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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

++

+++

++