(Feulner et al., 2013)
Amplified Fragment Length Polymorphism (AFLP)
Inter-Simple Sequence Repeats (ISSR)
AFLP, and ISSR represent a set of 'anonymous' fingerprinting techniques. Both methods are a priori independent from sequence information and, thus, can be applied any organism.
Both methods investigate the amplification pattern of genomic fragments; AFLP fragments are derived genomic DNA fragments obtained by a set of defined restriction enzymes, while ISSR fragments are amplified by user-designed primers encoding simple sequence repeats.
Restriction Fragment Length Polymorphism (RFLP, PCR-RFLP/CAPS)
RFLP investigates the restriction patterns of locus-specific amplification products and are therefore dependet on sequence information to design PCR primers. This kind of fingerprinting analyses can be applied to many different genomic loci (from selected protein coding genes to rRNA genes).
Recommended literature
- AFLP - must read: A. Bonin, D. Ehrich, S. Manel (2007) Statistical analysis of amplified fragment length polymorphism data: a toolbox for molecular ecologists and evolutionists. Molecular Ecology 16(18): 3737–3758. doi: 10.1111/j.1365-294X.2007.03435.x
- Comparison of various methods: Kumar P, Gupta VK, Misra AK et al. (2009) Potential of Molecular Markers in Plant Biotechnology. Plant Omics Journal(2(4)): 141–162
- Comparison of various methods including separation techniques: Anderson IC, Cairney JWG (2004) Diversity and ecology of soil fungal communities: increased understanding through the application of molecular techniques. Environ. Microbiol. 6(8): 769–779. doi: 10.1111/j.1462-2920.2004.00675.x