The source of laterally transferred genes in bacterial genomes

Persistent Link:
http://hdl.handle.net/10150/610144
Title:
The source of laterally transferred genes in bacterial genomes
Author:
Daubin, Vincent; Lerat, Emmanuelle; Perriere, Guy
Affiliation:
Laboratoire de Biométrie et Biologie Evolutive, UMR CNRS 5558, Université Claude Bernard - Lyon 1, 43 Bd. du 11 Novembre 1918, 69622 Villeurbanne Cedex, France; Current address: c/o Ochman, Department of Biochemistry and Molecular Biophysics, 233 Life Sciences South, University of Arizona, Tucson, Arizona 85721, USA
Issue Date:
2003
Publisher:
BioMed Central
Citation:
Genome Biology 2003, 4:R57 http://genomebiology.com/2003/4/9/R57
Journal:
Genome Biology
Rights:
© 2003 Daubin et al.; licensee BioMed Central Ltd. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose, provided this notice is preserved along with the article's original URL.
Collection Information:
This item is part of the UA Faculty Publications collection. For more information this item or other items in the UA Campus Repository, contact the University of Arizona Libraries at repository@u.library.arizona.edu.
Abstract:
BACKGROUND:Laterally transferred genes have often been identified on the basis of compositional features that distinguish them from ancestral genes in the genome. These genes are usually A+T-rich, arguing either that there is a bias towards acquiring genes from donor organisms having low G+C contents or that genes acquired from organisms of similar genomic base compositions go undetected in these analyses.RESULTS:By examining the genome contents of closely related, fully sequenced bacteria, we uncovered genes confined to a single genome and examined the sequence features of these acquired genes. The analysis shows that few transfer events are overlooked by compositional analyses. Most observed lateral gene transfers do not correspond to free exchange of regular genes among bacterial genomes, but more probably represent the constituents of phages or other selfish elements.CONCLUSIONS:Although bacteria tend to acquire large amounts of DNA, the origin of these genes remains obscure. We have shown that contrary to what is often supposed, their composition cannot be explained by a previous genomic context. In contrast, these genes fit the description of recently described genes in lambdoid phages, named 'morons'. Therefore, results from genome content and compositional approaches to detect lateral transfers should not be cited as evidence for genetic exchange between distantly related bacteria.
DOI:
10.1186/gb-2003-4-9-r57
Version:
Final published version
Additional Links:
http://genomebiology.com/2003/4/9/R57

Full metadata record

DC FieldValue Language
dc.contributor.authorDaubin, Vincenten
dc.contributor.authorLerat, Emmanuelleen
dc.contributor.authorPerriere, Guyen
dc.date.accessioned2016-05-20T08:59:31Z-
dc.date.available2016-05-20T08:59:31Z-
dc.date.issued2003en
dc.identifier.citationGenome Biology 2003, 4:R57 http://genomebiology.com/2003/4/9/R57en
dc.identifier.doi10.1186/gb-2003-4-9-r57en
dc.identifier.urihttp://hdl.handle.net/10150/610144-
dc.description.abstractBACKGROUND:Laterally transferred genes have often been identified on the basis of compositional features that distinguish them from ancestral genes in the genome. These genes are usually A+T-rich, arguing either that there is a bias towards acquiring genes from donor organisms having low G+C contents or that genes acquired from organisms of similar genomic base compositions go undetected in these analyses.RESULTS:By examining the genome contents of closely related, fully sequenced bacteria, we uncovered genes confined to a single genome and examined the sequence features of these acquired genes. The analysis shows that few transfer events are overlooked by compositional analyses. Most observed lateral gene transfers do not correspond to free exchange of regular genes among bacterial genomes, but more probably represent the constituents of phages or other selfish elements.CONCLUSIONS:Although bacteria tend to acquire large amounts of DNA, the origin of these genes remains obscure. We have shown that contrary to what is often supposed, their composition cannot be explained by a previous genomic context. In contrast, these genes fit the description of recently described genes in lambdoid phages, named 'morons'. Therefore, results from genome content and compositional approaches to detect lateral transfers should not be cited as evidence for genetic exchange between distantly related bacteria.en
dc.language.isoenen
dc.publisherBioMed Centralen
dc.relation.urlhttp://genomebiology.com/2003/4/9/R57en
dc.rights© 2003 Daubin et al.; licensee BioMed Central Ltd. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose, provided this notice is preserved along with the article's original URL.en
dc.titleThe source of laterally transferred genes in bacterial genomesen
dc.typeArticleen
dc.contributor.departmentLaboratoire de Biométrie et Biologie Evolutive, UMR CNRS 5558, Université Claude Bernard - Lyon 1, 43 Bd. du 11 Novembre 1918, 69622 Villeurbanne Cedex, Franceen
dc.contributor.departmentCurrent address: c/o Ochman, Department of Biochemistry and Molecular Biophysics, 233 Life Sciences South, University of Arizona, Tucson, Arizona 85721, USAen
dc.identifier.journalGenome Biologyen
dc.description.collectioninformationThis item is part of the UA Faculty Publications collection. For more information this item or other items in the UA Campus Repository, contact the University of Arizona Libraries at repository@u.library.arizona.edu.en
dc.eprint.versionFinal published versionen
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