Random Amplified Polymorphic DNA (RAPD)
Random Amplified Polymorphic DNA (RAPD) markers are DNA fragments from PCR amplification of random segments of genomic DNA with single primer of arbitrary nucleotide sequence.
How It Works
Unlike traditional PCR analysis, RAPD (pronounced "rapid") does not require any specific knowledge of the DNA sequence of the target organism: the identical 10-mer primers will or will not amplify a segment of DNA, depending on positions that are complementary to the primers' sequence. For example, no fragment is produced if primers annealed too far apart or 3' ends of the primers are not facing each other. Therefore, if a mutation has occurred in the template DNA at the site that was previously complementary to the primer, a PCR product will not be produced, resulting in a different pattern of amplified DNA segments on the gel.
RAPD is an inexpensive yet powerful typing method for many bacterial species.
Selecting the right sequence for the primer is very important because different sequences will produce different band patterns and possibly allow for a more specific recognition of individual strains.
Limitations of RAPD
Developing Locus-specific, Co-Dominant Markers from RAPDs
» Mbwana J, et al. Molecular characterization of Haemophilus ducreyi isolates from different geographical locations. J Clin Microbiol. 2006 Jan;44(1):132-7. PMID: 16390960
Williams JG, et al. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers.
Note: [MAJR] is a Medical Subject Heading (MeSH) tag for Major Heading. The tag is used to limit the search to articles for which major subjects are represented by terms included in the NLM MeSH database.
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