Comparative genomic analysis of three strains of Ehrlichia ruminantium reveals an active process of genome size plasticity.

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Published in J Bacteriol on April 01, 2006

Authors

Roger Frutos1, Alain Viari, Conchita Ferraz, Anne Morgat, Sophie Eychenié, Yane Kandassamy, Isabelle Chantal, Albert Bensaid, Eric Coissac, Nathalie Vachiery, Jacques Demaille, Dominique Martinez

Author Affiliations

1: CIRAD TA30/G, Campus International de Baillarguet, 34398 Montpellier Cedex 5, France. roger.frutos@cirad.fr.

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16S ribosomal DNA amplification for phylogenetic study. J Bacteriol (1991) 47.78

Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol (1986) 36.06

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Homologous recombination between the tuf genes of Salmonella typhimurium. J Mol Biol (1996) 1.43

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