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Frans J de Bruijn


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Rep-PCR Genomic Fingerprinting of Plant-Associated Bacteria and Computer-Assisted Phylogenetic Analyses
F.J. de Bruijn, J. Rademaker, M. Schneider, U. Rossbach and F.J. Louws
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Rep-PCR Genomic Fingerprinting of Plant-Associated Bacteria and Computer-Assisted Phylogenetic Analyses
The utility of a recently developed method to classify bacteria on the basis of their genomic fingerprint patterns was investigated, using collections of both symbiotic and pathogenic plant-associated bacteria. The genomic fingerprinting method employed is based on the use of DNA primers corresponding to naturally occurring interspersed repetitive elements in bacteria, such as the REP, ERIC and BOX elements, and the PCR reaction (rep-PCR). We have been able to show that rep-PCR fingerprinting is a highly reproducible and simple method to distinguish closely related strains, to deduce phylogenetic relationships between strains and to study their diversity in a variety of ecosystems. We have also used computer assisted pattern analysis programs (e.g. GelCompar) for microbial identification and phylogenetic analysis of complex data sets, and describe the application of these methods for the creation of databases for bacterial diagnosis.


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