles - horizontal gene exchange or common ancestry? Trends Genet. 15, 298–299 (1999).
Eisen, J. A. Phylogenomics - improving functional predictions for uncharacterized genes by evolutionary analysis. PCR Methods Appl. 8, 163–167 (1998).
Altschul, S. F. et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389–3402 (1997).
Thompson, J. D., Higgins, D. G. & Gibson, T. J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22, 4673–4680 (1994).
Felsenstein, J. PHYLIP (Phylogeny Inference Package) version 3.6. (Department of Genetics, University of Washington, Seattle, 2000).
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Stanhope, M., Lupas, A., Italia, M. et al. Phylogenetic analyses do not support horizontal gene transfers from bacteria to vertebrates. Nature 411, 940–944 (2001). https://doi.org/10.1038/35082058
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DOI: https://doi.org/10.1038/35082058