MAAP: a versatile and universal tool for genome analysis

Research output: Contribution to journalArticle


Multiple arbitrary amplicon profiling (MAAP) uses one or more oligonucleotide primers (≥5 nt) of arbitrary sequence to initiate DNA amplification and generate characteristic fingerprints from anonymous genomes or DNA templates. MAAP markers can be used in general fingerprinting as well as in mapping applications, either directly or as sequence-characterized amplified regions (SCARs). MAAP profiles can be tailored in the number of monomorphic and/or polymorphic products. For example, multiple endonuclease digestion of template DNA or the use of mini-hairpin primers can enhance detection of polymorphic DNA. Comparison of the expected and actual number of amplification products produced with primers differing in length, sequence and GC content from templates of varying complexity reveal severe departures from theoretical formulations with interesting implications in primer-template interaction. Extensive primer-template mismatching can occur when using templates of low complexity or long primers. Primer annealing and extension appears directed by an 8 nt 3′-terminal primer domain, requires sites with perfect homology to the first 5-6 nt fom the 3′ terminus, and involves direct physical interaction between amplicon annealing sites.

Original languageEnglish (US)
Pages (from-to)1011-1026
Number of pages16
JournalPlant Molecular Biology
Issue number6
StatePublished - Sep 1 1994
Externally publishedYes


  • AP-PCR (arbitrarily primed PCR)
  • DAF (DNA complication finger printing)
  • DNA markers
  • MAAP (multiple arbitrary amplicon profiling)
  • RAPD (random amplified polymorphic DNA)
  • arbitrary oligonucleotide primer

ASJC Scopus subject areas

  • Agronomy and Crop Science
  • Genetics
  • Plant Science

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