Data from: Optimisation of AFLP for extremely large genomes over 70 Gb.

Here, we present an improved amplified fragment length polymorphism (AFLP)
protocol using restriction enzymes (AscI and SbfI) that recognise 8-base
pair sequences to provide alternative optimisation suitable for species
with a genome size over 70 Gb. This cost-effective optimisation massively
reduces the number of amplified fragments by using only +3 selective bases
per primer during selective amplification. We demonstrate the effects of
the number of fragments and genome size on the appearance of non-identical
co-migrating fragments (size homoplasy), which has a negative impact on
the informative value of AFLP genotypes. We also present various reaction
conditions and their effects on reproducibility and the band intensity of
the extremely large genome of Viscum album. The reproducibility of this
octo-cutter protocol was calculated using several species with genome
sizes ranging from 1 Gb (Carex panicea) to 76 Gb (Viscum album). The
improved protocol also succeeded in detecting high intraspecific
variability in species with large genomes (Viscum album, Galanthus nivalis
and Pinus pumila).