Amplified fragment length polymorphism (AFLP) is a PCR-based technique that uses selective amplification of a subset of digested DNA fragments to generate and compare unique fingerprints for genomes of interest. The power of this method relies mainly in that it does not require prior information regarding the targeted genome, as well as in its high reproducibility and sensitivity for detecting polymorphism at the level of DNA sequence. Widely used for plant and microbial studies, AFLP is employed for a variety of applications, such as to assess genetic diversity within species or among closely related species, to infer population-level phylogenies and biogeographic patterns, to generate genetic maps, and to determine relatedness among cultivars. Variations of standard AFLP methodology have been also developed for targeting additional levels of diversity, such as transcriptomic variation and DNA methylation polymorphism.
This is a preview of subscription content, log in to check access.
Springer Nature is developing a new tool to find and evaluate Protocols. Learn more
O.P. was financed by an Austrian Science Fund (FWF) project (P222260-B16).
Vos P, Hogers R, Bleeker M et al (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23:4407–4414.PubMedCrossRefGoogle Scholar
Bachem CWB, van der Hoeven RS, de Bruijn SM et al. (1996) Visualization of differential gene expression using a novel method of RNA fingerprinting based on AFLP: analysis of gene expression during potato tuber development. The Plant Journal 9:745–753.PubMedCrossRefGoogle Scholar
Kuhn E (2001) From library screening to microarray technology: strategies to determine gene expression profiles and to identify differentially regulated genes in plants. Ann. Bot.-London 87:139–155.CrossRefGoogle Scholar
Donson J, Fang Y, Espiritu-Santo G et al. (2002) Comprehensive gene expression analysis by transcript profiling. Plant Molecular Biology 48:75–97.PubMedCrossRefGoogle Scholar
Breyne P, Dreesen R, Cannoot B et al. (2003) Quantitative cDNA-AFLP analysis for genome-wide expression studies. Molecular Genetics and Genomics 269:173–179.PubMedGoogle Scholar
Paun O, Fay MF, Soltis DE, Chase MW (2007) Genetic and epigenetic alterations after hybridization and genome doubling. Taxon 56:649–656.PubMedCrossRefGoogle Scholar
Baurens F-C, Bonnot F, Bienvenu D et al. (2003) Using SD-AFLP and MSAP to assess CCGG methylation in the banana genome. Plant Molecular Biology Reporter 21:339–348.CrossRefGoogle Scholar
Ainouche ML, Baumel A, Salmon A, Yannic G (2003) Hybridization, polyploidy and speciation in Spartina (Poaceae). New Phytologist 161:165–172.CrossRefGoogle Scholar
Salmon A, Ainouche ML, Wendel JF (2005) Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae). Molecular Ecology 14:1163–1175.PubMedCrossRefGoogle Scholar
Paun O, Bateman RM, Fay MF et al. (2010) Stable epigenetic effects impact adaptation in allopolyploid orchids (Dactylorhiza: Orchidaceae). Molecular Biology and Evolution 27:2465–2473.PubMedCrossRefGoogle Scholar
Bonin A, Bellemain E, Bronken Eidesen P et al. (2004) How to track and assess genotyping errors in population genetic studies. Molecular Ecology 13:3261–3273.PubMedCrossRefGoogle Scholar