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.

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

++

+++

++


Garrick and Sunnucks BMC Genetics 2006 7:11   doi:10.1186/1471-2156-7-11

Open Data