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Recently, 2 DNA-based methods for typing C. burnetii were reported (11 – 13 ).
The Pasteur Institute of Paris used two methods for typing: restriction fragment length polymorphism (RFLP) analysis and spoligotyping.
To date, direct experimental methods for typing HLA genes (via serology or PCR) remain laborious, expensive, and time consuming.
Fatty acid and protein molecular phenotyping are well recognized methods for typing bacteria and have been used extensively to differentiate bacteria, including Brucella strains [ 24, 31, 32].
This assumption is based on earlier literature describing studies using phenotypic methods for typing bacteria and a line of reasoning about the bacterial ecology of normal niches in humans [ 1].
Molecular methods for typing adenoviruses, such as restriction fragment length polymorphism (RFLP), PCR-based assays, microarray-based methods and phylogenetic analysis have now been established and may overcome the practical issues with the traditional neutralization assay.
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Inagaki, T. et al. Comparison of a variable-number tandem-repeat (VNTR) method for typing Mycobacterium avium with mycobacterial interspersed repetitive-unit-VNTR and IS1245 restriction fragment length polymorphism typing.
The SSR method proved quite discriminatory as compared to tandem repeat-tRNA-PCR, a fingerprinting method for typing non-Saccharomyces yeasts.
Multispacer sequence typing is the first reliable method for typing Coxiella burnetii isolates.
Pulsed-field gel electrophoresis (PFGE) has been established as a discriminatory method for typing S. maltophilia strains [ 5, 6].
For Salmonella, sequencing specific short repeats and virulence genes have recently been suggested as an alternative and improved method for typing of S. Enteritidis[ 29].
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