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Table 2 Attributes of marker development methods, genotyping assays, and DNA sequence-yielding nuclear loci. Qualitative assessment of relative success scored using the following three categories: +++, high/many; ++ moderate; + low/few. Genotyping assays are: SSCP, single-stranded conformation polymorphism coupled with targeted DNA sequencing; RFLP, restriction fragment length polymorphism; Indel, insertion-deletion mutation detection.

From: Development and application of three-tiered nuclear genetic markers for basal Hexapods using single-stranded conformation polymorphism coupled with targeted DNA sequencing

Development No. target bands generated (step 2) Putative allele homology (step 5) No. loci produced
Method A +++ + ++
Method B + +++ +
Method C ++ ++ +++
Method D + +++ +
Assay Within-population variability Commitment  
   Cost Time
SSCP +++ +++ +++
RFLP + + ++
Indel ++ ++ +
Locus type Within-population variability Sequence divergence Phylogeographic signal
EF-1α introns +++ + +++
Anon. nDNA ++ +++ ++