Potential use of low-copy nuclear genes in DNA barcoding: a comparison with plastid genes in two Hawaiian plant radiations

Table 1 Variability and properties of the markers (three plastid, two nuclear) used in Clermontia

	rbcL	psbA-trnH	matK	Combined plastid	Clerm2	Clerm4
Length, excluding primers	533	439	837-858	1829-1850	556	172
Number of variable sites (number of indels)	5	5	4 (1)	14 (1)	10	3
Percent of variable sites, excluding indels	0.90	1.14	0.005	0.008	1.80	1.74
Percent of “ghost” haplotypes	16.7	16.7	16.7	56.3	0	0
Ramification index	0	0.2	0	0.13	0.58	0.25

“Ghost” alleles are intermediate alleles that were not recovered in any of the accessions sampled. The ramification index (I) was calculated as follows: I = 1 – (longest distance between two haplotypes/total length of the network).

ISSN: 2730-7182