Of all the genetic marker types available, single nucleotide polymorphisms (SNPs) are the most abundant, and thus offer the greatest level of genetic resolution.
The F2_O, G2M, and G2F maps included different marker types: AFLP, single sequence repeat (SSR), expressed sequence tag (EST), and SNPs from different arrays (Chancerel et al. 2011, 2013), whereas the F2_N map contained only SNPs from the 9k SNP-array (Plomion et al. 2015).
We investigated the effects of the number of genetic markers; marker type (microsatellite, single nucleotide polymorphism SNP, or both); minor allele frequency; typing error; mating system; and the number of overlapping generations under different demographic conditions.
In addition, we developed two sets of genetic markers of popular types, single copy nuclear genes and nuclear microsatellites (EST-SSR).
Three new marker types, InDel (insertion-deletion) and SNP (single nucleotide polymorphism) developed from gene information, and REMAP (retrotransposon-microsatellite amplified polymorphism), were used to increase map density.
The most abundant marker type is the single-nucleotide polymorphism (SNP).
Other marker types including amplified fragment length polymorphisms (AFLP) and single nucleotide polymorphisms (SNPs) have been added to online versions of the maps [ 4].
Among the many types of DNA markers, simple sequence repeats (SSRs) and single nucleotide polymorphisms (SNPs) are the preferred marker types for many genetic applications.
DNA markers have recently become a powerful tool to measure individual genome-wide homozygosity and two different marker types can be used, each with its strengths and weaknesses - short tandem repeats (STR) and single-nucleotide polymorphisms (SNP).
