Quantitative exploration of the occurrence of lateral gene transfer by using nitrogen fixation genes as a case study

Autor:	Alexander N. Glazer, Jason C. Lin, Peter J. Bickel, Katherina J. Kechris
Rok vydání:	2006
Předmět:	Genetics Multidisciplinary Gene Transfer Horizontal Phylogenetic tree Computational Biology Nitrogenase Biology 16S ribosomal RNA Genome Phylogenetics Evolutionary biology Nitrogen Fixation RNA Ribosomal 16S Codon usage bias Physical Sciences Horizontal gene transfer Codon Gene Phylogeny
Zdroj:	Proceedings of the National Academy of Sciences. 103:9584-9589
ISSN:	1091-6490 0027-8424
DOI:	10.1073/pnas.0603534103
Popis:	Lateral gene transfer (LGT) is now accepted as an important factor in the evolution of prokaryotes. Establishment of the occurrence of LGT is typically attempted by a variety of methods that includes the comparison of reconstructed phylogenetic trees, the search for unusual GC composition or codon usage within a genome, and identification of similarities between distant species as determined by best blast hits. We explore quantitative assessments of these strategies to study the prokaryotic trait of nitrogen fixation, the enzyme-catalyzed reduction of N 2 to ammonia. Phylogenies constructed on nitrogen fixation genes are not in agreement with the tree-of-life based on 16S rRNA but do not conclusively distinguish between gene loss and LGT hypotheses. Using a series of analyses on a set of complete genomes, our results distinguish two structurally distinct classes of MoFe nitrogenases whose distribution cuts across lines of vertical inheritance and makes us believe that a conclusive case for LGT has been made.
Databáze:	OpenAIRE
Externí odkaz:	https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e8884792d2596ba0d88d491b7c8a6c15 https://doi.org/10.1073/pnas.0603534103 Zobrazit plný text záznamu