comparative and evolutionary analysis of the bacterial homologous recombination systems比较和细菌同源重组的进化分析系统.pdfVIP

Comparative and Evolutionary Analysis of the Bacterial Homologous Recombination Systems 1,2* 2 ´ ´ 3 Eduardo P. C. Rocha , Emmanuel Cornet , Benedicte Michel ´ ´ ´ ´ ´ ´ 1 Unite Genetique des Genomes Bacteriens, Institut Pasteur, Paris, France, 2 Atelier de Bioinformatique, Universite Pierre et Marie Curie, Paris, France, 3 Laboratoire de ´ ´ Genetique Microbienne, Institut National de la Recherche Agronomique, Jouy en Josas, France Homologous recombination is a housekeeping process involved in the maintenance of chromosome integrity and generation of genetic variability. Although detailed biochemical studies have described the mechanism of action of its components in model organisms, there is no recent extensive assessment of this knowledge, using comparative genomics and taking advantage of available experimental data on recombination. Using comparative genomics, we assessed the diversity of recombination processes among bacteria, and simulations suggest that we missed very few homologs. The work included the identification of orthologs and the analysis of their evolutionary history and genomic context. Some genes, for proteins such as RecA, the resolvases, and RecR, were found to be nearly ubiquitous, suggesting that the large majority of bacterial genomes are capable of homologous recombination. Yet many genomes show incomplete sets of presynaptic systems, with RecFOR being more frequent than RecBCD/AddAB. There is a significant pattern of co-occurrence between these systems and antirecombinant proteins such as the ones of mismatch repair and SbcB, but no significant association with nonhomologous end joining, which seems rare in bacteria. Sur