A typing method for bacteria was developed and applied to several species, including Escherichia coli and Actinobacillus actinomycetemcomitans. Total genomic DNA was digested with a restriction endonuclease, and fragments were end labeled with [a-32PIdATP by using the Klenow fragment of DNA polymerase and separated by electrophoresis in 6% polyacrylamide/8 M urea (sequencing gel). Depending on the restriction endonuclease and the bacterium, the method produced approximately 30-50 well-separated fragments in the size range of 100-400 nucleotides. For A. actinomycetemcomitans, all strains had bands in common. Nevertheless, many polymorphisms could be observed, and the 31 strains tested could be classified into 29 distinct types. Furthermore, serotype-specific fragments could be assigned for the three serotypes investigated. The method described is very sensitive, allowing more distinct types to be distinguished than other commohly used typing methods. When the method was applied to 10 other clinically relevant bacterial species, both speciesspecific bands and strain-specific bands were found. Isolates from different locations of one patient showed indistinguishable patterns. Computer-assisted analysis of the DNA fingerprints allowed the determination of similarity coefficients. It is concluded that genomic fingerprinting by restriction fragment end labeling (RFEL) is a powerful and generally applicable technique to type bacterial species.To distinguish related bacterial strains, several DNA-based methods have been described, including restriction endonuclease analysis (REA) ofwhole chromosomal DNA (1, 2), hybridization of DNA fragments with specific probes such as ribosomal DNA (ribotyping) (3), and polymerase chain reaction with an arbitrary primer (AP-PCR) (4-6), which is also known as random amplified polymorphic DNA (RAPD) typing. All these methods have their respective advantages and disadvantages. REA of whole chromosomal DNA results in a large number of fragments, which can be separated by agarose gel electrophoresis. Although this method often results in a large number of distinct types within a species, comparison of patterns is often difficult because of the low resolution of the agarose gel and the large number of fragments produced. The use of rare-cutting restriction enzymes and pulsed-field gel electrophoresis results in a lower number of bands (2), but then few bands can be used for comparison, which can make the method less discriminatory. Ribotyping results in patterns with a limited number ofbands, which can be more easily evaluated; however, this method is more time consuming, has limited resolving power, and focuses on only one cluster of genes. AP-PCR is generally a very fast method, and the complexity of the pattern can be varied by using different primers. A disadvantage of this method is that not all fragments are amplified by the PCR method with an equal efficiency, so that there can be significant interexperiment and interlaboratory variation.The publication costs of this article ...